From 76f7140b382527b814a87f6bb304112d012f562c Mon Sep 17 00:00:00 2001 From: kalitopix Date: Fri, 9 Aug 2024 11:39:35 -0400 Subject: [PATCH 1/8] add test for msr-fsl computation --- .../site1/site1_Covariate.csv | 148 +++++++++--------- packages/coinstac-desktop-app/package.json | 1 + .../test/e2e/computation-msr-fsl.test.js | 72 +++++++++ .../coinstac-desktop-app/test/lib/pipeline.js | 1 + 4 files changed, 148 insertions(+), 74 deletions(-) create mode 100644 packages/coinstac-desktop-app/test/e2e/computation-msr-fsl.test.js diff --git a/algorithm-development/test-data/freesurfer-test-data/site1/site1_Covariate.csv b/algorithm-development/test-data/freesurfer-test-data/site1/site1_Covariate.csv index c4fb2898b..2d56e4f8c 100755 --- a/algorithm-development/test-data/freesurfer-test-data/site1/site1_Covariate.csv +++ b/algorithm-development/test-data/freesurfer-test-data/site1/site1_Covariate.csv @@ -1,74 +1,74 @@ -freesurferfile,isControl,age -subject0_aseg_stats.txt,False,22.0 -subject1_aseg_stats.txt,True,47.0 -subject2_aseg_stats.txt,False,56.0 -subject3_aseg_stats.txt,True,73.0 -subject4_aseg_stats.txt,False,58.0 -subject5_aseg_stats.txt,False,67.0 -subject6_aseg_stats.txt,False,40.0 -subject7_aseg_stats.txt,True,25.0 -subject8_aseg_stats.txt,True,51.0 -subject9_aseg_stats.txt,False,37.0 -subject10_aseg_stats.txt,False,35.0 -subject11_aseg_stats.txt,False,29.0 -subject12_aseg_stats.txt,False,33.0 -subject13_aseg_stats.txt,False,21.0 -subject14_aseg_stats.txt,False,40.0 -subject15_aseg_stats.txt,True,25.0 -subject16_aseg_stats.txt,False,23.0 -subject17_aseg_stats.txt,True,60.0 -subject18_aseg_stats.txt,False,31.0 -subject19_aseg_stats.txt,False,60.0 -subject20_aseg_stats.txt,False,71.0 -subject21_aseg_stats.txt,True,57.0 -subject22_aseg_stats.txt,True,38.0 -subject23_aseg_stats.txt,True,46.0 -subject24_aseg_stats.txt,True,25.0 -subject25_aseg_stats.txt,True,40.0 -subject26_aseg_stats.txt,False,65.0 -subject27_aseg_stats.txt,False,33.0 -subject28_aseg_stats.txt,False,49.0 -subject29_aseg_stats.txt,True,30.0 -subject30_aseg_stats.txt,True,23.0 -subject31_aseg_stats.txt,False,29.0 -subject32_aseg_stats.txt,True,77.0 -subject33_aseg_stats.txt,True,44.0 -subject34_aseg_stats.txt,True,28.0 -subject35_aseg_stats.txt,True,73.0 -subject36_aseg_stats.txt,False,35.0 -subject37_aseg_stats.txt,True,79.0 -subject38_aseg_stats.txt,True,31.0 -subject39_aseg_stats.txt,True,80.0 -subject40_aseg_stats.txt,False,25.0 -subject41_aseg_stats.txt,True,22.0 -subject42_aseg_stats.txt,True,49.0 -subject43_aseg_stats.txt,False,30.0 -subject44_aseg_stats.txt,True,23.0 -subject45_aseg_stats.txt,True,27.0 -subject46_aseg_stats.txt,False,67.0 -subject47_aseg_stats.txt,False,73.0 -subject48_aseg_stats.txt,False,38.0 -subject49_aseg_stats.txt,False,69.0 -subject50_aseg_stats.txt,False,26.0 -subject51_aseg_stats.txt,True,33.0 -subject52_aseg_stats.txt,False,48.0 -subject53_aseg_stats.txt,True,46.0 -subject54_aseg_stats.txt,True,70.0 -subject55_aseg_stats.txt,True,32.0 -subject56_aseg_stats.txt,False,45.0 -subject57_aseg_stats.txt,False,33.0 -subject58_aseg_stats.txt,False,78.0 -subject59_aseg_stats.txt,True,50.0 -subject60_aseg_stats.txt,False,33.0 -subject61_aseg_stats.txt,False,73.0 -subject62_aseg_stats.txt,True,69.0 -subject63_aseg_stats.txt,False,31.0 -subject64_aseg_stats.txt,True,74.0 -subject65_aseg_stats.txt,True,53.0 -subject66_aseg_stats.txt,True,43.0 -subject67_aseg_stats.txt,True,25.0 -subject68_aseg_stats.txt,False,61.0 -subject69_aseg_stats.txt,True,74.0 -subject70_aseg_stats.txt,False,68.0 -subject71_aseg_stats.txt,True,54.0 -subject72_aseg_stats.txt,False,74.0 +freesurferfile,isControl,age,gender +subject0_aseg_stats.txt,False,22.0,M +subject1_aseg_stats.txt,True,47.0,M +subject2_aseg_stats.txt,False,56.0,F +subject3_aseg_stats.txt,True,73.0,F +subject4_aseg_stats.txt,False,58.0,M +subject5_aseg_stats.txt,False,67.0,F +subject6_aseg_stats.txt,False,40.0,F +subject7_aseg_stats.txt,True,25.0,M +subject8_aseg_stats.txt,True,51.0,M +subject9_aseg_stats.txt,False,37.0,M +subject10_aseg_stats.txt,False,35.0,F +subject11_aseg_stats.txt,False,29.0,M +subject12_aseg_stats.txt,False,33.0,F +subject13_aseg_stats.txt,False,21.0,M +subject14_aseg_stats.txt,False,40.0,F +subject15_aseg_stats.txt,True,25.0,F +subject16_aseg_stats.txt,False,23.0,F +subject17_aseg_stats.txt,True,60.0,M +subject18_aseg_stats.txt,False,31.0,F +subject19_aseg_stats.txt,False,60.0,F +subject20_aseg_stats.txt,False,71.0,M +subject21_aseg_stats.txt,True,57.0,M +subject22_aseg_stats.txt,True,38.0,F +subject23_aseg_stats.txt,True,46.0,F +subject24_aseg_stats.txt,True,25.0,M +subject25_aseg_stats.txt,True,40.0,M +subject26_aseg_stats.txt,False,65.0,M +subject27_aseg_stats.txt,False,33.0,M +subject28_aseg_stats.txt,False,49.0,M +subject29_aseg_stats.txt,True,30.0,M +subject30_aseg_stats.txt,True,23.0,M +subject31_aseg_stats.txt,False,29.0,M +subject32_aseg_stats.txt,True,77.0,F +subject33_aseg_stats.txt,True,44.0,F +subject34_aseg_stats.txt,True,28.0,M +subject35_aseg_stats.txt,True,73.0,F +subject36_aseg_stats.txt,False,35.0,M +subject37_aseg_stats.txt,True,79.0,F +subject38_aseg_stats.txt,True,31.0,M +subject39_aseg_stats.txt,True,80.0,F +subject40_aseg_stats.txt,False,25.0,M +subject41_aseg_stats.txt,True,22.0,M +subject42_aseg_stats.txt,True,49.0,F +subject43_aseg_stats.txt,False,30.0,M +subject44_aseg_stats.txt,True,23.0,F +subject45_aseg_stats.txt,True,27.0,M +subject46_aseg_stats.txt,False,67.0,F +subject47_aseg_stats.txt,False,73.0,F +subject48_aseg_stats.txt,False,38.0,M +subject49_aseg_stats.txt,False,69.0,M +subject50_aseg_stats.txt,False,26.0,M +subject51_aseg_stats.txt,True,33.0,M +subject52_aseg_stats.txt,False,48.0,F +subject53_aseg_stats.txt,True,46.0,M +subject54_aseg_stats.txt,True,70.0,F +subject55_aseg_stats.txt,True,32.0,M +subject56_aseg_stats.txt,False,45.0,M +subject57_aseg_stats.txt,False,33.0,F +subject58_aseg_stats.txt,False,78.0,M +subject59_aseg_stats.txt,True,50.0,F +subject60_aseg_stats.txt,False,33.0,M +subject61_aseg_stats.txt,False,73.0,F +subject62_aseg_stats.txt,True,69.0,M +subject63_aseg_stats.txt,False,31.0,F +subject64_aseg_stats.txt,True,74.0,M +subject65_aseg_stats.txt,True,53.0,M +subject66_aseg_stats.txt,True,43.0,F +subject67_aseg_stats.txt,True,25.0,M +subject68_aseg_stats.txt,False,61.0,M +subject69_aseg_stats.txt,True,74.0,M +subject70_aseg_stats.txt,False,68.0,F +subject71_aseg_stats.txt,True,54.0,F +subject72_aseg_stats.txt,False,74.0,F diff --git a/packages/coinstac-desktop-app/package.json b/packages/coinstac-desktop-app/package.json index 873bbf527..c75b035d1 100644 --- a/packages/coinstac-desktop-app/package.json +++ b/packages/coinstac-desktop-app/package.json @@ -146,6 +146,7 @@ "test:e2e-single": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/computation-run.test.js", "test:e2e-multi": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/computation-run-2-members.test.js", "test:e2e": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/*.test.js", + "test:comp": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/computation-msr-fsl.test.js", "watch": "cross-env NODE_ENV=development webpack-dev-server --mode=development", "eslint": "eslint ./ --ext js,jsx,ts,tsx", "eslint-fix": "eslint ./ --ext js,jsx,ts,tsx --fix" diff --git a/packages/coinstac-desktop-app/test/e2e/computation-msr-fsl.test.js b/packages/coinstac-desktop-app/test/e2e/computation-msr-fsl.test.js new file mode 100644 index 000000000..465a79e13 --- /dev/null +++ b/packages/coinstac-desktop-app/test/e2e/computation-msr-fsl.test.js @@ -0,0 +1,72 @@ +const consortium = require("../lib/consortia"); +const pipeline = require("../lib/pipeline"); +const { + setup, + afterHandler, + afterEachHandler, + beforeHandler, + beforeEachHandler, +} = require("../lib/setup"); +const user = require("../lib/user"); +const { USER_1 } = require("../lib/constants"); + +let appWindow; + +const DATA = { + consortium: { + name: "e2e-consortium-single", + description: "e2e-description-single", + }, + pipeline: { + name: "e2e-pipeline-single", + description: "e2e-pipeline-description-single", + }, + computation: { + name: "Regression (Multishot) - FreeSurfer Volumes", + }, +}; + +describe("e2e run msr-fsl computation", () => { + before(async () => { + appWindow = await setup(); + beforeHandler(); + }); + + after(afterHandler); + + beforeEach(beforeEachHandler); + + afterEach(afterEachHandler); + + it("displays the correct title", async () => { + await appWindow.title().should.eventually.equal("COINSTAC"); + }); + + it("authenticates demo user", async () => { + await user.logIn(USER_1, appWindow); + }); + + it("creates a consortium", async () => { + await consortium.create(DATA.consortium, appWindow); + }); + + it("creates a pipeline", async () => { + await pipeline.create(DATA, appWindow); + }); + + it("map data to consortium", async () => { + await consortium.mapData(DATA.consortium.name, appWindow); + }); + + it("runs a computation", async () => { + await consortium.runComputation(DATA, appWindow); + }); + + it("deletes consortium", async () => { + await consortium.delete(DATA.consortium.name, appWindow); + }); + + it("logs out", async () => { + await user.logOut(appWindow); + }); +}); diff --git a/packages/coinstac-desktop-app/test/lib/pipeline.js b/packages/coinstac-desktop-app/test/lib/pipeline.js index f9f8bf74e..6e82bb0d9 100644 --- a/packages/coinstac-desktop-app/test/lib/pipeline.js +++ b/packages/coinstac-desktop-app/test/lib/pipeline.js @@ -39,6 +39,7 @@ const createPipeline = async ({ await addCovariate('isControl', 'boolean', 0); await addCovariate('age', 'number', 1); + await addCovariate('gender', 'string', 2); await app.click('button:has-text("Add Data")', { timeout: EXIST_TIMEOUT }); From 7955700aefd07aed5c2ec49dbd467aa59e2975ec Mon Sep 17 00:00:00 2001 From: kalitopix Date: Mon, 12 Aug 2024 17:00:27 -0400 Subject: [PATCH 2/8] add computations --- .../seed/data/coinstac-dist-meshnet.json | 68 ++++ .../seed/data/coinstac-dpsvm-csv.json | 315 ++++++++++++++++++ .../seed/data/coinstac-dsbm.json | 80 +++++ .../seed/data/coinstac-msr-csv.json | 177 ++++++++++ .../seed/data/coinstac-regression-csv.json | 147 ++++++++ .../seed/data/coinstac-ssr-csv.json | 144 ++++++++ 6 files changed, 931 insertions(+) create mode 100644 packages/coinstac-api-server/seed/data/coinstac-dist-meshnet.json create mode 100644 packages/coinstac-api-server/seed/data/coinstac-dpsvm-csv.json create mode 100644 packages/coinstac-api-server/seed/data/coinstac-dsbm.json create mode 100644 packages/coinstac-api-server/seed/data/coinstac-msr-csv.json create mode 100644 packages/coinstac-api-server/seed/data/coinstac-regression-csv.json create mode 100644 packages/coinstac-api-server/seed/data/coinstac-ssr-csv.json diff --git a/packages/coinstac-api-server/seed/data/coinstac-dist-meshnet.json b/packages/coinstac-api-server/seed/data/coinstac-dist-meshnet.json new file mode 100644 index 000000000..10950105c --- /dev/null +++ b/packages/coinstac-api-server/seed/data/coinstac-dist-meshnet.json @@ -0,0 +1,68 @@ +{ + "meta": { + "name": "Distributed Meshet", + "id": "coinstac-dist-meshnet", + "version": "v1.0.0", + "compspecVersion": 2, + "repository": "https://github.com/trendscenter/coinstac-dist-meshnet", + "description": "COINSTAC Distributed Meshet Example", + "preprocess": null + }, + "computation": { + "display": [ + { + "type": "iframe" + } + ], + "input": { + "data": { + "label": "File Path", + "type": "directory", + "items": ["File Path"], + "source": "member", + "order": 0 + }, + "wan": { + "label": "WANdb Acct ID", + "type": "string", + "default": "4249802c5215f434e814b1a6ecddf6bbcd3b8982", + "source": "owner", + "order": 1 + }, + "epochs": { + "label": "Epochs", + "type": "number", + "default": 1, + "source": "owner", + "order": 2 + }, + "lr": { + "label": "LR", + "type": "number", + "default": 0.0007, + "source": "owner", + "order": 3 + }, + "classes": { + "label": "Classes", + "type": "number", + "default": 3, + "source": "owner", + "order": 4 + } + }, + "output": { + "Beta": { + "type": "array" + } + }, + "type": "docker", + "dockerImage": "coinstacteam/coinstac-dist-meshnet", + "command": ["python", "/computation/scripts/local.py"], + "remote": { + "type": "docker", + "dockerImage": "coinstacteam/coinstac-dist-meshnet", + "command": ["python", "/computation/scripts/remote.py"] + } + } +} diff --git a/packages/coinstac-api-server/seed/data/coinstac-dpsvm-csv.json b/packages/coinstac-api-server/seed/data/coinstac-dpsvm-csv.json new file mode 100644 index 000000000..075bdee5d --- /dev/null +++ b/packages/coinstac-api-server/seed/data/coinstac-dpsvm-csv.json @@ -0,0 +1,315 @@ +{ + "meta": { + "name": "Differentially Private Support Vector Machines - CSV Based (*2 Sites min. to run)", + "id": "coinstac-dpsvm-csv", + "version": "v1.0.0", + "compspecVersion": null, + "repository": "https://github.com/trendscenter/coinstac-dpsvm-csv", + "description": "REQUIRES 2 SITES MIN. TO RUN", + "preprocess": null + }, + "computation": { + "display": [ + { + "type": "table", + "tables": [ + { + "source": "measurements" + } + ] + } + ], + "input": { + "data": { + "order": 1, + "label": "Local Data", + "type": "files", + "items": ["Data CSV File"], + "extensions": [["csv"]], + "source": "member" + }, + "x_headers": { + "order": 2, + "label": "Areas of Interest", + "type": "object", + "source": "owner", + "default": ["Left-Lateral-Ventricle", "Right-Lateral-Ventricle"] + }, + "covariates": { + "order": 3, + "label": "Local Covariates", + "type": "files", + "items": ["Covariate CSV File"], + "extensions": [["csv"]], + "source": "member" + }, + "y_headers": { + "order": 4, + "label": "Covariates", + "type": "object", + "source": "owner", + "default": ["isControl", "age"] + }, + "label": { + "label": "Label", + "description": "The binary label to predict", + "type": "string", + "source": "owner", + "default": "isControl", + "order": 2 + }, + "model_local": { + "default": "SVM", + "label": "Model_local", + "description": "Binary classification model: SVM / LR", + "type": "string", + "source": "owner", + "order": 3 + }, + "is_private_local": { + "default": true, + "label": "Is_private_local", + "description": "Private or public version of model", + "type": "boolean", + "source": "owner", + "order": 4 + }, + "perturb_method_local": { + "default": "objective", + "label": "Perturb_method_local", + "description": "Perturbation method for conserving privacy: objective / output, not needed for public version", + "type": "string", + "source": "owner", + "order": 5 + }, + "lambda_local": { + "default": 0.0001, + "label": "Lambda_local", + "description": "Regularization parameter", + "max": 100, + "min": 0, + "step": "logrithmic", + "type": "number", + "source": "owner", + "order": 6 + }, + "epsilon_local": { + "default": 30, + "label": "Epsilon_local", + "description": "Privacy parameter", + "max": 3, + "min": 0.1, + "step": 0.01, + "type": "number", + "source": "owner", + "order": 7 + }, + "huberconst_local": { + "default": 0.5, + "label": "Huberconst_local", + "description": "Constant for huber loss", + "max": 0.5, + "min": 0.001, + "step": 0.01, + "type": "number", + "source": "owner", + "order": 8 + }, + "model_owner": { + "default": "SVM", + "label": "Model_owner", + "description": "Binary classification model: SVM / LR", + "type": "string", + "source": "owner", + "order": 9 + }, + "fit_intercept_local": { + "default": true, + "label": "Fit_intercept_local", + "type": "boolean", + "source": "owner", + "order": 10 + }, + "intercept_scaling_local": { + "default": true, + "label": "Intercept_scaling_local", + "type": "boolean", + "source": "owner", + "order": 11 + }, + "is_private_owner": { + "default": true, + "label": "Is_private_owner", + "description": "Private or public version of model", + "type": "boolean", + "source": "owner", + "order": 12 + }, + "perturb_method_owner": { + "default": "objective", + "label": "Perturb_method_owner", + "description": "Perturbation method for conserving privacy: objective / output, not needed for public version", + "type": "string", + "source": "owner", + "order": 13 + }, + "lambda_owner": { + "default": 0.0001, + "label": "Lambda_owner", + "description": "Regularization parameter", + "max": 100, + "min": 0, + "step": "logrithmic", + "type": "number", + "source": "owner", + "order": 14 + }, + "epsilon_owner": { + "default": 30, + "label": "Epsilon_owner", + "description": "Privacy parameter", + "max": 3, + "min": 0.1, + "step": 0.01, + "type": "number", + "source": "owner", + "order": 15 + }, + "huberconst_owner": { + "default": 0.5, + "label": "Huberconst_owner", + "description": "Constant for huber loss", + "max": 0.5, + "min": 0.001, + "step": 0.01, + "type": "number", + "source": "owner", + "order": 16 + }, + "fit_intercept_owner": { + "default": true, + "label": "Fit_intercept_owner", + "type": "boolean", + "source": "owner", + "order": 17 + }, + "intercept_scaling_owner": { + "default": true, + "label": "Intercept_scaling_owner", + "type": "boolean", + "source": "owner", + "order": 18 + }, + "train_split": { + "default": 0.8, + "label": "Train Split", + "description": "Percentage of data used for training at the owner site", + "max": 1, + "min": 0, + "step": 0.1, + "type": "number", + "source": "owner", + "order": 19 + }, + "shuffle": { + "default": true, + "label": "Shuffle", + "type": "boolean", + "source": "owner", + "order": 20 + } + }, + "output": { + "measurements": { + "label": "Differentially private SVM classifier", + "type": "object", + "items": { + "cm_test_owner": { + "label": "Remote site: Confusion Matrix of the test data", + "type": "array" + }, + "cm_test_owner_normalized": { + "label": "Remote site: Normalized Confusion Matrix of the test data", + "type": "array" + }, + "acc_test_owner": { + "label": "Remote site: Testing accuracy", + "type": "number" + }, + "f1_test_owner": { + "label": "Remote site: Testing F1 score", + "type": "number" + }, + "rocauc_test_owner": { + "label": "Remote site: Testing AUC score", + "type": "number" + }, + "cm_train_owner": { + "label": "Remote site: Confusion Matrix of the training data", + "type": "array" + }, + "cm_train_owner_normalized": { + "label": "Remote site: Normalized Confusion Matrix of the training data", + "type": "array" + }, + "acc_train_owner": { + "label": "Remote site: Training accuracy", + "type": "number" + }, + "cm_test_locals": { + "label": "Local sites: Confusion Matrix of the test data", + "type": "array" + }, + "cm_test_locals_normalized": { + "label": "Local sites: Normalized Confusion Matrix of the test data", + "type": "array" + }, + "acc_test_locals": { + "label": "Local sites: Testing accuracy", + "type": "array" + }, + "f1_test_locals": { + "label": "Local sites: Testing F1 score", + "type": "array" + }, + "rocauc_test_locals": { + "label": "Local sites: Testing AUC score", + "type": "array" + }, + "cm_train_locals": { + "label": "Local sites: Confusion Matrix of the training data", + "type": "array" + }, + "cm_train_locals_normalized": { + "label": "Local sites: Normalized Confusion Matrix of the training data", + "type": "array" + }, + "acc_train_locals": { + "label": "Local sites: Training accuracy", + "type": "array" + }, + "n_samples_owner_train": { + "label": "Remote site: Number of training data samples", + "type": "number" + }, + "n_samples_owner_test": { + "label": "Remote site: Number of test data samples", + "type": "number" + }, + "n_samples_locals": { + "label": "Local sites: Number of data samples", + "type": "array" + } + } + } + }, + "type": "docker", + "dockerImage": "coinstacteam/coinstac-dpsvm-csv", + "command": ["python", "/computation/scripts/local.py"], + "remote": { + "type": "docker", + "dockerImage": "coinstacteam/coinstac-dpsvm-csv", + "command": ["python", "/computation/scripts/remote.py"] + } + } +} diff --git a/packages/coinstac-api-server/seed/data/coinstac-dsbm.json b/packages/coinstac-api-server/seed/data/coinstac-dsbm.json new file mode 100644 index 000000000..bf0fbc5d1 --- /dev/null +++ b/packages/coinstac-api-server/seed/data/coinstac-dsbm.json @@ -0,0 +1,80 @@ +{ + "meta": { + "name": "Decentralized Constrained Source Based Morphometry", + "id": "coinstac-dsbm", + "version": "v1.0.0", + "compspecVersion": 1, + "repository": "https://github.com/trendscenter/decentralized-source-based-morphometry", + "description": "A Demo for Decentralized Source Based Morphometry", + "preprocess": null + }, + "computation": { + "display": { + "type": "iframe" + }, + "input": { + "data": { + "label": "Data", + "type": "files", + "items": ["NiFTI"], + "extensions": [["nii"]], + "source": "member", + "order": 1 + }, + "mask": { + "group": "options", + "default": "/computation/local_data/mask.nii", + "label": "Mask Filename", + "type": "string", + "source": "owner", + "tooltip": "Nifti file name to be use as the mask", + "order": 2 + }, + "scica_template": { + "group": "options", + "default": "/computation/local_data/NeuroMark.nii", + "label": "Spatially Constrained ICA Template Name", + "type": "string", + "source": "owner", + "tooltip": "Nifti file name to be use as the template for spatially constrained ICA", + "order": 3 + }, + "covariates": { + "group": "reg", + "label": "Covariates", + "type": "csv", + "items": ["boolean", "number", "string"], + "source": "member", + "tooltip": "csv file with nifti file name, covariates information of each subject in a separate line", + "order": 4 + }, + "reference_columns": { + "group": "reg", + "label": "Regression reference column(s) and value(s)", + "default": {}, + "type": "object", + "source": "owner", + "tooltip": "Used in regression for dummy encoding categorical covariate columns. Required only if specific value(s) should be used for dummy encoding a column(s); Example : { \"reference_column_name\": \"reference_value\" }", + "order": 5 + }, + "group_col_name": { + "group": "reg", + "label": "Patient/Control column name", + "default": "", + "type": "string", + "source": "owner", + "tooltip": "Column name in the covariates file that contains patients and controls information.", + "order": 5 + } + }, + "output": {}, + "type": "docker", + "dockerImage": "coinstacteam/coinstac-dsbm", + "command": ["python", "/computation/local.py"], + "remote": { + "type": "docker", + "dockerImage": "coinstacteam/coinstac-dsbm", + "command": ["python", "/computation/remote.py"] + } + } +} diff --git a/packages/coinstac-api-server/seed/data/coinstac-msr-csv.json b/packages/coinstac-api-server/seed/data/coinstac-msr-csv.json new file mode 100644 index 000000000..935e33316 --- /dev/null +++ b/packages/coinstac-api-server/seed/data/coinstac-msr-csv.json @@ -0,0 +1,177 @@ +{ + "meta": { + "name": "Regression (Multishot) - CSV", + "id": "coinstac-msr-csv", + "version": "v1.0.0", + "compspecVersion": 2, + "repository": "https://github.com/pixelsaurus/coinstac-msr-csv", + "description": "REQUIRES >=2 SITES data to run. Input data type:CSV files 1)Data file with dependent variables 2) Covariate file with independent variables Source data is not shared with other sites. Multiple iterations between private aggregator and local sites. Global Beta is calculated by gradient descent method by iterating between local Beta's and minimizing cost function. Global stats will have these betas - beta for intercept betas for covariates and betas for n-1 ( sites ). Expect better Goodness of fit (R square) than Decentralized Regression with Beta aggregator - Freesurfer Volumes. For more info., click VIEW GITHUB PROJECT PAGE.", + "preprocess": null + }, + "computation": { + "display": [ + { + "type": "table", + "tables": [ + { + "source": "regressions", + "subtables": [ + { + "source": "global_stats", + "subtitle": "ROI" + }, + { + "source": "local_stats", + "subtitle": "ROI", + "subtables": "by-key" + } + ] + } + ] + } + ], + "input": { + "data": { + "order": 1, + "label": "Local Data", + "type": "files", + "items": ["Data CSV File"], + "extensions": [["csv"]], + "source": "member" + }, + "y_headers": { + "order": 2, + "label": "Areas of Interest", + "type": "object", + "source": "owner", + "default": [ + "Left-Lateral-Ventricle", + "Right-Lateral-Ventricle", + "Left-Thalamus-Proper", + "Right-Thalamus-Proper", + "Left-Caudate", + "Right-Caudate", + "Left-Putamen", + "Right-Putamen", + "Left-Pallidum", + "Right-Pallidum", + "Left-Hippocampus", + "Right-Hippocampus", + "Left-Amygdala", + "Right-Amygdala", + "Left-Accumbens-area", + "Right-Accumbens-area", + "EstimatedTotalIntraCranialVol" + ] + }, + "covariates": { + "order": 3, + "label": "Local Covariates", + "type": "files", + "items": ["Covariate CSV File"], + "extensions": [["csv"]], + "source": "member" + }, + "x_headers": { + "order": 4, + "label": "Covariates", + "type": "object", + "source": "owner", + "default": ["isControl", "age"] + }, + "lambda": { + "label": "Lambda", + "type": "number", + "default": 0, + "source": "owner", + "order": 5 + }, + "tol": { + "default": 100, + "label": "Tolerance", + "tooltip": "Tolerance inital parameter setting for regression convergence. Suggested range 1e-8 to 100", + "type": "number", + "source": "owner" + }, + "eta": { + "default": 1000, + "label": "ETA", + "tooltip": "ETA inital parameter setting for regression convergence. Suggested range 1e-5 to 100", + "type": "number", + "source": "owner" + } + }, + "output": { + "regressions": { + "label": "Regressions", + "type": "array", + "items": { + "global_stats": { + "label": "Global Stats", + "type": "object", + "items": { + "avg_beta_vector": { + "label": "Avg Beta Vector", + "type": "array" + }, + "r2_global": { + "label": "R2 Global", + "type": "number" + }, + "ts_global": { + "label": "TS Global", + "type": "array" + }, + "ps_global": { + "label": "PS Global", + "type": "number" + }, + "dof_global": { + "label": "DOF Global", + "type": "array" + } + } + }, + "local_stats": { + "label": "Local Stats", + "type": "object", + "items": { + "beta": { + "label": "Beta", + "type": "array" + }, + "pval": { + "label": "PVal", + "type": "array" + }, + "rsquared": { + "label": "R Squared", + "type": "number" + }, + "sse": { + "label": "SSE", + "type": "number" + }, + "tval": { + "label": "TVal", + "type": "array" + } + } + }, + "covariate": { + "label": "Covariate", + "type": "string" + } + } + } + }, + "type": "docker", + "dockerImage": "coinstacteam/coinstac-msr-csv", + "command": ["python", "/computation/scripts/entry.py"], + "remote": { + "type": "docker", + "dockerImage": "coinstacteam/coinstac-msr-csv", + "command": ["python", "/computation/scripts/entry.py"] + } + } +} diff --git a/packages/coinstac-api-server/seed/data/coinstac-regression-csv.json b/packages/coinstac-api-server/seed/data/coinstac-regression-csv.json new file mode 100644 index 000000000..8394e480b --- /dev/null +++ b/packages/coinstac-api-server/seed/data/coinstac-regression-csv.json @@ -0,0 +1,147 @@ +{ + "meta": { + "name": "Regression - CSV", + "id": "regression-csv", + "version": "v1.0.0", + "compspecVersion": 2, + "repository": "https://github.com/trendscenter/coinstac-regression-csv", + "description": "Input data type: CSV formatted Covariates and Measurements. Format: CSV. Source data is not shared with other sites. Emulates local Ridge regression normal equation with closed form solution, with data from various sites pooled together. Dependent variable values are read from all the voxels in the Structural MRI nifti files. Covariates and dependent variables are sent to the private secure aggregator node and beta coefficient's are calculated and sent to local sites. Simplest and fastest form of regression. Click VIEW GITHUB PROJECT PAGE above and download from the test/local0/simulatorRun directory.", + "preprocess": null + }, + "computation": { + "display": [ + { + "type": "table", + "tables": [ + { + "source": "regressions", + "subtables": [ + { + "source": "global_stats", + "subtitle": "ROI" + }, + { + "source": "local_stats", + "subtitle": "ROI", + "subtables": "by-key" + } + ] + } + ] + } + ], + "input": { + "data": { + "order": 1, + "label": "Local Data", + "type": "files", + "items": ["Data CSV File"], + "extensions": [["csv"]], + "source": "member" + }, + "covariates": { + "order": 1, + "label": "Local Covariates", + "type": "files", + "items": ["Covariate CSV File"], + "extensions": [["csv"]], + "source": "member" + }, + "y_headers": { + "order": 2, + "label": "y Headers", + "type": "object", + "source": "owner", + "default": ["Left-Lateral-Ventricle", "Right-Lateral-Ventricle"] + }, + "X_headers": { + "order": 3, + "label": "X Headers", + "type": "object", + "source": "owner", + "default": ["isControl", "age"] + }, + "lambda": { + "default": 1, + "label": "Lambda", + "max": 1, + "min": 0, + "step": 0.05, + "type": "number", + "source": "owner" + } + }, + "output": { + "regressions": { + "label": "Regressions", + "type": "array", + "items": { + "global_stats": { + "label": "Global Stats", + "type": "object", + "items": { + "avg_beta_vector": { + "label": "Avg Beta Vector", + "type": "array" + }, + "r2_global": { + "label": "R2 Global", + "type": "number" + }, + "ts_global": { + "label": "TS Global", + "type": "array" + }, + "ps_global": { + "label": "PS Global", + "type": "number" + }, + "dof_global": { + "label": "DOF Global", + "type": "array" + } + } + }, + "local_stats": { + "label": "Local Stats", + "type": "object", + "items": { + "beta": { + "label": "Beta", + "type": "array" + }, + "pval": { + "label": "PVal", + "type": "array" + }, + "rsquared": { + "label": "R Squared", + "type": "number" + }, + "sse": { + "label": "SSE", + "type": "number" + }, + "tval": { + "label": "TVal", + "type": "array" + } + } + }, + "ROI": { + "label": "Region of Interest", + "type": "string" + } + } + } + }, + "type": "docker", + "dockerImage": "coinstacteam/regression-csv", + "command": ["python", "/computation/scripts/local.py"], + "remote": { + "type": "docker", + "dockerImage": "coinstacteam/regression-csv", + "command": ["python", "/computation/scripts/remote.py"] + } + } +} diff --git a/packages/coinstac-api-server/seed/data/coinstac-ssr-csv.json b/packages/coinstac-api-server/seed/data/coinstac-ssr-csv.json new file mode 100644 index 000000000..f2b0e99d2 --- /dev/null +++ b/packages/coinstac-api-server/seed/data/coinstac-ssr-csv.json @@ -0,0 +1,144 @@ +{ + "meta": { + "name": "Regression (Singleshot) - CSV", + "id": "coinstac-ssr-csv", + "version": "v1.0.0", + "compspecVersion": 2, + "repository": "https://github.com/pixelsaurus/coinstac-ssr-csv", + "description": "Input data type:CSV files 1)Data file with dependent variables 2) Covariate file with independent variables. Source data is not shared with other sites. Local Beta's are calculated from covariates and dependent variables, and are sent to the private secure aggregator node. An average Beta vector is calculated and sent to local sites. One iteration between private aggregator and local sites. Expect better Goodness of fit (R square) than Regression with closed form solution - Freesurfer Volumes. Click VIEW GITHUB PROJECT PAGE above and download from the test/local0/simulatorRun directory.", + "preprocess": null + }, + "computation": { + "display": [ + { + "type": "table", + "tables": [ + { + "source": "regressions", + "subtables": [ + { + "source": "global_stats", + "subtitle": "ROI" + }, + { + "source": "local_stats", + "subtitle": "ROI", + "subtables": "by-key" + } + ] + } + ] + } + ], + "input": { + "data": { + "order": 1, + "label": "Local Data", + "type": "files", + "items": ["Data CSV File"], + "extensions": [["csv"]], + "source": "member" + }, + "covariates": { + "order": 1, + "label": "Local Covariates", + "type": "files", + "items": ["Covariate CSV File"], + "extensions": [["csv"]], + "source": "member" + }, + "y_headers": { + "order": 2, + "label": "y Headers", + "type": "object", + "source": "owner", + "default": ["Left-Lateral-Ventricle", "Right-Lateral-Ventricle"] + }, + "X_headers": { + "order": 3, + "label": "X Headers", + "type": "object", + "source": "owner", + "default": ["isControl", "age"] + }, + "lambda": { + "label": "Lambda", + "type": "number", + "default": 0, + "source": "owner" + } + }, + "output": { + "regressions": { + "label": "Regressions", + "type": "array", + "items": { + "global_stats": { + "label": "Global Stats", + "type": "object", + "items": { + "avg_beta_vector": { + "label": "Avg Beta Vector", + "type": "array" + }, + "r2_global": { + "label": "R2 Global", + "type": "number" + }, + "ts_global": { + "label": "TS Global", + "type": "array" + }, + "ps_global": { + "label": "PS Global", + "type": "number" + }, + "dof_global": { + "label": "DOF Global", + "type": "array" + } + } + }, + "local_stats": { + "label": "Local Stats", + "type": "object", + "items": { + "beta": { + "label": "Beta", + "type": "array" + }, + "pval": { + "label": "PVal", + "type": "array" + }, + "rsquared": { + "label": "R Squared", + "type": "number" + }, + "sse": { + "label": "SSE", + "type": "number" + }, + "tval": { + "label": "TVal", + "type": "array" + } + } + }, + "ROI": { + "label": "Region of Interest", + "type": "string" + } + } + } + }, + "type": "docker", + "dockerImage": "coinstacteam/coinstac-ssr-csv", + "command": ["python", "/computation/entry.py"], + "remote": { + "type": "docker", + "dockerImage": "coinstacteam/coinstac-ssr-csv", + "command": ["python", "/computation/entry.py"] + } + } +} From ca7d16dc87e35f07a58531ffb519f2e6fc782170 Mon Sep 17 00:00:00 2001 From: kalitopix Date: Wed, 21 Aug 2024 08:30:46 -0400 Subject: [PATCH 3/8] add test for msr-csv computation --- .../local0/simulatorRun/site1_Covariate.csv | 26 ++++++ .../input/local0/simulatorRun/site1_data.csv | 26 ++++++ .../simulatorRun/site1_harmonized_data.csv | 26 ++++++ .../local1/simulatorRun/site2_Covariate.csv | 25 ++++++ .../input/local1/simulatorRun/site2_data.csv | 25 ++++++ .../local2/simulatorRun/site1_Covariate.csv | 26 ++++++ .../input/local2/simulatorRun/site1_Data.csv | 26 ++++++ .../local3/simulatorRun/site2_Covariate.csv | 25 ++++++ .../input/local3/simulatorRun/site2_Data.csv | 25 ++++++ .../local4/simulatorRun/site1_Covariate.csv | 26 ++++++ .../input/local4/simulatorRun/site1_Data.csv | 26 ++++++ .../local5/simulatorRun/site2_Covariate.csv | 25 ++++++ .../input/local5/simulatorRun/site2_Data.csv | 25 ++++++ packages/coinstac-api-server/package.json | 2 +- packages/coinstac-api-server/seed/populate.js | 50 +++++------ .../app/main/services/files.js | 26 +++--- .../render/components/pipelines/pipeline.jsx | 16 +++- packages/coinstac-desktop-app/package.json | 2 +- .../test/e2e/computation-msr-csv.test.js | 85 +++++++++++++++++++ .../test/lib/consortia.js | 29 ++++++- .../coinstac-desktop-app/test/lib/pipeline.js | 46 ++++++++++ .../coinstac-desktop-app/test/lib/setup.js | 20 +++-- 22 files changed, 561 insertions(+), 47 deletions(-) create mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv create mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_data.csv create mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_harmonized_data.csv create mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local1/simulatorRun/site2_Covariate.csv create mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local1/simulatorRun/site2_data.csv create mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local2/simulatorRun/site1_Covariate.csv create mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local2/simulatorRun/site1_Data.csv create mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local3/simulatorRun/site2_Covariate.csv create mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local3/simulatorRun/site2_Data.csv create mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Covariate.csv create mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Data.csv create mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Covariate.csv create mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Data.csv create mode 100644 packages/coinstac-desktop-app/test/e2e/computation-msr-csv.test.js diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv b/algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv new file mode 100644 index 000000000..069c95453 --- /dev/null +++ b/algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv @@ -0,0 +1,26 @@ +isControl,age +FALSE,22.0 +TRUE,47.0 +FALSE,56.0 +TRUE,73.0 +FALSE,58.0 +FALSE,67.0 +FALSE,40.0 +TRUE,25.0 +TRUE,51.0 +FALSE,37.0 +FALSE,35.0 +FALSE,29.0 +FALSE,33.0 +FALSE,21.0 +FALSE,40.0 +TRUE,25.0 +FALSE,23.0 +TRUE,60.0 +FALSE,31.0 +FALSE,60.0 +FALSE,71.0 +TRUE,57.0 +TRUE,38.0 +TRUE,46.0 +TRUE,25.0 \ No newline at end of file diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_data.csv b/algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_data.csv new file mode 100644 index 000000000..ffabe0ea4 --- /dev/null +++ b/algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_data.csv @@ -0,0 +1,26 @@ +Left-Lateral-Ventricle,Right-Lateral-Ventricle,Left-Thalamus-Proper,Right-Thalamus-Proper,Left-Caudate,Right-Caudate,Left-Putamen,Right-Putamen,Left-Pallidum,Right-Pallidum,Left-Hippocampus,Right-Hippocampus,Left-Amygdala,Right-Amygdala,Left-Accumbens-area,Right-Accumbens-area,EstimatedTotalIntraCranialVol 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newline at end of file diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local1/simulatorRun/site2_data.csv b/algorithm-development/test-data/msr-csv-test-data/input/local1/simulatorRun/site2_data.csv new file mode 100644 index 000000000..d00868179 --- /dev/null +++ b/algorithm-development/test-data/msr-csv-test-data/input/local1/simulatorRun/site2_data.csv @@ -0,0 +1,25 @@ +Left-Lateral-Ventricle,Right-Lateral-Ventricle,Left-Thalamus-Proper,Right-Thalamus-Proper,Left-Caudate,Right-Caudate,Left-Putamen,Right-Putamen,Left-Pallidum,Right-Pallidum,Left-Hippocampus,Right-Hippocampus,Left-Amygdala,Right-Amygdala,Left-Accumbens-area,Right-Accumbens-area,EstimatedTotalIntraCranialVol +5199.9,4185.4,8648.9,8293,3816.4,3711,5740.2,5987.5,2113.9,2010.8,4279.8,4621.9,1877,1783.2,521.7,564.6,1.6E+06 +2776.1,2668.2,7803,7590.2,3431.4,3451.4,4359.6,4394.2,2167.8,1976.5,3778.1,3982.9,1419,1633.6,419.8,494.3,1.39E+06 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+++ b/algorithm-development/test-data/msr-csv-test-data/input/local2/simulatorRun/site1_Covariate.csv @@ -0,0 +1,26 @@ +isControl,age +FALSE,22.0 +TRUE,47.0 +FALSE,56.0 +TRUE,73.0 +FALSE,58.0 +FALSE,67.0 +FALSE,40.0 +TRUE,25.0 +TRUE,51.0 +FALSE,37.0 +FALSE,35.0 +FALSE,29.0 +FALSE,33.0 +FALSE,21.0 +FALSE,40.0 +TRUE,25.0 +FALSE,23.0 +TRUE,60.0 +FALSE,31.0 +FALSE,60.0 +FALSE,71.0 +TRUE,57.0 +TRUE,38.0 +TRUE,46.0 +TRUE,25.0 \ No newline at end of file diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local2/simulatorRun/site1_Data.csv b/algorithm-development/test-data/msr-csv-test-data/input/local2/simulatorRun/site1_Data.csv new file mode 100644 index 000000000..ffabe0ea4 --- /dev/null +++ b/algorithm-development/test-data/msr-csv-test-data/input/local2/simulatorRun/site1_Data.csv @@ -0,0 +1,26 @@ 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a/algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Covariate.csv b/algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Covariate.csv new file mode 100644 index 000000000..069c95453 --- /dev/null +++ b/algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Covariate.csv @@ -0,0 +1,26 @@ +isControl,age +FALSE,22.0 +TRUE,47.0 +FALSE,56.0 +TRUE,73.0 +FALSE,58.0 +FALSE,67.0 +FALSE,40.0 +TRUE,25.0 +TRUE,51.0 +FALSE,37.0 +FALSE,35.0 +FALSE,29.0 +FALSE,33.0 +FALSE,21.0 +FALSE,40.0 +TRUE,25.0 +FALSE,23.0 +TRUE,60.0 +FALSE,31.0 +FALSE,60.0 +FALSE,71.0 +TRUE,57.0 +TRUE,38.0 +TRUE,46.0 +TRUE,25.0 \ No newline at end of file diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Data.csv b/algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Data.csv new file mode 100644 index 000000000..ffabe0ea4 --- /dev/null +++ b/algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Data.csv @@ -0,0 +1,26 @@ +Left-Lateral-Ventricle,Right-Lateral-Ventricle,Left-Thalamus-Proper,Right-Thalamus-Proper,Left-Caudate,Right-Caudate,Left-Putamen,Right-Putamen,Left-Pallidum,Right-Pallidum,Left-Hippocampus,Right-Hippocampus,Left-Amygdala,Right-Amygdala,Left-Accumbens-area,Right-Accumbens-area,EstimatedTotalIntraCranialVol +9224.4,9044.2,9011.6,7975.4,4362.6,4465.3,5690.4,5996.4,2236.6,2172.8,4354.1,4693.2,1380,1753.3,542.6,649.5,1.75E+06 +17810.8,11570.8,7589.1,7594.3,2881.6,3474.2,4796.9,4623,1903.9,1737.5,3582.8,3744,1248.2,1432,383.8,423.9,1.5E+06 +3411.1,4588.4,8639.4,8258,3381.4,3565.9,4885.7,4952,1954.6,1827.5,3614.7,3914.6,1340.7,1568,447.7,628.8,1.57E+06 +5279.1,4190.1,8834,8595.1,3631.2,3564.3,5692.5,5615.4,2264.2,2285.1,4995.4,4906,1668.2,1987.3,566.4,575.5,1.73E+06 +5096,3092,7510.3,7427.6,3470,3600.1,5005.6,4842.5,1881.3,1778.2,4260.4,4328.7,1521.1,1670.5,629.5,578,1.55E+06 +7766.6,5587.5,8654.1,8222.8,3577.3,3742.6,5169.7,5129.4,2186.2,2102.4,3855.1,3948.8,1459.2,1490.3,548.2,501.6,1.55E+06 +4758.8,4442.6,7682.8,7222.2,3506.8,3463.9,4659.9,4692.7,1747.8,1750.9,3959.3,4168.8,1665.7,1776.1,450.5,531.5,1.32E+06 +11744.3,9673.9,7934.2,7703.4,3228.7,3235.9,4235.7,4046.3,1932.8,1672.7,3838.6,3638.4,1507,1580.4,380.1,477.3,1.59E+06 +4328.2,3869.1,8564.9,9097.9,3939.9,4042.8,6516.9,5707.2,2198.6,2411.5,4499.9,4720.1,1756.6,1932.3,569.2,619.3,1.69E+06 +5155.8,7655.5,8391,7931,4206.8,4224.4,5018.9,5076.5,2228,2180,4002.8,3899.2,1385.9,1562.8,521.7,579.8,1.59E+06 +4791.8,5264.2,9133.9,8650.3,3734.6,3975.8,5244.7,5249,2207.8,2235.8,3979.8,3745,1488.4,1591.9,625.4,662.4,1.68E+06 +4244.4,4842.8,7922.7,7394.4,3200.1,3461.3,4817.6,5066.7,2027.4,2155.5,4404.6,4556.1,1489.7,1660.1,488.4,543.9,1.52E+06 +3174.1,2142.5,8396.9,8075.4,3452.8,3476.4,4357.3,4373.4,1973.1,1843.9,3907.6,4184.6,1556,1659.4,400.3,513.2,1.48E+06 +4804.3,3835.1,9499.8,8667.7,3631.3,3551.2,5672.1,6073.2,2346.3,2136.3,4363.6,4439.8,1661.7,1805.1,633.9,646.9,1.69E+06 +2533.6,2513.3,8393.7,8687.3,3714.3,3923.4,4845.5,4297.4,2185.8,2131.3,3584.3,3640.5,1386,1469.5,582.3,626.9,1.52E+06 +4807.6,4416,7995.8,7777.5,3359.9,3460.4,4692.8,4842.4,2064.9,1927,3966.2,4295.6,1526.4,1754.8,452.7,520.1,1.5E+06 +11267.3,9719.5,7505.1,7882.9,4188.7,4334.7,5485.3,5265,2119.8,1807.4,3762.7,4308.9,1519.3,1612.3,512.3,583.7,1.53E+06 +10422.7,10527.8,7861.7,7873.8,3837,3728,4750.4,4870.9,1896.3,1717.2,4006.9,4050.7,1421.7,1600.6,426.3,510.8,1.54E+06 +5497.4,4666.9,7760.2,8211.8,3243.5,3254.4,4813.9,4522.4,1960.7,2082.6,3748.4,4023.4,1380.4,1546.4,465.7,588.5,1.5E+06 +4661.8,5003.6,9177.5,8404.9,3540.7,3734.6,5185.1,5177.9,2391.9,2100.9,4871.8,4632.2,1761.3,1746,490.4,559.5,1.73E+06 +4966.4,3606.4,8783.2,8327.2,3598.8,3505.2,4932.8,4976.8,1930.7,1904.7,4379.6,4564.1,1631,1859.7,475.7,514.1,1.68E+06 +7222,7501.4,7026,6703.1,3260.8,3292.4,4286.5,4494.1,1781.9,1699.2,3847,3776.8,1309.4,1363.7,315.2,418.4,1.54E+06 +8799.5,13830.3,8252.7,7896.4,4182.4,4261.8,4413.5,4637.8,1936.3,1864.2,4253.1,4070.8,1542.6,1616,535.1,512.5,1.61E+06 +10979.6,6918.4,8700.3,7999.2,3623.9,3718.5,5265.4,5352.5,2102.5,1901.7,3859.5,3923.1,1389.4,1628.3,436.2,502.8,1.58E+06 +3935.3,3841.4,7928.9,8201.1,3207.4,3226.4,5106.8,4970.9,2132.5,1806,4806.5,4759.6,1601.4,1644.2,514.6,555.8,1.56E+06 \ No newline at end of file diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Covariate.csv b/algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Covariate.csv new file mode 100644 index 000000000..1655f0cea --- /dev/null +++ b/algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Covariate.csv @@ -0,0 +1,25 @@ +isControl,age +TRUE,53.0 +FALSE,21.0 +TRUE,38.0 +TRUE,49.0 +FALSE,41.0 +FALSE,52.0 +FALSE,39.0 +TRUE,23.0 +TRUE,66.0 +FALSE,47.0 +TRUE,26.0 +FALSE,74.0 +FALSE,43.0 +TRUE,59.0 +TRUE,37.0 +TRUE,78.0 +TRUE,68.0 +FALSE,52.0 +TRUE,38.0 +TRUE,30.0 +TRUE,63.0 +FALSE,70.0 +TRUE,24.0 +FALSE,23.0 \ No newline at end of file diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Data.csv b/algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Data.csv new file mode 100644 index 000000000..d00868179 --- /dev/null +++ b/algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Data.csv @@ -0,0 +1,25 @@ +Left-Lateral-Ventricle,Right-Lateral-Ventricle,Left-Thalamus-Proper,Right-Thalamus-Proper,Left-Caudate,Right-Caudate,Left-Putamen,Right-Putamen,Left-Pallidum,Right-Pallidum,Left-Hippocampus,Right-Hippocampus,Left-Amygdala,Right-Amygdala,Left-Accumbens-area,Right-Accumbens-area,EstimatedTotalIntraCranialVol +5199.9,4185.4,8648.9,8293,3816.4,3711,5740.2,5987.5,2113.9,2010.8,4279.8,4621.9,1877,1783.2,521.7,564.6,1.6E+06 +2776.1,2668.2,7803,7590.2,3431.4,3451.4,4359.6,4394.2,2167.8,1976.5,3778.1,3982.9,1419,1633.6,419.8,494.3,1.39E+06 +3739.4,3462,7787,7292.4,3434.3,3518.5,4761,4797.6,2010.6,2024.3,3610.9,3715.3,1564.2,1627.4,441.9,514.2,1.51E+06 +3194.7,5810.7,7724.5,7326.1,2989.3,3346.2,5121.3,5271.9,2006.2,1992.4,4403.4,3952.2,1412.7,1548,539.2,551,1.46E+06 +4722.7,3899.2,7872.7,7709.7,3306.4,3396.4,5186.1,4951.5,1984.1,1931,4135,4407.8,1437.1,1487.1,505.2,604.1,1.42E+06 +5732.4,5082.1,7974.4,7619.9,3582.7,3650,4706.6,4727.3,1957.4,1772.5,3788.6,4085.2,1568.8,1786.8,411.4,470.9,1.51E+06 +8065.8,9555.6,8143.7,7615.6,3793.6,3804.7,4564,4735.1,1979.5,1934.2,4373.5,4202.9,1399.4,1548.1,461.5,501.8,1.53E+06 +5061.6,6288.9,8236.5,7500.1,4116.9,4077.6,5507.5,5606.8,2160,2190.3,4647.3,4568.7,1743,1791.4,621.1,653.9,1.74E+06 +6048.9,9385.6,7847.2,7691.4,3865.6,3982.9,5107,5227.5,1999.1,2118,3954.2,3926.5,1584.2,1791.2,397.5,560.2,1.56E+06 +5563.8,4396.3,7836.5,7985.5,3522,3547.6,4660.8,4575,1993.3,1943.9,4148.2,4282.7,1423.5,1521.4,507.1,574.6,1.41E+06 +3461.1,3351.4,9147.6,8797,3935.4,4005.2,5763.4,5600.6,2390.8,2157.4,5103.8,4868,1712.3,1715.9,517.7,577.6,1.7E+06 +3479.4,2624.5,7954.3,7769.2,3743.5,3886.6,4907.3,4866.5,2084.1,2104.3,4357.8,4087.5,1348.8,1711.1,498.3,603.8,1.47E+06 +4947,3338.2,9312.6,8784.2,4420.2,4030.1,6274,6113.1,2438.1,2264,4513.6,4656.5,1685.2,1839.6,505.9,602.9,1.69E+06 +5054.2,5207.6,8330.5,7170.9,3634.8,3740.6,4507.3,5089,1839.3,1812.6,3923.5,4209.4,1480.1,1520.6,411.2,484.6,1.48E+06 +6751,3932.8,9169.7,8375.8,3986,3605.2,5478.4,5423.5,2200.2,1917.5,4538.2,4625.5,1657.6,1773.2,479.4,620.2,1.82E+06 +5086.1,4187.6,7557.8,7690.8,3388.1,3542.5,4946.9,4815.6,1836.7,1829.6,3611.6,3825.5,1541.9,1540.8,484.6,516,1.55E+06 +2615.5,2851.5,7527,7482.1,3188.5,3278.4,4666.6,4801.1,1820.7,1820,3837.3,4070.8,1426.5,1625.4,539.2,547.1,1.42E+06 +3521.7,3254.8,7660.5,7099.3,3652.2,3645,4313.7,4480.9,1945.6,1681.4,3629,3673.3,1301.4,1474.1,456.3,542.2,1.41E+06 +11281.8,9392.4,6707.5,6791.2,3201.3,3406.9,4837.2,4918.7,1925.2,1821.3,3839.3,3838.4,1523.7,1597.7,418.4,564.6,1.52E+06 +6684.1,5773.6,7959.9,7571.6,3516.5,3426.6,4941.4,5002.4,2080.6,1862.8,3639.3,3786.8,1342.3,1526.3,458.8,521.4,1.47E+06 +13503,8220.2,9466.1,8774.9,4086,4065.6,5247.3,5183.5,2410.2,2096.7,3892.7,4232.8,1531.5,1821.7,557.6,521.9,1.77E+06 +6489.7,4633.6,9212.7,9207,4400.1,4842.5,5987.4,6098.6,2558.2,2375.6,4593,4581.2,1694,1887.8,614.1,597.7,1.86E+06 +9597.1,9221.8,7390.8,7961.6,3412,3474,5548.1,5263.3,2231.8,1995.2,3788.9,4033,1441,1600.1,473.9,555.2,1.52E+06 +6629.1,5280.6,8009.1,7847.5,4135,4100.3,4954.6,4946.3,2067.9,2127.7,3646.4,3894.8,1485.9,1599.9,455.2,555.4,1.48E+06 \ No newline at end of file diff --git a/packages/coinstac-api-server/package.json b/packages/coinstac-api-server/package.json index 0d0caffd0..2cc5c8c4a 100644 --- a/packages/coinstac-api-server/package.json +++ b/packages/coinstac-api-server/package.json @@ -6,7 +6,7 @@ "scripts": { "start": "node src/index.js", "test": "docker-compose down && sleep 3 && docker-compose up -d && cross-env NODE_ENV=test nyc ava", - "test-setup": "docker-compose up -d && node seed/test-setup.js", + "test-setup": "docker compose up -d && node seed/test-setup.js", "migrate-db": "node src/database/migrations/migrate.js", "clear-runs": "node seed/clearRuns.js" }, diff --git a/packages/coinstac-api-server/seed/populate.js b/packages/coinstac-api-server/seed/populate.js index e9ea9f7c6..b3346ca23 100644 --- a/packages/coinstac-api-server/seed/populate.js +++ b/packages/coinstac-api-server/seed/populate.js @@ -12,6 +12,7 @@ const dsneMS = require('./data/coinstac-dsne-ms.json'); const drneVbm = require('./data/coinstac-schema-regression-vbm.json'); // const ssrVbm = require('./data/coinstac-schema-regression-ss-vbm'); const msrVbm = require('./data/coinstac-schema-regression-ms-vbm.json'); +const msrCSV = require('./data/coinstac-msr-csv.json'); const dmancova = require('./data/coinstac-dmancova.json'); const drneFsl = require('./data/coinstac-schema-regression-fsl.json'); @@ -42,7 +43,7 @@ const CONSORTIA_IDS = generateUniqueIDs(2); const PIPELINE_IDS = generateUniqueIDs(4); -const COMPUTATION_IDS = generateUniqueIDs(27); +const COMPUTATION_IDS = generateUniqueIDs(28); const USER_IDS = generateUniqueIDs(6); @@ -56,29 +57,30 @@ async function populateComputations() { { ...decentralized, submittedBy: 'author', _id: COMPUTATION_IDS[1] }, { ...msrFsl, submittedBy: 'author', _id: COMPUTATION_IDS[2] }, { ...msrVbm, submittedBy: 'author', _id: COMPUTATION_IDS[3] }, - { ...vbm, submittedBy: 'author', _id: COMPUTATION_IDS[4] }, - { ...gica, submittedBy: 'author', _id: COMPUTATION_IDS[5] }, - { ...ddfnc, submittedBy: 'author', _id: COMPUTATION_IDS[6] }, - { ...dpsvm, submittedBy: 'author', _id: COMPUTATION_IDS[7] }, - { ...drneVbm, submittedBy: 'author', _id: COMPUTATION_IDS[8] }, - { ...dsneMS, submittedBy: 'author', _id: COMPUTATION_IDS[9] }, - { ...drneFsl, submittedBy: 'author', _id: COMPUTATION_IDS[10] }, - { ...decentralizedError, submittedBy: 'author', _id: COMPUTATION_IDS[11] }, - { ...enigmaSans, submittedBy: 'author', _id: COMPUTATION_IDS[12] }, - { ...localError, submittedBy: 'author', _id: COMPUTATION_IDS[13] }, - { ...fmri, submittedBy: 'author', _id: COMPUTATION_IDS[14] }, - { ...ssrFsl, submittedBy: 'author', _id: COMPUTATION_IDS[15] }, - { ...dmancova, submittedBy: 'author', _id: COMPUTATION_IDS[16] }, - { ...dinunet, submittedBy: 'author', _id: COMPUTATION_IDS[17] }, - { ...dinunetGPU, submittedBy: 'author', _id: COMPUTATION_IDS[18] }, - { ...brainageFNC, submittedBy: 'author', _id: COMPUTATION_IDS[19] }, - { ...pLink, submittedBy: 'author', _id: COMPUTATION_IDS[20] }, - { ...dpica, submittedBy: 'author', _id: COMPUTATION_IDS[21] }, - { ...combatDC, submittedBy: 'author', _id: COMPUTATION_IDS[22] }, - { ...dlmeFS, submittedBy: 'author', _id: COMPUTATION_IDS[23] }, - { ...dlmeVBM, submittedBy: 'author', _id: COMPUTATION_IDS[24] }, - { ...transfer, submittedBy: 'author', _id: COMPUTATION_IDS[25] }, - { ...stress, submittedBy: 'author', _id: COMPUTATION_IDS[26] }, + { ...msrCSV, submittedBy: 'author', _id: COMPUTATION_IDS[4] }, + { ...vbm, submittedBy: 'author', _id: COMPUTATION_IDS[5] }, + { ...gica, submittedBy: 'author', _id: COMPUTATION_IDS[6] }, + { ...ddfnc, submittedBy: 'author', _id: COMPUTATION_IDS[7] }, + { ...dpsvm, submittedBy: 'author', _id: COMPUTATION_IDS[8] }, + { ...drneVbm, submittedBy: 'author', _id: COMPUTATION_IDS[9] }, + { ...dsneMS, submittedBy: 'author', _id: COMPUTATION_IDS[10] }, + { ...drneFsl, submittedBy: 'author', _id: COMPUTATION_IDS[11] }, + { ...decentralizedError, submittedBy: 'author', _id: COMPUTATION_IDS[12] }, + { ...enigmaSans, submittedBy: 'author', _id: COMPUTATION_IDS[13] }, + { ...localError, submittedBy: 'author', _id: COMPUTATION_IDS[14] }, + { ...fmri, submittedBy: 'author', _id: COMPUTATION_IDS[15] }, + { ...ssrFsl, submittedBy: 'author', _id: COMPUTATION_IDS[16] }, + { ...dmancova, submittedBy: 'author', _id: COMPUTATION_IDS[17] }, + { ...dinunet, submittedBy: 'author', _id: COMPUTATION_IDS[18] }, + { ...dinunetGPU, submittedBy: 'author', _id: COMPUTATION_IDS[19] }, + { ...brainageFNC, submittedBy: 'author', _id: COMPUTATION_IDS[20] }, + { ...pLink, submittedBy: 'author', _id: COMPUTATION_IDS[21] }, + { ...dpica, submittedBy: 'author', _id: COMPUTATION_IDS[22] }, + { ...combatDC, submittedBy: 'author', _id: COMPUTATION_IDS[23] }, + { ...dlmeFS, submittedBy: 'author', _id: COMPUTATION_IDS[24] }, + { ...dlmeVBM, submittedBy: 'author', _id: COMPUTATION_IDS[25] }, + { ...transfer, submittedBy: 'author', _id: COMPUTATION_IDS[26] }, + { ...stress, submittedBy: 'author', _id: COMPUTATION_IDS[27] }, ]; const currentComps = await db.collection('computations').find().toArray(); const operations = comps2Insert.reduce((ops, comp) => { diff --git a/packages/coinstac-desktop-app/app/main/services/files.js b/packages/coinstac-desktop-app/app/main/services/files.js index 0398a0737..274b9e493 100644 --- a/packages/coinstac-desktop-app/app/main/services/files.js +++ b/packages/coinstac-desktop-app/app/main/services/files.js @@ -6,21 +6,23 @@ const path = require('path'); // Mock file dialogue in testing environment // Watch the following issue for progress on dialog support // https://github.com/electron/spectron/issues/94 +let mockFileDialogCalled = 0; + function mockFileDialog() { - let count; - switch (process.env.TEST_INSTANCE) { - case 'test-1': - count = 1; - break; - case 'test-2': - count = 2; - break; - default: - count = 1; + const { TEST_INSTANCE } = process.env; + let testFilePath; + + if (TEST_INSTANCE === 'test-msr-csv') { + testFilePath = mockFileDialogCalled === 0 + ? process.env.DATA_FILE_PATH : process.env.COVARIATE_FILE_PATH; + mockFileDialogCalled += 1; + } else if (TEST_INSTANCE === 'test-2') { + testFilePath = path.join(__dirname, '../../../../../algorithm-development/test-data/freesurfer-test-data/site2/site2_Covariate.csv'); + } else { + testFilePath = path.join(__dirname, '../../../../../algorithm-development/test-data/freesurfer-test-data/site1/site1_Covariate.csv'); } - const testDataFilePath = path.join(__dirname, `../../../../../algorithm-development/test-data/freesurfer-test-data/site${count}/site${count}_Covariate.csv`); - return Promise.resolve({ filePaths: [testDataFilePath] }); + return Promise.resolve({ filePaths: [testFilePath] }); } module.exports = { diff --git a/packages/coinstac-desktop-app/app/render/components/pipelines/pipeline.jsx b/packages/coinstac-desktop-app/app/render/components/pipelines/pipeline.jsx index 796c772b1..9c05932b2 100644 --- a/packages/coinstac-desktop-app/app/render/components/pipelines/pipeline.jsx +++ b/packages/coinstac-desktop-app/app/render/components/pipelines/pipeline.jsx @@ -130,6 +130,20 @@ const NumberFormatCustom = ({ inputRef, onChange, ...other }) => ( /> ); +const getDefaultMapFromComputation = (computation) => { + if (!computation?.input) { + return {}; + } + + return Object.keys(computation.input).reduce((acc, key) => { + const { default: defaultValue } = computation.input[key]; + if (defaultValue !== undefined && defaultValue !== null) { + acc[key] = { value: defaultValue }; + } + return acc; + }, {}); +}; + class Pipeline extends Component { mapHeadlessUsers = memoize( (users, pipeline) => { @@ -329,7 +343,7 @@ class Pipeline extends Component { computations: [ { ...computation }, ], - inputMap: {}, + inputMap: getDefaultMapFromComputation(computation.computation), }, ], }, diff --git a/packages/coinstac-desktop-app/package.json b/packages/coinstac-desktop-app/package.json index c75b035d1..e82d8c1a7 100644 --- a/packages/coinstac-desktop-app/package.json +++ b/packages/coinstac-desktop-app/package.json @@ -146,7 +146,7 @@ "test:e2e-single": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/computation-run.test.js", "test:e2e-multi": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/computation-run-2-members.test.js", "test:e2e": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/*.test.js", - "test:comp": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/computation-msr-fsl.test.js", + "test:comp": "npm run build:webpack && env NODE_ENV=test mocha --timeout=400000 test/e2e/computation-msr-csv.test.js", "watch": "cross-env NODE_ENV=development webpack-dev-server --mode=development", "eslint": "eslint ./ --ext js,jsx,ts,tsx", "eslint-fix": "eslint ./ --ext js,jsx,ts,tsx --fix" diff --git a/packages/coinstac-desktop-app/test/e2e/computation-msr-csv.test.js b/packages/coinstac-desktop-app/test/e2e/computation-msr-csv.test.js new file mode 100644 index 000000000..02e69a888 --- /dev/null +++ b/packages/coinstac-desktop-app/test/e2e/computation-msr-csv.test.js @@ -0,0 +1,85 @@ +const path = require('path'); +const consortium = require('../lib/consortia'); +const pipeline = require('../lib/pipeline'); +const { + setup, + afterHandler, + afterEachHandler, + beforeHandler, + beforeEachHandler, +} = require('../lib/setup'); +const user = require('../lib/user'); +const { USER_1 } = require('../lib/constants'); + +let appWindow; + +const DATA = { + consortium: { + name: 'e2e-consortium-single', + description: 'e2e-description-single', + }, + pipeline: { + name: 'e2e-pipeline-single', + description: 'e2e-pipeline-description-single', + }, + computation: { + name: 'Regression (Multishot) - CSV', + }, +}; + +describe('e2e run msr-csv computation', () => { + before(async () => { + appWindow = await setup(1, { + instanceData: [{ appId: 'msr-csv' }], + env: { + DATA_FILE_PATH: path.join( + __dirname, + '../../../../algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_data.csv', + ), + COVARIATE_FILE_PATH: path.join( + __dirname, + '../../../../algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv', + ), + }, + }); + beforeHandler(); + }); + + after(afterHandler); + + beforeEach(beforeEachHandler); + + afterEach(afterEachHandler); + + it('displays the correct title', async () => { + await appWindow.title().should.eventually.equal('COINSTAC'); + }); + + it('authenticates demo user', async () => { + await user.logIn(USER_1, appWindow); + }); + + it('creates a consortium', async () => { + await consortium.create(DATA.consortium, appWindow); + }); + + it('creates a pipeline', async () => { + await pipeline.createMsrCSVPipeline(DATA, appWindow); + }); + + it('map data to consortium', async () => { + await consortium.mapDataToConsortiumMsrCSV(DATA.consortium.name, appWindow); + }); + + it('runs a computation', async () => { + await consortium.runComputation(DATA, appWindow, 360000); + }); + + it('deletes consortium', async () => { + await consortium.delete(DATA.consortium.name, appWindow); + }); + + it('logs out', async () => { + await user.logOut(appWindow); + }); +}); diff --git a/packages/coinstac-desktop-app/test/lib/consortia.js b/packages/coinstac-desktop-app/test/lib/consortia.js index 65664d07a..cf9e7d1bf 100644 --- a/packages/coinstac-desktop-app/test/lib/consortia.js +++ b/packages/coinstac-desktop-app/test/lib/consortia.js @@ -149,7 +149,31 @@ const mapDataToConsortium = async (consortiumName, app) => { }).should.eventually.not.equal(null); }; -const runComputation = async ({ consortium, pipeline }, app) => { +const mapDataToConsortiumMsrCSV = async (consortiumName, app) => { + await app.click('a:has-text("Map")', { timeout: EXIST_TIMEOUT }); + + await app.click(`a[name="${consortiumName}"]`, { timeout: EXIST_TIMEOUT }); + + await app.locator(':nth-match(:text("Select File(s)"), 1)').click(); + + await app.locator(':nth-match(:text("Select File(s)"), 2)').click(); + + await app.click('button:has-text("Save")', { timeout: EXIST_TIMEOUT }); + + await app.click('a:has-text("Consortia")', { timeout: EXIST_TIMEOUT }); + + // Assert + app.waitForSelector('button:has-text("Start Pipeline")', { + state: 'visible', + timeout: EXIST_TIMEOUT, + }).should.eventually.not.equal(null); +}; + +const runComputation = async ( + { consortium, pipeline }, + app, + computationTimeout = COMPUTATION_TIMEOUT, +) => { try { await app.click('button:has-text("Start Pipeline")', { timeout: EXIST_TIMEOUT }); @@ -172,7 +196,7 @@ const runComputation = async ({ consortium, pipeline }, app) => { }).should.eventually.not.equal(null); // Display results - await app.click('div.run-item-paper:first-child a:has-text("View Results")', { timeout: COMPUTATION_TIMEOUT }); + await app.click('div.run-item-paper:first-child a:has-text("View Results")', { timeout: computationTimeout }); // Assert await Promise.all([ @@ -211,6 +235,7 @@ module.exports = { setPipeline, join: joinConsortium, mapData: mapDataToConsortium, + mapDataToConsortiumMsrCSV, runComputation, delete: deleteConsortium, }; diff --git a/packages/coinstac-desktop-app/test/lib/pipeline.js b/packages/coinstac-desktop-app/test/lib/pipeline.js index 6e82bb0d9..8895583e5 100644 --- a/packages/coinstac-desktop-app/test/lib/pipeline.js +++ b/packages/coinstac-desktop-app/test/lib/pipeline.js @@ -60,6 +60,52 @@ const createPipeline = async ({ }).should.eventually.not.equal(null); }; +const createMsrCSVPipeline = async ({ + consortium, + pipeline, + computation, +}, app) => { + // Go to create pipeline page + await app.click('a:has-text("Pipelines")'); + + await app.click('a[name="create-pipeline-button"]', { timeout: EXIST_TIMEOUT }); + + // Assert + await app.waitForSelector('h4:has-text("Pipeline Creation")', { + state: 'visible', + timeout: EXIST_TIMEOUT, + }).should.eventually.not.equal(null); + + // Create pipeline + await app.fill('#name', pipeline.name); + await app.fill('#description', pipeline.description); + + await app.click('#pipelineconsortia', { timeout: EXIST_TIMEOUT }); + await app.click(`#consortium-menu li:has-text("${consortium.name}")`, { timeout: EXIST_TIMEOUT }); + + await app.click('#computation-dropdown', { timeout: EXIST_TIMEOUT }); + await app.click(`#computation-menu li:has-text("${computation.name}")`, { timeout: EXIST_TIMEOUT }); + + await app.click('.pipeline-step', { timeout: EXIST_TIMEOUT }); + + await app.click('button:has-text("Add Local Data")', { timeout: EXIST_TIMEOUT }); + await app.click('button:has-text("Data Type")', { timeout: EXIST_TIMEOUT }); + await app.click('li:has-text("Data CSV File")', { timeout: EXIST_TIMEOUT }); + + await app.click('button:has-text("Add Local Covariates")', { timeout: EXIST_TIMEOUT }); + await app.click('button:has-text("Data Type")', { timeout: EXIST_TIMEOUT }); + await app.click('li:has-text("Covariate CSV File")', { timeout: EXIST_TIMEOUT }); + + await app.click('button:has-text("Save Pipeline")', { timeout: EXIST_TIMEOUT }); + + // Assert + await app.waitForSelector('div:has-text("Pipeline Saved")', { + state: 'visible', + timeout: EXIST_TIMEOUT, + }).should.eventually.not.equal(null); +}; + module.exports = { create: createPipeline, + createMsrCSVPipeline, }; diff --git a/packages/coinstac-desktop-app/test/lib/setup.js b/packages/coinstac-desktop-app/test/lib/setup.js index 37d50b029..e886b0e01 100644 --- a/packages/coinstac-desktop-app/test/lib/setup.js +++ b/packages/coinstac-desktop-app/test/lib/setup.js @@ -19,7 +19,7 @@ function getNewAppId() { return instances.length + 1; } -async function createInstance(appId) { +async function createInstance(appId, env = {}) { const deviceId = `${devicePrefix}${appId}`; const app = await electron.launch({ args: [ @@ -35,6 +35,7 @@ async function createInstance(appId) { TEST_INSTANCE: `test-${appId}`, NODE_ENV: 'test', ...(process.env.CI ? { APP_DATA_PATH: `/tmp/${deviceId}/` } : {}), + ...env, }), logger: { isEnabled: () => true, @@ -50,11 +51,18 @@ async function createInstance(appId) { return { app, appWindow }; } -async function setup(instanceCount = 1) { - const promises = Array(instanceCount).fill(0).map(() => { - const appId = getNewAppId(); - return createInstance(appId); - }); +async function setup( + instanceCount = 1, + additionalInfo = { instanceData: [], env: {} }, +) { + const { instanceData, env } = additionalInfo; + + const promises = Array(instanceCount) + .fill(0) + .map((_, idx) => { + const appId = instanceData[idx]?.appId || getNewAppId(); + return createInstance(appId, env); + }); instances = await Promise.all(promises); From a0659733aac69177078f589b8dd7ee1e72a875a9 Mon Sep 17 00:00:00 2001 From: kalitopix Date: Thu, 22 Aug 2024 16:17:13 -0400 Subject: [PATCH 4/8] add test for regression-csv computation --- packages/coinstac-api-server/seed/populate.js | 46 +++++----- .../app/main/services/files.js | 2 +- packages/coinstac-desktop-app/package.json | 2 +- .../e2e/computation-regression-csv.test.js | 85 +++++++++++++++++++ 4 files changed, 112 insertions(+), 23 deletions(-) create mode 100644 packages/coinstac-desktop-app/test/e2e/computation-regression-csv.test.js diff --git a/packages/coinstac-api-server/seed/populate.js b/packages/coinstac-api-server/seed/populate.js index b3346ca23..d569b87e2 100644 --- a/packages/coinstac-api-server/seed/populate.js +++ b/packages/coinstac-api-server/seed/populate.js @@ -10,6 +10,7 @@ const dlmeVBM = require('./data/coinstac-dlme-vbm.json'); const dpica = require('./data/coinstac-dpica.json'); const dsneMS = require('./data/coinstac-dsne-ms.json'); const drneVbm = require('./data/coinstac-schema-regression-vbm.json'); +const rCSV = require('./data/coinstac-regression-csv.json'); // const ssrVbm = require('./data/coinstac-schema-regression-ss-vbm'); const msrVbm = require('./data/coinstac-schema-regression-ms-vbm.json'); const msrCSV = require('./data/coinstac-msr-csv.json'); @@ -21,6 +22,7 @@ const msrFsl = require('./data/coinstac-schema-regression-ms-fsl.json'); const gica = require('./data/coinstac-gica-pipeline.json'); const ddfnc = require('./data/coinstac-ddfnc-pipeline.json'); +const dsbm = require('./data/coinstac-dsbm.json'); const dpsvm = require('./data/coinstac-dpsvm.json'); const dinunet = require('./data/coinstac-dinunet.json'); const dinunetGPU = require('./data/coinstac-dinunet-gpu.json'); @@ -43,7 +45,7 @@ const CONSORTIA_IDS = generateUniqueIDs(2); const PIPELINE_IDS = generateUniqueIDs(4); -const COMPUTATION_IDS = generateUniqueIDs(28); +const COMPUTATION_IDS = generateUniqueIDs(29); const USER_IDS = generateUniqueIDs(6); @@ -61,26 +63,28 @@ async function populateComputations() { { ...vbm, submittedBy: 'author', _id: COMPUTATION_IDS[5] }, { ...gica, submittedBy: 'author', _id: COMPUTATION_IDS[6] }, { ...ddfnc, submittedBy: 'author', _id: COMPUTATION_IDS[7] }, - { ...dpsvm, submittedBy: 'author', _id: COMPUTATION_IDS[8] }, - { ...drneVbm, submittedBy: 'author', _id: COMPUTATION_IDS[9] }, - { ...dsneMS, submittedBy: 'author', _id: COMPUTATION_IDS[10] }, - { ...drneFsl, submittedBy: 'author', _id: COMPUTATION_IDS[11] }, - { ...decentralizedError, submittedBy: 'author', _id: COMPUTATION_IDS[12] }, - { ...enigmaSans, submittedBy: 'author', _id: COMPUTATION_IDS[13] }, - { ...localError, submittedBy: 'author', _id: COMPUTATION_IDS[14] }, - { ...fmri, submittedBy: 'author', _id: COMPUTATION_IDS[15] }, - { ...ssrFsl, submittedBy: 'author', _id: COMPUTATION_IDS[16] }, - { ...dmancova, submittedBy: 'author', _id: COMPUTATION_IDS[17] }, - { ...dinunet, submittedBy: 'author', _id: COMPUTATION_IDS[18] }, - { ...dinunetGPU, submittedBy: 'author', _id: COMPUTATION_IDS[19] }, - { ...brainageFNC, submittedBy: 'author', _id: COMPUTATION_IDS[20] }, - { ...pLink, submittedBy: 'author', _id: COMPUTATION_IDS[21] }, - { ...dpica, submittedBy: 'author', _id: COMPUTATION_IDS[22] }, - { ...combatDC, submittedBy: 'author', _id: COMPUTATION_IDS[23] }, - { ...dlmeFS, submittedBy: 'author', _id: COMPUTATION_IDS[24] }, - { ...dlmeVBM, submittedBy: 'author', _id: COMPUTATION_IDS[25] }, - { ...transfer, submittedBy: 'author', _id: COMPUTATION_IDS[26] }, - { ...stress, submittedBy: 'author', _id: COMPUTATION_IDS[27] }, + { ...dsbm, submittedBy: 'author', _id: COMPUTATION_IDS[8] }, + { ...dpsvm, submittedBy: 'author', _id: COMPUTATION_IDS[9] }, + { ...drneVbm, submittedBy: 'author', _id: COMPUTATION_IDS[10] }, + { ...rCSV, submittedBy: 'author', _id: COMPUTATION_IDS[11] }, + { ...dsneMS, submittedBy: 'author', _id: COMPUTATION_IDS[12] }, + { ...drneFsl, submittedBy: 'author', _id: COMPUTATION_IDS[13] }, + { ...decentralizedError, submittedBy: 'author', _id: COMPUTATION_IDS[14] }, + { ...enigmaSans, submittedBy: 'author', _id: COMPUTATION_IDS[15] }, + { ...localError, submittedBy: 'author', _id: COMPUTATION_IDS[16] }, + { ...fmri, submittedBy: 'author', _id: COMPUTATION_IDS[17] }, + { ...ssrFsl, submittedBy: 'author', _id: COMPUTATION_IDS[18] }, + { ...dmancova, submittedBy: 'author', _id: COMPUTATION_IDS[19] }, + { ...dinunet, submittedBy: 'author', _id: COMPUTATION_IDS[20] }, + { ...dinunetGPU, submittedBy: 'author', _id: COMPUTATION_IDS[21] }, + { ...brainageFNC, submittedBy: 'author', _id: COMPUTATION_IDS[22] }, + { ...pLink, submittedBy: 'author', _id: COMPUTATION_IDS[23] }, + { ...dpica, submittedBy: 'author', _id: COMPUTATION_IDS[24] }, + { ...combatDC, submittedBy: 'author', _id: COMPUTATION_IDS[25] }, + { ...dlmeFS, submittedBy: 'author', _id: COMPUTATION_IDS[26] }, + { ...dlmeVBM, submittedBy: 'author', _id: COMPUTATION_IDS[27] }, + { ...transfer, submittedBy: 'author', _id: COMPUTATION_IDS[28] }, + { ...stress, submittedBy: 'author', _id: COMPUTATION_IDS[29] }, ]; const currentComps = await db.collection('computations').find().toArray(); const operations = comps2Insert.reduce((ops, comp) => { diff --git a/packages/coinstac-desktop-app/app/main/services/files.js b/packages/coinstac-desktop-app/app/main/services/files.js index 274b9e493..8fbc468b2 100644 --- a/packages/coinstac-desktop-app/app/main/services/files.js +++ b/packages/coinstac-desktop-app/app/main/services/files.js @@ -12,7 +12,7 @@ function mockFileDialog() { const { TEST_INSTANCE } = process.env; let testFilePath; - if (TEST_INSTANCE === 'test-msr-csv') { + if (['test-msr-csv', 'test-regression-csv'].includes(TEST_INSTANCE)) { testFilePath = mockFileDialogCalled === 0 ? process.env.DATA_FILE_PATH : process.env.COVARIATE_FILE_PATH; mockFileDialogCalled += 1; diff --git a/packages/coinstac-desktop-app/package.json b/packages/coinstac-desktop-app/package.json index e82d8c1a7..c1332e353 100644 --- a/packages/coinstac-desktop-app/package.json +++ b/packages/coinstac-desktop-app/package.json @@ -146,7 +146,7 @@ "test:e2e-single": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/computation-run.test.js", "test:e2e-multi": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/computation-run-2-members.test.js", "test:e2e": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/*.test.js", - "test:comp": "npm run build:webpack && env NODE_ENV=test mocha --timeout=400000 test/e2e/computation-msr-csv.test.js", + "test:comp": "npm run build:webpack && env NODE_ENV=test mocha --timeout=400000 test/e2e/computation-regression-csv.test.js", "watch": "cross-env NODE_ENV=development webpack-dev-server --mode=development", "eslint": "eslint ./ --ext js,jsx,ts,tsx", "eslint-fix": "eslint ./ --ext js,jsx,ts,tsx --fix" diff --git a/packages/coinstac-desktop-app/test/e2e/computation-regression-csv.test.js b/packages/coinstac-desktop-app/test/e2e/computation-regression-csv.test.js new file mode 100644 index 000000000..2f7c9f367 --- /dev/null +++ b/packages/coinstac-desktop-app/test/e2e/computation-regression-csv.test.js @@ -0,0 +1,85 @@ +const path = require('path'); +const consortium = require('../lib/consortia'); +const pipeline = require('../lib/pipeline'); +const { + setup, + afterHandler, + afterEachHandler, + beforeHandler, + beforeEachHandler, +} = require('../lib/setup'); +const user = require('../lib/user'); +const { USER_1 } = require('../lib/constants'); + +let appWindow; + +const DATA = { + consortium: { + name: 'e2e-consortium-single', + description: 'e2e-description-single', + }, + pipeline: { + name: 'e2e-pipeline-single', + description: 'e2e-pipeline-description-single', + }, + computation: { + name: 'Regression - CSV', + }, +}; + +describe('e2e run regression-csv computation', () => { + before(async () => { + appWindow = await setup(1, { + instanceData: [{ appId: 'regression-csv' }], + env: { + DATA_FILE_PATH: path.join( + __dirname, + '../../../../algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_data.csv', + ), + COVARIATE_FILE_PATH: path.join( + __dirname, + '../../../../algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv', + ), + }, + }); + beforeHandler(); + }); + + after(afterHandler); + + beforeEach(beforeEachHandler); + + afterEach(afterEachHandler); + + it('displays the correct title', async () => { + await appWindow.title().should.eventually.equal('COINSTAC'); + }); + + it('authenticates demo user', async () => { + await user.logIn(USER_1, appWindow); + }); + + it('creates a consortium', async () => { + await consortium.create(DATA.consortium, appWindow); + }); + + it('creates a pipeline', async () => { + await pipeline.createMsrCSVPipeline(DATA, appWindow); + }); + + it('map data to consortium', async () => { + await consortium.mapDataToConsortiumMsrCSV(DATA.consortium.name, appWindow); + }); + + it('runs a computation', async () => { + await consortium.runComputation(DATA, appWindow, 360000); + }); + + it('deletes consortium', async () => { + await consortium.delete(DATA.consortium.name, appWindow); + }); + + it('logs out', async () => { + await user.logOut(appWindow); + }); +}); From b793322f08578384438702e740524a29e9bbf15b Mon Sep 17 00:00:00 2001 From: kalitopix Date: Mon, 26 Aug 2024 15:00:39 -0400 Subject: [PATCH 5/8] add test for regression-vbm computation --- .../local1/simulatorRun/site2_Covariate.csv | 25 ----- .../input/local1/simulatorRun/site2_data.csv | 25 ----- .../local2/simulatorRun/site1_Covariate.csv | 26 ----- .../input/local2/simulatorRun/site1_Data.csv | 26 ----- .../local3/simulatorRun/site2_Covariate.csv | 25 ----- .../input/local3/simulatorRun/site2_Data.csv | 25 ----- .../local4/simulatorRun/site1_Covariate.csv | 26 ----- .../input/local4/simulatorRun/site1_Data.csv | 26 ----- .../local5/simulatorRun/site2_Covariate.csv | 25 ----- .../input/local5/simulatorRun/site2_Data.csv | 25 ----- packages/coinstac-api-server/seed/populate.js | 94 +++++++++--------- .../tests/resolvers.test.js | 6 +- .../app/main/services/files.js | 15 ++- .../listeners/remote-runs-listener.jsx | 2 +- packages/coinstac-desktop-app/package.json | 2 +- .../test/e2e/computation-msr-fsl.test.js | 40 ++++---- .../e2e/computation-regression-vbm.test.js | 74 ++++++++++++++ .../test/lib/consortia.js | 37 ++++++- .../coinstac-desktop-app/test/lib/pipeline.js | 96 ++++++++----------- 19 files changed, 240 insertions(+), 380 deletions(-) delete mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local1/simulatorRun/site2_Covariate.csv delete mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local1/simulatorRun/site2_data.csv delete mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local2/simulatorRun/site1_Covariate.csv delete mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local2/simulatorRun/site1_Data.csv delete mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local3/simulatorRun/site2_Covariate.csv delete mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local3/simulatorRun/site2_Data.csv delete mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Covariate.csv delete mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Data.csv delete mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Covariate.csv delete mode 100644 algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Data.csv create mode 100644 packages/coinstac-desktop-app/test/e2e/computation-regression-vbm.test.js diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local1/simulatorRun/site2_Covariate.csv b/algorithm-development/test-data/msr-csv-test-data/input/local1/simulatorRun/site2_Covariate.csv deleted file mode 100644 index 1655f0cea..000000000 --- a/algorithm-development/test-data/msr-csv-test-data/input/local1/simulatorRun/site2_Covariate.csv +++ /dev/null @@ -1,25 +0,0 @@ -isControl,age -TRUE,53.0 -FALSE,21.0 -TRUE,38.0 -TRUE,49.0 -FALSE,41.0 -FALSE,52.0 -FALSE,39.0 -TRUE,23.0 -TRUE,66.0 -FALSE,47.0 -TRUE,26.0 -FALSE,74.0 -FALSE,43.0 -TRUE,59.0 -TRUE,37.0 -TRUE,78.0 -TRUE,68.0 -FALSE,52.0 -TRUE,38.0 -TRUE,30.0 -TRUE,63.0 -FALSE,70.0 -TRUE,24.0 -FALSE,23.0 \ No newline at end of file diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local1/simulatorRun/site2_data.csv b/algorithm-development/test-data/msr-csv-test-data/input/local1/simulatorRun/site2_data.csv deleted file mode 100644 index d00868179..000000000 --- a/algorithm-development/test-data/msr-csv-test-data/input/local1/simulatorRun/site2_data.csv +++ /dev/null @@ -1,25 +0,0 @@ -Left-Lateral-Ventricle,Right-Lateral-Ventricle,Left-Thalamus-Proper,Right-Thalamus-Proper,Left-Caudate,Right-Caudate,Left-Putamen,Right-Putamen,Left-Pallidum,Right-Pallidum,Left-Hippocampus,Right-Hippocampus,Left-Amygdala,Right-Amygdala,Left-Accumbens-area,Right-Accumbens-area,EstimatedTotalIntraCranialVol -5199.9,4185.4,8648.9,8293,3816.4,3711,5740.2,5987.5,2113.9,2010.8,4279.8,4621.9,1877,1783.2,521.7,564.6,1.6E+06 -2776.1,2668.2,7803,7590.2,3431.4,3451.4,4359.6,4394.2,2167.8,1976.5,3778.1,3982.9,1419,1633.6,419.8,494.3,1.39E+06 -3739.4,3462,7787,7292.4,3434.3,3518.5,4761,4797.6,2010.6,2024.3,3610.9,3715.3,1564.2,1627.4,441.9,514.2,1.51E+06 -3194.7,5810.7,7724.5,7326.1,2989.3,3346.2,5121.3,5271.9,2006.2,1992.4,4403.4,3952.2,1412.7,1548,539.2,551,1.46E+06 -4722.7,3899.2,7872.7,7709.7,3306.4,3396.4,5186.1,4951.5,1984.1,1931,4135,4407.8,1437.1,1487.1,505.2,604.1,1.42E+06 -5732.4,5082.1,7974.4,7619.9,3582.7,3650,4706.6,4727.3,1957.4,1772.5,3788.6,4085.2,1568.8,1786.8,411.4,470.9,1.51E+06 -8065.8,9555.6,8143.7,7615.6,3793.6,3804.7,4564,4735.1,1979.5,1934.2,4373.5,4202.9,1399.4,1548.1,461.5,501.8,1.53E+06 -5061.6,6288.9,8236.5,7500.1,4116.9,4077.6,5507.5,5606.8,2160,2190.3,4647.3,4568.7,1743,1791.4,621.1,653.9,1.74E+06 -6048.9,9385.6,7847.2,7691.4,3865.6,3982.9,5107,5227.5,1999.1,2118,3954.2,3926.5,1584.2,1791.2,397.5,560.2,1.56E+06 -5563.8,4396.3,7836.5,7985.5,3522,3547.6,4660.8,4575,1993.3,1943.9,4148.2,4282.7,1423.5,1521.4,507.1,574.6,1.41E+06 -3461.1,3351.4,9147.6,8797,3935.4,4005.2,5763.4,5600.6,2390.8,2157.4,5103.8,4868,1712.3,1715.9,517.7,577.6,1.7E+06 -3479.4,2624.5,7954.3,7769.2,3743.5,3886.6,4907.3,4866.5,2084.1,2104.3,4357.8,4087.5,1348.8,1711.1,498.3,603.8,1.47E+06 -4947,3338.2,9312.6,8784.2,4420.2,4030.1,6274,6113.1,2438.1,2264,4513.6,4656.5,1685.2,1839.6,505.9,602.9,1.69E+06 -5054.2,5207.6,8330.5,7170.9,3634.8,3740.6,4507.3,5089,1839.3,1812.6,3923.5,4209.4,1480.1,1520.6,411.2,484.6,1.48E+06 -6751,3932.8,9169.7,8375.8,3986,3605.2,5478.4,5423.5,2200.2,1917.5,4538.2,4625.5,1657.6,1773.2,479.4,620.2,1.82E+06 -5086.1,4187.6,7557.8,7690.8,3388.1,3542.5,4946.9,4815.6,1836.7,1829.6,3611.6,3825.5,1541.9,1540.8,484.6,516,1.55E+06 -2615.5,2851.5,7527,7482.1,3188.5,3278.4,4666.6,4801.1,1820.7,1820,3837.3,4070.8,1426.5,1625.4,539.2,547.1,1.42E+06 -3521.7,3254.8,7660.5,7099.3,3652.2,3645,4313.7,4480.9,1945.6,1681.4,3629,3673.3,1301.4,1474.1,456.3,542.2,1.41E+06 -11281.8,9392.4,6707.5,6791.2,3201.3,3406.9,4837.2,4918.7,1925.2,1821.3,3839.3,3838.4,1523.7,1597.7,418.4,564.6,1.52E+06 -6684.1,5773.6,7959.9,7571.6,3516.5,3426.6,4941.4,5002.4,2080.6,1862.8,3639.3,3786.8,1342.3,1526.3,458.8,521.4,1.47E+06 -13503,8220.2,9466.1,8774.9,4086,4065.6,5247.3,5183.5,2410.2,2096.7,3892.7,4232.8,1531.5,1821.7,557.6,521.9,1.77E+06 -6489.7,4633.6,9212.7,9207,4400.1,4842.5,5987.4,6098.6,2558.2,2375.6,4593,4581.2,1694,1887.8,614.1,597.7,1.86E+06 -9597.1,9221.8,7390.8,7961.6,3412,3474,5548.1,5263.3,2231.8,1995.2,3788.9,4033,1441,1600.1,473.9,555.2,1.52E+06 -6629.1,5280.6,8009.1,7847.5,4135,4100.3,4954.6,4946.3,2067.9,2127.7,3646.4,3894.8,1485.9,1599.9,455.2,555.4,1.48E+06 \ No newline at end of file diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local2/simulatorRun/site1_Covariate.csv b/algorithm-development/test-data/msr-csv-test-data/input/local2/simulatorRun/site1_Covariate.csv deleted file mode 100644 index 069c95453..000000000 --- a/algorithm-development/test-data/msr-csv-test-data/input/local2/simulatorRun/site1_Covariate.csv +++ /dev/null @@ -1,26 +0,0 @@ -isControl,age -FALSE,22.0 -TRUE,47.0 -FALSE,56.0 -TRUE,73.0 -FALSE,58.0 -FALSE,67.0 -FALSE,40.0 -TRUE,25.0 -TRUE,51.0 -FALSE,37.0 -FALSE,35.0 -FALSE,29.0 -FALSE,33.0 -FALSE,21.0 -FALSE,40.0 -TRUE,25.0 -FALSE,23.0 -TRUE,60.0 -FALSE,31.0 -FALSE,60.0 -FALSE,71.0 -TRUE,57.0 -TRUE,38.0 -TRUE,46.0 -TRUE,25.0 \ No newline at end of file diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local2/simulatorRun/site1_Data.csv b/algorithm-development/test-data/msr-csv-test-data/input/local2/simulatorRun/site1_Data.csv deleted file mode 100644 index ffabe0ea4..000000000 --- a/algorithm-development/test-data/msr-csv-test-data/input/local2/simulatorRun/site1_Data.csv +++ /dev/null @@ -1,26 +0,0 @@ -Left-Lateral-Ventricle,Right-Lateral-Ventricle,Left-Thalamus-Proper,Right-Thalamus-Proper,Left-Caudate,Right-Caudate,Left-Putamen,Right-Putamen,Left-Pallidum,Right-Pallidum,Left-Hippocampus,Right-Hippocampus,Left-Amygdala,Right-Amygdala,Left-Accumbens-area,Right-Accumbens-area,EstimatedTotalIntraCranialVol -9224.4,9044.2,9011.6,7975.4,4362.6,4465.3,5690.4,5996.4,2236.6,2172.8,4354.1,4693.2,1380,1753.3,542.6,649.5,1.75E+06 -17810.8,11570.8,7589.1,7594.3,2881.6,3474.2,4796.9,4623,1903.9,1737.5,3582.8,3744,1248.2,1432,383.8,423.9,1.5E+06 -3411.1,4588.4,8639.4,8258,3381.4,3565.9,4885.7,4952,1954.6,1827.5,3614.7,3914.6,1340.7,1568,447.7,628.8,1.57E+06 -5279.1,4190.1,8834,8595.1,3631.2,3564.3,5692.5,5615.4,2264.2,2285.1,4995.4,4906,1668.2,1987.3,566.4,575.5,1.73E+06 -5096,3092,7510.3,7427.6,3470,3600.1,5005.6,4842.5,1881.3,1778.2,4260.4,4328.7,1521.1,1670.5,629.5,578,1.55E+06 -7766.6,5587.5,8654.1,8222.8,3577.3,3742.6,5169.7,5129.4,2186.2,2102.4,3855.1,3948.8,1459.2,1490.3,548.2,501.6,1.55E+06 -4758.8,4442.6,7682.8,7222.2,3506.8,3463.9,4659.9,4692.7,1747.8,1750.9,3959.3,4168.8,1665.7,1776.1,450.5,531.5,1.32E+06 -11744.3,9673.9,7934.2,7703.4,3228.7,3235.9,4235.7,4046.3,1932.8,1672.7,3838.6,3638.4,1507,1580.4,380.1,477.3,1.59E+06 -4328.2,3869.1,8564.9,9097.9,3939.9,4042.8,6516.9,5707.2,2198.6,2411.5,4499.9,4720.1,1756.6,1932.3,569.2,619.3,1.69E+06 -5155.8,7655.5,8391,7931,4206.8,4224.4,5018.9,5076.5,2228,2180,4002.8,3899.2,1385.9,1562.8,521.7,579.8,1.59E+06 -4791.8,5264.2,9133.9,8650.3,3734.6,3975.8,5244.7,5249,2207.8,2235.8,3979.8,3745,1488.4,1591.9,625.4,662.4,1.68E+06 -4244.4,4842.8,7922.7,7394.4,3200.1,3461.3,4817.6,5066.7,2027.4,2155.5,4404.6,4556.1,1489.7,1660.1,488.4,543.9,1.52E+06 -3174.1,2142.5,8396.9,8075.4,3452.8,3476.4,4357.3,4373.4,1973.1,1843.9,3907.6,4184.6,1556,1659.4,400.3,513.2,1.48E+06 -4804.3,3835.1,9499.8,8667.7,3631.3,3551.2,5672.1,6073.2,2346.3,2136.3,4363.6,4439.8,1661.7,1805.1,633.9,646.9,1.69E+06 -2533.6,2513.3,8393.7,8687.3,3714.3,3923.4,4845.5,4297.4,2185.8,2131.3,3584.3,3640.5,1386,1469.5,582.3,626.9,1.52E+06 -4807.6,4416,7995.8,7777.5,3359.9,3460.4,4692.8,4842.4,2064.9,1927,3966.2,4295.6,1526.4,1754.8,452.7,520.1,1.5E+06 -11267.3,9719.5,7505.1,7882.9,4188.7,4334.7,5485.3,5265,2119.8,1807.4,3762.7,4308.9,1519.3,1612.3,512.3,583.7,1.53E+06 -10422.7,10527.8,7861.7,7873.8,3837,3728,4750.4,4870.9,1896.3,1717.2,4006.9,4050.7,1421.7,1600.6,426.3,510.8,1.54E+06 -5497.4,4666.9,7760.2,8211.8,3243.5,3254.4,4813.9,4522.4,1960.7,2082.6,3748.4,4023.4,1380.4,1546.4,465.7,588.5,1.5E+06 -4661.8,5003.6,9177.5,8404.9,3540.7,3734.6,5185.1,5177.9,2391.9,2100.9,4871.8,4632.2,1761.3,1746,490.4,559.5,1.73E+06 -4966.4,3606.4,8783.2,8327.2,3598.8,3505.2,4932.8,4976.8,1930.7,1904.7,4379.6,4564.1,1631,1859.7,475.7,514.1,1.68E+06 -7222,7501.4,7026,6703.1,3260.8,3292.4,4286.5,4494.1,1781.9,1699.2,3847,3776.8,1309.4,1363.7,315.2,418.4,1.54E+06 -8799.5,13830.3,8252.7,7896.4,4182.4,4261.8,4413.5,4637.8,1936.3,1864.2,4253.1,4070.8,1542.6,1616,535.1,512.5,1.61E+06 -10979.6,6918.4,8700.3,7999.2,3623.9,3718.5,5265.4,5352.5,2102.5,1901.7,3859.5,3923.1,1389.4,1628.3,436.2,502.8,1.58E+06 -3935.3,3841.4,7928.9,8201.1,3207.4,3226.4,5106.8,4970.9,2132.5,1806,4806.5,4759.6,1601.4,1644.2,514.6,555.8,1.56E+06 \ No newline at end of file diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local3/simulatorRun/site2_Covariate.csv b/algorithm-development/test-data/msr-csv-test-data/input/local3/simulatorRun/site2_Covariate.csv deleted file mode 100644 index 1655f0cea..000000000 --- a/algorithm-development/test-data/msr-csv-test-data/input/local3/simulatorRun/site2_Covariate.csv +++ /dev/null @@ -1,25 +0,0 @@ -isControl,age -TRUE,53.0 -FALSE,21.0 -TRUE,38.0 -TRUE,49.0 -FALSE,41.0 -FALSE,52.0 -FALSE,39.0 -TRUE,23.0 -TRUE,66.0 -FALSE,47.0 -TRUE,26.0 -FALSE,74.0 -FALSE,43.0 -TRUE,59.0 -TRUE,37.0 -TRUE,78.0 -TRUE,68.0 -FALSE,52.0 -TRUE,38.0 -TRUE,30.0 -TRUE,63.0 -FALSE,70.0 -TRUE,24.0 -FALSE,23.0 \ No newline at end of file diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local3/simulatorRun/site2_Data.csv b/algorithm-development/test-data/msr-csv-test-data/input/local3/simulatorRun/site2_Data.csv deleted file mode 100644 index d00868179..000000000 --- a/algorithm-development/test-data/msr-csv-test-data/input/local3/simulatorRun/site2_Data.csv +++ /dev/null @@ -1,25 +0,0 @@ -Left-Lateral-Ventricle,Right-Lateral-Ventricle,Left-Thalamus-Proper,Right-Thalamus-Proper,Left-Caudate,Right-Caudate,Left-Putamen,Right-Putamen,Left-Pallidum,Right-Pallidum,Left-Hippocampus,Right-Hippocampus,Left-Amygdala,Right-Amygdala,Left-Accumbens-area,Right-Accumbens-area,EstimatedTotalIntraCranialVol -5199.9,4185.4,8648.9,8293,3816.4,3711,5740.2,5987.5,2113.9,2010.8,4279.8,4621.9,1877,1783.2,521.7,564.6,1.6E+06 -2776.1,2668.2,7803,7590.2,3431.4,3451.4,4359.6,4394.2,2167.8,1976.5,3778.1,3982.9,1419,1633.6,419.8,494.3,1.39E+06 -3739.4,3462,7787,7292.4,3434.3,3518.5,4761,4797.6,2010.6,2024.3,3610.9,3715.3,1564.2,1627.4,441.9,514.2,1.51E+06 -3194.7,5810.7,7724.5,7326.1,2989.3,3346.2,5121.3,5271.9,2006.2,1992.4,4403.4,3952.2,1412.7,1548,539.2,551,1.46E+06 -4722.7,3899.2,7872.7,7709.7,3306.4,3396.4,5186.1,4951.5,1984.1,1931,4135,4407.8,1437.1,1487.1,505.2,604.1,1.42E+06 -5732.4,5082.1,7974.4,7619.9,3582.7,3650,4706.6,4727.3,1957.4,1772.5,3788.6,4085.2,1568.8,1786.8,411.4,470.9,1.51E+06 -8065.8,9555.6,8143.7,7615.6,3793.6,3804.7,4564,4735.1,1979.5,1934.2,4373.5,4202.9,1399.4,1548.1,461.5,501.8,1.53E+06 -5061.6,6288.9,8236.5,7500.1,4116.9,4077.6,5507.5,5606.8,2160,2190.3,4647.3,4568.7,1743,1791.4,621.1,653.9,1.74E+06 -6048.9,9385.6,7847.2,7691.4,3865.6,3982.9,5107,5227.5,1999.1,2118,3954.2,3926.5,1584.2,1791.2,397.5,560.2,1.56E+06 -5563.8,4396.3,7836.5,7985.5,3522,3547.6,4660.8,4575,1993.3,1943.9,4148.2,4282.7,1423.5,1521.4,507.1,574.6,1.41E+06 -3461.1,3351.4,9147.6,8797,3935.4,4005.2,5763.4,5600.6,2390.8,2157.4,5103.8,4868,1712.3,1715.9,517.7,577.6,1.7E+06 -3479.4,2624.5,7954.3,7769.2,3743.5,3886.6,4907.3,4866.5,2084.1,2104.3,4357.8,4087.5,1348.8,1711.1,498.3,603.8,1.47E+06 -4947,3338.2,9312.6,8784.2,4420.2,4030.1,6274,6113.1,2438.1,2264,4513.6,4656.5,1685.2,1839.6,505.9,602.9,1.69E+06 -5054.2,5207.6,8330.5,7170.9,3634.8,3740.6,4507.3,5089,1839.3,1812.6,3923.5,4209.4,1480.1,1520.6,411.2,484.6,1.48E+06 -6751,3932.8,9169.7,8375.8,3986,3605.2,5478.4,5423.5,2200.2,1917.5,4538.2,4625.5,1657.6,1773.2,479.4,620.2,1.82E+06 -5086.1,4187.6,7557.8,7690.8,3388.1,3542.5,4946.9,4815.6,1836.7,1829.6,3611.6,3825.5,1541.9,1540.8,484.6,516,1.55E+06 -2615.5,2851.5,7527,7482.1,3188.5,3278.4,4666.6,4801.1,1820.7,1820,3837.3,4070.8,1426.5,1625.4,539.2,547.1,1.42E+06 -3521.7,3254.8,7660.5,7099.3,3652.2,3645,4313.7,4480.9,1945.6,1681.4,3629,3673.3,1301.4,1474.1,456.3,542.2,1.41E+06 -11281.8,9392.4,6707.5,6791.2,3201.3,3406.9,4837.2,4918.7,1925.2,1821.3,3839.3,3838.4,1523.7,1597.7,418.4,564.6,1.52E+06 -6684.1,5773.6,7959.9,7571.6,3516.5,3426.6,4941.4,5002.4,2080.6,1862.8,3639.3,3786.8,1342.3,1526.3,458.8,521.4,1.47E+06 -13503,8220.2,9466.1,8774.9,4086,4065.6,5247.3,5183.5,2410.2,2096.7,3892.7,4232.8,1531.5,1821.7,557.6,521.9,1.77E+06 -6489.7,4633.6,9212.7,9207,4400.1,4842.5,5987.4,6098.6,2558.2,2375.6,4593,4581.2,1694,1887.8,614.1,597.7,1.86E+06 -9597.1,9221.8,7390.8,7961.6,3412,3474,5548.1,5263.3,2231.8,1995.2,3788.9,4033,1441,1600.1,473.9,555.2,1.52E+06 -6629.1,5280.6,8009.1,7847.5,4135,4100.3,4954.6,4946.3,2067.9,2127.7,3646.4,3894.8,1485.9,1599.9,455.2,555.4,1.48E+06 \ No newline at end of file diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Covariate.csv b/algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Covariate.csv deleted file mode 100644 index 069c95453..000000000 --- a/algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Covariate.csv +++ /dev/null @@ -1,26 +0,0 @@ -isControl,age -FALSE,22.0 -TRUE,47.0 -FALSE,56.0 -TRUE,73.0 -FALSE,58.0 -FALSE,67.0 -FALSE,40.0 -TRUE,25.0 -TRUE,51.0 -FALSE,37.0 -FALSE,35.0 -FALSE,29.0 -FALSE,33.0 -FALSE,21.0 -FALSE,40.0 -TRUE,25.0 -FALSE,23.0 -TRUE,60.0 -FALSE,31.0 -FALSE,60.0 -FALSE,71.0 -TRUE,57.0 -TRUE,38.0 -TRUE,46.0 -TRUE,25.0 \ No newline at end of file diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Data.csv b/algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Data.csv deleted file mode 100644 index ffabe0ea4..000000000 --- a/algorithm-development/test-data/msr-csv-test-data/input/local4/simulatorRun/site1_Data.csv +++ /dev/null @@ -1,26 +0,0 @@ -Left-Lateral-Ventricle,Right-Lateral-Ventricle,Left-Thalamus-Proper,Right-Thalamus-Proper,Left-Caudate,Right-Caudate,Left-Putamen,Right-Putamen,Left-Pallidum,Right-Pallidum,Left-Hippocampus,Right-Hippocampus,Left-Amygdala,Right-Amygdala,Left-Accumbens-area,Right-Accumbens-area,EstimatedTotalIntraCranialVol -9224.4,9044.2,9011.6,7975.4,4362.6,4465.3,5690.4,5996.4,2236.6,2172.8,4354.1,4693.2,1380,1753.3,542.6,649.5,1.75E+06 -17810.8,11570.8,7589.1,7594.3,2881.6,3474.2,4796.9,4623,1903.9,1737.5,3582.8,3744,1248.2,1432,383.8,423.9,1.5E+06 -3411.1,4588.4,8639.4,8258,3381.4,3565.9,4885.7,4952,1954.6,1827.5,3614.7,3914.6,1340.7,1568,447.7,628.8,1.57E+06 -5279.1,4190.1,8834,8595.1,3631.2,3564.3,5692.5,5615.4,2264.2,2285.1,4995.4,4906,1668.2,1987.3,566.4,575.5,1.73E+06 -5096,3092,7510.3,7427.6,3470,3600.1,5005.6,4842.5,1881.3,1778.2,4260.4,4328.7,1521.1,1670.5,629.5,578,1.55E+06 -7766.6,5587.5,8654.1,8222.8,3577.3,3742.6,5169.7,5129.4,2186.2,2102.4,3855.1,3948.8,1459.2,1490.3,548.2,501.6,1.55E+06 -4758.8,4442.6,7682.8,7222.2,3506.8,3463.9,4659.9,4692.7,1747.8,1750.9,3959.3,4168.8,1665.7,1776.1,450.5,531.5,1.32E+06 -11744.3,9673.9,7934.2,7703.4,3228.7,3235.9,4235.7,4046.3,1932.8,1672.7,3838.6,3638.4,1507,1580.4,380.1,477.3,1.59E+06 -4328.2,3869.1,8564.9,9097.9,3939.9,4042.8,6516.9,5707.2,2198.6,2411.5,4499.9,4720.1,1756.6,1932.3,569.2,619.3,1.69E+06 -5155.8,7655.5,8391,7931,4206.8,4224.4,5018.9,5076.5,2228,2180,4002.8,3899.2,1385.9,1562.8,521.7,579.8,1.59E+06 -4791.8,5264.2,9133.9,8650.3,3734.6,3975.8,5244.7,5249,2207.8,2235.8,3979.8,3745,1488.4,1591.9,625.4,662.4,1.68E+06 -4244.4,4842.8,7922.7,7394.4,3200.1,3461.3,4817.6,5066.7,2027.4,2155.5,4404.6,4556.1,1489.7,1660.1,488.4,543.9,1.52E+06 -3174.1,2142.5,8396.9,8075.4,3452.8,3476.4,4357.3,4373.4,1973.1,1843.9,3907.6,4184.6,1556,1659.4,400.3,513.2,1.48E+06 -4804.3,3835.1,9499.8,8667.7,3631.3,3551.2,5672.1,6073.2,2346.3,2136.3,4363.6,4439.8,1661.7,1805.1,633.9,646.9,1.69E+06 -2533.6,2513.3,8393.7,8687.3,3714.3,3923.4,4845.5,4297.4,2185.8,2131.3,3584.3,3640.5,1386,1469.5,582.3,626.9,1.52E+06 -4807.6,4416,7995.8,7777.5,3359.9,3460.4,4692.8,4842.4,2064.9,1927,3966.2,4295.6,1526.4,1754.8,452.7,520.1,1.5E+06 -11267.3,9719.5,7505.1,7882.9,4188.7,4334.7,5485.3,5265,2119.8,1807.4,3762.7,4308.9,1519.3,1612.3,512.3,583.7,1.53E+06 -10422.7,10527.8,7861.7,7873.8,3837,3728,4750.4,4870.9,1896.3,1717.2,4006.9,4050.7,1421.7,1600.6,426.3,510.8,1.54E+06 -5497.4,4666.9,7760.2,8211.8,3243.5,3254.4,4813.9,4522.4,1960.7,2082.6,3748.4,4023.4,1380.4,1546.4,465.7,588.5,1.5E+06 -4661.8,5003.6,9177.5,8404.9,3540.7,3734.6,5185.1,5177.9,2391.9,2100.9,4871.8,4632.2,1761.3,1746,490.4,559.5,1.73E+06 -4966.4,3606.4,8783.2,8327.2,3598.8,3505.2,4932.8,4976.8,1930.7,1904.7,4379.6,4564.1,1631,1859.7,475.7,514.1,1.68E+06 -7222,7501.4,7026,6703.1,3260.8,3292.4,4286.5,4494.1,1781.9,1699.2,3847,3776.8,1309.4,1363.7,315.2,418.4,1.54E+06 -8799.5,13830.3,8252.7,7896.4,4182.4,4261.8,4413.5,4637.8,1936.3,1864.2,4253.1,4070.8,1542.6,1616,535.1,512.5,1.61E+06 -10979.6,6918.4,8700.3,7999.2,3623.9,3718.5,5265.4,5352.5,2102.5,1901.7,3859.5,3923.1,1389.4,1628.3,436.2,502.8,1.58E+06 -3935.3,3841.4,7928.9,8201.1,3207.4,3226.4,5106.8,4970.9,2132.5,1806,4806.5,4759.6,1601.4,1644.2,514.6,555.8,1.56E+06 \ No newline at end of file diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Covariate.csv b/algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Covariate.csv deleted file mode 100644 index 1655f0cea..000000000 --- a/algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Covariate.csv +++ /dev/null @@ -1,25 +0,0 @@ -isControl,age -TRUE,53.0 -FALSE,21.0 -TRUE,38.0 -TRUE,49.0 -FALSE,41.0 -FALSE,52.0 -FALSE,39.0 -TRUE,23.0 -TRUE,66.0 -FALSE,47.0 -TRUE,26.0 -FALSE,74.0 -FALSE,43.0 -TRUE,59.0 -TRUE,37.0 -TRUE,78.0 -TRUE,68.0 -FALSE,52.0 -TRUE,38.0 -TRUE,30.0 -TRUE,63.0 -FALSE,70.0 -TRUE,24.0 -FALSE,23.0 \ No newline at end of file diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Data.csv b/algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Data.csv deleted file mode 100644 index d00868179..000000000 --- a/algorithm-development/test-data/msr-csv-test-data/input/local5/simulatorRun/site2_Data.csv +++ /dev/null @@ -1,25 +0,0 @@ -Left-Lateral-Ventricle,Right-Lateral-Ventricle,Left-Thalamus-Proper,Right-Thalamus-Proper,Left-Caudate,Right-Caudate,Left-Putamen,Right-Putamen,Left-Pallidum,Right-Pallidum,Left-Hippocampus,Right-Hippocampus,Left-Amygdala,Right-Amygdala,Left-Accumbens-area,Right-Accumbens-area,EstimatedTotalIntraCranialVol -5199.9,4185.4,8648.9,8293,3816.4,3711,5740.2,5987.5,2113.9,2010.8,4279.8,4621.9,1877,1783.2,521.7,564.6,1.6E+06 -2776.1,2668.2,7803,7590.2,3431.4,3451.4,4359.6,4394.2,2167.8,1976.5,3778.1,3982.9,1419,1633.6,419.8,494.3,1.39E+06 -3739.4,3462,7787,7292.4,3434.3,3518.5,4761,4797.6,2010.6,2024.3,3610.9,3715.3,1564.2,1627.4,441.9,514.2,1.51E+06 -3194.7,5810.7,7724.5,7326.1,2989.3,3346.2,5121.3,5271.9,2006.2,1992.4,4403.4,3952.2,1412.7,1548,539.2,551,1.46E+06 -4722.7,3899.2,7872.7,7709.7,3306.4,3396.4,5186.1,4951.5,1984.1,1931,4135,4407.8,1437.1,1487.1,505.2,604.1,1.42E+06 -5732.4,5082.1,7974.4,7619.9,3582.7,3650,4706.6,4727.3,1957.4,1772.5,3788.6,4085.2,1568.8,1786.8,411.4,470.9,1.51E+06 -8065.8,9555.6,8143.7,7615.6,3793.6,3804.7,4564,4735.1,1979.5,1934.2,4373.5,4202.9,1399.4,1548.1,461.5,501.8,1.53E+06 -5061.6,6288.9,8236.5,7500.1,4116.9,4077.6,5507.5,5606.8,2160,2190.3,4647.3,4568.7,1743,1791.4,621.1,653.9,1.74E+06 -6048.9,9385.6,7847.2,7691.4,3865.6,3982.9,5107,5227.5,1999.1,2118,3954.2,3926.5,1584.2,1791.2,397.5,560.2,1.56E+06 -5563.8,4396.3,7836.5,7985.5,3522,3547.6,4660.8,4575,1993.3,1943.9,4148.2,4282.7,1423.5,1521.4,507.1,574.6,1.41E+06 -3461.1,3351.4,9147.6,8797,3935.4,4005.2,5763.4,5600.6,2390.8,2157.4,5103.8,4868,1712.3,1715.9,517.7,577.6,1.7E+06 -3479.4,2624.5,7954.3,7769.2,3743.5,3886.6,4907.3,4866.5,2084.1,2104.3,4357.8,4087.5,1348.8,1711.1,498.3,603.8,1.47E+06 -4947,3338.2,9312.6,8784.2,4420.2,4030.1,6274,6113.1,2438.1,2264,4513.6,4656.5,1685.2,1839.6,505.9,602.9,1.69E+06 -5054.2,5207.6,8330.5,7170.9,3634.8,3740.6,4507.3,5089,1839.3,1812.6,3923.5,4209.4,1480.1,1520.6,411.2,484.6,1.48E+06 -6751,3932.8,9169.7,8375.8,3986,3605.2,5478.4,5423.5,2200.2,1917.5,4538.2,4625.5,1657.6,1773.2,479.4,620.2,1.82E+06 -5086.1,4187.6,7557.8,7690.8,3388.1,3542.5,4946.9,4815.6,1836.7,1829.6,3611.6,3825.5,1541.9,1540.8,484.6,516,1.55E+06 -2615.5,2851.5,7527,7482.1,3188.5,3278.4,4666.6,4801.1,1820.7,1820,3837.3,4070.8,1426.5,1625.4,539.2,547.1,1.42E+06 -3521.7,3254.8,7660.5,7099.3,3652.2,3645,4313.7,4480.9,1945.6,1681.4,3629,3673.3,1301.4,1474.1,456.3,542.2,1.41E+06 -11281.8,9392.4,6707.5,6791.2,3201.3,3406.9,4837.2,4918.7,1925.2,1821.3,3839.3,3838.4,1523.7,1597.7,418.4,564.6,1.52E+06 -6684.1,5773.6,7959.9,7571.6,3516.5,3426.6,4941.4,5002.4,2080.6,1862.8,3639.3,3786.8,1342.3,1526.3,458.8,521.4,1.47E+06 -13503,8220.2,9466.1,8774.9,4086,4065.6,5247.3,5183.5,2410.2,2096.7,3892.7,4232.8,1531.5,1821.7,557.6,521.9,1.77E+06 -6489.7,4633.6,9212.7,9207,4400.1,4842.5,5987.4,6098.6,2558.2,2375.6,4593,4581.2,1694,1887.8,614.1,597.7,1.86E+06 -9597.1,9221.8,7390.8,7961.6,3412,3474,5548.1,5263.3,2231.8,1995.2,3788.9,4033,1441,1600.1,473.9,555.2,1.52E+06 -6629.1,5280.6,8009.1,7847.5,4135,4100.3,4954.6,4946.3,2067.9,2127.7,3646.4,3894.8,1485.9,1599.9,455.2,555.4,1.48E+06 \ No newline at end of file diff --git a/packages/coinstac-api-server/seed/populate.js b/packages/coinstac-api-server/seed/populate.js index d569b87e2..f8e3f3346 100644 --- a/packages/coinstac-api-server/seed/populate.js +++ b/packages/coinstac-api-server/seed/populate.js @@ -11,6 +11,7 @@ const dpica = require('./data/coinstac-dpica.json'); const dsneMS = require('./data/coinstac-dsne-ms.json'); const drneVbm = require('./data/coinstac-schema-regression-vbm.json'); const rCSV = require('./data/coinstac-regression-csv.json'); +const ssrCSV = require('./data/coinstac-ssr-csv.json'); // const ssrVbm = require('./data/coinstac-schema-regression-ss-vbm'); const msrVbm = require('./data/coinstac-schema-regression-ms-vbm.json'); const msrCSV = require('./data/coinstac-msr-csv.json'); @@ -45,49 +46,57 @@ const CONSORTIA_IDS = generateUniqueIDs(2); const PIPELINE_IDS = generateUniqueIDs(4); -const COMPUTATION_IDS = generateUniqueIDs(29); - const USER_IDS = generateUniqueIDs(6); const RUN_IDS = generateUniqueIDs(4); +const COMPUTATION_DATA = [ + local, + decentralized, + msrFsl, + msrVbm, + msrCSV, + vbm, + gica, + ddfnc, + dsbm, + dpsvm, + drneVbm, + rCSV, + ssrCSV, + dsneMS, + drneFsl, + decentralizedError, + enigmaSans, + localError, + fmri, + ssrFsl, + dmancova, + dinunet, + dinunetGPU, + brainageFNC, + pLink, + dpica, + combatDC, + dlmeFS, + dlmeVBM, + transfer, + stress, +]; + +const COMPUTATIONS = COMPUTATION_DATA.map(comp => ({ ...comp, submittedBy: 'author', _id: database.createUniqueId() })); + +const LOCAL_COMP_ID = COMPUTATIONS.find(comp => comp.meta.id === 'coinstac-local-test')._id; + +const DRNE_VBM_COMP_ID = COMPUTATIONS.find(comp => comp.meta.id === 'regression-vbm')._id; + +const SSR_FSL_COMP_ID = COMPUTATIONS.find(comp => comp.meta.id === 'ssr-fsl')._id; + async function populateComputations() { const db = database.getDbInstance(); - const comps2Insert = [ - { ...local, submittedBy: 'author', _id: COMPUTATION_IDS[0] }, - { ...decentralized, submittedBy: 'author', _id: COMPUTATION_IDS[1] }, - { ...msrFsl, submittedBy: 'author', _id: COMPUTATION_IDS[2] }, - { ...msrVbm, submittedBy: 'author', _id: COMPUTATION_IDS[3] }, - { ...msrCSV, submittedBy: 'author', _id: COMPUTATION_IDS[4] }, - { ...vbm, submittedBy: 'author', _id: COMPUTATION_IDS[5] }, - { ...gica, submittedBy: 'author', _id: COMPUTATION_IDS[6] }, - { ...ddfnc, submittedBy: 'author', _id: COMPUTATION_IDS[7] }, - { ...dsbm, submittedBy: 'author', _id: COMPUTATION_IDS[8] }, - { ...dpsvm, submittedBy: 'author', _id: COMPUTATION_IDS[9] }, - { ...drneVbm, submittedBy: 'author', _id: COMPUTATION_IDS[10] }, - { ...rCSV, submittedBy: 'author', _id: COMPUTATION_IDS[11] }, - { ...dsneMS, submittedBy: 'author', _id: COMPUTATION_IDS[12] }, - { ...drneFsl, submittedBy: 'author', _id: COMPUTATION_IDS[13] }, - { ...decentralizedError, submittedBy: 'author', _id: COMPUTATION_IDS[14] }, - { ...enigmaSans, submittedBy: 'author', _id: COMPUTATION_IDS[15] }, - { ...localError, submittedBy: 'author', _id: COMPUTATION_IDS[16] }, - { ...fmri, submittedBy: 'author', _id: COMPUTATION_IDS[17] }, - { ...ssrFsl, submittedBy: 'author', _id: COMPUTATION_IDS[18] }, - { ...dmancova, submittedBy: 'author', _id: COMPUTATION_IDS[19] }, - { ...dinunet, submittedBy: 'author', _id: COMPUTATION_IDS[20] }, - { ...dinunetGPU, submittedBy: 'author', _id: COMPUTATION_IDS[21] }, - { ...brainageFNC, submittedBy: 'author', _id: COMPUTATION_IDS[22] }, - { ...pLink, submittedBy: 'author', _id: COMPUTATION_IDS[23] }, - { ...dpica, submittedBy: 'author', _id: COMPUTATION_IDS[24] }, - { ...combatDC, submittedBy: 'author', _id: COMPUTATION_IDS[25] }, - { ...dlmeFS, submittedBy: 'author', _id: COMPUTATION_IDS[26] }, - { ...dlmeVBM, submittedBy: 'author', _id: COMPUTATION_IDS[27] }, - { ...transfer, submittedBy: 'author', _id: COMPUTATION_IDS[28] }, - { ...stress, submittedBy: 'author', _id: COMPUTATION_IDS[29] }, - ]; const currentComps = await db.collection('computations').find().toArray(); - const operations = comps2Insert.reduce((ops, comp) => { + const operations = COMPUTATIONS.reduce((ops, comp) => { const cc = currentComps.find(cc => cc.meta.id === comp.meta.id); if (cc) { ops.update.push(Object.assign({}, comp, { _id: cc._id })); @@ -158,7 +167,7 @@ async function populatePipelines() { steps: [ { computations: [ - COMPUTATION_IDS[15], + SSR_FSL_COMP_ID, ], controller: { id: null, @@ -205,7 +214,7 @@ async function populatePipelines() { id: 'UIKDl-', controller: { type: 'decentralized' }, computations: [ - COMPUTATION_IDS[0], + LOCAL_COMP_ID, ], inputMap: { start: { value: 1 }, @@ -224,7 +233,7 @@ async function populatePipelines() { id: 'UIKDl-local1', controller: { type: 'local' }, computations: [ - COMPUTATION_IDS[0], + LOCAL_COMP_ID, ], inputMap: { start: { value: 1 }, @@ -234,7 +243,7 @@ async function populatePipelines() { id: 'UIKDl-local2', controller: { type: 'local' }, computations: [ - COMPUTATION_IDS[0], + LOCAL_COMP_ID, ], inputMap: { start: { fromCache: { step: 0, variable: 'sum' } }, @@ -1032,7 +1041,7 @@ async function populateHeadlessClients() { apiKey: await helperFunctions.hashPassword('testApiKey'), hasApiKey: true, computationWhitelist: { - [COMPUTATION_IDS[15]]: { + [SSR_FSL_COMP_ID]: { inputMap: { covariates: { type: 'csv', @@ -1044,7 +1053,7 @@ async function populateHeadlessClients() { }, }, }, - [COMPUTATION_IDS[8]]: { + [DRNE_VBM_COMP_ID]: { inputMap: { covariates: { type: 'csv', @@ -1276,13 +1285,12 @@ async function clearRuns() { await database.close(); } - module.exports = { CONSORTIA_IDS, - COMPUTATION_IDS, PIPELINE_IDS, USER_IDS, RUN_IDS, + LOCAL_COMP_ID, populate, updateComputations, clearRuns, diff --git a/packages/coinstac-api-server/tests/resolvers.test.js b/packages/coinstac-api-server/tests/resolvers.test.js index 3871a29e9..11a1d2118 100644 --- a/packages/coinstac-api-server/tests/resolvers.test.js +++ b/packages/coinstac-api-server/tests/resolvers.test.js @@ -11,10 +11,10 @@ const database = require('../src/database'); const { populate, CONSORTIA_IDS, - COMPUTATION_IDS, PIPELINE_IDS, USER_IDS, RUN_IDS, + LOCAL_COMP_ID, } = require('../seed/populate'); const helperFunctions = require('../src/auth-helpers'); const { resolvers } = require('../src/data/resolvers'); @@ -870,7 +870,7 @@ test('savePipeline', async (t) => { controller: { type: 'decentralized', }, - computations: [COMPUTATION_IDS[0]], + computations: [LOCAL_COMP_ID], inputMap: { start: { value: 1, @@ -1072,7 +1072,7 @@ test('leaveConsortium', async (t) => { test('removeComputation', async (t) => { const auth1 = getAuth(USER_IDS[0], 'test1'); - const computationId = COMPUTATION_IDS[0]; + const computationId = LOCAL_COMP_ID[0]; const error = await Mutation.removeComputation('', { computationId }, auth1); t.is(getMessageFromError(error), ACTION_PERMIT_ERROR); diff --git a/packages/coinstac-desktop-app/app/main/services/files.js b/packages/coinstac-desktop-app/app/main/services/files.js index 8fbc468b2..4cd65cf0d 100644 --- a/packages/coinstac-desktop-app/app/main/services/files.js +++ b/packages/coinstac-desktop-app/app/main/services/files.js @@ -16,10 +16,21 @@ function mockFileDialog() { testFilePath = mockFileDialogCalled === 0 ? process.env.DATA_FILE_PATH : process.env.COVARIATE_FILE_PATH; mockFileDialogCalled += 1; + } else if (TEST_INSTANCE === 'test-regression-vbm') { + testFilePath = path.join( + __dirname, + '../../../../../algorithm-development/test-data/nifti-test-data/site1/covariates.csv', + ); } else if (TEST_INSTANCE === 'test-2') { - testFilePath = path.join(__dirname, '../../../../../algorithm-development/test-data/freesurfer-test-data/site2/site2_Covariate.csv'); + testFilePath = path.join( + __dirname, + '../../../../../algorithm-development/test-data/freesurfer-test-data/site2/site2_Covariate.csv', + ); } else { - testFilePath = path.join(__dirname, '../../../../../algorithm-development/test-data/freesurfer-test-data/site1/site1_Covariate.csv'); + testFilePath = path.join( + __dirname, + '../../../../../algorithm-development/test-data/freesurfer-test-data/site1/site1_Covariate.csv', + ); } return Promise.resolve({ filePaths: [testFilePath] }); diff --git a/packages/coinstac-desktop-app/app/render/components/dashboard/listeners/remote-runs-listener.jsx b/packages/coinstac-desktop-app/app/render/components/dashboard/listeners/remote-runs-listener.jsx index 0bcab50f0..13c76fadc 100644 --- a/packages/coinstac-desktop-app/app/render/components/dashboard/listeners/remote-runs-listener.jsx +++ b/packages/coinstac-desktop-app/app/render/components/dashboard/listeners/remote-runs-listener.jsx @@ -68,7 +68,7 @@ function RemoteRunsListener({ userId, consortia }) { return; } - const localRun = localRuns.find(r => r.id === remoteRunChanged.id); + const localRun = localRuns?.find(r => r.id === remoteRunChanged.id); // Current user is not part of the run, but is part of the consortium if (!localRun) { diff --git a/packages/coinstac-desktop-app/package.json b/packages/coinstac-desktop-app/package.json index c1332e353..c9e15ac24 100644 --- a/packages/coinstac-desktop-app/package.json +++ b/packages/coinstac-desktop-app/package.json @@ -146,7 +146,7 @@ "test:e2e-single": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/computation-run.test.js", "test:e2e-multi": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/computation-run-2-members.test.js", "test:e2e": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/*.test.js", - "test:comp": "npm run build:webpack && env NODE_ENV=test mocha --timeout=400000 test/e2e/computation-regression-csv.test.js", + "test:comp": "npm run build:webpack && env NODE_ENV=test mocha --timeout=400000 test/e2e/computation-regression-vbm.test.js", "watch": "cross-env NODE_ENV=development webpack-dev-server --mode=development", "eslint": "eslint ./ --ext js,jsx,ts,tsx", "eslint-fix": "eslint ./ --ext js,jsx,ts,tsx --fix" diff --git a/packages/coinstac-desktop-app/test/e2e/computation-msr-fsl.test.js b/packages/coinstac-desktop-app/test/e2e/computation-msr-fsl.test.js index 465a79e13..69da3b419 100644 --- a/packages/coinstac-desktop-app/test/e2e/computation-msr-fsl.test.js +++ b/packages/coinstac-desktop-app/test/e2e/computation-msr-fsl.test.js @@ -1,32 +1,32 @@ -const consortium = require("../lib/consortia"); -const pipeline = require("../lib/pipeline"); +const consortium = require('../lib/consortia'); +const pipeline = require('../lib/pipeline'); const { setup, afterHandler, afterEachHandler, beforeHandler, beforeEachHandler, -} = require("../lib/setup"); -const user = require("../lib/user"); -const { USER_1 } = require("../lib/constants"); +} = require('../lib/setup'); +const user = require('../lib/user'); +const { USER_1 } = require('../lib/constants'); let appWindow; const DATA = { consortium: { - name: "e2e-consortium-single", - description: "e2e-description-single", + name: 'e2e-consortium-single', + description: 'e2e-description-single', }, pipeline: { - name: "e2e-pipeline-single", - description: "e2e-pipeline-description-single", + name: 'e2e-pipeline-single', + description: 'e2e-pipeline-description-single', }, computation: { - name: "Regression (Multishot) - FreeSurfer Volumes", + name: 'Regression (Multishot) - FreeSurfer Volumes', }, }; -describe("e2e run msr-fsl computation", () => { +describe('e2e run msr-fsl computation', () => { before(async () => { appWindow = await setup(); beforeHandler(); @@ -38,35 +38,35 @@ describe("e2e run msr-fsl computation", () => { afterEach(afterEachHandler); - it("displays the correct title", async () => { - await appWindow.title().should.eventually.equal("COINSTAC"); + it('displays the correct title', async () => { + await appWindow.title().should.eventually.equal('COINSTAC'); }); - it("authenticates demo user", async () => { + it('authenticates demo user', async () => { await user.logIn(USER_1, appWindow); }); - it("creates a consortium", async () => { + it('creates a consortium', async () => { await consortium.create(DATA.consortium, appWindow); }); - it("creates a pipeline", async () => { + it('creates a pipeline', async () => { await pipeline.create(DATA, appWindow); }); - it("map data to consortium", async () => { + it('map data to consortium', async () => { await consortium.mapData(DATA.consortium.name, appWindow); }); - it("runs a computation", async () => { + it('runs a computation', async () => { await consortium.runComputation(DATA, appWindow); }); - it("deletes consortium", async () => { + it('deletes consortium', async () => { await consortium.delete(DATA.consortium.name, appWindow); }); - it("logs out", async () => { + it('logs out', async () => { await user.logOut(appWindow); }); }); diff --git a/packages/coinstac-desktop-app/test/e2e/computation-regression-vbm.test.js b/packages/coinstac-desktop-app/test/e2e/computation-regression-vbm.test.js new file mode 100644 index 000000000..42c181df0 --- /dev/null +++ b/packages/coinstac-desktop-app/test/e2e/computation-regression-vbm.test.js @@ -0,0 +1,74 @@ +const consortium = require('../lib/consortia'); +const pipeline = require('../lib/pipeline'); +const { + setup, + afterHandler, + afterEachHandler, + beforeHandler, + beforeEachHandler, +} = require('../lib/setup'); +const user = require('../lib/user'); +const { USER_1 } = require('../lib/constants'); + +let appWindow; + +const DATA = { + consortium: { + name: 'e2e-consortium-single', + description: 'e2e-description-single', + }, + pipeline: { + name: 'e2e-pipeline-single', + description: 'e2e-pipeline-description-single', + }, + computation: { + name: 'Regression - VBM', + }, +}; + +describe('e2e run regression-vbm computation', () => { + before(async () => { + appWindow = await setup(1, { + instanceData: [{ appId: 'regression-vbm' }], + }); + beforeHandler(); + }); + + after(afterHandler); + + beforeEach(beforeEachHandler); + + afterEach(afterEachHandler); + + it('displays the correct title', async () => { + await appWindow.title().should.eventually.equal('COINSTAC'); + }); + + it('authenticates demo user', async () => { + await user.logIn(USER_1, appWindow); + }); + + it('creates a consortium', async () => { + await consortium.create(DATA.consortium, appWindow); + }); + + it('creates a pipeline', async () => { + await pipeline.createRegressionVBMPipeline(DATA, appWindow); + }); + + it('map data to consortium', async () => { + await consortium.mapData(DATA.consortium.name, appWindow); + }); + + it('runs a computation', async () => { + await consortium.runRegressionVBMComputation(DATA, appWindow, 360000); + }); + + it('deletes consortium', async () => { + await consortium.delete(DATA.consortium.name, appWindow); + }); + + it('logs out', async () => { + await user.logOut(appWindow); + }); +}); diff --git a/packages/coinstac-desktop-app/test/lib/consortia.js b/packages/coinstac-desktop-app/test/lib/consortia.js index cf9e7d1bf..a4f2330a4 100644 --- a/packages/coinstac-desktop-app/test/lib/consortia.js +++ b/packages/coinstac-desktop-app/test/lib/consortia.js @@ -169,8 +169,8 @@ const mapDataToConsortiumMsrCSV = async (consortiumName, app) => { }).should.eventually.not.equal(null); }; -const runComputation = async ( - { consortium, pipeline }, +const runComputationBasic = async ( + { consortium }, app, computationTimeout = COMPUTATION_TIMEOUT, ) => { @@ -197,6 +197,16 @@ const runComputation = async ( // Display results await app.click('div.run-item-paper:first-child a:has-text("View Results")', { timeout: computationTimeout }); +}; + +const runComputation = async ( + data, + app, + computationTimeout = COMPUTATION_TIMEOUT, +) => { + await runComputationBasic(data, app, computationTimeout); + + const { consortium, pipeline } = data; // Assert await Promise.all([ @@ -211,6 +221,28 @@ const runComputation = async ( ]); }; +const runRegressionVBMComputation = async ( + data, + app, + computationTimeout = COMPUTATION_TIMEOUT, +) => { + await runComputationBasic(data, app, computationTimeout); + + const { consortium, pipeline } = data; + + // Assert + await Promise.all([ + app.waitForSelector('h4:has-text("Local stats")', { + state: 'visible', + timeout: EXIST_TIMEOUT, + }).should.eventually.not.equal(null), + app.waitForSelector(`h6:has-text("Results: ${consortium.name} | ${pipeline.name}")`, { + state: 'visible', + timeout: EXIST_TIMEOUT, + }).should.eventually.not.equal(null), + ]); +}; + const deleteConsortium = async (name, app) => { await app.click('a:has-text("Consortia")', { timeout: EXIST_TIMEOUT }); @@ -237,5 +269,6 @@ module.exports = { mapData: mapDataToConsortium, mapDataToConsortiumMsrCSV, runComputation, + runRegressionVBMComputation, delete: deleteConsortium, }; diff --git a/packages/coinstac-desktop-app/test/lib/pipeline.js b/packages/coinstac-desktop-app/test/lib/pipeline.js index 8895583e5..3a760343e 100644 --- a/packages/coinstac-desktop-app/test/lib/pipeline.js +++ b/packages/coinstac-desktop-app/test/lib/pipeline.js @@ -1,10 +1,15 @@ const { EXIST_TIMEOUT } = require('../lib/constants'); -const createPipeline = async ({ - consortium, - pipeline, - computation, -}, app) => { +const addCovariate = async (name, type, index, app) => { + await app.click('button:has-text("Add Covariates")', { timeout: EXIST_TIMEOUT }); + + await app.click(`#covariates-${index}-data-dropdown`, { timeout: EXIST_TIMEOUT }); + await app.click(`#covariates-${index}-data-dropdown-menu li:has-text("${type}")`, { timeout: EXIST_TIMEOUT }); + + await app.fill(`#covariates-${index}-input-name`, name); +}; + +const addPipelineCommonData = async ({ pipeline, consortium, computation }, app) => { // Go to create pipeline page await app.click('a:has-text("Pipelines")'); @@ -27,19 +32,24 @@ const createPipeline = async ({ await app.click(`#computation-menu li:has-text("${computation.name}")`, { timeout: EXIST_TIMEOUT }); await app.click('.pipeline-step', { timeout: EXIST_TIMEOUT }); +}; - const addCovariate = async (name, type, index) => { - await app.click('button:has-text("Add Covariates")', { timeout: EXIST_TIMEOUT }); +const savePipeline = async (app) => { + await app.click('button:has-text("Save Pipeline")', { timeout: EXIST_TIMEOUT }); - await app.click(`#covariates-${index}-data-dropdown`, { timeout: EXIST_TIMEOUT }); - await app.click(`#covariates-${index}-data-dropdown-menu li:has-text("${type}")`, { timeout: EXIST_TIMEOUT }); + // Assert + await app.waitForSelector('div:has-text("Pipeline Saved")', { + state: 'visible', + timeout: EXIST_TIMEOUT, + }).should.eventually.not.equal(null); +}; - await app.fill(`#covariates-${index}-input-name`, name); - }; +const createPipeline = async (data, app) => { + await addPipelineCommonData(data, app); - await addCovariate('isControl', 'boolean', 0); - await addCovariate('age', 'number', 1); - await addCovariate('gender', 'string', 2); + await addCovariate('isControl', 'boolean', 0, app); + await addCovariate('age', 'number', 1, app); + await addCovariate('gender', 'string', 2, app); await app.click('button:has-text("Add Data")', { timeout: EXIST_TIMEOUT }); @@ -51,42 +61,11 @@ const createPipeline = async ({ await app.fill('[name="step-lambda"]', '1'); - await app.click('button:has-text("Save Pipeline")', { timeout: EXIST_TIMEOUT }); - - // Assert - await app.waitForSelector('div:has-text("Pipeline Saved")', { - state: 'visible', - timeout: EXIST_TIMEOUT, - }).should.eventually.not.equal(null); + await savePipeline(app); }; -const createMsrCSVPipeline = async ({ - consortium, - pipeline, - computation, -}, app) => { - // Go to create pipeline page - await app.click('a:has-text("Pipelines")'); - - await app.click('a[name="create-pipeline-button"]', { timeout: EXIST_TIMEOUT }); - - // Assert - await app.waitForSelector('h4:has-text("Pipeline Creation")', { - state: 'visible', - timeout: EXIST_TIMEOUT, - }).should.eventually.not.equal(null); - - // Create pipeline - await app.fill('#name', pipeline.name); - await app.fill('#description', pipeline.description); - - await app.click('#pipelineconsortia', { timeout: EXIST_TIMEOUT }); - await app.click(`#consortium-menu li:has-text("${consortium.name}")`, { timeout: EXIST_TIMEOUT }); - - await app.click('#computation-dropdown', { timeout: EXIST_TIMEOUT }); - await app.click(`#computation-menu li:has-text("${computation.name}")`, { timeout: EXIST_TIMEOUT }); - - await app.click('.pipeline-step', { timeout: EXIST_TIMEOUT }); +const createMsrCSVPipeline = async (data, app) => { + await addPipelineCommonData(data, app); await app.click('button:has-text("Add Local Data")', { timeout: EXIST_TIMEOUT }); await app.click('button:has-text("Data Type")', { timeout: EXIST_TIMEOUT }); @@ -96,16 +75,25 @@ const createMsrCSVPipeline = async ({ await app.click('button:has-text("Data Type")', { timeout: EXIST_TIMEOUT }); await app.click('li:has-text("Covariate CSV File")', { timeout: EXIST_TIMEOUT }); - await app.click('button:has-text("Save Pipeline")', { timeout: EXIST_TIMEOUT }); + await savePipeline(app); +}; - // Assert - await app.waitForSelector('div:has-text("Pipeline Saved")', { - state: 'visible', - timeout: EXIST_TIMEOUT, - }).should.eventually.not.equal(null); +const createRegressionVBMPipeline = async (data, app) => { + await addPipelineCommonData(data, app); + + await addCovariate('isControl', 'boolean', 0, app); + await addCovariate('age', 'number', 1, app); + await addCovariate('sex', 'string', 2, app); + + await app.click('button:has-text("Add Data")', { timeout: EXIST_TIMEOUT }); + await app.click('button:has-text("Data Type")', { timeout: EXIST_TIMEOUT }); + await app.click('li:has-text("NiFTI")', { timeout: EXIST_TIMEOUT }); + + await savePipeline(app); }; module.exports = { create: createPipeline, createMsrCSVPipeline, + createRegressionVBMPipeline, }; From af082326cc467f3f5e7a7f83233ee047c3d86336 Mon Sep 17 00:00:00 2001 From: kalitopix Date: Mon, 26 Aug 2024 15:48:22 -0400 Subject: [PATCH 6/8] reorganize folder structure --- .../local0/simulatorRun/site1_Covariate.csv | 0 .../input/local0/simulatorRun/site1_data.csv | 0 .../simulatorRun/site1_harmonized_data.csv | 0 .../app/main/services/files.js | 2 +- packages/coinstac-desktop-app/package.json | 2 +- .../computation-msr-csv.test.js | 21 +++-- .../computation-msr-fsl.test.js | 10 +-- .../computation-regression-csv.test.js | 21 +++-- .../computation-regression-vbm.test.js | 10 +-- .../computations/computation-ssr-csv.test.js | 88 +++++++++++++++++++ .../test/lib/consortia.js | 4 +- .../coinstac-desktop-app/test/lib/pipeline.js | 4 +- 12 files changed, 128 insertions(+), 34 deletions(-) rename algorithm-development/test-data/{msr-csv-test-data => regression-csv-test-data}/input/local0/simulatorRun/site1_Covariate.csv (100%) rename algorithm-development/test-data/{msr-csv-test-data => regression-csv-test-data}/input/local0/simulatorRun/site1_data.csv (100%) rename algorithm-development/test-data/{msr-csv-test-data => regression-csv-test-data}/input/local0/simulatorRun/site1_harmonized_data.csv (100%) rename packages/coinstac-desktop-app/test/e2e/{ => computations}/computation-msr-csv.test.js (70%) rename packages/coinstac-desktop-app/test/e2e/{ => computations}/computation-msr-fsl.test.js (86%) rename packages/coinstac-desktop-app/test/e2e/{ => computations}/computation-regression-csv.test.js (70%) rename packages/coinstac-desktop-app/test/e2e/{ => computations}/computation-regression-vbm.test.js (87%) create mode 100644 packages/coinstac-desktop-app/test/e2e/computations/computation-ssr-csv.test.js diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv b/algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv similarity index 100% rename from algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv rename to algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_data.csv b/algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_data.csv similarity index 100% rename from algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_data.csv rename to algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_data.csv diff --git a/algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_harmonized_data.csv b/algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_harmonized_data.csv similarity index 100% rename from algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_harmonized_data.csv rename to algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_harmonized_data.csv diff --git a/packages/coinstac-desktop-app/app/main/services/files.js b/packages/coinstac-desktop-app/app/main/services/files.js index 4cd65cf0d..66280d478 100644 --- a/packages/coinstac-desktop-app/app/main/services/files.js +++ b/packages/coinstac-desktop-app/app/main/services/files.js @@ -12,7 +12,7 @@ function mockFileDialog() { const { TEST_INSTANCE } = process.env; let testFilePath; - if (['test-msr-csv', 'test-regression-csv'].includes(TEST_INSTANCE)) { + if (['test-msr-csv', 'test-regression-csv', 'test-ssr-csv'].includes(TEST_INSTANCE)) { testFilePath = mockFileDialogCalled === 0 ? process.env.DATA_FILE_PATH : process.env.COVARIATE_FILE_PATH; mockFileDialogCalled += 1; diff --git a/packages/coinstac-desktop-app/package.json b/packages/coinstac-desktop-app/package.json index c9e15ac24..42b16be12 100644 --- a/packages/coinstac-desktop-app/package.json +++ b/packages/coinstac-desktop-app/package.json @@ -146,7 +146,7 @@ "test:e2e-single": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/computation-run.test.js", "test:e2e-multi": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/computation-run-2-members.test.js", "test:e2e": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/*.test.js", - "test:comp": "npm run build:webpack && env NODE_ENV=test mocha --timeout=400000 test/e2e/computation-regression-vbm.test.js", + "test:comp": "npm run build:webpack && env NODE_ENV=test mocha --timeout=400000 test/e2e/computations/computation-ssr-csv.test.js", "watch": "cross-env NODE_ENV=development webpack-dev-server --mode=development", "eslint": "eslint ./ --ext js,jsx,ts,tsx", "eslint-fix": "eslint ./ --ext js,jsx,ts,tsx --fix" diff --git a/packages/coinstac-desktop-app/test/e2e/computation-msr-csv.test.js b/packages/coinstac-desktop-app/test/e2e/computations/computation-msr-csv.test.js similarity index 70% rename from packages/coinstac-desktop-app/test/e2e/computation-msr-csv.test.js rename to packages/coinstac-desktop-app/test/e2e/computations/computation-msr-csv.test.js index 02e69a888..d3ba2c1f6 100644 --- a/packages/coinstac-desktop-app/test/e2e/computation-msr-csv.test.js +++ b/packages/coinstac-desktop-app/test/e2e/computations/computation-msr-csv.test.js @@ -1,15 +1,15 @@ const path = require('path'); -const consortium = require('../lib/consortia'); -const pipeline = require('../lib/pipeline'); +const consortium = require('../../lib/consortia'); +const pipeline = require('../../lib/pipeline'); const { setup, afterHandler, afterEachHandler, beforeHandler, beforeEachHandler, -} = require('../lib/setup'); -const user = require('../lib/user'); -const { USER_1 } = require('../lib/constants'); +} = require('../../lib/setup'); +const user = require('../../lib/user'); +const { USER_1 } = require('../../lib/constants'); let appWindow; @@ -34,11 +34,11 @@ describe('e2e run msr-csv computation', () => { env: { DATA_FILE_PATH: path.join( __dirname, - '../../../../algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_data.csv', + '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_data.csv', ), COVARIATE_FILE_PATH: path.join( __dirname, - '../../../../algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv', + '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv', ), }, }); @@ -64,11 +64,14 @@ describe('e2e run msr-csv computation', () => { }); it('creates a pipeline', async () => { - await pipeline.createMsrCSVPipeline(DATA, appWindow); + await pipeline.createRegressionCSVPipeline(DATA, appWindow); }); it('map data to consortium', async () => { - await consortium.mapDataToConsortiumMsrCSV(DATA.consortium.name, appWindow); + await consortium.mapDataToConsortiumRegressionCSV( + DATA.consortium.name, + appWindow, + ); }); it('runs a computation', async () => { diff --git a/packages/coinstac-desktop-app/test/e2e/computation-msr-fsl.test.js b/packages/coinstac-desktop-app/test/e2e/computations/computation-msr-fsl.test.js similarity index 86% rename from packages/coinstac-desktop-app/test/e2e/computation-msr-fsl.test.js rename to packages/coinstac-desktop-app/test/e2e/computations/computation-msr-fsl.test.js index 69da3b419..640e21bd9 100644 --- a/packages/coinstac-desktop-app/test/e2e/computation-msr-fsl.test.js +++ b/packages/coinstac-desktop-app/test/e2e/computations/computation-msr-fsl.test.js @@ -1,14 +1,14 @@ -const consortium = require('../lib/consortia'); -const pipeline = require('../lib/pipeline'); +const consortium = require('../../lib/consortia'); +const pipeline = require('../../lib/pipeline'); const { setup, afterHandler, afterEachHandler, beforeHandler, beforeEachHandler, -} = require('../lib/setup'); -const user = require('../lib/user'); -const { USER_1 } = require('../lib/constants'); +} = require('../../lib/setup'); +const user = require('../../lib/user'); +const { USER_1 } = require('../../lib/constants'); let appWindow; diff --git a/packages/coinstac-desktop-app/test/e2e/computation-regression-csv.test.js b/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-csv.test.js similarity index 70% rename from packages/coinstac-desktop-app/test/e2e/computation-regression-csv.test.js rename to packages/coinstac-desktop-app/test/e2e/computations/computation-regression-csv.test.js index 2f7c9f367..0674ca780 100644 --- a/packages/coinstac-desktop-app/test/e2e/computation-regression-csv.test.js +++ b/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-csv.test.js @@ -1,15 +1,15 @@ const path = require('path'); -const consortium = require('../lib/consortia'); -const pipeline = require('../lib/pipeline'); +const consortium = require('../../lib/consortia'); +const pipeline = require('../../lib/pipeline'); const { setup, afterHandler, afterEachHandler, beforeHandler, beforeEachHandler, -} = require('../lib/setup'); -const user = require('../lib/user'); -const { USER_1 } = require('../lib/constants'); +} = require('../../lib/setup'); +const user = require('../../lib/user'); +const { USER_1 } = require('../../lib/constants'); let appWindow; @@ -34,11 +34,11 @@ describe('e2e run regression-csv computation', () => { env: { DATA_FILE_PATH: path.join( __dirname, - '../../../../algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_data.csv', + '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_data.csv', ), COVARIATE_FILE_PATH: path.join( __dirname, - '../../../../algorithm-development/test-data/msr-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv', + '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv', ), }, }); @@ -64,11 +64,14 @@ describe('e2e run regression-csv computation', () => { }); it('creates a pipeline', async () => { - await pipeline.createMsrCSVPipeline(DATA, appWindow); + await pipeline.createRegressionCSVPipeline(DATA, appWindow); }); it('map data to consortium', async () => { - await consortium.mapDataToConsortiumMsrCSV(DATA.consortium.name, appWindow); + await consortium.mapDataToConsortiumRegressionCSV( + DATA.consortium.name, + appWindow, + ); }); it('runs a computation', async () => { diff --git a/packages/coinstac-desktop-app/test/e2e/computation-regression-vbm.test.js b/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-vbm.test.js similarity index 87% rename from packages/coinstac-desktop-app/test/e2e/computation-regression-vbm.test.js rename to packages/coinstac-desktop-app/test/e2e/computations/computation-regression-vbm.test.js index 42c181df0..2fe237542 100644 --- a/packages/coinstac-desktop-app/test/e2e/computation-regression-vbm.test.js +++ b/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-vbm.test.js @@ -1,14 +1,14 @@ -const consortium = require('../lib/consortia'); -const pipeline = require('../lib/pipeline'); +const consortium = require('../../lib/consortia'); +const pipeline = require('../../lib/pipeline'); const { setup, afterHandler, afterEachHandler, beforeHandler, beforeEachHandler, -} = require('../lib/setup'); -const user = require('../lib/user'); -const { USER_1 } = require('../lib/constants'); +} = require('../../lib/setup'); +const user = require('../../lib/user'); +const { USER_1 } = require('../../lib/constants'); let appWindow; diff --git a/packages/coinstac-desktop-app/test/e2e/computations/computation-ssr-csv.test.js b/packages/coinstac-desktop-app/test/e2e/computations/computation-ssr-csv.test.js new file mode 100644 index 000000000..84a07917d --- /dev/null +++ b/packages/coinstac-desktop-app/test/e2e/computations/computation-ssr-csv.test.js @@ -0,0 +1,88 @@ +const path = require('path'); +const consortium = require('../../lib/consortia'); +const pipeline = require('../../lib/pipeline'); +const { + setup, + afterHandler, + afterEachHandler, + beforeHandler, + beforeEachHandler, +} = require('../../lib/setup'); +const user = require('../../lib/user'); +const { USER_1 } = require('../../lib/constants'); + +let appWindow; + +const DATA = { + consortium: { + name: 'e2e-consortium-single', + description: 'e2e-description-single', + }, + pipeline: { + name: 'e2e-pipeline-single', + description: 'e2e-pipeline-description-single', + }, + computation: { + name: 'Regression (Singleshot) - CSV', + }, +}; + +describe('e2e run ssr-csv computation', () => { + before(async () => { + appWindow = await setup(1, { + instanceData: [{ appId: 'ssr-csv' }], + env: { + DATA_FILE_PATH: path.join( + __dirname, + '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_data.csv', + ), + COVARIATE_FILE_PATH: path.join( + __dirname, + '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv', + ), + }, + }); + beforeHandler(); + }); + + after(afterHandler); + + beforeEach(beforeEachHandler); + + afterEach(afterEachHandler); + + it('displays the correct title', async () => { + await appWindow.title().should.eventually.equal('COINSTAC'); + }); + + it('authenticates demo user', async () => { + await user.logIn(USER_1, appWindow); + }); + + it('creates a consortium', async () => { + await consortium.create(DATA.consortium, appWindow); + }); + + it('creates a pipeline', async () => { + await pipeline.createRegressionCSVPipeline(DATA, appWindow); + }); + + it('map data to consortium', async () => { + await consortium.mapDataToConsortiumRegressionCSV( + DATA.consortium.name, + appWindow, + ); + }); + + it('runs a computation', async () => { + await consortium.runComputation(DATA, appWindow, 360000); + }); + + it('deletes consortium', async () => { + await consortium.delete(DATA.consortium.name, appWindow); + }); + + it('logs out', async () => { + await user.logOut(appWindow); + }); +}); diff --git a/packages/coinstac-desktop-app/test/lib/consortia.js b/packages/coinstac-desktop-app/test/lib/consortia.js index a4f2330a4..a1eda22b4 100644 --- a/packages/coinstac-desktop-app/test/lib/consortia.js +++ b/packages/coinstac-desktop-app/test/lib/consortia.js @@ -149,7 +149,7 @@ const mapDataToConsortium = async (consortiumName, app) => { }).should.eventually.not.equal(null); }; -const mapDataToConsortiumMsrCSV = async (consortiumName, app) => { +const mapDataToConsortiumRegressionCSV = async (consortiumName, app) => { await app.click('a:has-text("Map")', { timeout: EXIST_TIMEOUT }); await app.click(`a[name="${consortiumName}"]`, { timeout: EXIST_TIMEOUT }); @@ -267,7 +267,7 @@ module.exports = { setPipeline, join: joinConsortium, mapData: mapDataToConsortium, - mapDataToConsortiumMsrCSV, + mapDataToConsortiumRegressionCSV, runComputation, runRegressionVBMComputation, delete: deleteConsortium, diff --git a/packages/coinstac-desktop-app/test/lib/pipeline.js b/packages/coinstac-desktop-app/test/lib/pipeline.js index 3a760343e..0047c3c76 100644 --- a/packages/coinstac-desktop-app/test/lib/pipeline.js +++ b/packages/coinstac-desktop-app/test/lib/pipeline.js @@ -64,7 +64,7 @@ const createPipeline = async (data, app) => { await savePipeline(app); }; -const createMsrCSVPipeline = async (data, app) => { +const createRegressionCSVPipeline = async (data, app) => { await addPipelineCommonData(data, app); await app.click('button:has-text("Add Local Data")', { timeout: EXIST_TIMEOUT }); @@ -94,6 +94,6 @@ const createRegressionVBMPipeline = async (data, app) => { module.exports = { create: createPipeline, - createMsrCSVPipeline, + createRegressionCSVPipeline, createRegressionVBMPipeline, }; From e8153e808774c92bfb9a59206ef922074ec91b1c Mon Sep 17 00:00:00 2001 From: kalitopix Date: Tue, 27 Aug 2024 08:18:45 -0400 Subject: [PATCH 7/8] add test for regression-fsl computation --- .../seed/data/coinstac-combat-dc.json | 109 ++++++++---------- packages/coinstac-api-server/seed/populate.js | 16 ++- .../app/main/services/files.js | 5 +- .../computations/computation-msr-csv.test.js | 26 +++-- .../computation-regression-csv.test.js | 26 +++-- .../computation-regression-fsl.test.js | 72 ++++++++++++ .../computation-regression-vbm.test.js | 13 ++- .../computations/computation-ssr-csv.test.js | 26 +++-- .../coinstac-desktop-app/test/lib/setup.js | 6 +- 9 files changed, 189 insertions(+), 110 deletions(-) create mode 100644 packages/coinstac-desktop-app/test/e2e/computations/computation-regression-fsl.test.js diff --git a/packages/coinstac-api-server/seed/data/coinstac-combat-dc.json b/packages/coinstac-api-server/seed/data/coinstac-combat-dc.json index 346c53b21..594b007fb 100644 --- a/packages/coinstac-api-server/seed/data/coinstac-combat-dc.json +++ b/packages/coinstac-api-server/seed/data/coinstac-combat-dc.json @@ -1,73 +1,56 @@ { "meta": { - "name": "Decentralized Combat", - "id": "coinstac-combatdc", - "version": "v1.0.0", - "compspecVersion": null, - "repository": "https://github.com/trendscenter/coinstac-combat", - "description": "Input data type: CSV. Decentralized Combat for harmonizing data across various sites.", - "preprocess": null + "name": "Decentralized Combat", + "id": "coinstac-combatdc", + "version": "v1.0.0", + "compspecVersion": null, + "repository": "https://github.com/trendscenter/coinstac-combat", + "description": "Decentralized Combat Test", + "preprocess": null }, "computation": { - "display": { - "type": "table" + "display": { + "type": "table" + }, + "input": { + "data_file": { + "label": "Data File", + "type": "files", + "items": ["Files"], + "extensions": [["csv"]], + "order": 0, + "source": "member" }, - "input": { - "data_file": { - "label": "Data File", - "type": "files", - "items": [ - "Files" - ], - "extensions": [ - [ - "csv" - ] - ], - "order": 0, - "source": "member" - }, - "covariate_file": { - "label": "Covariate File", - "type": "files", - "items": [ - "Files" - ], - "extensions": [ - [ - "csv" - ] - ], - "order": 1, - "source": "member" - }, - "hidden": { - "label": " ", - "type": "hidden", - "source": "owner", - "default": " ", - "order": 3 - } - }, - "output": { - "hyperparameters": { - "type": "array", - "label": "Decentralized hypermeters" - } + "covariate_file": { + "label": "Covariate File", + "type": "files", + "items": ["Files"], + "extensions": [["csv"]], + "order": 0, + "source": "member" }, + "combat_alg_type": { + "type": "select", + "label": "Combat Algorithm Type", + "default": "combatDC", + "values": ["combatDC", "combatMegaDC"], + "source": "owner", + "tooltip": "CombatDC runs a decentralized COMBAT algorithm (does not handle missing data). combatMegaDC handles missing data by interpolation and then runs decentralized COMBAT algorithm" + } + }, + "output": { + "hyperparameters": { + "type": "array", + "label": "Decentralized hypermeters" + } + }, + "type": "docker", + "dockerImage": "coinstacteam/coinstac-combatdc", + "command": ["python", "/computation/local.py"], + "remote": { "type": "docker", "dockerImage": "coinstacteam/coinstac-combatdc", - "command": [ - "python", - "/computation/local.py" - ], - "remote": { - "type": "docker", - "dockerImage": "coinstacteam/coinstac-combatdc", - "command": [ - "python", - "/computation/remote.py" - ] - } + "command": ["python", "/computation/remote.py"] + } } } diff --git a/packages/coinstac-api-server/seed/populate.js b/packages/coinstac-api-server/seed/populate.js index f8e3f3346..148ba5790 100644 --- a/packages/coinstac-api-server/seed/populate.js +++ b/packages/coinstac-api-server/seed/populate.js @@ -10,11 +10,11 @@ const dlmeVBM = require('./data/coinstac-dlme-vbm.json'); const dpica = require('./data/coinstac-dpica.json'); const dsneMS = require('./data/coinstac-dsne-ms.json'); const drneVbm = require('./data/coinstac-schema-regression-vbm.json'); -const rCSV = require('./data/coinstac-regression-csv.json'); -const ssrCSV = require('./data/coinstac-ssr-csv.json'); +const rCsv = require('./data/coinstac-regression-csv.json'); +const ssrCsv = require('./data/coinstac-ssr-csv.json'); // const ssrVbm = require('./data/coinstac-schema-regression-ss-vbm'); const msrVbm = require('./data/coinstac-schema-regression-ms-vbm.json'); -const msrCSV = require('./data/coinstac-msr-csv.json'); +const msrCsv = require('./data/coinstac-msr-csv.json'); const dmancova = require('./data/coinstac-dmancova.json'); const drneFsl = require('./data/coinstac-schema-regression-fsl.json'); @@ -25,9 +25,11 @@ const gica = require('./data/coinstac-gica-pipeline.json'); const ddfnc = require('./data/coinstac-ddfnc-pipeline.json'); const dsbm = require('./data/coinstac-dsbm.json'); const dpsvm = require('./data/coinstac-dpsvm.json'); +const dpsvmCsv = require('./data/coinstac-dpsvm-csv.json'); const dinunet = require('./data/coinstac-dinunet.json'); const dinunetGPU = require('./data/coinstac-dinunet-gpu.json'); const vbm = require('./data/coinstac-vbm-pre.json'); +const distMeshnet = require('./data/coinstac-dist-meshnet.json'); const fmri = require('./data/coinstac-fmri.json'); const pLink = require('./data/coinstac-plink.json'); @@ -55,15 +57,16 @@ const COMPUTATION_DATA = [ decentralized, msrFsl, msrVbm, - msrCSV, + msrCsv, vbm, gica, ddfnc, dsbm, dpsvm, + dpsvmCsv, drneVbm, - rCSV, - ssrCSV, + rCsv, + ssrCsv, dsneMS, drneFsl, decentralizedError, @@ -82,6 +85,7 @@ const COMPUTATION_DATA = [ dlmeVBM, transfer, stress, + distMeshnet, ]; const COMPUTATIONS = COMPUTATION_DATA.map(comp => ({ ...comp, submittedBy: 'author', _id: database.createUniqueId() })); diff --git a/packages/coinstac-desktop-app/app/main/services/files.js b/packages/coinstac-desktop-app/app/main/services/files.js index 66280d478..c949a028e 100644 --- a/packages/coinstac-desktop-app/app/main/services/files.js +++ b/packages/coinstac-desktop-app/app/main/services/files.js @@ -17,10 +17,7 @@ function mockFileDialog() { ? process.env.DATA_FILE_PATH : process.env.COVARIATE_FILE_PATH; mockFileDialogCalled += 1; } else if (TEST_INSTANCE === 'test-regression-vbm') { - testFilePath = path.join( - __dirname, - '../../../../../algorithm-development/test-data/nifti-test-data/site1/covariates.csv', - ); + testFilePath = process.env.COVARIATE_FILE_PATH; } else if (TEST_INSTANCE === 'test-2') { testFilePath = path.join( __dirname, diff --git a/packages/coinstac-desktop-app/test/e2e/computations/computation-msr-csv.test.js b/packages/coinstac-desktop-app/test/e2e/computations/computation-msr-csv.test.js index d3ba2c1f6..b86133aa5 100644 --- a/packages/coinstac-desktop-app/test/e2e/computations/computation-msr-csv.test.js +++ b/packages/coinstac-desktop-app/test/e2e/computations/computation-msr-csv.test.js @@ -30,17 +30,21 @@ const DATA = { describe('e2e run msr-csv computation', () => { before(async () => { appWindow = await setup(1, { - instanceData: [{ appId: 'msr-csv' }], - env: { - DATA_FILE_PATH: path.join( - __dirname, - '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_data.csv', - ), - COVARIATE_FILE_PATH: path.join( - __dirname, - '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv', - ), - }, + instanceData: [ + { + appId: 'msr-csv', + env: { + DATA_FILE_PATH: path.join( + __dirname, + '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_data.csv', + ), + COVARIATE_FILE_PATH: path.join( + __dirname, + '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv', + ), + }, + }, + ], }); beforeHandler(); }); diff --git a/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-csv.test.js b/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-csv.test.js index 0674ca780..bb7ca2b45 100644 --- a/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-csv.test.js +++ b/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-csv.test.js @@ -30,17 +30,21 @@ const DATA = { describe('e2e run regression-csv computation', () => { before(async () => { appWindow = await setup(1, { - instanceData: [{ appId: 'regression-csv' }], - env: { - DATA_FILE_PATH: path.join( - __dirname, - '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_data.csv', - ), - COVARIATE_FILE_PATH: path.join( - __dirname, - '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv', - ), - }, + instanceData: [ + { + appId: 'regression-csv', + env: { + DATA_FILE_PATH: path.join( + __dirname, + '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_data.csv', + ), + COVARIATE_FILE_PATH: path.join( + __dirname, + '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv', + ), + }, + }, + ], }); beforeHandler(); }); diff --git a/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-fsl.test.js b/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-fsl.test.js new file mode 100644 index 000000000..bcb604fdc --- /dev/null +++ b/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-fsl.test.js @@ -0,0 +1,72 @@ +const consortium = require('../../lib/consortia'); +const pipeline = require('../../lib/pipeline'); +const { + setup, + afterHandler, + afterEachHandler, + beforeHandler, + beforeEachHandler, +} = require('../../lib/setup'); +const user = require('../../lib/user'); +const { USER_1 } = require('../../lib/constants'); + +let appWindow; + +const DATA = { + consortium: { + name: 'e2e-consortium-single', + description: 'e2e-description-single', + }, + pipeline: { + name: 'e2e-pipeline-single', + description: 'e2e-pipeline-description-single', + }, + computation: { + name: 'Regression - FreeSurfer Volumes', + }, +}; + +describe('e2e run regression-fsl computation', () => { + before(async () => { + appWindow = await setup(); + beforeHandler(); + }); + + after(afterHandler); + + beforeEach(beforeEachHandler); + + afterEach(afterEachHandler); + + it('displays the correct title', async () => { + await appWindow.title().should.eventually.equal('COINSTAC'); + }); + + it('authenticates demo user', async () => { + await user.logIn(USER_1, appWindow); + }); + + it('creates a consortium', async () => { + await consortium.create(DATA.consortium, appWindow); + }); + + it('creates a pipeline', async () => { + await pipeline.create(DATA, appWindow); + }); + + it('map data to consortium', async () => { + await consortium.mapData(DATA.consortium.name, appWindow); + }); + + it('runs a computation', async () => { + await consortium.runComputation(DATA, appWindow, 360000); + }); + + it('deletes consortium', async () => { + await consortium.delete(DATA.consortium.name, appWindow); + }); + + it('logs out', async () => { + await user.logOut(appWindow); + }); +}); diff --git a/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-vbm.test.js b/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-vbm.test.js index 2fe237542..246acba2c 100644 --- a/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-vbm.test.js +++ b/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-vbm.test.js @@ -1,3 +1,4 @@ +const path = require('path'); const consortium = require('../../lib/consortia'); const pipeline = require('../../lib/pipeline'); const { @@ -29,7 +30,17 @@ const DATA = { describe('e2e run regression-vbm computation', () => { before(async () => { appWindow = await setup(1, { - instanceData: [{ appId: 'regression-vbm' }], + instanceData: [ + { + appId: 'regression-vbm', + env: { + COVARIATE_FILE_PATH: path.join( + __dirname, + '../../../../../algorithm-development/test-data/nifti-test-data/site1/covariates.csv', + ), + }, + }, + ], }); beforeHandler(); }); diff --git a/packages/coinstac-desktop-app/test/e2e/computations/computation-ssr-csv.test.js b/packages/coinstac-desktop-app/test/e2e/computations/computation-ssr-csv.test.js index 84a07917d..41743c98c 100644 --- a/packages/coinstac-desktop-app/test/e2e/computations/computation-ssr-csv.test.js +++ b/packages/coinstac-desktop-app/test/e2e/computations/computation-ssr-csv.test.js @@ -30,17 +30,21 @@ const DATA = { describe('e2e run ssr-csv computation', () => { before(async () => { appWindow = await setup(1, { - instanceData: [{ appId: 'ssr-csv' }], - env: { - DATA_FILE_PATH: path.join( - __dirname, - '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_data.csv', - ), - COVARIATE_FILE_PATH: path.join( - __dirname, - '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv', - ), - }, + instanceData: [ + { + appId: 'ssr-csv', + env: { + DATA_FILE_PATH: path.join( + __dirname, + '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_data.csv', + ), + COVARIATE_FILE_PATH: path.join( + __dirname, + '../../../../../algorithm-development/test-data/regression-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv', + ), + }, + }, + ], }); beforeHandler(); }); diff --git a/packages/coinstac-desktop-app/test/lib/setup.js b/packages/coinstac-desktop-app/test/lib/setup.js index e886b0e01..4b57dfbfe 100644 --- a/packages/coinstac-desktop-app/test/lib/setup.js +++ b/packages/coinstac-desktop-app/test/lib/setup.js @@ -53,15 +53,15 @@ async function createInstance(appId, env = {}) { async function setup( instanceCount = 1, - additionalInfo = { instanceData: [], env: {} }, + additionalInfo = { instanceData: [] }, ) { - const { instanceData, env } = additionalInfo; + const { instanceData } = additionalInfo; const promises = Array(instanceCount) .fill(0) .map((_, idx) => { const appId = instanceData[idx]?.appId || getNewAppId(); - return createInstance(appId, env); + return createInstance(appId, instanceData[idx]?.env); }); instances = await Promise.all(promises); From dc60d5266dae07f55804874c41bd40d0cb537e47 Mon Sep 17 00:00:00 2001 From: kalitopix Date: Tue, 27 Aug 2024 09:12:23 -0400 Subject: [PATCH 8/8] add test for dpsvm-csv computation --- .../local0/simulatorRun/site1_Covariate.csv | 74 +++++++++++ .../input/local0/simulatorRun/site1_Data.csv | 74 +++++++++++ .../simulatorRun/subject0_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject10_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject11_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject12_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject13_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject14_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject15_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject16_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject17_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject18_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject19_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject1_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject20_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject21_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject22_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject23_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject24_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject25_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject26_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject27_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject28_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject29_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject2_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject30_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject31_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject32_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject33_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject34_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject35_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject36_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject37_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject38_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject39_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject3_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject40_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject41_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject42_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject43_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject44_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject45_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject46_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject47_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject48_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject49_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject4_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject50_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject51_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject52_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject53_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject54_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject55_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject56_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject57_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject58_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject59_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject5_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject60_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject61_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject62_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject63_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject64_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject65_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject66_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject67_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject68_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject69_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject6_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject70_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject71_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject72_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject7_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject8_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject9_aseg_stats.txt | 67 ++++++++++ .../local1/simulatorRun/site2_Covariate.csv | 51 ++++++++ .../input/local1/simulatorRun/site2_Data.csv | 51 ++++++++ .../simulatorRun/subject0_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject10_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject11_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject12_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject13_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject14_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject15_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject16_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject17_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject18_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject19_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject1_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject20_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject21_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject22_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject23_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject24_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject25_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject26_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject27_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject28_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject29_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject2_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject30_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject31_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject32_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject33_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject34_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject35_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject36_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject37_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject38_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject39_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject3_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject40_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject41_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject42_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject43_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject44_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject45_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject46_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject47_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject48_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject49_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject4_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject5_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject6_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject7_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject8_aseg_stats.txt | 67 ++++++++++ .../simulatorRun/subject9_aseg_stats.txt | 67 ++++++++++ .../app/main/services/files.js | 21 ++-- packages/coinstac-desktop-app/package.json | 2 +- .../computation-dpsvm-csv.test.js | 116 ++++++++++++++++++ .../computations/computation-msr-csv.test.js | 4 +- .../computation-regression-csv.test.js | 4 +- .../computations/computation-ssr-csv.test.js | 4 +- .../test/lib/consortia.js | 48 +++++++- .../coinstac-desktop-app/test/lib/pipeline.js | 19 ++- 135 files changed, 8689 insertions(+), 20 deletions(-) create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv create mode 100644 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/site1_Data.csv create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject0_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject10_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject11_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject12_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject13_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject14_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject15_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject16_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject17_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject18_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject19_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject1_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject20_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject21_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject22_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject23_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject24_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject25_aseg_stats.txt create mode 100755 algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject26_aseg_stats.txt create mode 100755 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-0,0 +1,67 @@ +Measure:volume subject0 +Left-Lateral-Ventricle 8670.45 +Left-Inf-Lat-Vent 5109.80 +Left-Cerebellum-White-Matter 13776.62 +Left-Cerebellum-Cortex 43196.53 +Left-Thalamus-Proper 2276.06 +Left-Caudate 1433.14 +Left-Putamen 1163.78 +Left-Pallidum 2325.58 +3rd-Ventricle 2115.49 +4th-Ventricle 1359.72 +Brain-Stem 16187.29 +Left-Hippocampus 675.72 +Left-Amygdala 4170.13 +CSF 2860.91 +Left-Accumbens-area 3422.32 +Left-VentralDC 921.75 +Left-vessel 4035.86 +Left-choroid-plexus 3286.63 +Right-Lateral-Ventricle 7860.62 +Right-Inf-Lat-Vent 3032.62 +Right-Cerebellum-White-Matter 14501.75 +Right-Cerebellum-Cortex 42317.45 +Right-Thalamus-Proper 495.24 +Right-Caudate 96.04 +Right-Putamen 793.06 +Right-Pallidum 2631.73 +Right-Hippocampus 2326.92 +Right-Amygdala 3270.36 +Right-Accumbens-area 6539.43 +Right-VentralDC 148.85 +Right-vessel 4210.81 +Right-choroid-plexus 1869.24 +5th-Ventricle 6188.10 +WM-hypointensities 4313.20 +Left-WM-hypointensities 4739.31 +Right-WM-hypointensities 4070.90 +non-WM-hypointensities 5090.65 +Left-non-WM-hypointensities 4343.75 +Right-non-WM-hypointensities 5560.37 +Optic-Chiasm 4609.39 +CC_Posterior 3775.87 +CC_Mid_Posterior 4962.05 +CC_Central 3733.33 +CC_Mid_Anterior 3367.08 +CC_Anterior 2146.83 +BrainSegVol 1095317.40 +BrainSegVolNotVent 1060824.57 +BrainSegVolNotVentSurf 1059977.87 +lhCortexVol 198721.60 +rhCortexVol 201000.76 +CortexVol 402759.47 +lhCorticalWhiteMatterVol 229008.71 +rhCorticalWhiteMatterVol 228434.93 +CorticalWhiteMatterVol 459850.33 +SubCortGrayVol 49351.80 +TotalGrayVol 553475.01 +SupraTentorialVol 959726.71 +SupraTentorialVolNotVent 924495.48 +SupraTentorialVolNotVentVox 925742.35 +MaskVol 1625211.29 +BrainSegVol-to-eTIV 3836.53 +MaskVol-to-eTIV 4531.60 +lhSurfaceHoles 6435.98 +rhSurfaceHoles 4529.00 +SurfaceHoles 3912.50 +EstimatedTotalIntraCranialVol 1594525.18 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject10_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject10_aseg_stats.txt new file mode 100755 index 000000000..5acb325d4 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject10_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject10 +Left-Lateral-Ventricle 6116.66 +Left-Inf-Lat-Vent 7930.72 +Left-Cerebellum-White-Matter 11052.96 +Left-Cerebellum-Cortex 41173.92 +Left-Thalamus-Proper 371.72 +Left-Caudate 3433.51 +Left-Putamen 4283.01 +Left-Pallidum 4047.69 +3rd-Ventricle 3711.28 +4th-Ventricle 2749.31 +Brain-Stem 14400.24 +Left-Hippocampus 925.31 +Left-Amygdala 6864.37 +CSF 4833.67 +Left-Accumbens-area 5084.91 +Left-VentralDC 3370.06 +Left-vessel 5925.89 +Left-choroid-plexus 5469.20 +Right-Lateral-Ventricle 4437.00 +Right-Inf-Lat-Vent 4656.59 +Right-Cerebellum-White-Matter 11908.96 +Right-Cerebellum-Cortex 39243.48 +Right-Thalamus-Proper 4326.57 +Right-Caudate 1293.85 +Right-Putamen 3427.61 +Right-Pallidum 4470.56 +Right-Hippocampus 5558.44 +Right-Amygdala 5652.72 +Right-Accumbens-area 10240.78 +Right-VentralDC 2078.82 +Right-vessel 6139.38 +Right-choroid-plexus 3364.28 +5th-Ventricle 9216.10 +WM-hypointensities 7376.49 +Left-WM-hypointensities 7167.99 +Right-WM-hypointensities 5930.19 +non-WM-hypointensities 7507.74 +Left-non-WM-hypointensities 6403.92 +Right-non-WM-hypointensities 8455.09 +Optic-Chiasm 6932.26 +CC_Posterior 6114.18 +CC_Mid_Posterior 7741.10 +CC_Central 5811.53 +CC_Mid_Anterior 5063.37 +CC_Anterior 3439.11 +BrainSegVol 1092088.81 +BrainSegVolNotVent 1059164.96 +BrainSegVolNotVentSurf 1058202.55 +lhCortexVol 196660.79 +rhCortexVol 199207.10 +CortexVol 400045.19 +lhCorticalWhiteMatterVol 226724.84 +rhCorticalWhiteMatterVol 226050.36 +CorticalWhiteMatterVol 456018.31 +SubCortGrayVol 46664.76 +TotalGrayVol 551101.44 +SupraTentorialVol 957836.55 +SupraTentorialVolNotVent 920990.04 +SupraTentorialVolNotVentVox 923457.30 +MaskVol 1622824.20 +BrainSegVol-to-eTIV 5689.68 +MaskVol-to-eTIV 6566.00 +lhSurfaceHoles 9834.72 +rhSurfaceHoles 6837.55 +SurfaceHoles 5807.83 +EstimatedTotalIntraCranialVol 1590797.44 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject11_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject11_aseg_stats.txt new file mode 100755 index 000000000..9daa756d9 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject11_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject11 +Left-Lateral-Ventricle 3976.41 +Left-Inf-Lat-Vent 9548.51 +Left-Cerebellum-White-Matter 9039.40 +Left-Cerebellum-Cortex 38889.92 +Left-Thalamus-Proper 2301.19 +Left-Caudate 5516.92 +Left-Putamen 5801.74 +Left-Pallidum 6554.08 +3rd-Ventricle 6069.95 +4th-Ventricle 5101.75 +Brain-Stem 11920.60 +Left-Hippocampus 3716.14 +Left-Amygdala 9083.04 +CSF 7019.96 +Left-Accumbens-area 7311.35 +Left-VentralDC 5642.69 +Left-vessel 8415.95 +Left-choroid-plexus 7457.26 +Right-Lateral-Ventricle 2632.22 +Right-Inf-Lat-Vent 6879.92 +Right-Cerebellum-White-Matter 9786.71 +Right-Cerebellum-Cortex 37352.97 +Right-Thalamus-Proper 5679.21 +Right-Caudate 3630.05 +Right-Putamen 5376.07 +Right-Pallidum 6939.18 +Right-Hippocampus 7289.31 +Right-Amygdala 8008.90 +Right-Accumbens-area 11651.80 +Right-VentralDC 4497.33 +Right-vessel 8637.40 +Right-choroid-plexus 5587.57 +5th-Ventricle 10789.81 +WM-hypointensities 9141.55 +Left-WM-hypointensities 9092.36 +Right-WM-hypointensities 7970.88 +non-WM-hypointensities 9358.58 +Left-non-WM-hypointensities 8751.06 +Right-non-WM-hypointensities 10273.81 +Optic-Chiasm 9006.86 +CC_Posterior 8044.84 +CC_Mid_Posterior 9539.17 +CC_Central 7868.68 +CC_Mid_Anterior 7572.02 +CC_Anterior 6190.56 +BrainSegVol 1090192.41 +BrainSegVolNotVent 1056769.75 +BrainSegVolNotVentSurf 1055788.32 +lhCortexVol 194349.35 +rhCortexVol 197100.71 +CortexVol 398230.11 +lhCorticalWhiteMatterVol 224632.24 +rhCorticalWhiteMatterVol 223819.14 +CorticalWhiteMatterVol 454704.62 +SubCortGrayVol 44767.90 +TotalGrayVol 548977.81 +SupraTentorialVol 955354.60 +SupraTentorialVolNotVent 919437.10 +SupraTentorialVolNotVentVox 921431.23 +MaskVol 1620735.78 +BrainSegVol-to-eTIV 8077.65 +MaskVol-to-eTIV 8912.17 +lhSurfaceHoles 11588.21 +rhSurfaceHoles 8992.80 +SurfaceHoles 7997.67 +EstimatedTotalIntraCranialVol 1589419.53 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject12_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject12_aseg_stats.txt new file mode 100755 index 000000000..9f8e6987c --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject12_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject12 +Left-Lateral-Ventricle 6791.70 +Left-Inf-Lat-Vent 7248.52 +Left-Cerebellum-White-Matter 11750.03 +Left-Cerebellum-Cortex 41758.63 +Left-Thalamus-Proper 303.56 +Left-Caudate 2870.15 +Left-Putamen 3551.62 +Left-Pallidum 3502.10 +3rd-Ventricle 3202.64 +4th-Ventricle 2281.02 +Brain-Stem 14956.09 +Left-Hippocampus 378.92 +Left-Amygdala 6155.54 +CSF 4266.90 +Left-Accumbens-area 4574.62 +Left-VentralDC 2704.12 +Left-vessel 5349.27 +Left-choroid-plexus 4878.77 +Right-Lateral-Ventricle 5251.47 +Right-Inf-Lat-Vent 4154.01 +Right-Cerebellum-White-Matter 12590.00 +Right-Cerebellum-Cortex 39997.73 +Right-Thalamus-Proper 3471.81 +Right-Caudate 826.87 +Right-Putamen 2753.28 +Right-Pallidum 3905.64 +Right-Hippocampus 4787.34 +Right-Amygdala 4992.42 +Right-Accumbens-area 9406.16 +Right-VentralDC 1500.57 +Right-vessel 5554.64 +Right-choroid-plexus 2886.60 +5th-Ventricle 8497.66 +WM-hypointensities 6634.97 +Left-WM-hypointensities 6535.46 +Right-WM-hypointensities 5397.71 +non-WM-hypointensities 6883.69 +Left-non-WM-hypointensities 5806.59 +Right-non-WM-hypointensities 7741.55 +Optic-Chiasm 6307.38 +CC_Posterior 5498.56 +CC_Mid_Posterior 7051.65 +CC_Central 5235.38 +CC_Mid_Anterior 4522.57 +CC_Anterior 2955.68 +BrainSegVol 1092873.42 +BrainSegVolNotVent 1059689.03 +BrainSegVolNotVentSurf 1058750.58 +lhCortexVol 197255.20 +rhCortexVol 199732.50 +CortexVol 400723.58 +lhCorticalWhiteMatterVol 227343.72 +rhCorticalWhiteMatterVol 226700.47 +CorticalWhiteMatterVol 456869.89 +SubCortGrayVol 47344.85 +TotalGrayVol 551740.27 +SupraTentorialVol 958412.51 +SupraTentorialVolNotVent 921798.90 +SupraTentorialVolNotVentVox 924070.75 +MaskVol 1623462.65 +BrainSegVol-to-eTIV 5128.86 +MaskVol-to-eTIV 5973.74 +lhSurfaceHoles 9029.41 +rhSurfaceHoles 6208.58 +SurfaceHoles 5255.71 +EstimatedTotalIntraCranialVol 1591634.35 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject13_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject13_aseg_stats.txt new file mode 100755 index 000000000..c19092584 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject13_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject13 +Left-Lateral-Ventricle 13619.83 +Left-Inf-Lat-Vent 711.52 +Left-Cerebellum-White-Matter 18669.91 +Left-Cerebellum-Cortex 47959.83 +Left-Thalamus-Proper 6992.95 +Left-Caudate 3026.50 +Left-Putamen 3312.78 +Left-Pallidum 2534.47 +3rd-Ventricle 2439.80 +4th-Ventricle 3034.50 +Brain-Stem 21056.95 +Left-Hippocampus 5853.77 +Left-Amygdala 995.20 +CSF 1725.69 +Left-Accumbens-area 992.90 +Left-VentralDC 4139.37 +Left-vessel 924.69 +Left-choroid-plexus 1170.88 +Right-Lateral-Ventricle 12971.41 +Right-Inf-Lat-Vent 1349.66 +Right-Cerebellum-White-Matter 19454.13 +Right-Cerebellum-Cortex 47293.01 +Right-Thalamus-Proper 4268.90 +Right-Caudate 4467.22 +Right-Putamen 3941.25 +Right-Pallidum 2260.35 +Right-Hippocampus 2536.30 +Right-Amygdala 1861.76 +Right-Accumbens-area 1787.59 +Right-VentralDC 4738.71 +Right-vessel 789.59 +Right-choroid-plexus 2417.83 +5th-Ventricle 1700.12 +WM-hypointensities 474.84 +Left-WM-hypointensities 191.41 +Right-WM-hypointensities 223.45 +non-WM-hypointensities 656.59 +Left-non-WM-hypointensities 537.70 +Right-non-WM-hypointensities 819.87 +Optic-Chiasm 75.59 +CC_Posterior 714.37 +CC_Mid_Posterior 336.49 +CC_Central 746.12 +CC_Mid_Anterior 1477.15 +CC_Anterior 2747.01 +BrainSegVol 1100415.50 +BrainSegVolNotVent 1065479.28 +BrainSegVolNotVentSurf 1064745.21 +lhCortexVol 203552.38 +rhCortexVol 205340.77 +CortexVol 407361.61 +lhCorticalWhiteMatterVol 233690.69 +rhCorticalWhiteMatterVol 233389.73 +CorticalWhiteMatterVol 464559.20 +SubCortGrayVol 54050.97 +TotalGrayVol 558267.62 +SupraTentorialVol 964675.76 +SupraTentorialVolNotVent 929306.00 +SupraTentorialVolNotVentVox 930329.91 +MaskVol 1629963.45 +BrainSegVol-to-eTIV 950.62 +MaskVol-to-eTIV 329.42 +lhSurfaceHoles 1416.99 +rhSurfaceHoles 260.91 +SurfaceHoles 622.04 +EstimatedTotalIntraCranialVol 1599249.07 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject14_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject14_aseg_stats.txt new file mode 100755 index 000000000..68d6f9902 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject14_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject14 +Left-Lateral-Ventricle 7694.36 +Left-Inf-Lat-Vent 6763.64 +Left-Cerebellum-White-Matter 12528.09 +Left-Cerebellum-Cortex 42877.72 +Left-Thalamus-Proper 1040.72 +Left-Caudate 1883.79 +Left-Putamen 3200.86 +Left-Pallidum 2163.76 +3rd-Ventricle 1937.68 +4th-Ventricle 974.62 +Brain-Stem 16261.67 +Left-Hippocampus 1181.47 +Left-Amygdala 5230.19 +CSF 3203.81 +Left-Accumbens-area 3415.22 +Left-VentralDC 1687.22 +Left-vessel 4059.36 +Left-choroid-plexus 3998.25 +Right-Lateral-Ventricle 5731.06 +Right-Inf-Lat-Vent 2988.17 +Right-Cerebellum-White-Matter 13471.66 +Right-Cerebellum-Cortex 40613.67 +Right-Thalamus-Proper 3392.92 +Right-Caudate 468.32 +Right-Putamen 2000.15 +Right-Pallidum 2619.10 +Right-Hippocampus 4315.88 +Right-Amygdala 3903.55 +Right-Accumbens-area 9258.39 +Right-VentralDC 268.63 +Right-vessel 4267.81 +Right-choroid-plexus 1692.21 +5th-Ventricle 8088.94 +WM-hypointensities 6102.76 +Left-WM-hypointensities 5753.21 +Right-WM-hypointensities 4409.40 +non-WM-hypointensities 6149.34 +Left-non-WM-hypointensities 4652.49 +Right-non-WM-hypointensities 7135.14 +Optic-Chiasm 5398.57 +CC_Posterior 4691.96 +CC_Mid_Posterior 6433.77 +CC_Central 4284.30 +CC_Mid_Anterior 3176.96 +CC_Anterior 1353.85 +BrainSegVol 1093459.12 +BrainSegVolNotVent 1060964.92 +BrainSegVolNotVentSurf 1060013.88 +lhCortexVol 198384.66 +rhCortexVol 200780.45 +CortexVol 401367.51 +lhCorticalWhiteMatterVol 228273.53 +rhCorticalWhiteMatterVol 227703.09 +CorticalWhiteMatterVol 456921.90 +SubCortGrayVol 48050.93 +TotalGrayVol 552671.49 +SupraTentorialVol 959696.81 +SupraTentorialVolNotVent 922087.51 +SupraTentorialVolNotVentVox 924954.63 +MaskVol 1624366.70 +BrainSegVol-to-eTIV 3900.84 +MaskVol-to-eTIV 4814.60 +lhSurfaceHoles 8579.51 +rhSurfaceHoles 5241.25 +SurfaceHoles 4173.03 +EstimatedTotalIntraCranialVol 1591753.56 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject15_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject15_aseg_stats.txt new file mode 100755 index 000000000..5224a7afb --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject15_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject15 +Left-Lateral-Ventricle 12300.60 +Left-Inf-Lat-Vent 2503.17 +Left-Cerebellum-White-Matter 17056.74 +Left-Cerebellum-Cortex 46892.13 +Left-Thalamus-Proper 5479.80 +Left-Caudate 2145.53 +Left-Putamen 1549.87 +Left-Pallidum 887.72 +3rd-Ventricle 1650.38 +4th-Ventricle 1636.61 +Brain-Stem 19203.93 +Left-Hippocampus 4735.79 +Left-Amygdala 347.09 +CSF 497.13 +Left-Accumbens-area 20.99 +Left-VentralDC 2269.09 +Left-vessel 477.20 +Left-choroid-plexus 235.87 +Right-Lateral-Ventricle 11487.62 +Right-Inf-Lat-Vent 23.46 +Right-Cerebellum-White-Matter 17898.90 +Right-Cerebellum-Cortex 45624.58 +Right-Thalamus-Proper 2557.31 +Right-Caudate 2998.70 +Right-Putamen 2139.01 +Right-Pallidum 812.24 +Right-Hippocampus 1189.18 +Right-Amygdala 79.99 +Right-Accumbens-area 3902.04 +Right-VentralDC 2898.28 +Right-vessel 436.47 +Right-choroid-plexus 1294.72 +5th-Ventricle 2850.11 +WM-hypointensities 1601.62 +Left-WM-hypointensities 2087.63 +Right-WM-hypointensities 791.45 +non-WM-hypointensities 1713.17 +Left-non-WM-hypointensities 988.78 +Right-non-WM-hypointensities 2881.30 +Optic-Chiasm 1358.16 +CC_Posterior 424.87 +CC_Mid_Posterior 2345.68 +CC_Central 1027.66 +CC_Mid_Anterior 281.21 +CC_Anterior 1493.33 +BrainSegVol 1098462.57 +BrainSegVolNotVent 1064403.31 +BrainSegVolNotVentSurf 1063458.15 +lhCortexVol 202446.88 +rhCortexVol 204252.89 +CortexVol 405777.50 +lhCorticalWhiteMatterVol 232200.94 +rhCorticalWhiteMatterVol 232003.41 +CorticalWhiteMatterVol 462642.87 +SubCortGrayVol 52108.03 +TotalGrayVol 556960.78 +SupraTentorialVol 963075.54 +SupraTentorialVolNotVent 927529.22 +SupraTentorialVolNotVentVox 929086.72 +MaskVol 1628905.04 +BrainSegVol-to-eTIV 781.26 +MaskVol-to-eTIV 713.98 +lhSurfaceHoles 3636.50 +rhSurfaceHoles 1681.07 +SurfaceHoles 819.80 +EstimatedTotalIntraCranialVol 1597885.39 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject16_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject16_aseg_stats.txt new file mode 100755 index 000000000..87c2501db --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject16_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject16 +Left-Lateral-Ventricle 7949.26 +Left-Inf-Lat-Vent 5788.43 +Left-Cerebellum-White-Matter 13049.99 +Left-Cerebellum-Cortex 42532.23 +Left-Thalamus-Proper 1574.11 +Left-Caudate 2062.39 +Left-Putamen 1871.46 +Left-Pallidum 2979.99 +3rd-Ventricle 2727.62 +4th-Ventricle 1939.95 +Brain-Stem 15527.37 +Left-Hippocampus 5.52 +Left-Amygdala 4924.77 +CSF 3502.29 +Left-Accumbens-area 4023.55 +Left-VentralDC 1648.06 +Left-vessel 4712.87 +Left-choroid-plexus 3928.12 +Right-Lateral-Ventricle 7062.08 +Right-Inf-Lat-Vent 3627.57 +Right-Cerebellum-White-Matter 13777.56 +Right-Cerebellum-Cortex 41557.77 +Right-Thalamus-Proper 1283.40 +Right-Caudate 481.67 +Right-Putamen 1496.03 +Right-Pallidum 3297.67 +Right-Hippocampus 3084.97 +Right-Amygdala 4000.00 +Right-Accumbens-area 7317.34 +Right-VentralDC 820.53 +Right-vessel 4894.85 +Right-choroid-plexus 2444.86 +5th-Ventricle 6890.80 +WM-hypointensities 5051.44 +Left-WM-hypointensities 5407.62 +Right-WM-hypointensities 4672.25 +non-WM-hypointensities 5745.60 +Left-non-WM-hypointensities 5023.66 +Right-non-WM-hypointensities 6281.83 +Optic-Chiasm 5285.59 +CC_Posterior 4431.63 +CC_Mid_Posterior 5662.91 +CC_Central 4370.10 +CC_Mid_Anterior 4017.99 +CC_Anterior 2775.56 +BrainSegVol 1094533.61 +BrainSegVolNotVent 1060197.10 +BrainSegVolNotVentSurf 1059330.05 +lhCortexVol 198047.23 +rhCortexVol 200398.86 +CortexVol 402065.63 +lhCorticalWhiteMatterVol 228335.51 +rhCorticalWhiteMatterVol 227724.72 +CorticalWhiteMatterVol 459068.22 +SubCortGrayVol 48649.12 +TotalGrayVol 552783.46 +SupraTentorialVol 959050.97 +SupraTentorialVolNotVent 923724.49 +SupraTentorialVolNotVentVox 925079.49 +MaskVol 1624523.28 +BrainSegVol-to-eTIV 4491.87 +MaskVol-to-eTIV 5207.50 +lhSurfaceHoles 7222.68 +rhSurfaceHoles 5215.81 +SurfaceHoles 4542.83 +EstimatedTotalIntraCranialVol 1593748.54 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject17_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject17_aseg_stats.txt new file mode 100755 index 000000000..5d552a0e5 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject17_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject17 +Left-Lateral-Ventricle 3718.13 +Left-Inf-Lat-Vent 11599.52 +Left-Cerebellum-White-Matter 8041.79 +Left-Cerebellum-Cortex 39791.94 +Left-Thalamus-Proper 3269.62 +Left-Caudate 4786.35 +Left-Putamen 8369.49 +Left-Pallidum 5446.49 +3rd-Ventricle 4237.77 +4th-Ventricle 3644.26 +Brain-Stem 12693.22 +Left-Hippocampus 1389.99 +Left-Amygdala 9381.35 +CSF 6406.77 +Left-Accumbens-area 6036.86 +Left-VentralDC 6072.40 +Left-vessel 7294.93 +Left-choroid-plexus 7180.76 +Right-Lateral-Ventricle 529.39 +Right-Inf-Lat-Vent 5924.58 +Right-Cerebellum-White-Matter 9211.43 +Right-Cerebellum-Cortex 35646.62 +Right-Thalamus-Proper 9362.85 +Right-Caudate 2274.67 +Right-Putamen 6581.41 +Right-Pallidum 5844.47 +Right-Hippocampus 9168.26 +Right-Amygdala 8271.25 +Right-Accumbens-area 15471.45 +Right-VentralDC 3999.68 +Right-vessel 7371.21 +Right-choroid-plexus 4228.63 +5th-Ventricle 12530.48 +WM-hypointensities 11483.80 +Left-WM-hypointensities 10192.51 +Right-WM-hypointensities 7288.04 +non-WM-hypointensities 9746.28 +Left-non-WM-hypointensities 8231.49 +Right-non-WM-hypointensities 12297.22 +Optic-Chiasm 9230.32 +CC_Posterior 8268.24 +CC_Mid_Posterior 11412.08 +CC_Central 8174.04 +CC_Mid_Anterior 5978.50 +CC_Anterior 3707.65 +BrainSegVol 1088028.59 +BrainSegVolNotVent 1058309.39 +BrainSegVolNotVentSurf 1057015.45 +lhCortexVol 195220.68 +rhCortexVol 197914.79 +CortexVol 396892.11 +lhCorticalWhiteMatterVol 224433.78 +rhCorticalWhiteMatterVol 223869.94 +CorticalWhiteMatterVol 450740.72 +SubCortGrayVol 43260.37 +TotalGrayVol 548914.84 +SupraTentorialVol 956261.56 +SupraTentorialVolNotVent 916460.80 +SupraTentorialVolNotVentVox 921350.32 +MaskVol 1620837.61 +BrainSegVol-to-eTIV 7438.45 +MaskVol-to-eTIV 7880.68 +lhSurfaceHoles 14495.47 +rhSurfaceHoles 9552.76 +SurfaceHoles 7498.70 +EstimatedTotalIntraCranialVol 1586255.73 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject18_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject18_aseg_stats.txt new file mode 100755 index 000000000..fe070dd89 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject18_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject18 +Left-Lateral-Ventricle 2764.26 +Left-Inf-Lat-Vent 10703.22 +Left-Cerebellum-White-Matter 7813.03 +Left-Cerebellum-Cortex 37784.52 +Left-Thalamus-Proper 3486.48 +Left-Caudate 6566.86 +Left-Putamen 7011.88 +Left-Pallidum 7633.91 +3rd-Ventricle 7079.49 +4th-Ventricle 6054.54 +Brain-Stem 10829.98 +Left-Hippocampus 4833.77 +Left-Amygdala 10352.16 +CSF 8087.90 +Left-Accumbens-area 8306.14 +Left-VentralDC 6859.27 +Left-vessel 9536.71 +Left-choroid-plexus 8532.44 +Right-Lateral-Ventricle 1269.96 +Right-Inf-Lat-Vent 7863.60 +Right-Cerebellum-White-Matter 8568.56 +Right-Cerebellum-Cortex 36063.17 +Right-Thalamus-Proper 7039.03 +Right-Caudate 4578.91 +Right-Putamen 6562.50 +Right-Pallidum 8040.94 +Right-Hippocampus 8581.89 +Right-Amygdala 9228.45 +Right-Accumbens-area 12991.23 +Right-VentralDC 5611.13 +Right-vessel 9770.45 +Right-choroid-plexus 6536.71 +5th-Ventricle 11989.10 +WM-hypointensities 10397.52 +Left-WM-hypointensities 10217.72 +Right-WM-hypointensities 8972.49 +non-WM-hypointensities 10462.69 +Left-non-WM-hypointensities 9882.11 +Right-non-WM-hypointensities 11497.89 +Optic-Chiasm 10140.97 +CC_Posterior 9147.56 +CC_Mid_Posterior 10727.17 +CC_Central 8932.97 +CC_Mid_Anterior 8645.50 +CC_Anterior 7215.79 +BrainSegVol 1088859.76 +BrainSegVolNotVent 1055734.10 +BrainSegVolNotVentSurf 1054716.99 +lhCortexVol 193226.95 +rhCortexVol 196100.46 +CortexVol 397055.25 +lhCorticalWhiteMatterVol 223504.13 +rhCorticalWhiteMatterVol 222629.84 +CorticalWhiteMatterVol 453354.23 +SubCortGrayVol 43580.14 +TotalGrayVol 547818.01 +SupraTentorialVol 954235.80 +SupraTentorialVolNotVent 918115.09 +SupraTentorialVolNotVentVox 920319.23 +MaskVol 1619581.06 +BrainSegVol-to-eTIV 9163.34 +MaskVol-to-eTIV 10036.07 +lhSurfaceHoles 12931.15 +rhSurfaceHoles 10142.99 +SurfaceHoles 9045.75 +EstimatedTotalIntraCranialVol 1588081.20 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject19_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject19_aseg_stats.txt new file mode 100755 index 000000000..a39599d05 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject19_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject19 +Left-Lateral-Ventricle 2587.98 +Left-Inf-Lat-Vent 12139.36 +Left-Cerebellum-White-Matter 7177.51 +Left-Cerebellum-Cortex 38624.53 +Left-Thalamus-Proper 4150.86 +Left-Caudate 6027.96 +Left-Putamen 9049.23 +Left-Pallidum 5984.35 +3rd-Ventricle 5490.82 +4th-Ventricle 4174.57 +Brain-Stem 12340.03 +Left-Hippocampus 2533.92 +Left-Amygdala 10603.46 +CSF 7337.48 +Left-Accumbens-area 7035.17 +Left-VentralDC 6661.00 +Left-vessel 8159.97 +Left-choroid-plexus 8418.73 +Right-Lateral-Ventricle 736.92 +Right-Inf-Lat-Vent 6541.28 +Right-Cerebellum-White-Matter 8305.28 +Right-Cerebellum-Cortex 34710.45 +Right-Thalamus-Proper 10394.50 +Right-Caudate 2726.36 +Right-Putamen 7175.95 +Right-Pallidum 6624.96 +Right-Hippocampus 10430.65 +Right-Amygdala 8794.71 +Right-Accumbens-area 16059.44 +Right-VentralDC 4411.85 +Right-vessel 8436.85 +Right-choroid-plexus 5025.82 +5th-Ventricle 13801.52 +WM-hypointensities 11943.30 +Left-WM-hypointensities 10570.03 +Right-WM-hypointensities 8298.27 +non-WM-hypointensities 10920.33 +Left-non-WM-hypointensities 8992.02 +Right-non-WM-hypointensities 12707.79 +Optic-Chiasm 10088.58 +CC_Posterior 9357.18 +CC_Mid_Posterior 11802.17 +CC_Central 8551.63 +CC_Mid_Anterior 6954.38 +CC_Anterior 4529.72 +BrainSegVol 1087290.61 +BrainSegVolNotVent 1057290.17 +BrainSegVolNotVentSurf 1056135.42 +lhCortexVol 194056.72 +rhCortexVol 196979.99 +CortexVol 396103.32 +lhCorticalWhiteMatterVol 223643.52 +rhCorticalWhiteMatterVol 222852.49 +CorticalWhiteMatterVol 449932.97 +SubCortGrayVol 42804.09 +TotalGrayVol 547877.77 +SupraTentorialVol 955598.84 +SupraTentorialVolNotVent 915569.60 +SupraTentorialVolNotVentVox 920346.23 +MaskVol 1619562.47 +BrainSegVol-to-eTIV 7902.46 +MaskVol-to-eTIV 9109.92 +lhSurfaceHoles 14986.94 +rhSurfaceHoles 9935.49 +SurfaceHoles 8176.16 +EstimatedTotalIntraCranialVol 1584919.35 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject1_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject1_aseg_stats.txt new file mode 100755 index 000000000..b026d5feb --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject1_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject1 +Left-Lateral-Ventricle 4794.78 +Left-Inf-Lat-Vent 10078.09 +Left-Cerebellum-White-Matter 9309.79 +Left-Cerebellum-Cortex 40382.53 +Left-Thalamus-Proper 2024.48 +Left-Caudate 4124.15 +Left-Putamen 6566.94 +Left-Pallidum 5193.64 +3rd-Ventricle 4019.55 +4th-Ventricle 3587.10 +Brain-Stem 13009.58 +Left-Hippocampus 1359.94 +Left-Amygdala 8228.00 +CSF 5812.29 +Left-Accumbens-area 5706.70 +Left-VentralDC 5138.49 +Left-vessel 6901.40 +Left-choroid-plexus 6331.34 +Right-Lateral-Ventricle 2446.49 +Right-Inf-Lat-Vent 5623.73 +Right-Cerebellum-White-Matter 10327.08 +Right-Cerebellum-Cortex 37247.74 +Right-Thalamus-Proper 6920.55 +Right-Caudate 2210.06 +Right-Putamen 5355.23 +Right-Pallidum 5482.07 +Right-Hippocampus 7370.90 +Right-Amygdala 7426.93 +Right-Accumbens-area 13158.40 +Right-VentralDC 3542.56 +Right-vessel 6950.59 +Right-choroid-plexus 4030.22 +5th-Ventricle 10824.89 +WM-hypointensities 9835.32 +Left-WM-hypointensities 9119.20 +Right-WM-hypointensities 6718.92 +non-WM-hypointensities 8649.46 +Left-non-WM-hypointensities 7639.15 +Right-non-WM-hypointensities 10806.56 +Optic-Chiasm 8307.95 +CC_Posterior 7269.54 +CC_Mid_Posterior 10004.16 +CC_Central 7438.31 +CC_Mid_Anterior 5747.18 +CC_Anterior 3905.40 +BrainSegVol 1089749.95 +BrainSegVolNotVent 1058562.06 +BrainSegVolNotVentSurf 1057351.60 +lhCortexVol 195829.41 +rhCortexVol 198402.52 +CortexVol 398240.99 +lhCorticalWhiteMatterVol 225317.15 +rhCorticalWhiteMatterVol 224771.63 +CorticalWhiteMatterVol 453200.90 +SubCortGrayVol 44551.22 +TotalGrayVol 549855.69 +SupraTentorialVol 956658.82 +SupraTentorialVolNotVent 918555.00 +SupraTentorialVolNotVentVox 922264.24 +MaskVol 1621804.88 +BrainSegVol-to-eTIV 7028.78 +MaskVol-to-eTIV 7308.38 +lhSurfaceHoles 12575.30 +rhSurfaceHoles 8677.65 +SurfaceHoles 6967.32 +EstimatedTotalIntraCranialVol 1588604.46 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject20_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject20_aseg_stats.txt new file mode 100755 index 000000000..091738ef9 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject20_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject20 +Left-Lateral-Ventricle 2195.22 +Left-Inf-Lat-Vent 16833.20 +Left-Cerebellum-White-Matter 2288.74 +Left-Cerebellum-Cortex 34370.92 +Left-Thalamus-Proper 8881.33 +Left-Caudate 10096.16 +Left-Putamen 14026.01 +Left-Pallidum 10049.83 +3rd-Ventricle 9286.63 +4th-Ventricle 7715.79 +Brain-Stem 8217.06 +Left-Hippocampus 6677.54 +Left-Amygdala 15618.68 +CSF 11453.54 +Left-Accumbens-area 10807.39 +Left-VentralDC 11421.06 +Left-vessel 12415.85 +Left-choroid-plexus 12632.20 +Right-Lateral-Ventricle 6308.27 +Right-Inf-Lat-Vent 10264.28 +Right-Cerebellum-White-Matter 3489.08 +Right-Cerebellum-Cortex 29494.73 +Right-Thalamus-Proper 16102.27 +Right-Caudate 6255.11 +Right-Putamen 11905.40 +Right-Pallidum 10801.91 +Right-Hippocampus 15711.01 +Right-Amygdala 13540.95 +Right-Accumbens-area 21655.96 +Right-VentralDC 8659.57 +Right-vessel 12745.69 +Right-choroid-plexus 8592.67 +5th-Ventricle 18711.27 +WM-hypointensities 17046.98 +Left-WM-hypointensities 15031.17 +Right-WM-hypointensities 12161.89 +non-WM-hypointensities 15309.35 +Left-non-WM-hypointensities 13341.01 +Right-non-WM-hypointensities 17649.75 +Optic-Chiasm 14540.31 +CC_Posterior 13713.88 +CC_Mid_Posterior 16587.76 +CC_Central 12693.31 +CC_Mid_Anterior 10990.37 +CC_Anterior 8268.37 +BrainSegVol 1081883.02 +BrainSegVolNotVent 1053388.22 +BrainSegVolNotVentSurf 1052078.33 +lhCortexVol 189735.18 +rhCortexVol 193143.92 +CortexVol 391382.71 +lhCorticalWhiteMatterVol 219224.79 +rhCorticalWhiteMatterVol 218202.31 +CorticalWhiteMatterVol 444255.14 +SubCortGrayVol 38051.85 +TotalGrayVol 543325.91 +SupraTentorialVol 951349.19 +SupraTentorialVolNotVent 910098.17 +SupraTentorialVolNotVentVox 915978.64 +MaskVol 1615022.06 +BrainSegVol-to-eTIV 12033.03 +MaskVol-to-eTIV 13426.92 +lhSurfaceHoles 20487.64 +rhSurfaceHoles 14433.60 +SurfaceHoles 12201.27 +EstimatedTotalIntraCranialVol 1579317.05 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject21_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject21_aseg_stats.txt new file mode 100755 index 000000000..93b701971 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject21_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject21 +Left-Lateral-Ventricle 6454.71 +Left-Inf-Lat-Vent 9059.55 +Left-Cerebellum-White-Matter 10786.33 +Left-Cerebellum-Cortex 42340.34 +Left-Thalamus-Proper 619.64 +Left-Caudate 2379.50 +Left-Putamen 5735.68 +Left-Pallidum 2913.28 +3rd-Ventricle 1867.01 +4th-Ventricle 1386.69 +Brain-Stem 15243.49 +Left-Hippocampus 1263.15 +Left-Amygdala 6519.67 +CSF 3947.97 +Left-Accumbens-area 3716.29 +Left-VentralDC 3306.01 +Left-vessel 4683.41 +Left-choroid-plexus 4739.15 +Right-Lateral-Ventricle 3509.40 +Right-Inf-Lat-Vent 3626.46 +Right-Cerebellum-White-Matter 11957.01 +Right-Cerebellum-Cortex 38497.00 +Right-Thalamus-Proper 6459.53 +Right-Caudate 27.45 +Right-Putamen 3926.16 +Right-Pallidum 3273.92 +Right-Hippocampus 6337.75 +Right-Amygdala 5485.71 +Right-Accumbens-area 12599.17 +Right-VentralDC 1413.30 +Right-vessel 4734.13 +Right-choroid-plexus 1998.79 +5th-Ventricle 9909.39 +WM-hypointensities 8720.23 +Left-WM-hypointensities 7661.83 +Right-WM-hypointensities 4983.52 +non-WM-hypointensities 7269.30 +Left-non-WM-hypointensities 5622.36 +Right-non-WM-hypointensities 9588.17 +Optic-Chiasm 6658.45 +CC_Posterior 5781.32 +CC_Mid_Posterior 8777.63 +CC_Central 5742.98 +CC_Mid_Anterior 3457.50 +CC_Anterior 1243.44 +BrainSegVol 1090964.63 +BrainSegVolNotVent 1060737.57 +BrainSegVolNotVentSurf 1059517.20 +lhCortexVol 197807.05 +rhCortexVol 200227.08 +CortexVol 399503.28 +lhCorticalWhiteMatterVol 226996.65 +rhCorticalWhiteMatterVol 226575.80 +CorticalWhiteMatterVol 453619.20 +SubCortGrayVol 45910.03 +TotalGrayVol 551545.27 +SupraTentorialVol 958867.91 +SupraTentorialVolNotVent 919321.19 +SupraTentorialVolNotVentVox 923870.77 +MaskVol 1623452.42 +BrainSegVol-to-eTIV 4912.50 +MaskVol-to-eTIV 5285.83 +lhSurfaceHoles 11561.81 +rhSurfaceHoles 6936.29 +SurfaceHoles 5078.60 +EstimatedTotalIntraCranialVol 1589120.56 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject22_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject22_aseg_stats.txt new file mode 100755 index 000000000..75804e8a3 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject22_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject22 +Left-Lateral-Ventricle 7658.37 +Left-Inf-Lat-Vent 7161.34 +Left-Cerebellum-White-Matter 12275.03 +Left-Cerebellum-Cortex 42844.90 +Left-Thalamus-Proper 848.92 +Left-Caudate 1746.78 +Left-Putamen 3430.92 +Left-Pallidum 2911.68 +3rd-Ventricle 1893.05 +4th-Ventricle 1636.82 +Brain-Stem 15337.56 +Left-Hippocampus 913.65 +Left-Amygdala 5219.90 +CSF 3424.29 +Left-Accumbens-area 3567.42 +Left-VentralDC 2320.31 +Left-vessel 4483.00 +Left-choroid-plexus 3831.56 +Right-Lateral-Ventricle 5934.05 +Right-Inf-Lat-Vent 3518.11 +Right-Cerebellum-White-Matter 13217.67 +Right-Cerebellum-Cortex 40468.26 +Right-Thalamus-Proper 3237.87 +Right-Caudate 264.90 +Right-Putamen 2486.74 +Right-Pallidum 3114.00 +Right-Hippocampus 4070.00 +Right-Amygdala 4636.87 +Right-Accumbens-area 9566.24 +Right-VentralDC 1114.04 +Right-vessel 4497.02 +Right-choroid-plexus 2033.51 +5th-Ventricle 7747.77 +WM-hypointensities 6665.23 +Left-WM-hypointensities 6432.56 +Right-WM-hypointensities 4474.82 +non-WM-hypointensities 5996.88 +Left-non-WM-hypointensities 5124.21 +Right-non-WM-hypointensities 7761.15 +Optic-Chiasm 5661.09 +CC_Posterior 4657.15 +CC_Mid_Posterior 7063.26 +CC_Central 5003.88 +CC_Mid_Anterior 3486.28 +CC_Anterior 1905.61 +BrainSegVol 1093103.01 +BrainSegVolNotVent 1060754.52 +BrainSegVolNotVentSurf 1059648.07 +lhCortexVol 198333.10 +rhCortexVol 200612.87 +CortexVol 401132.79 +lhCorticalWhiteMatterVol 227937.01 +rhCorticalWhiteMatterVol 227522.31 +CorticalWhiteMatterVol 456871.30 +SubCortGrayVol 47447.01 +TotalGrayVol 552561.56 +SupraTentorialVol 959074.66 +SupraTentorialVolNotVent 922028.53 +SupraTentorialVolNotVentVox 924863.14 +MaskVol 1624510.54 +BrainSegVol-to-eTIV 4675.23 +MaskVol-to-eTIV 4815.54 +lhSurfaceHoles 9125.70 +rhSurfaceHoles 6016.27 +SurfaceHoles 4643.54 +EstimatedTotalIntraCranialVol 1592207.98 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject23_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject23_aseg_stats.txt new file mode 100755 index 000000000..d0b33a5ad --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject23_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject23 +Left-Lateral-Ventricle 6732.93 +Left-Inf-Lat-Vent 8328.87 +Left-Cerebellum-White-Matter 11235.67 +Left-Cerebellum-Cortex 42226.61 +Left-Thalamus-Proper 166.94 +Left-Caudate 2392.44 +Left-Putamen 4774.50 +Left-Pallidum 3328.75 +3rd-Ventricle 2272.50 +4th-Ventricle 1909.13 +Brain-Stem 14881.14 +Left-Hippocampus 615.58 +Left-Amygdala 6203.87 +CSF 4035.40 +Left-Accumbens-area 4007.73 +Left-VentralDC 3164.53 +Left-vessel 4991.50 +Left-choroid-plexus 4591.53 +Right-Lateral-Ventricle 4486.18 +Right-Inf-Lat-Vent 3938.71 +Right-Cerebellum-White-Matter 12268.23 +Right-Cerebellum-Cortex 39220.84 +Right-Thalamus-Proper 4988.02 +Right-Caudate 540.51 +Right-Putamen 3491.95 +Right-Pallidum 3599.77 +Right-Hippocampus 5431.30 +Right-Amygdala 5430.17 +Right-Accumbens-area 11236.72 +Right-VentralDC 1657.46 +Right-vessel 5024.22 +Right-choroid-plexus 2386.37 +5th-Ventricle 9032.71 +WM-hypointensities 7931.46 +Left-WM-hypointensities 7334.26 +Right-WM-hypointensities 5054.66 +non-WM-hypointensities 6906.81 +Left-non-WM-hypointensities 5749.95 +Right-non-WM-hypointensities 8928.35 +Optic-Chiasm 6477.94 +CC_Posterior 5510.14 +CC_Mid_Posterior 8173.69 +CC_Central 5695.54 +CC_Mid_Anterior 3889.35 +CC_Anterior 2049.09 +BrainSegVol 1091775.48 +BrainSegVolNotVent 1060348.65 +BrainSegVolNotVentSurf 1059185.10 +lhCortexVol 197700.07 +rhCortexVol 200080.32 +CortexVol 400059.72 +lhCorticalWhiteMatterVol 227144.16 +rhCorticalWhiteMatterVol 226703.52 +CorticalWhiteMatterVol 455113.21 +SubCortGrayVol 46404.17 +TotalGrayVol 551727.61 +SupraTentorialVol 958564.51 +SupraTentorialVolNotVent 920488.64 +SupraTentorialVolNotVentVox 924056.71 +MaskVol 1623662.63 +BrainSegVol-to-eTIV 5184.22 +MaskVol-to-eTIV 5427.92 +lhSurfaceHoles 10570.47 +rhSurfaceHoles 6809.89 +SurfaceHoles 5213.28 +EstimatedTotalIntraCranialVol 1590517.20 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject24_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject24_aseg_stats.txt new file mode 100755 index 000000000..f54de07f6 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject24_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject24 +Left-Lateral-Ventricle 11282.77 +Left-Inf-Lat-Vent 3398.59 +Left-Cerebellum-White-Matter 16053.72 +Left-Cerebellum-Cortex 45905.39 +Left-Thalamus-Proper 4513.30 +Left-Caudate 1223.46 +Left-Putamen 642.61 +Left-Pallidum 124.68 +3rd-Ventricle 701.16 +4th-Ventricle 718.49 +Brain-Stem 18190.54 +Left-Hippocampus 3653.30 +Left-Amygdala 1408.85 +CSF 452.58 +Left-Accumbens-area 939.11 +Left-VentralDC 1225.60 +Left-vessel 1508.36 +Left-choroid-plexus 682.75 +Right-Lateral-Ventricle 10449.55 +Right-Inf-Lat-Vent 935.16 +Right-Cerebellum-White-Matter 16881.07 +Right-Cerebellum-Cortex 44609.72 +Right-Thalamus-Proper 1600.20 +Right-Caudate 2085.51 +Right-Putamen 1168.57 +Right-Pallidum 205.09 +Right-Hippocampus 200.97 +Right-Amygdala 1139.78 +Right-Accumbens-area 4858.66 +Right-VentralDC 1883.42 +Right-vessel 1475.53 +Right-choroid-plexus 401.28 +5th-Ventricle 3761.32 +WM-hypointensities 2576.50 +Left-WM-hypointensities 3021.54 +Right-WM-hypointensities 1680.44 +non-WM-hypointensities 2622.90 +Left-non-WM-hypointensities 2000.19 +Right-non-WM-hypointensities 3848.78 +Optic-Chiasm 2323.17 +CC_Posterior 1347.92 +CC_Mid_Posterior 3290.46 +CC_Central 1952.69 +CC_Mid_Anterior 728.23 +CC_Anterior 466.61 +BrainSegVol 1097424.01 +BrainSegVolNotVent 1063433.85 +BrainSegVolNotVentSurf 1062466.48 +lhCortexVol 201446.33 +rhCortexVol 203353.04 +CortexVol 404836.67 +lhCorticalWhiteMatterVol 231235.93 +rhCorticalWhiteMatterVol 230981.63 +CorticalWhiteMatterVol 461697.60 +SubCortGrayVol 51145.98 +TotalGrayVol 555973.55 +SupraTentorialVol 962046.85 +SupraTentorialVolNotVent 926556.80 +SupraTentorialVolNotVentVox 928141.94 +MaskVol 1627926.70 +BrainSegVol-to-eTIV 1775.89 +MaskVol-to-eTIV 1721.44 +lhSurfaceHoles 4655.32 +rhSurfaceHoles 2668.79 +SurfaceHoles 1759.64 +EstimatedTotalIntraCranialVol 1596935.18 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject25_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject25_aseg_stats.txt new file mode 100755 index 000000000..f6754707a --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject25_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject25 +Left-Lateral-Ventricle 7872.72 +Left-Inf-Lat-Vent 7061.12 +Left-Cerebellum-White-Matter 12454.42 +Left-Cerebellum-Cortex 43122.42 +Left-Thalamus-Proper 1018.18 +Left-Caudate 1504.42 +Left-Putamen 3369.52 +Left-Pallidum 2572.61 +3rd-Ventricle 1572.25 +4th-Ventricle 1302.85 +Brain-Stem 15667.22 +Left-Hippocampus 1313.16 +Left-Amygdala 5000.95 +CSF 3161.18 +Left-Accumbens-area 3275.45 +Left-VentralDC 2074.41 +Left-vessel 4158.58 +Left-choroid-plexus 3619.29 +Right-Lateral-Ventricle 6026.65 +Right-Inf-Lat-Vent 3224.02 +Right-Cerebellum-White-Matter 13426.02 +Right-Cerebellum-Cortex 40600.82 +Right-Thalamus-Proper 3256.28 +Right-Caudate 66.08 +Right-Putamen 2313.08 +Right-Pallidum 2789.95 +Right-Hippocampus 3977.58 +Right-Amygdala 4371.11 +Right-Accumbens-area 9564.95 +Right-VentralDC 805.48 +Right-vessel 4173.81 +Right-choroid-plexus 1730.49 +5th-Ventricle 7669.99 +WM-hypointensities 6554.88 +Left-WM-hypointensities 6249.02 +Right-WM-hypointensities 4230.49 +non-WM-hypointensities 5825.99 +Left-non-WM-hypointensities 4837.75 +Right-non-WM-hypointensities 7629.28 +Optic-Chiasm 5442.72 +CC_Posterior 4466.19 +CC_Mid_Posterior 6927.15 +CC_Central 4771.72 +CC_Mid_Anterior 3145.02 +CC_Anterior 1491.88 +BrainSegVol 1093225.92 +BrainSegVolNotVent 1061077.58 +BrainSegVolNotVentSurf 1059966.58 +lhCortexVol 198612.98 +rhCortexVol 200873.78 +CortexVol 401276.51 +lhCorticalWhiteMatterVol 228161.38 +rhCorticalWhiteMatterVol 227765.05 +CorticalWhiteMatterVol 456845.71 +SubCortGrayVol 47607.58 +TotalGrayVol 552785.38 +SupraTentorialVol 959397.59 +SupraTentorialVolNotVent 922069.38 +SupraTentorialVolNotVentVox 925075.25 +MaskVol 1624726.98 +BrainSegVol-to-eTIV 4366.93 +MaskVol-to-eTIV 4527.46 +lhSurfaceHoles 9040.75 +rhSurfaceHoles 5782.15 +SurfaceHoles 4374.42 +EstimatedTotalIntraCranialVol 1592201.38 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject26_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject26_aseg_stats.txt new file mode 100755 index 000000000..ceb97135e --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject26_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject26 +Left-Lateral-Ventricle 1623.79 +Left-Inf-Lat-Vent 16065.45 +Left-Cerebellum-White-Matter 2947.40 +Left-Cerebellum-Cortex 34715.73 +Left-Thalamus-Proper 8235.90 +Left-Caudate 9723.03 +Left-Putamen 13127.64 +Left-Pallidum 9859.01 +3rd-Ventricle 9116.43 +4th-Ventricle 7622.20 +Brain-Stem 8437.25 +Left-Hippocampus 6584.43 +Left-Amygdala 15008.64 +CSF 11109.65 +Left-Accumbens-area 10587.80 +Left-VentralDC 10913.64 +Left-vessel 12158.73 +Left-choroid-plexus 12172.92 +Right-Lateral-Ventricle 5347.46 +Right-Inf-Lat-Vent 10058.69 +Right-Cerebellum-White-Matter 4078.51 +Right-Cerebellum-Cortex 30308.00 +Right-Thalamus-Proper 14904.99 +Right-Caudate 6158.44 +Right-Putamen 11268.43 +Right-Pallidum 10560.18 +Right-Hippocampus 14809.12 +Right-Amygdala 13073.68 +Right-Accumbens-area 20518.37 +Right-VentralDC 8374.30 +Right-vessel 12475.49 +Right-choroid-plexus 8435.69 +5th-Ventricle 17857.37 +WM-hypointensities 16214.78 +Left-WM-hypointensities 14467.42 +Right-WM-hypointensities 11834.14 +non-WM-hypointensities 14736.53 +Left-non-WM-hypointensities 12993.58 +Right-non-WM-hypointensities 16890.93 +Optic-Chiasm 14043.95 +CC_Posterior 13185.37 +CC_Mid_Posterior 15868.78 +CC_Central 12286.03 +CC_Mid_Anterior 10809.72 +CC_Anterior 8284.49 +BrainSegVol 1082753.52 +BrainSegVolNotVent 1053575.80 +BrainSegVolNotVentSurf 1052306.07 +lhCortexVol 190089.38 +rhCortexVol 193434.90 +CortexVol 392074.15 +lhCorticalWhiteMatterVol 219703.15 +rhCorticalWhiteMatterVol 218693.28 +CorticalWhiteMatterVol 445459.80 +SubCortGrayVol 38718.05 +TotalGrayVol 543832.42 +SupraTentorialVol 951607.85 +SupraTentorialVolNotVent 911135.91 +SupraTentorialVolNotVentVox 916469.62 +MaskVol 1615540.11 +BrainSegVol-to-eTIV 11771.14 +MaskVol-to-eTIV 13089.03 +lhSurfaceHoles 19526.83 +rhSurfaceHoles 13957.40 +SurfaceHoles 11887.22 +EstimatedTotalIntraCranialVol 1580470.64 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject27_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject27_aseg_stats.txt new file mode 100755 index 000000000..29fe06e43 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject27_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject27 +Left-Lateral-Ventricle 7412.65 +Left-Inf-Lat-Vent 6702.25 +Left-Cerebellum-White-Matter 12361.94 +Left-Cerebellum-Cortex 42360.60 +Left-Thalamus-Proper 893.18 +Left-Caudate 2307.63 +Left-Putamen 2998.13 +Left-Pallidum 2884.47 +3rd-Ventricle 2623.55 +4th-Ventricle 1720.90 +Brain-Stem 15574.33 +Left-Hippocampus 281.48 +Left-Amygdala 5507.79 +CSF 3687.51 +Left-Accumbens-area 4014.50 +Left-VentralDC 2067.52 +Left-vessel 4720.19 +Left-choroid-plexus 4318.35 +Right-Lateral-Ventricle 5884.77 +Right-Inf-Lat-Vent 3597.81 +Right-Cerebellum-White-Matter 13210.95 +Right-Cerebellum-Cortex 40616.87 +Right-Thalamus-Proper 2887.91 +Right-Caudate 269.77 +Right-Putamen 2161.24 +Right-Pallidum 3285.00 +Right-Hippocampus 4184.46 +Right-Amygdala 4345.88 +Right-Accumbens-area 8822.55 +Right-VentralDC 881.43 +Right-vessel 4920.74 +Right-choroid-plexus 2341.54 +5th-Ventricle 7941.76 +WM-hypointensities 6040.22 +Left-WM-hypointensities 5965.70 +Right-WM-hypointensities 4855.36 +non-WM-hypointensities 6328.70 +Left-non-WM-hypointensities 5189.56 +Right-non-WM-hypointensities 7151.32 +Optic-Chiasm 5718.66 +CC_Posterior 4935.43 +CC_Mid_Posterior 6475.27 +CC_Central 4671.05 +CC_Mid_Anterior 3906.75 +CC_Anterior 2329.31 +BrainSegVol 1093507.01 +BrainSegVolNotVent 1060280.46 +BrainSegVolNotVentSurf 1059355.57 +lhCortexVol 197865.61 +rhCortexVol 200281.47 +CortexVol 401297.55 +lhCorticalWhiteMatterVol 227932.44 +rhCorticalWhiteMatterVol 227323.82 +CorticalWhiteMatterVol 457446.57 +SubCortGrayVol 47931.76 +TotalGrayVol 552342.55 +SupraTentorialVol 959040.08 +SupraTentorialVolNotVent 922392.14 +SupraTentorialVolNotVentVox 924647.13 +MaskVol 1624059.51 +BrainSegVol-to-eTIV 4522.06 +MaskVol-to-eTIV 5359.12 +lhSurfaceHoles 8407.86 +rhSurfaceHoles 5606.01 +SurfaceHoles 4682.34 +EstimatedTotalIntraCranialVol 1592214.04 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject28_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject28_aseg_stats.txt new file mode 100755 index 000000000..39a2ab44b --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject28_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject28 +Left-Lateral-Ventricle 2652.26 +Left-Inf-Lat-Vent 11596.89 +Left-Cerebellum-White-Matter 7416.03 +Left-Cerebellum-Cortex 38303.40 +Left-Thalamus-Proper 3901.31 +Left-Caudate 6234.71 +Left-Putamen 8278.75 +Left-Pallidum 6612.61 +3rd-Ventricle 6095.83 +4th-Ventricle 4889.99 +Brain-Stem 11764.68 +Left-Hippocampus 3409.03 +Left-Amygdala 10510.83 +CSF 7624.53 +Left-Accumbens-area 7519.59 +Left-VentralDC 6738.85 +Left-vessel 8684.80 +Left-choroid-plexus 8464.20 +Right-Lateral-Ventricle 21.67 +Right-Inf-Lat-Vent 7045.17 +Right-Cerebellum-White-Matter 8402.56 +Right-Cerebellum-Cortex 35220.97 +Right-Thalamus-Proper 9124.17 +Right-Caudate 3431.37 +Right-Putamen 6945.73 +Right-Pallidum 7164.64 +Right-Hippocampus 9731.91 +Right-Amygdala 8961.93 +Right-Accumbens-area 14898.07 +Right-VentralDC 4869.33 +Right-vessel 8945.33 +Right-choroid-plexus 5601.18 +5th-Ventricle 13116.36 +WM-hypointensities 11359.45 +Left-WM-hypointensities 10438.76 +Right-WM-hypointensities 8556.26 +non-WM-hypointensities 10749.06 +Left-non-WM-hypointensities 9332.21 +Right-non-WM-hypointensities 12251.31 +Optic-Chiasm 10110.90 +CC_Posterior 9280.02 +CC_Mid_Posterior 11396.81 +CC_Central 8698.62 +CC_Mid_Anterior 7598.40 +CC_Anterior 5551.18 +BrainSegVol 1087883.17 +BrainSegVolNotVent 1056697.48 +BrainSegVolNotVentSurf 1055594.88 +lhCortexVol 193739.44 +rhCortexVol 196644.09 +CortexVol 396462.00 +lhCorticalWhiteMatterVol 223588.20 +rhCorticalWhiteMatterVol 222765.44 +CorticalWhiteMatterVol 451228.28 +SubCortGrayVol 43096.01 +TotalGrayVol 547852.60 +SupraTentorialVol 955079.21 +SupraTentorialVolNotVent 916532.66 +SupraTentorialVolNotVentVox 920333.59 +MaskVol 1619567.04 +BrainSegVol-to-eTIV 8383.25 +MaskVol-to-eTIV 9463.77 +lhSurfaceHoles 14209.74 +rhSurfaceHoles 10016.70 +SurfaceHoles 8508.39 +EstimatedTotalIntraCranialVol 1586116.26 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject29_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject29_aseg_stats.txt new file mode 100755 index 000000000..3cd76d1ae --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject29_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject29 +Left-Lateral-Ventricle 10030.67 +Left-Inf-Lat-Vent 4720.96 +Left-Cerebellum-White-Matter 14740.22 +Left-Cerebellum-Cortex 44865.85 +Left-Thalamus-Proper 3238.68 +Left-Caudate 209.62 +Left-Putamen 797.64 +Left-Pallidum 1055.45 +3rd-Ventricle 164.27 +4th-Ventricle 59.39 +Brain-Stem 17234.53 +Left-Hippocampus 2750.51 +Left-Amygdala 2726.60 +CSF 1463.13 +Left-Accumbens-area 1821.99 +Left-VentralDC 7.27 +Left-vessel 2508.69 +Left-choroid-plexus 1765.75 +Right-Lateral-Ventricle 8857.55 +Right-Inf-Lat-Vent 1801.49 +Right-Cerebellum-White-Matter 15613.97 +Right-Cerebellum-Cortex 43158.34 +Right-Thalamus-Proper 127.15 +Right-Caudate 1308.82 +Right-Putamen 102.02 +Right-Pallidum 1182.06 +Right-Hippocampus 1303.93 +Right-Amygdala 2337.06 +Right-Accumbens-area 6535.89 +Right-VentralDC 872.04 +Right-vessel 2492.77 +Right-choroid-plexus 410.61 +5th-Ventricle 5167.53 +WM-hypointensities 4013.17 +Left-WM-hypointensities 4203.26 +Right-WM-hypointensities 2631.26 +non-WM-hypointensities 3793.75 +Left-non-WM-hypointensities 3060.73 +Right-non-WM-hypointensities 5218.65 +Optic-Chiasm 3472.44 +CC_Posterior 2492.01 +CC_Mid_Posterior 4609.82 +CC_Central 2997.25 +CC_Mid_Anterior 1648.28 +CC_Anterior 302.63 +BrainSegVol 1095906.89 +BrainSegVolNotVent 1062538.51 +BrainSegVolNotVentSurf 1061520.74 +lhCortexVol 200388.43 +rhCortexVol 202424.59 +CortexVol 403543.28 +lhCorticalWhiteMatterVol 230101.66 +rhCorticalWhiteMatterVol 229793.58 +CorticalWhiteMatterVol 459973.12 +SubCortGrayVol 49857.43 +TotalGrayVol 554798.89 +SupraTentorialVol 961047.12 +SupraTentorialVolNotVent 924950.74 +SupraTentorialVolNotVentVox 927012.58 +MaskVol 1626749.20 +BrainSegVol-to-eTIV 2752.35 +MaskVol-to-eTIV 2771.02 +lhSurfaceHoles 6232.65 +rhSurfaceHoles 3818.57 +SurfaceHoles 2737.80 +EstimatedTotalIntraCranialVol 1595249.51 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject2_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject2_aseg_stats.txt new file mode 100755 index 000000000..b93599557 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject2_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject2 +Left-Lateral-Ventricle 3443.66 +Left-Inf-Lat-Vent 11209.90 +Left-Cerebellum-White-Matter 8084.44 +Left-Cerebellum-Cortex 39314.63 +Left-Thalamus-Proper 3269.79 +Left-Caudate 5349.14 +Left-Putamen 8027.16 +Left-Pallidum 5384.94 +3rd-Ventricle 4934.63 +4th-Ventricle 3683.96 +Brain-Stem 12959.49 +Left-Hippocampus 1966.96 +Left-Amygdala 9701.55 +CSF 6665.26 +Left-Accumbens-area 6460.56 +Left-VentralDC 5836.01 +Left-vessel 7507.61 +Left-choroid-plexus 7684.09 +Right-Lateral-Ventricle 387.78 +Right-Inf-Lat-Vent 5978.99 +Right-Cerebellum-White-Matter 9172.96 +Right-Cerebellum-Cortex 35725.98 +Right-Thalamus-Proper 9149.90 +Right-Caudate 2236.00 +Right-Putamen 6298.68 +Right-Pallidum 5989.30 +Right-Hippocampus 9368.48 +Right-Amygdala 7988.90 +Right-Accumbens-area 14854.87 +Right-VentralDC 3748.32 +Right-vessel 7772.09 +Right-choroid-plexus 4504.45 +5th-Ventricle 12807.25 +WM-hypointensities 10933.80 +Left-WM-hypointensities 9758.61 +Right-WM-hypointensities 7665.13 +non-WM-hypointensities 10114.14 +Left-non-WM-hypointensities 8288.67 +Right-non-WM-hypointensities 11750.66 +Optic-Chiasm 9307.58 +CC_Posterior 8574.32 +CC_Mid_Posterior 10882.20 +CC_Central 7848.66 +CC_Mid_Anterior 6363.13 +CC_Anterior 4061.59 +BrainSegVol 1088355.35 +BrainSegVolNotVent 1057867.39 +BrainSegVolNotVentSurf 1056749.77 +lhCortexVol 194759.52 +rhCortexVol 197593.68 +CortexVol 397003.09 +lhCorticalWhiteMatterVol 224412.52 +rhCorticalWhiteMatterVol 223656.37 +CorticalWhiteMatterVol 451176.96 +SubCortGrayVol 43696.94 +TotalGrayVol 548675.90 +SupraTentorialVol 956251.07 +SupraTentorialVolNotVent 916714.98 +SupraTentorialVolNotVentVox 921114.20 +MaskVol 1620364.15 +BrainSegVol-to-eTIV 7263.96 +MaskVol-to-eTIV 8414.76 +lhSurfaceHoles 13871.21 +rhSurfaceHoles 9157.34 +SurfaceHoles 7528.44 +EstimatedTotalIntraCranialVol 1586131.60 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject30_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject30_aseg_stats.txt new file mode 100755 index 000000000..c4927a29c --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject30_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject30 +Left-Lateral-Ventricle 10136.87 +Left-Inf-Lat-Vent 4318.31 +Left-Cerebellum-White-Matter 14956.35 +Left-Cerebellum-Cortex 44724.80 +Left-Thalamus-Proper 3459.48 +Left-Caudate 137.20 +Left-Putamen 249.13 +Left-Pallidum 1390.31 +3rd-Ventricle 488.38 +4th-Ventricle 455.76 +Brain-Stem 16933.41 +Left-Hippocampus 2263.07 +Left-Amygdala 2599.55 +CSF 1584.87 +Left-Accumbens-area 2071.36 +Left-VentralDC 24.67 +Left-vessel 2776.52 +Left-choroid-plexus 1735.75 +Right-Lateral-Ventricle 9406.89 +Right-Inf-Lat-Vent 2063.66 +Right-Cerebellum-White-Matter 15741.17 +Right-Cerebellum-Cortex 43548.33 +Right-Thalamus-Proper 742.64 +Right-Caudate 918.76 +Right-Putamen 106.74 +Right-Pallidum 1460.23 +Right-Hippocampus 795.88 +Right-Amygdala 2375.48 +Right-Accumbens-area 5735.47 +Right-VentralDC 646.03 +Right-vessel 2749.70 +Right-choroid-plexus 719.44 +5th-Ventricle 4673.07 +WM-hypointensities 3579.09 +Left-WM-hypointensities 4059.82 +Right-WM-hypointensities 2738.41 +non-WM-hypointensities 3626.39 +Left-non-WM-hypointensities 3212.32 +Right-non-WM-hypointensities 4866.10 +Optic-Chiasm 3424.74 +CC_Posterior 2383.69 +CC_Mid_Posterior 4291.25 +CC_Central 3031.45 +CC_Mid_Anterior 1993.35 +CC_Anterior 886.79 +BrainSegVol 1096350.59 +BrainSegVolNotVent 1062223.53 +BrainSegVolNotVentSurf 1061240.37 +lhCortexVol 200250.71 +rhCortexVol 202268.56 +CortexVol 403831.89 +lhCorticalWhiteMatterVol 230128.36 +rhCorticalWhiteMatterVol 229803.74 +CorticalWhiteMatterVol 460858.06 +SubCortGrayVol 50104.92 +TotalGrayVol 554846.20 +SupraTentorialVol 960782.44 +SupraTentorialVolNotVent 925625.98 +SupraTentorialVolNotVentVox 927065.15 +MaskVol 1626814.87 +BrainSegVol-to-eTIV 2994.50 +MaskVol-to-eTIV 2931.57 +lhSurfaceHoles 5672.71 +rhSurfaceHoles 3806.89 +SurfaceHoles 2888.93 +EstimatedTotalIntraCranialVol 1596072.13 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject31_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject31_aseg_stats.txt new file mode 100755 index 000000000..27d5a537a --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject31_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject31 +Left-Lateral-Ventricle 8184.60 +Left-Inf-Lat-Vent 5846.45 +Left-Cerebellum-White-Matter 13186.36 +Left-Cerebellum-Cortex 42969.53 +Left-Thalamus-Proper 1694.75 +Left-Caudate 1704.66 +Left-Putamen 2050.70 +Left-Pallidum 2368.35 +3rd-Ventricle 2145.44 +4th-Ventricle 1305.81 +Brain-Stem 16110.41 +Left-Hippocampus 759.39 +Left-Amygdala 4693.22 +CSF 3093.41 +Left-Accumbens-area 3515.41 +Left-VentralDC 1328.38 +Left-vessel 4152.66 +Left-choroid-plexus 3659.28 +Right-Lateral-Ventricle 6924.08 +Right-Inf-Lat-Vent 3110.52 +Right-Cerebellum-White-Matter 13994.90 +Right-Cerebellum-Cortex 41548.91 +Right-Thalamus-Proper 1722.05 +Right-Caudate 145.48 +Right-Putamen 1363.80 +Right-Pallidum 2733.04 +Right-Hippocampus 3203.58 +Right-Amygdala 3627.25 +Right-Accumbens-area 7696.68 +Right-VentralDC 301.39 +Right-vessel 4341.46 +Right-choroid-plexus 1893.67 +5th-Ventricle 7022.45 +WM-hypointensities 5110.92 +Left-WM-hypointensities 5231.11 +Right-WM-hypointensities 4295.35 +non-WM-hypointensities 5597.34 +Left-non-WM-hypointensities 4569.41 +Right-non-WM-hypointensities 6273.79 +Optic-Chiasm 5017.05 +CC_Posterior 4228.50 +CC_Mid_Posterior 5633.03 +CC_Central 4044.18 +CC_Mid_Anterior 3398.53 +CC_Anterior 1945.64 +BrainSegVol 1094486.31 +BrainSegVolNotVent 1060777.94 +BrainSegVolNotVentSurf 1059888.34 +lhCortexVol 198486.10 +rhCortexVol 200821.13 +CortexVol 402119.92 +lhCorticalWhiteMatterVol 228622.05 +rhCorticalWhiteMatterVol 228043.65 +CorticalWhiteMatterVol 458612.81 +SubCortGrayVol 48745.47 +TotalGrayVol 553059.46 +SupraTentorialVol 959607.68 +SupraTentorialVolNotVent 923457.52 +SupraTentorialVolNotVentVox 925337.37 +MaskVol 1624780.70 +BrainSegVol-to-eTIV 3965.38 +MaskVol-to-eTIV 4746.84 +lhSurfaceHoles 7375.94 +rhSurfaceHoles 4909.11 +SurfaceHoles 4111.94 +EstimatedTotalIntraCranialVol 1593348.12 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject32_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject32_aseg_stats.txt new file mode 100755 index 000000000..a1b8fa771 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject32_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject32 +Left-Lateral-Ventricle 2870.63 +Left-Inf-Lat-Vent 13096.06 +Left-Cerebellum-White-Matter 6935.91 +Left-Cerebellum-Cortex 39562.94 +Left-Thalamus-Proper 4365.71 +Left-Caudate 5144.59 +Left-Putamen 10227.12 +Left-Pallidum 5219.69 +3rd-Ventricle 4000.48 +4th-Ventricle 3213.47 +Brain-Stem 12837.50 +Left-Hippocampus 833.24 +Left-Amygdala 10304.94 +CSF 6661.23 +Left-Accumbens-area 5963.07 +Left-VentralDC 6719.10 +Left-vessel 7241.78 +Left-choroid-plexus 7785.72 +Right-Lateral-Ventricle 1406.02 +Right-Inf-Lat-Vent 5815.99 +Right-Cerebellum-White-Matter 8312.93 +Right-Cerebellum-Cortex 34111.65 +Right-Thalamus-Proper 12029.62 +Right-Caudate 1856.35 +Right-Putamen 7650.53 +Right-Pallidum 5758.22 +Right-Hippocampus 10974.52 +Right-Amygdala 8791.83 +Right-Accumbens-area 17969.46 +Right-VentralDC 4038.65 +Right-vessel 7349.12 +Right-choroid-plexus 3996.15 +5th-Ventricle 14259.14 +WM-hypointensities 13102.70 +Left-WM-hypointensities 11081.85 +Right-WM-hypointensities 7542.78 +non-WM-hypointensities 10679.68 +Left-non-WM-hypointensities 8449.19 +Right-non-WM-hypointensities 13713.82 +Optic-Chiasm 9905.15 +CC_Posterior 9066.00 +CC_Mid_Posterior 12733.00 +CC_Central 8626.81 +CC_Mid_Anterior 5725.18 +CC_Anterior 2883.71 +BrainSegVol 1086349.43 +BrainSegVolNotVent 1058512.77 +BrainSegVolNotVentSurf 1057121.91 +lhCortexVol 194975.57 +rhCortexVol 197772.47 +CortexVol 395646.22 +lhCorticalWhiteMatterVol 223809.95 +rhCorticalWhiteMatterVol 223253.41 +CorticalWhiteMatterVol 448044.04 +SubCortGrayVol 42102.06 +TotalGrayVol 548228.08 +SupraTentorialVol 956308.48 +SupraTentorialVolNotVent 914257.66 +SupraTentorialVolNotVentVox 920675.40 +MaskVol 1620111.43 +BrainSegVol-to-eTIV 7426.51 +MaskVol-to-eTIV 8074.35 +lhSurfaceHoles 16445.47 +rhSurfaceHoles 10153.27 +SurfaceHoles 7676.08 +EstimatedTotalIntraCranialVol 1583707.52 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject33_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject33_aseg_stats.txt new file mode 100755 index 000000000..f7cf58fb4 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject33_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject33 +Left-Lateral-Ventricle 6583.87 +Left-Inf-Lat-Vent 8371.65 +Left-Cerebellum-White-Matter 11120.63 +Left-Cerebellum-Cortex 42012.39 +Left-Thalamus-Proper 274.21 +Left-Caudate 2575.65 +Left-Putamen 4777.69 +Left-Pallidum 3602.87 +3rd-Ventricle 2532.41 +4th-Ventricle 2184.20 +Brain-Stem 14616.49 +Left-Hippocampus 285.51 +Left-Amygdala 6354.72 +CSF 4237.58 +Left-Accumbens-area 4240.80 +Left-VentralDC 3343.48 +Left-vessel 5249.77 +Left-choroid-plexus 4744.87 +Right-Lateral-Ventricle 4460.17 +Right-Inf-Lat-Vent 4174.31 +Right-Cerebellum-White-Matter 12125.17 +Right-Cerebellum-Cortex 39153.39 +Right-Thalamus-Proper 4908.21 +Right-Caudate 812.92 +Right-Putamen 3603.36 +Right-Pallidum 3858.56 +Right-Hippocampus 5460.32 +Right-Amygdala 5627.94 +Right-Accumbens-area 11176.64 +Right-VentralDC 1900.91 +Right-vessel 5280.77 +Right-choroid-plexus 2632.08 +5th-Ventricle 9052.04 +WM-hypointensities 7979.27 +Left-WM-hypointensities 7457.89 +Right-WM-hypointensities 5241.96 +non-WM-hypointensities 7019.34 +Left-non-WM-hypointensities 5971.54 +Right-non-WM-hypointensities 8998.14 +Optic-Chiasm 6634.40 +CC_Posterior 5641.88 +CC_Mid_Posterior 8249.20 +CC_Central 5868.36 +CC_Mid_Anterior 4165.86 +CC_Anterior 2396.96 +BrainSegVol 1091719.20 +BrainSegVolNotVent 1060087.78 +BrainSegVolNotVentSurf 1058930.20 +lhCortexVol 197484.37 +rhCortexVol 199877.13 +CortexVol 399976.35 +lhCorticalWhiteMatterVol 226981.70 +rhCorticalWhiteMatterVol 226526.33 +CorticalWhiteMatterVol 455199.44 +SubCortGrayVol 46305.31 +TotalGrayVol 551567.12 +SupraTentorialVol 958307.57 +SupraTentorialVolNotVent 920510.17 +SupraTentorialVolNotVentVox 923905.20 +MaskVol 1623508.95 +BrainSegVol-to-eTIV 5428.72 +MaskVol-to-eTIV 5651.37 +lhSurfaceHoles 10590.06 +rhSurfaceHoles 6980.65 +SurfaceHoles 5422.11 +EstimatedTotalIntraCranialVol 1590584.75 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject34_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject34_aseg_stats.txt new file mode 100755 index 000000000..f0c4e61fe --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject34_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject34 +Left-Lateral-Ventricle 6857.86 +Left-Inf-Lat-Vent 7423.82 +Left-Cerebellum-White-Matter 11645.42 +Left-Cerebellum-Cortex 41720.26 +Left-Thalamus-Proper 260.16 +Left-Caudate 2712.87 +Left-Putamen 3496.11 +Left-Pallidum 4337.19 +3rd-Ventricle 3244.10 +4th-Ventricle 3062.00 +Brain-Stem 13959.32 +Left-Hippocampus 795.41 +Left-Amygdala 6031.71 +CSF 4486.70 +Left-Accumbens-area 4782.60 +Left-VentralDC 3271.69 +Left-vessel 5830.31 +Left-choroid-plexus 4648.10 +Right-Lateral-Ventricle 5747.66 +Right-Inf-Lat-Vent 4745.57 +Right-Cerebellum-White-Matter 12447.16 +Right-Cerebellum-Cortex 40075.93 +Right-Thalamus-Proper 2890.73 +Right-Caudate 1676.45 +Right-Putamen 3096.40 +Right-Pallidum 4463.14 +Right-Hippocampus 4268.73 +Right-Amygdala 5683.23 +Right-Accumbens-area 9317.73 +Right-VentralDC 2386.37 +Right-vessel 5836.13 +Right-choroid-plexus 3310.54 +5th-Ventricle 7893.87 +WM-hypointensities 6957.15 +Left-WM-hypointensities 7101.35 +Right-WM-hypointensities 5459.59 +non-WM-hypointensities 6608.89 +Left-non-WM-hypointensities 6287.00 +Right-non-WM-hypointensities 8162.63 +Optic-Chiasm 6495.75 +CC_Posterior 5365.96 +CC_Mid_Posterior 7492.05 +CC_Central 5918.14 +CC_Mid_Anterior 4923.62 +CC_Anterior 3700.65 +BrainSegVol 1092765.26 +BrainSegVolNotVent 1059397.59 +BrainSegVolNotVentSurf 1058319.81 +lhCortexVol 197200.29 +rhCortexVol 199548.12 +CortexVol 400664.92 +lhCorticalWhiteMatterVol 227072.35 +rhCorticalWhiteMatterVol 226580.90 +CorticalWhiteMatterVol 457251.16 +SubCortGrayVol 46900.52 +TotalGrayVol 551705.56 +SupraTentorialVol 957734.17 +SupraTentorialVolNotVent 922083.42 +SupraTentorialVolNotVentVox 924054.35 +MaskVol 1623689.08 +BrainSegVol-to-eTIV 5951.68 +MaskVol-to-eTIV 5987.42 +lhSurfaceHoles 9278.93 +rhSurfaceHoles 6923.63 +SurfaceHoles 5738.69 +EstimatedTotalIntraCranialVol 1592494.21 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject35_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject35_aseg_stats.txt new file mode 100755 index 000000000..cad38fa96 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject35_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject35 +Left-Lateral-Ventricle 2921.73 +Left-Inf-Lat-Vent 18015.07 +Left-Cerebellum-White-Matter 1291.51 +Left-Cerebellum-Cortex 33808.11 +Left-Thalamus-Proper 9797.38 +Left-Caudate 10488.35 +Left-Putamen 15130.90 +Left-Pallidum 11232.87 +3rd-Ventricle 9644.18 +4th-Ventricle 8719.64 +Brain-Stem 6837.93 +Left-Hippocampus 7336.68 +Left-Amygdala 16338.01 +CSF 12192.13 +Left-Accumbens-area 11385.24 +Left-VentralDC 12709.81 +Left-vessel 13324.52 +Left-choroid-plexus 13051.09 +Right-Lateral-Ventricle 7061.54 +Right-Inf-Lat-Vent 11208.57 +Right-Cerebellum-White-Matter 2532.57 +Right-Cerebellum-Cortex 28498.48 +Right-Thalamus-Proper 17036.50 +Right-Caudate 7330.52 +Right-Putamen 13111.79 +Right-Pallidum 11767.38 +Right-Hippocampus 16366.95 +Right-Amygdala 14908.11 +Right-Accumbens-area 23013.15 +Right-VentralDC 10003.82 +Right-vessel 13471.05 +Right-choroid-plexus 9310.36 +5th-Ventricle 19216.52 +WM-hypointensities 18460.76 +Left-WM-hypointensities 16370.38 +Right-WM-hypointensities 12716.20 +non-WM-hypointensities 15815.46 +Left-non-WM-hypointensities 14351.96 +Right-non-WM-hypointensities 19075.88 +Optic-Chiasm 15427.23 +CC_Posterior 14312.15 +CC_Mid_Posterior 17983.92 +CC_Central 13965.76 +CC_Mid_Anterior 11727.16 +CC_Anterior 9121.66 +BrainSegVol 1080630.70 +BrainSegVolNotVent 1052757.91 +BrainSegVolNotVentSurf 1051259.09 +lhCortexVol 189143.17 +rhCortexVol 192508.67 +CortexVol 390400.90 +lhCorticalWhiteMatterVol 218275.87 +rhCorticalWhiteMatterVol 217383.45 +CorticalWhiteMatterVol 443113.93 +SubCortGrayVol 36711.18 +TotalGrayVol 542578.06 +SupraTentorialVol 950241.73 +SupraTentorialVolNotVent 909051.60 +SupraTentorialVolNotVentVox 915272.48 +MaskVol 1614522.98 +BrainSegVol-to-eTIV 13284.53 +MaskVol-to-eTIV 13959.54 +lhSurfaceHoles 21984.24 +rhSurfaceHoles 15826.49 +SurfaceHoles 13167.00 +EstimatedTotalIntraCranialVol 1578713.42 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject36_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject36_aseg_stats.txt new file mode 100755 index 000000000..ac4227e34 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject36_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject36 +Left-Lateral-Ventricle 4153.04 +Left-Inf-Lat-Vent 9658.17 +Left-Cerebellum-White-Matter 9117.92 +Left-Cerebellum-Cortex 39270.31 +Left-Thalamus-Proper 2236.29 +Left-Caudate 5212.38 +Left-Putamen 6033.30 +Left-Pallidum 6000.83 +3rd-Ventricle 5542.52 +4th-Ventricle 4520.56 +Brain-Stem 12445.20 +Left-Hippocampus 3013.67 +Left-Amygdala 8912.73 +CSF 6665.86 +Left-Accumbens-area 6856.16 +Left-VentralDC 5383.19 +Left-vessel 7915.21 +Left-choroid-plexus 7241.40 +Right-Lateral-Ventricle 2434.34 +Right-Inf-Lat-Vent 6415.46 +Right-Cerebellum-White-Matter 9945.34 +Right-Cerebellum-Cortex 37285.58 +Right-Thalamus-Proper 6173.05 +Right-Caudate 3055.57 +Right-Putamen 5299.80 +Right-Pallidum 6433.22 +Right-Hippocampus 7464.91 +Right-Amygdala 7697.28 +Right-Accumbens-area 12086.31 +Right-VentralDC 4036.72 +Right-vessel 8143.94 +Right-choroid-plexus 5087.91 +5th-Ventricle 10974.02 +WM-hypointensities 9257.26 +Left-WM-hypointensities 8969.71 +Right-WM-hypointensities 7645.26 +non-WM-hypointensities 9262.80 +Left-non-WM-hypointensities 8355.15 +Right-non-WM-hypointensities 10321.57 +Optic-Chiasm 8793.98 +CC_Posterior 7894.95 +CC_Mid_Posterior 9563.77 +CC_Central 7596.11 +CC_Mid_Anterior 7010.79 +CC_Anterior 5419.86 +BrainSegVol 1090085.20 +BrainSegVolNotVent 1057294.67 +BrainSegVolNotVentSurf 1056289.42 +lhCortexVol 194730.51 +rhCortexVol 197471.08 +CortexVol 398230.14 +lhCorticalWhiteMatterVol 224863.12 +rhCorticalWhiteMatterVol 224079.13 +CorticalWhiteMatterVol 454194.69 +SubCortGrayVol 44808.76 +TotalGrayVol 549196.87 +SupraTentorialVol 955851.99 +SupraTentorialVolNotVent 919114.04 +SupraTentorialVolNotVentVox 921634.63 +MaskVol 1620936.77 +BrainSegVol-to-eTIV 7608.53 +MaskVol-to-eTIV 8509.62 +lhSurfaceHoles 11800.23 +rhSurfaceHoles 8743.07 +SurfaceHoles 7620.98 +EstimatedTotalIntraCranialVol 1588964.30 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject37_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject37_aseg_stats.txt new file mode 100755 index 000000000..fed1fc787 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject37_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject37 +Left-Lateral-Ventricle 543.50 +Left-Inf-Lat-Vent 16187.92 +Left-Cerebellum-White-Matter 3539.60 +Left-Cerebellum-Cortex 36322.83 +Left-Thalamus-Proper 7641.92 +Left-Caudate 8189.33 +Left-Putamen 13400.04 +Left-Pallidum 8489.76 +3rd-Ventricle 7063.56 +4th-Ventricle 6152.53 +Brain-Stem 9554.52 +Left-Hippocampus 4292.74 +Left-Amygdala 13871.08 +CSF 9783.77 +Left-Accumbens-area 8944.13 +Left-VentralDC 10193.19 +Left-vessel 10593.36 +Left-choroid-plexus 10848.24 +Right-Lateral-Ventricle 5014.04 +Right-Inf-Lat-Vent 8772.05 +Right-Cerebellum-White-Matter 4892.80 +Right-Cerebellum-Cortex 30626.28 +Right-Thalamus-Proper 15460.07 +Right-Caudate 4780.79 +Right-Putamen 10936.43 +Right-Pallidum 9060.89 +Right-Hippocampus 14405.01 +Right-Amygdala 12304.13 +Right-Accumbens-area 21378.46 +Right-VentralDC 7348.02 +Right-vessel 10730.07 +Right-choroid-plexus 6878.17 +5th-Ventricle 17429.74 +WM-hypointensities 16467.75 +Left-WM-hypointensities 14227.65 +Right-WM-hypointensities 10467.65 +non-WM-hypointensities 13751.90 +Left-non-WM-hypointensities 11768.33 +Right-non-WM-hypointensities 17030.95 +Optic-Chiasm 13126.98 +CC_Posterior 12165.66 +CC_Mid_Posterior 15964.94 +CC_Central 11692.31 +CC_Mid_Anterior 8982.48 +CC_Anterior 6130.14 +BrainSegVol 1082769.94 +BrainSegVolNotVent 1055379.80 +BrainSegVolNotVentSurf 1053905.20 +lhCortexVol 191688.56 +rhCortexVol 194825.46 +CortexVol 392435.96 +lhCorticalWhiteMatterVol 220594.12 +rhCorticalWhiteMatterVol 219853.59 +CorticalWhiteMatterVol 444648.64 +SubCortGrayVol 38832.99 +TotalGrayVol 544932.52 +SupraTentorialVol 952964.21 +SupraTentorialVolNotVent 910831.92 +SupraTentorialVolNotVentVox 917519.46 +MaskVol 1616840.16 +BrainSegVol-to-eTIV 10663.99 +MaskVol-to-eTIV 11377.81 +lhSurfaceHoles 19992.53 +rhSurfaceHoles 13440.29 +SurfaceHoles 10757.41 +EstimatedTotalIntraCranialVol 1580313.51 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject38_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject38_aseg_stats.txt new file mode 100755 index 000000000..f4ec1cabf --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject38_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject38 +Left-Lateral-Ventricle 6888.76 +Left-Inf-Lat-Vent 7529.17 +Left-Cerebellum-White-Matter 11628.09 +Left-Cerebellum-Cortex 41854.79 +Left-Thalamus-Proper 238.09 +Left-Caudate 2612.61 +Left-Putamen 3663.08 +Left-Pallidum 4117.68 +3rd-Ventricle 3033.94 +4th-Ventricle 2823.21 +Brain-Stem 14164.45 +Left-Hippocampus 505.24 +Left-Amygdala 6006.46 +CSF 4363.23 +Left-Accumbens-area 4606.81 +Left-VentralDC 3200.81 +Left-vessel 5638.11 +Left-choroid-plexus 4592.00 +Right-Lateral-Ventricle 5590.16 +Right-Inf-Lat-Vent 4564.77 +Right-Cerebellum-White-Matter 12469.06 +Right-Cerebellum-Cortex 39984.98 +Right-Thalamus-Proper 3191.64 +Right-Caudate 1440.73 +Right-Putamen 3113.01 +Right-Pallidum 4267.56 +Right-Hippocampus 4412.28 +Right-Amygdala 5587.21 +Right-Accumbens-area 9588.96 +Right-VentralDC 2213.32 +Right-vessel 5648.02 +Right-choroid-plexus 3111.12 +5th-Ventricle 8037.38 +WM-hypointensities 7070.00 +Left-WM-hypointensities 7092.72 +Right-WM-hypointensities 5346.93 +non-WM-hypointensities 6612.32 +Left-non-WM-hypointensities 6146.10 +Right-non-WM-hypointensities 8241.09 +Optic-Chiasm 6443.75 +CC_Posterior 5343.09 +CC_Mid_Posterior 7557.65 +CC_Central 5834.04 +CC_Mid_Anterior 4699.95 +CC_Anterior 3373.22 +BrainSegVol 1092653.07 +BrainSegVolNotVent 1059605.36 +BrainSegVolNotVentSurf 1058514.41 +lhCortexVol 197334.43 +rhCortexVol 199682.54 +CortexVol 400611.85 +lhCorticalWhiteMatterVol 227133.35 +rhCorticalWhiteMatterVol 226653.25 +CorticalWhiteMatterVol 456942.86 +SubCortGrayVol 46866.68 +TotalGrayVol 551759.40 +SupraTentorialVol 957924.83 +SupraTentorialVolNotVent 921867.03 +SupraTentorialVolNotVentVox 924102.75 +MaskVol 1623734.38 +BrainSegVol-to-eTIV 5773.23 +MaskVol-to-eTIV 5842.98 +lhSurfaceHoles 9442.42 +rhSurfaceHoles 6854.49 +SurfaceHoles 5603.37 +EstimatedTotalIntraCranialVol 1592212.99 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject39_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject39_aseg_stats.txt new file mode 100755 index 000000000..ff8ffbe70 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject39_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject39 +Left-Lateral-Ventricle 162.47 +Left-Inf-Lat-Vent 15896.88 +Left-Cerebellum-White-Matter 3899.16 +Left-Cerebellum-Cortex 36727.09 +Left-Thalamus-Proper 7297.24 +Left-Caudate 7820.06 +Left-Putamen 13125.23 +Left-Pallidum 8047.82 +3rd-Ventricle 6647.76 +4th-Ventricle 5738.51 +Brain-Stem 9992.01 +Left-Hippocampus 3801.72 +Left-Amygdala 13475.92 +CSF 9396.69 +Left-Accumbens-area 8551.11 +Left-VentralDC 9789.48 +Left-vessel 10153.70 +Left-choroid-plexus 10494.94 +Right-Lateral-Ventricle 4688.44 +Right-Inf-Lat-Vent 8379.71 +Right-Cerebellum-White-Matter 5270.83 +Right-Cerebellum-Cortex 30965.62 +Right-Thalamus-Proper 15211.76 +Right-Caudate 4369.60 +Right-Putamen 10588.49 +Right-Pallidum 8625.13 +Right-Hippocampus 14092.91 +Right-Amygdala 11886.10 +Right-Accumbens-area 21120.42 +Right-VentralDC 6920.68 +Right-vessel 10288.90 +Right-choroid-plexus 6486.26 +5th-Ventricle 17145.68 +WM-hypointensities 16150.27 +Left-WM-hypointensities 13884.60 +Right-WM-hypointensities 10106.28 +non-WM-hypointensities 13421.68 +Left-non-WM-hypointensities 11352.96 +Right-non-WM-hypointensities 16704.71 +Optic-Chiasm 12758.15 +CC_Posterior 11821.82 +CC_Mid_Posterior 15642.68 +CC_Central 11327.34 +CC_Mid_Anterior 8540.24 +CC_Anterior 5647.02 +BrainSegVol 1083110.83 +BrainSegVolNotVent 1055802.17 +BrainSegVolNotVentSurf 1054331.28 +lhCortexVol 192097.72 +rhCortexVol 195198.04 +CortexVol 392760.97 +lhCorticalWhiteMatterVol 220965.95 +rhCorticalWhiteMatterVol 220249.89 +CorticalWhiteMatterVol 444890.19 +SubCortGrayVol 39172.13 +TotalGrayVol 545310.05 +SupraTentorialVol 953402.45 +SupraTentorialVolNotVent 911113.98 +SupraTentorialVolNotVentVox 917879.72 +MaskVol 1617211.61 +BrainSegVol-to-eTIV 10242.22 +MaskVol-to-eTIV 10962.70 +lhSurfaceHoles 19675.93 +rhSurfaceHoles 13057.48 +SurfaceHoles 10369.97 +EstimatedTotalIntraCranialVol 1580565.88 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject3_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject3_aseg_stats.txt new file mode 100755 index 000000000..f964a5957 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject3_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject3 +Left-Lateral-Ventricle 2617.25 +Left-Inf-Lat-Vent 17747.20 +Left-Cerebellum-White-Matter 1591.57 +Left-Cerebellum-Cortex 34103.29 +Left-Thalamus-Proper 9508.25 +Left-Caudate 10212.51 +Left-Putamen 14859.49 +Left-Pallidum 10930.00 +3rd-Ventricle 9360.22 +4th-Ventricle 8444.98 +Brain-Stem 7141.09 +Left-Hippocampus 7012.84 +Left-Amygdala 16020.38 +CSF 11908.02 +Left-Accumbens-area 11110.58 +Left-VentralDC 12397.64 +Left-vessel 13016.05 +Left-choroid-plexus 12776.28 +Right-Lateral-Ventricle 6751.00 +Right-Inf-Lat-Vent 10935.83 +Right-Cerebellum-White-Matter 2837.05 +Right-Cerebellum-Cortex 28802.08 +Right-Thalamus-Proper 16750.18 +Right-Caudate 7057.34 +Right-Putamen 12821.48 +Right-Pallidum 11463.04 +Right-Hippocampus 16071.32 +Right-Amygdala 14591.07 +Right-Accumbens-area 22726.97 +Right-VentralDC 9700.22 +Right-vessel 13160.21 +Right-choroid-plexus 9043.09 +5th-Ventricle 18943.92 +WM-hypointensities 18169.11 +Left-WM-hypointensities 16091.00 +Right-WM-hypointensities 12450.25 +non-WM-hypointensities 15543.31 +Left-non-WM-hypointensities 14049.40 +Right-non-WM-hypointensities 18786.46 +Optic-Chiasm 15138.54 +CC_Posterior 14036.01 +CC_Mid_Posterior 17701.28 +CC_Central 13689.03 +CC_Mid_Anterior 11425.18 +CC_Anterior 8814.51 +BrainSegVol 1080941.39 +BrainSegVolNotVent 1053047.93 +BrainSegVolNotVentSurf 1051555.76 +lhCortexVol 189442.49 +rhCortexVol 192777.86 +CortexVol 390682.35 +lhCorticalWhiteMatterVol 218564.56 +rhCorticalWhiteMatterVol 217689.12 +CorticalWhiteMatterVol 443396.71 +SubCortGrayVol 36998.98 +TotalGrayVol 542873.39 +SupraTentorialVol 950549.47 +SupraTentorialVolNotVent 909342.50 +SupraTentorialVolNotVentVox 915555.12 +MaskVol 1614815.66 +BrainSegVol-to-eTIV 12986.98 +MaskVol-to-eTIV 13658.15 +lhSurfaceHoles 21679.45 +rhSurfaceHoles 15531.01 +SurfaceHoles 12885.84 +EstimatedTotalIntraCranialVol 1578997.68 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject40_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject40_aseg_stats.txt new file mode 100755 index 000000000..96cb20371 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject40_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject40 +Left-Lateral-Ventricle 8465.76 +Left-Inf-Lat-Vent 5422.40 +Left-Cerebellum-White-Matter 13527.13 +Left-Cerebellum-Cortex 43102.66 +Left-Thalamus-Proper 2030.28 +Left-Caudate 1546.31 +Left-Putamen 1540.74 +Left-Pallidum 2340.40 +3rd-Ventricle 2125.04 +4th-Ventricle 1333.43 +Brain-Stem 16157.86 +Left-Hippocampus 715.33 +Left-Amygdala 4390.63 +CSF 2957.26 +Left-Accumbens-area 3459.03 +Left-VentralDC 1092.40 +Left-vessel 4082.34 +Left-choroid-plexus 3443.15 +Right-Lateral-Ventricle 7462.84 +Right-Inf-Lat-Vent 3062.84 +Right-Cerebellum-White-Matter 14288.06 +Right-Cerebellum-Cortex 41991.59 +Right-Thalamus-Proper 1017.70 +Right-Caudate 120.39 +Right-Putamen 1034.30 +Right-Pallidum 2671.62 +Right-Hippocampus 2699.20 +Right-Amygdala 3419.64 +Right-Accumbens-area 7032.07 +Right-VentralDC 210.71 +Right-vessel 4263.20 +Right-choroid-plexus 1876.61 +5th-Ventricle 6542.52 +WM-hypointensities 4651.70 +Left-WM-hypointensities 4946.85 +Right-WM-hypointensities 4164.01 +non-WM-hypointensities 5304.65 +Left-non-WM-hypointensities 4436.95 +Right-non-WM-hypointensities 5862.76 +Optic-Chiasm 4780.75 +CC_Posterior 3966.65 +CC_Mid_Posterior 5246.34 +CC_Central 3863.34 +CC_Mid_Anterior 3377.06 +CC_Anterior 2057.04 +BrainSegVol 1094964.82 +BrainSegVolNotVent 1060807.95 +BrainSegVolNotVentSurf 1059942.94 +lhCortexVol 198624.14 +rhCortexVol 200926.89 +CortexVol 402488.64 +lhCorticalWhiteMatterVol 228846.35 +rhCorticalWhiteMatterVol 228270.78 +CorticalWhiteMatterVol 459323.24 +SubCortGrayVol 49095.28 +TotalGrayVol 553300.34 +SupraTentorialVol 959679.27 +SupraTentorialVolNotVent 924054.01 +SupraTentorialVolNotVentVox 925572.06 +MaskVol 1625030.14 +BrainSegVol-to-eTIV 3888.30 +MaskVol-to-eTIV 4620.36 +lhSurfaceHoles 6835.29 +rhSurfaceHoles 4688.48 +SurfaceHoles 3994.71 +EstimatedTotalIntraCranialVol 1594024.02 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject41_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject41_aseg_stats.txt new file mode 100755 index 000000000..ad0de46ae --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject41_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject41 +Left-Lateral-Ventricle 6427.90 +Left-Inf-Lat-Vent 7537.02 +Left-Cerebellum-White-Matter 11317.26 +Left-Cerebellum-Cortex 41094.29 +Left-Thalamus-Proper 45.28 +Left-Caudate 3246.91 +Left-Putamen 3490.35 +Left-Pallidum 5142.42 +3rd-Ventricle 4007.78 +4th-Ventricle 3871.70 +Brain-Stem 13182.50 +Left-Hippocampus 1767.30 +Left-Amygdala 6466.28 +CSF 5077.17 +Left-Accumbens-area 5466.30 +Left-VentralDC 3790.90 +Left-vessel 6587.69 +Left-choroid-plexus 5092.59 +Right-Lateral-Ventricle 5687.17 +Right-Inf-Lat-Vent 5436.95 +Right-Cerebellum-White-Matter 12035.20 +Right-Cerebellum-Cortex 39890.74 +Right-Thalamus-Proper 2635.10 +Right-Caudate 2478.21 +Right-Putamen 3414.19 +Right-Pallidum 5222.31 +Right-Hippocampus 4339.08 +Right-Amygdala 6258.63 +Right-Accumbens-area 9121.31 +Right-VentralDC 3099.56 +Right-vessel 6588.21 +Right-choroid-plexus 4032.57 +5th-Ventricle 7936.46 +WM-hypointensities 7084.09 +Left-WM-hypointensities 7456.43 +Right-WM-hypointensities 6006.47 +non-WM-hypointensities 6931.09 +Left-non-WM-hypointensities 6934.64 +Right-non-WM-hypointensities 8355.66 +Optic-Chiasm 6948.81 +CC_Posterior 5745.58 +CC_Mid_Posterior 7702.58 +CC_Central 6420.94 +CC_Mid_Anterior 5736.09 +CC_Anterior 4726.89 +BrainSegVol 1092613.98 +BrainSegVolNotVent 1058631.39 +BrainSegVolNotVentSurf 1057571.90 +lhCortexVol 196570.11 +rhCortexVol 198953.78 +CortexVol 400430.73 +lhCorticalWhiteMatterVol 226601.29 +rhCorticalWhiteMatterVol 226066.60 +CorticalWhiteMatterVol 457525.83 +SubCortGrayVol 46620.22 +TotalGrayVol 551240.80 +SupraTentorialVol 956980.76 +SupraTentorialVolNotVent 922164.46 +SupraTentorialVolNotVentVox 923615.82 +MaskVol 1623244.59 +BrainSegVol-to-eTIV 6668.34 +MaskVol-to-eTIV 6640.72 +lhSurfaceHoles 9320.47 +rhSurfaceHoles 7419.19 +SurfaceHoles 6349.30 +EstimatedTotalIntraCranialVol 1592712.94 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject42_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject42_aseg_stats.txt new file mode 100755 index 000000000..1e0369a33 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject42_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject42 +Left-Lateral-Ventricle 6138.26 +Left-Inf-Lat-Vent 8984.54 +Left-Cerebellum-White-Matter 10601.88 +Left-Cerebellum-Cortex 41754.68 +Left-Thalamus-Proper 783.03 +Left-Caudate 2858.89 +Left-Putamen 5499.07 +Left-Pallidum 3731.47 +3rd-Ventricle 2645.73 +4th-Ventricle 2234.61 +Brain-Stem 14463.44 +Left-Hippocampus 240.44 +Left-Amygdala 6831.18 +CSF 4495.63 +Left-Accumbens-area 4396.21 +Left-VentralDC 3734.99 +Left-vessel 5433.06 +Left-choroid-plexus 5100.01 +Right-Lateral-Ventricle 3690.68 +Right-Inf-Lat-Vent 4318.25 +Right-Cerebellum-White-Matter 11664.56 +Right-Cerebellum-Cortex 38506.15 +Right-Thalamus-Proper 5877.19 +Right-Caudate 866.04 +Right-Putamen 4105.01 +Right-Pallidum 4029.44 +Right-Hippocampus 6182.21 +Right-Amygdala 5985.50 +Right-Accumbens-area 12095.89 +Right-VentralDC 2108.15 +Right-vessel 5474.71 +Right-choroid-plexus 2736.05 +5th-Ventricle 9736.25 +WM-hypointensities 8643.48 +Left-WM-hypointensities 7899.62 +Right-WM-hypointensities 5488.38 +non-WM-hypointensities 7469.36 +Left-non-WM-hypointensities 6230.67 +Right-non-WM-hypointensities 9601.43 +Optic-Chiasm 7019.04 +CC_Posterior 6054.58 +CC_Mid_Posterior 8819.96 +CC_Central 6179.97 +CC_Mid_Anterior 4286.09 +CC_Anterior 2352.69 +BrainSegVol 1091024.98 +BrainSegVolNotVent 1059960.58 +BrainSegVolNotVentSurf 1058770.21 +lhCortexVol 197219.26 +rhCortexVol 199661.68 +CortexVol 399428.42 +lhCorticalWhiteMatterVol 226612.06 +rhCorticalWhiteMatterVol 226147.89 +CorticalWhiteMatterVol 454223.95 +SubCortGrayVol 45779.04 +TotalGrayVol 551174.69 +SupraTentorialVol 958122.93 +SupraTentorialVolNotVent 919674.60 +SupraTentorialVolNotVentVox 923524.44 +MaskVol 1623106.64 +BrainSegVol-to-eTIV 5617.08 +MaskVol-to-eTIV 5902.68 +lhSurfaceHoles 11360.13 +rhSurfaceHoles 7347.81 +SurfaceHoles 5655.59 +EstimatedTotalIntraCranialVol 1589651.97 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject43_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject43_aseg_stats.txt new file mode 100755 index 000000000..e30d84f53 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject43_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject43 +Left-Lateral-Ventricle 9932.75 +Left-Inf-Lat-Vent 4352.72 +Left-Cerebellum-White-Matter 14893.16 +Left-Cerebellum-Cortex 44699.13 +Left-Thalamus-Proper 3337.60 +Left-Caudate 96.89 +Left-Putamen 557.28 +Left-Pallidum 566.59 +3rd-Ventricle 454.68 +4th-Ventricle 341.40 +Brain-Stem 17909.07 +Left-Hippocampus 2704.38 +Left-Amygdala 2871.94 +CSF 1430.70 +Left-Accumbens-area 1889.20 +Left-VentralDC 476.93 +Left-vessel 2327.98 +Left-choroid-plexus 2072.12 +Right-Lateral-Ventricle 8643.99 +Right-Inf-Lat-Vent 1493.59 +Right-Cerebellum-White-Matter 15740.05 +Right-Cerebellum-Cortex 43251.39 +Right-Thalamus-Proper 188.16 +Right-Caudate 1783.23 +Right-Putamen 287.61 +Right-Pallidum 930.82 +Right-Hippocampus 1564.14 +Right-Amygdala 1785.74 +Right-Accumbens-area 6153.73 +Right-VentralDC 1489.09 +Right-vessel 2504.66 +Right-choroid-plexus 301.73 +5th-Ventricle 5514.47 +WM-hypointensities 3484.00 +Left-WM-hypointensities 3633.65 +Right-WM-hypointensities 2739.91 +non-WM-hypointensities 4045.20 +Left-non-WM-hypointensities 2795.54 +Right-non-WM-hypointensities 4648.05 +Optic-Chiasm 3352.03 +CC_Posterior 2644.84 +CC_Mid_Posterior 4041.77 +CC_Central 2436.73 +CC_Mid_Anterior 1600.45 +CC_Anterior 83.47 +BrainSegVol 1096222.17 +BrainSegVolNotVent 1062502.46 +BrainSegVolNotVentSurf 1061646.40 +lhCortexVol 200239.18 +rhCortexVol 202402.37 +CortexVol 403708.62 +lhCorticalWhiteMatterVol 230290.07 +rhCorticalWhiteMatterVol 229812.37 +CorticalWhiteMatterVol 460124.01 +SubCortGrayVol 50376.81 +TotalGrayVol 554763.01 +SupraTentorialVol 961427.64 +SupraTentorialVolNotVent 925045.72 +SupraTentorialVolNotVentVox 926966.63 +MaskVol 1626466.23 +BrainSegVol-to-eTIV 2207.65 +MaskVol-to-eTIV 2978.53 +lhSurfaceHoles 5690.89 +rhSurfaceHoles 3199.61 +SurfaceHoles 2462.13 +EstimatedTotalIntraCranialVol 1594876.77 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject44_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject44_aseg_stats.txt new file mode 100755 index 000000000..437980038 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject44_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject44 +Left-Lateral-Ventricle 6904.85 +Left-Inf-Lat-Vent 7161.61 +Left-Cerebellum-White-Matter 11771.34 +Left-Cerebellum-Cortex 41591.52 +Left-Thalamus-Proper 390.47 +Left-Caudate 2790.74 +Left-Putamen 3130.05 +Left-Pallidum 4605.09 +3rd-Ventricle 3502.53 +4th-Ventricle 3371.17 +Brain-Stem 13715.49 +Left-Hippocampus 1174.29 +Left-Amygdala 5971.07 +CSF 4600.59 +Left-Accumbens-area 4986.77 +Left-VentralDC 3288.86 +Left-vessel 6050.86 +Left-choroid-plexus 4652.73 +Right-Lateral-Ventricle 6110.60 +Right-Inf-Lat-Vent 4958.69 +Right-Cerebellum-White-Matter 12509.15 +Right-Cerebellum-Cortex 40325.71 +Right-Thalamus-Proper 2296.59 +Right-Caudate 1980.97 +Right-Putamen 2974.81 +Right-Pallidum 4690.69 +Right-Hippocampus 3933.86 +Right-Amygdala 5740.73 +Right-Accumbens-area 8773.13 +Right-VentralDC 2576.59 +Right-vessel 6049.12 +Right-choroid-plexus 3556.47 +5th-Ventricle 7566.53 +WM-hypointensities 6674.75 +Left-WM-hypointensities 7025.38 +Right-WM-hypointensities 5561.34 +non-WM-hypointensities 6515.15 +Left-non-WM-hypointensities 6423.97 +Right-non-WM-hypointensities 7938.25 +Optic-Chiasm 6489.05 +CC_Posterior 5314.76 +CC_Mid_Posterior 7291.30 +CC_Central 5968.80 +CC_Mid_Anterior 5198.73 +CC_Anterior 4147.03 +BrainSegVol 1093052.74 +BrainSegVolNotVent 1059145.11 +BrainSegVolNotVentSurf 1058091.42 +lhCortexVol 197073.54 +rhCortexVol 199411.15 +CortexVol 400844.38 +lhCorticalWhiteMatterVol 227064.05 +rhCorticalWhiteMatterVol 226559.17 +CorticalWhiteMatterVol 457856.44 +SubCortGrayVol 47050.01 +TotalGrayVol 551711.36 +SupraTentorialVol 957515.93 +SupraTentorialVolNotVent 922538.15 +SupraTentorialVolNotVentVox 924065.10 +MaskVol 1623708.24 +BrainSegVol-to-eTIV 6152.85 +MaskVol-to-eTIV 6130.68 +lhSurfaceHoles 8907.87 +rhSurfaceHoles 6943.30 +SurfaceHoles 5873.30 +EstimatedTotalIntraCranialVol 1593054.85 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject45_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject45_aseg_stats.txt new file mode 100755 index 000000000..f277b69a0 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject45_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject45 +Left-Lateral-Ventricle 9042.03 +Left-Inf-Lat-Vent 5458.18 +Left-Cerebellum-White-Matter 13813.73 +Left-Cerebellum-Cortex 43802.83 +Left-Thalamus-Proper 2351.31 +Left-Caudate 758.28 +Left-Putamen 1484.38 +Left-Pallidum 2227.61 +3rd-Ventricle 1267.62 +4th-Ventricle 1162.12 +Brain-Stem 16075.83 +Left-Hippocampus 1441.74 +Left-Amygdala 3750.95 +CSF 2480.26 +Left-Accumbens-area 2861.72 +Left-VentralDC 1045.51 +Left-vessel 3671.18 +Left-choroid-plexus 2686.25 +Right-Lateral-Ventricle 8038.25 +Right-Inf-Lat-Vent 2840.18 +Right-Cerebellum-White-Matter 14634.33 +Right-Cerebellum-Cortex 42294.33 +Right-Thalamus-Proper 726.86 +Right-Caudate 213.82 +Right-Putamen 998.56 +Right-Pallidum 2334.94 +Right-Hippocampus 2090.27 +Right-Amygdala 3430.32 +Right-Accumbens-area 7164.83 +Right-VentralDC 255.97 +Right-vessel 3658.61 +Right-choroid-plexus 1450.74 +5th-Ventricle 5881.45 +WM-hypointensities 4817.66 +Left-WM-hypointensities 5090.69 +Right-WM-hypointensities 3580.44 +non-WM-hypointensities 4646.35 +Left-non-WM-hypointensities 4153.34 +Right-non-WM-hypointensities 6050.56 +Optic-Chiasm 4432.49 +CC_Posterior 3383.45 +CC_Mid_Posterior 5433.22 +CC_Central 3951.79 +CC_Mid_Anterior 2821.81 +CC_Anterior 1596.18 +BrainSegVol 1095041.82 +BrainSegVolNotVent 1061418.50 +BrainSegVolNotVentSurf 1060393.00 +lhCortexVol 199312.80 +rhCortexVol 201443.42 +CortexVol 402711.04 +lhCorticalWhiteMatterVol 229132.61 +rhCorticalWhiteMatterVol 228759.76 +CorticalWhiteMatterVol 459391.94 +SubCortGrayVol 48986.01 +TotalGrayVol 553816.10 +SupraTentorialVol 959888.49 +SupraTentorialVolNotVent 924252.10 +SupraTentorialVolNotVentVox 926075.18 +MaskVol 1625783.30 +BrainSegVol-to-eTIV 3866.71 +MaskVol-to-eTIV 3863.45 +lhSurfaceHoles 7027.84 +rhSurfaceHoles 4817.13 +SurfaceHoles 3757.49 +EstimatedTotalIntraCranialVol 1594636.61 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject46_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject46_aseg_stats.txt new file mode 100755 index 000000000..7be725fb5 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject46_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject46 +Left-Lateral-Ventricle 957.17 +Left-Inf-Lat-Vent 13883.26 +Left-Cerebellum-White-Matter 5458.96 +Left-Cerebellum-Cortex 37287.56 +Left-Thalamus-Proper 5819.39 +Left-Caudate 7336.72 +Left-Putamen 10956.73 +Left-Pallidum 7165.97 +3rd-Ventricle 6588.55 +4th-Ventricle 5153.46 +Brain-Stem 11123.19 +Left-Hippocampus 3667.96 +Left-Amygdala 12320.93 +CSF 8638.32 +Left-Accumbens-area 8161.06 +Left-VentralDC 8241.46 +Left-vessel 9436.71 +Left-choroid-plexus 9824.73 +Right-Lateral-Ventricle 2841.19 +Right-Inf-Lat-Vent 7644.76 +Right-Cerebellum-White-Matter 6653.47 +Right-Cerebellum-Cortex 32800.28 +Right-Thalamus-Proper 12697.97 +Right-Caudate 3704.17 +Right-Putamen 8838.35 +Right-Pallidum 7870.66 +Right-Hippocampus 12418.95 +Right-Amygdala 10343.75 +Right-Accumbens-area 18292.80 +Right-VentralDC 5706.02 +Right-vessel 9736.33 +Right-choroid-plexus 6055.28 +5th-Ventricle 15660.89 +WM-hypointensities 13837.67 +Left-WM-hypointensities 12112.39 +Right-WM-hypointensities 9522.75 +non-WM-hypointensities 12450.38 +Left-non-WM-hypointensities 10355.43 +Right-non-WM-hypointensities 14509.53 +Optic-Chiasm 11581.78 +CC_Posterior 10848.16 +CC_Mid_Posterior 13535.92 +CC_Central 9903.04 +CC_Mid_Anterior 8121.35 +CC_Anterior 5483.49 +BrainSegVol 1085291.24 +BrainSegVolNotVent 1056152.99 +BrainSegVolNotVentSurf 1054930.36 +lhCortexVol 192695.70 +rhCortexVol 195788.11 +CortexVol 394405.43 +lhCorticalWhiteMatterVol 222171.32 +rhCorticalWhiteMatterVol 221311.81 +CorticalWhiteMatterVol 447632.11 +SubCortGrayVol 41115.54 +TotalGrayVol 546351.69 +SupraTentorialVol 954322.63 +SupraTentorialVolNotVent 913437.78 +SupraTentorialVolNotVentVox 918878.48 +MaskVol 1618031.34 +BrainSegVol-to-eTIV 9150.17 +MaskVol-to-eTIV 10458.45 +lhSurfaceHoles 17072.97 +rhSurfaceHoles 11426.68 +SurfaceHoles 9432.83 +EstimatedTotalIntraCranialVol 1582673.41 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject47_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject47_aseg_stats.txt new file mode 100755 index 000000000..e268a9a69 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject47_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject47 +Left-Lateral-Ventricle 2081.27 +Left-Inf-Lat-Vent 16821.30 +Left-Cerebellum-White-Matter 2369.18 +Left-Cerebellum-Cortex 34551.11 +Left-Thalamus-Proper 8807.40 +Left-Caudate 9944.75 +Left-Putamen 14054.10 +Left-Pallidum 9810.63 +3rd-Ventricle 9059.46 +4th-Ventricle 7472.39 +Brain-Stem 8446.76 +Left-Hippocampus 6384.81 +Left-Amygdala 15504.46 +CSF 11284.12 +Left-Accumbens-area 10605.99 +Left-VentralDC 11278.10 +Left-vessel 12193.14 +Left-choroid-plexus 12510.54 +Right-Lateral-Ventricle 6318.06 +Right-Inf-Lat-Vent 10060.13 +Right-Cerebellum-White-Matter 3597.03 +Right-Cerebellum-Cortex 29527.18 +Right-Thalamus-Proper 16215.09 +Right-Caudate 6014.20 +Right-Putamen 11827.47 +Right-Pallidum 10578.21 +Right-Hippocampus 15716.07 +Right-Amygdala 13379.72 +Right-Accumbens-area 21749.03 +Right-VentralDC 8451.12 +Right-vessel 12524.98 +Right-choroid-plexus 8377.77 +5th-Ventricle 18723.37 +WM-hypointensities 17032.79 +Left-WM-hypointensities 14939.75 +Right-WM-hypointensities 12005.24 +non-WM-hypointensities 15228.19 +Left-non-WM-hypointensities 13154.31 +Right-non-WM-hypointensities 17613.32 +Optic-Chiasm 14417.13 +CC_Posterior 13613.97 +CC_Mid_Posterior 16544.83 +CC_Central 12552.40 +CC_Mid_Anterior 10748.68 +CC_Anterior 7955.92 +BrainSegVol 1081903.48 +BrainSegVolNotVent 1053615.65 +BrainSegVolNotVentSurf 1052299.02 +lhCortexVol 189916.37 +rhCortexVol 193316.07 +CortexVol 391433.63 +lhCorticalWhiteMatterVol 219353.97 +rhCorticalWhiteMatterVol 218344.27 +CorticalWhiteMatterVol 444136.31 +SubCortGrayVol 38117.52 +TotalGrayVol 543452.35 +SupraTentorialVol 951570.65 +SupraTentorialVolNotVent 910043.10 +SupraTentorialVolNotVentVox 916097.57 +MaskVol 1615142.00 +BrainSegVol-to-eTIV 11822.84 +MaskVol-to-eTIV 13238.22 +lhSurfaceHoles 20503.18 +rhSurfaceHoles 14296.91 +SurfaceHoles 12024.85 +EstimatedTotalIntraCranialVol 1579216.72 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject48_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject48_aseg_stats.txt new file mode 100755 index 000000000..a366fc6da --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject48_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject48 +Left-Lateral-Ventricle 8864.88 +Left-Inf-Lat-Vent 5645.56 +Left-Cerebellum-White-Matter 13713.42 +Left-Cerebellum-Cortex 43942.75 +Left-Thalamus-Proper 2186.48 +Left-Caudate 871.58 +Left-Putamen 2027.84 +Left-Pallidum 1125.35 +3rd-Ventricle 966.97 +4th-Ventricle 59.39 +Brain-Stem 17310.83 +Left-Hippocampus 2254.81 +Left-Amygdala 4004.50 +CSF 2174.73 +Left-Accumbens-area 2457.99 +Left-VentralDC 513.33 +Left-vessel 2980.79 +Left-choroid-plexus 2960.65 +Right-Lateral-Ventricle 7050.85 +Right-Inf-Lat-Vent 2041.79 +Right-Cerebellum-White-Matter 14648.18 +Right-Cerebellum-Cortex 41861.94 +Right-Thalamus-Proper 2072.25 +Right-Caudate 1379.83 +Right-Putamen 853.42 +Right-Pallidum 1558.96 +Right-Hippocampus 3063.73 +Right-Amygdala 2727.36 +Right-Accumbens-area 7958.09 +Right-VentralDC 803.64 +Right-vessel 3177.27 +Right-choroid-plexus 779.61 +5th-Ventricle 6926.93 +WM-hypointensities 4886.67 +Left-WM-hypointensities 4666.06 +Right-WM-hypointensities 3444.16 +non-WM-hypointensities 5082.44 +Left-non-WM-hypointensities 3562.82 +Right-non-WM-hypointensities 5950.65 +Optic-Chiasm 4303.94 +CC_Posterior 3627.01 +CC_Mid_Posterior 5284.41 +CC_Central 3257.85 +CC_Mid_Anterior 2144.78 +CC_Anterior 370.63 +BrainSegVol 1094749.29 +BrainSegVolNotVent 1061960.91 +BrainSegVolNotVentSurf 1061044.64 +lhCortexVol 199466.13 +rhCortexVol 201743.89 +CortexVol 402503.88 +lhCorticalWhiteMatterVol 229362.16 +rhCorticalWhiteMatterVol 228850.58 +CorticalWhiteMatterVol 458233.62 +SubCortGrayVol 49199.33 +TotalGrayVol 553790.89 +SupraTentorialVol 960773.52 +SupraTentorialVolNotVent 923369.74 +SupraTentorialVolNotVentVox 926027.99 +MaskVol 1625481.40 +BrainSegVol-to-eTIV 2855.84 +MaskVol-to-eTIV 3731.91 +lhSurfaceHoles 7278.25 +rhSurfaceHoles 4131.47 +SurfaceHoles 3163.40 +EstimatedTotalIntraCranialVol 1593053.01 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject49_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject49_aseg_stats.txt new file mode 100755 index 000000000..56185f95b --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject49_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject49 +Left-Lateral-Ventricle 479.32 +Left-Inf-Lat-Vent 15235.32 +Left-Cerebellum-White-Matter 4011.52 +Left-Cerebellum-Cortex 35964.68 +Left-Thalamus-Proper 7217.70 +Left-Caudate 8589.88 +Left-Putamen 12366.84 +Left-Pallidum 8468.93 +3rd-Ventricle 7807.30 +4th-Ventricle 6308.61 +Brain-Stem 9809.22 +Left-Hippocampus 5024.16 +Left-Amygdala 13824.07 +CSF 9915.57 +Left-Accumbens-area 9358.21 +Left-VentralDC 9688.03 +Left-vessel 10784.74 +Left-choroid-plexus 11102.38 +Right-Lateral-Ventricle 4432.24 +Right-Inf-Lat-Vent 8829.38 +Right-Cerebellum-White-Matter 5210.98 +Right-Cerebellum-Cortex 31286.81 +Right-Thalamus-Proper 14268.74 +Right-Caudate 4854.29 +Right-Putamen 10238.67 +Right-Pallidum 9196.65 +Right-Hippocampus 13929.34 +Right-Amygdala 11796.88 +Right-Accumbens-area 19843.07 +Right-VentralDC 7043.49 +Right-vessel 11098.39 +Right-choroid-plexus 7201.34 +5th-Ventricle 17061.01 +WM-hypointensities 15308.51 +Left-WM-hypointensities 13443.59 +Right-WM-hypointensities 10720.30 +non-WM-hypointensities 13754.99 +Left-non-WM-hypointensities 11709.39 +Right-non-WM-hypointensities 15946.84 +Optic-Chiasm 12928.58 +CC_Posterior 12154.32 +CC_Mid_Posterior 14932.16 +CC_Central 11171.20 +CC_Mid_Anterior 9417.30 +CC_Anterior 6735.00 +BrainSegVol 1083729.69 +BrainSegVolNotVent 1054903.67 +BrainSegVolNotVentSurf 1053640.46 +lhCortexVol 191352.78 +rhCortexVol 194589.53 +CortexVol 393023.21 +lhCorticalWhiteMatterVol 220830.52 +rhCorticalWhiteMatterVol 219897.31 +CorticalWhiteMatterVol 446073.37 +SubCortGrayVol 39715.74 +TotalGrayVol 544974.31 +SupraTentorialVol 952977.11 +SupraTentorialVolNotVent 911901.45 +SupraTentorialVolNotVentVox 917558.24 +MaskVol 1616660.99 +BrainSegVol-to-eTIV 10455.08 +MaskVol-to-eTIV 11804.40 +lhSurfaceHoles 18640.46 +rhSurfaceHoles 12794.57 +SurfaceHoles 10688.04 +EstimatedTotalIntraCranialVol 1581125.66 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject4_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject4_aseg_stats.txt new file mode 100755 index 000000000..2e909b9cf --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject4_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject4 +Left-Lateral-Ventricle 442.42 +Left-Inf-Lat-Vent 14716.94 +Left-Cerebellum-White-Matter 4223.05 +Left-Cerebellum-Cortex 35617.00 +Left-Thalamus-Proper 6994.14 +Left-Caudate 8821.43 +Left-Putamen 11620.76 +Left-Pallidum 9124.43 +3rd-Ventricle 8437.84 +4th-Ventricle 7048.72 +Brain-Stem 9206.61 +Left-Hippocampus 5928.39 +Left-Amygdala 13760.01 +CSF 10228.17 +Left-Accumbens-area 9867.32 +Left-VentralDC 9793.95 +Left-vessel 11337.31 +Left-choroid-plexus 11172.55 +Right-Lateral-Ventricle 3701.57 +Right-Inf-Lat-Vent 9357.79 +Right-Cerebellum-White-Matter 5280.88 +Right-Cerebellum-Cortex 31770.04 +Right-Thalamus-Proper 13024.15 +Right-Caudate 5583.87 +Right-Putamen 10034.55 +Right-Pallidum 9763.69 +Right-Hippocampus 13257.17 +Right-Amygdala 11992.60 +Right-Accumbens-area 18707.43 +Right-VentralDC 7528.26 +Right-vessel 11634.82 +Right-choroid-plexus 7800.74 +5th-Ventricle 16400.36 +WM-hypointensities 14750.88 +Left-WM-hypointensities 13337.45 +Right-WM-hypointensities 11002.21 +non-WM-hypointensities 13608.19 +Left-non-WM-hypointensities 12076.78 +Right-non-WM-hypointensities 15516.39 +Optic-Chiasm 12976.87 +CC_Posterior 12101.98 +CC_Mid_Posterior 14552.21 +CC_Central 11343.08 +CC_Mid_Anterior 10088.48 +CC_Anterior 7784.08 +BrainSegVol 1084294.30 +BrainSegVolNotVent 1054284.90 +BrainSegVolNotVentSurf 1053073.25 +lhCortexVol 191008.58 +rhCortexVol 194229.43 +CortexVol 393356.59 +lhCorticalWhiteMatterVol 220749.23 +rhCorticalWhiteMatterVol 219782.78 +CorticalWhiteMatterVol 447343.26 +SubCortGrayVol 39981.79 +TotalGrayVol 544922.58 +SupraTentorialVol 952429.82 +SupraTentorialVolNotVent 912838.35 +SupraTentorialVolNotVentVox 917520.19 +MaskVol 1616639.24 +BrainSegVol-to-eTIV 10962.62 +MaskVol-to-eTIV 12185.36 +lhSurfaceHoles 17890.67 +rhSurfaceHoles 12902.35 +SurfaceHoles 11045.55 +EstimatedTotalIntraCranialVol 1582297.01 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject50_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject50_aseg_stats.txt new file mode 100755 index 000000000..982370322 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject50_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject50 +Left-Lateral-Ventricle 5308.87 +Left-Inf-Lat-Vent 8243.78 +Left-Cerebellum-White-Matter 10400.25 +Left-Cerebellum-Cortex 40077.09 +Left-Thalamus-Proper 984.52 +Left-Caudate 4382.10 +Left-Putamen 4419.52 +Left-Pallidum 5417.51 +3rd-Ventricle 5008.67 +4th-Ventricle 4110.75 +Brain-Stem 13072.87 +Left-Hippocampus 2556.34 +Left-Amygdala 7686.10 +CSF 5871.32 +Left-Accumbens-area 6257.35 +Left-VentralDC 4315.83 +Left-vessel 7226.94 +Left-choroid-plexus 6282.91 +Right-Lateral-Ventricle 4180.18 +Right-Inf-Lat-Vent 5839.52 +Right-Cerebellum-White-Matter 11128.17 +Right-Cerebellum-Cortex 38803.31 +Right-Thalamus-Proper 4096.26 +Right-Caudate 2642.59 +Right-Putamen 4059.57 +Right-Pallidum 5772.07 +Right-Hippocampus 5822.08 +Right-Amygdala 6685.37 +Right-Accumbens-area 10099.20 +Right-VentralDC 3310.99 +Right-vessel 7433.73 +Right-choroid-plexus 4590.26 +5th-Ventricle 9425.77 +WM-hypointensities 7722.87 +Left-WM-hypointensities 7850.04 +Right-WM-hypointensities 6892.76 +non-WM-hypointensities 8136.60 +Left-non-WM-hypointensities 7537.20 +Right-non-WM-hypointensities 8899.43 +Optic-Chiasm 7766.25 +CC_Posterior 6831.31 +CC_Mid_Posterior 8208.06 +CC_Central 6713.73 +CC_Mid_Anterior 6443.58 +CC_Anterior 5142.73 +BrainSegVol 1091695.73 +BrainSegVolNotVent 1057860.54 +BrainSegVolNotVentSurf 1056922.03 +lhCortexVol 195555.43 +rhCortexVol 198171.62 +CortexVol 399543.38 +lhCorticalWhiteMatterVol 225863.85 +rhCorticalWhiteMatterVol 225115.43 +CorticalWhiteMatterVol 456279.08 +SubCortGrayVol 46090.38 +TotalGrayVol 550246.33 +SupraTentorialVol 956541.84 +SupraTentorialVolNotVent 920956.01 +SupraTentorialVolNotVentVox 922648.34 +MaskVol 1622000.94 +BrainSegVol-to-eTIV 6923.82 +MaskVol-to-eTIV 7707.14 +lhSurfaceHoles 10060.04 +rhSurfaceHoles 7738.92 +SurfaceHoles 6874.11 +EstimatedTotalIntraCranialVol 1590973.52 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject51_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject51_aseg_stats.txt new file mode 100755 index 000000000..27f5018ff --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject51_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject51 +Left-Lateral-Ventricle 6421.16 +Left-Inf-Lat-Vent 8028.88 +Left-Cerebellum-White-Matter 11135.44 +Left-Cerebellum-Cortex 41471.19 +Left-Thalamus-Proper 240.20 +Left-Caudate 2988.04 +Left-Putamen 4209.55 +Left-Pallidum 4456.93 +3rd-Ventricle 3349.12 +4th-Ventricle 3104.38 +Brain-Stem 13815.13 +Left-Hippocampus 831.01 +Left-Amygdala 6498.89 +CSF 4736.44 +Left-Accumbens-area 4929.98 +Left-VentralDC 3654.06 +Left-vessel 6004.57 +Left-choroid-plexus 4995.20 +Right-Lateral-Ventricle 4987.25 +Right-Inf-Lat-Vent 4881.53 +Right-Cerebellum-White-Matter 11995.46 +Right-Cerebellum-Cortex 39437.57 +Right-Thalamus-Proper 3851.33 +Right-Caudate 1721.59 +Right-Putamen 3589.56 +Right-Pallidum 4625.12 +Right-Hippocampus 4981.97 +Right-Amygdala 6031.51 +Right-Accumbens-area 10228.61 +Right-VentralDC 2584.73 +Right-vessel 6020.99 +Right-choroid-plexus 3406.70 +5th-Ventricle 8570.11 +WM-hypointensities 7612.84 +Left-WM-hypointensities 7534.91 +Right-WM-hypointensities 5698.22 +non-WM-hypointensities 7050.95 +Left-non-WM-hypointensities 6537.29 +Right-non-WM-hypointensities 8757.44 +Optic-Chiasm 6871.94 +CC_Posterior 5770.58 +CC_Mid_Posterior 8054.54 +CC_Central 6221.66 +CC_Mid_Anterior 5035.01 +CC_Anterior 3647.40 +BrainSegVol 1092080.13 +BrainSegVolNotVent 1059278.88 +BrainSegVolNotVentSurf 1058168.50 +lhCortexVol 196943.94 +rhCortexVol 199340.54 +CortexVol 400125.22 +lhCorticalWhiteMatterVol 226711.16 +rhCorticalWhiteMatterVol 226211.40 +CorticalWhiteMatterVol 456283.94 +SubCortGrayVol 46382.67 +TotalGrayVol 551321.77 +SupraTentorialVol 957558.53 +SupraTentorialVolNotVent 921256.36 +SupraTentorialVolNotVentVox 923681.86 +MaskVol 1623295.33 +BrainSegVol-to-eTIV 6131.33 +MaskVol-to-eTIV 6229.91 +lhSurfaceHoles 10040.08 +rhSurfaceHoles 7282.15 +SurfaceHoles 5963.94 +EstimatedTotalIntraCranialVol 1591569.74 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject52_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject52_aseg_stats.txt new file mode 100755 index 000000000..3af00200d --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject52_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject52 +Left-Lateral-Ventricle 4079.35 +Left-Inf-Lat-Vent 10297.27 +Left-Cerebellum-White-Matter 8838.27 +Left-Cerebellum-Cortex 39652.02 +Left-Thalamus-Proper 2529.06 +Left-Caudate 4965.98 +Left-Putamen 6941.85 +Left-Pallidum 5256.07 +3rd-Ventricle 4825.40 +4th-Ventricle 3673.02 +Brain-Stem 13127.41 +Left-Hippocampus 1977.05 +Left-Amygdala 9019.83 +CSF 6324.51 +Left-Accumbens-area 6281.62 +Left-VentralDC 5288.85 +Left-vessel 7292.66 +Left-choroid-plexus 7185.63 +Right-Lateral-Ventricle 1540.14 +Right-Inf-Lat-Vent 5817.92 +Right-Cerebellum-White-Matter 9832.65 +Right-Cerebellum-Cortex 36684.49 +Right-Thalamus-Proper 7672.22 +Right-Caudate 2220.34 +Right-Putamen 5569.72 +Right-Pallidum 5793.15 +Right-Hippocampus 8288.50 +Right-Amygdala 7497.30 +Right-Accumbens-area 13456.71 +Right-VentralDC 3493.81 +Right-vessel 7540.68 +Right-choroid-plexus 4405.94 +5th-Ventricle 11781.71 +WM-hypointensities 9945.09 +Left-WM-hypointensities 9122.76 +Right-WM-hypointensities 7338.37 +non-WM-hypointensities 9463.19 +Left-non-WM-hypointensities 7950.85 +Right-non-WM-hypointensities 10858.88 +Optic-Chiasm 8765.44 +CC_Posterior 7984.10 +CC_Mid_Posterior 10040.73 +CC_Central 7420.33 +CC_Mid_Anterior 6247.42 +CC_Anterior 4210.39 +BrainSegVol 1089387.23 +BrainSegVolNotVent 1057997.29 +BrainSegVolNotVentSurf 1056930.45 +lhCortexVol 195107.71 +rhCortexVol 197870.06 +CortexVol 397808.33 +lhCorticalWhiteMatterVol 224930.66 +rhCorticalWhiteMatterVol 224184.29 +CorticalWhiteMatterVol 452665.96 +SubCortGrayVol 44465.90 +TotalGrayVol 549228.82 +SupraTentorialVol 956468.38 +SupraTentorialVolNotVent 917978.05 +SupraTentorialVolNotVentVox 921651.67 +MaskVol 1620933.55 +BrainSegVol-to-eTIV 7038.11 +MaskVol-to-eTIV 8089.18 +lhSurfaceHoles 12716.47 +rhSurfaceHoles 8644.89 +SurfaceHoles 7226.25 +EstimatedTotalIntraCranialVol 1587551.89 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject53_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject53_aseg_stats.txt new file mode 100755 index 000000000..1073e941c --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject53_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject53 +Left-Lateral-Ventricle 6691.60 +Left-Inf-Lat-Vent 8365.24 +Left-Cerebellum-White-Matter 11194.93 +Left-Cerebellum-Cortex 42186.54 +Left-Thalamus-Proper 206.19 +Left-Caudate 2429.88 +Left-Putamen 4811.34 +Left-Pallidum 3369.87 +3rd-Ventricle 2311.05 +4th-Ventricle 1946.41 +Brain-Stem 14839.99 +Left-Hippocampus 571.61 +Left-Amygdala 6246.99 +CSF 4073.97 +Left-Accumbens-area 4045.01 +Left-VentralDC 3206.91 +Left-vessel 5033.38 +Left-choroid-plexus 4628.83 +Right-Lateral-Ventricle 4444.03 +Right-Inf-Lat-Vent 3975.74 +Right-Cerebellum-White-Matter 12226.90 +Right-Cerebellum-Cortex 39179.62 +Right-Thalamus-Proper 5026.89 +Right-Caudate 577.60 +Right-Putamen 3531.36 +Right-Pallidum 3641.08 +Right-Hippocampus 5471.43 +Right-Amygdala 5473.21 +Right-Accumbens-area 11275.57 +Right-VentralDC 1698.68 +Right-vessel 5066.42 +Right-choroid-plexus 2422.65 +5th-Ventricle 9069.71 +WM-hypointensities 7971.06 +Left-WM-hypointensities 7372.19 +Right-WM-hypointensities 5090.76 +non-WM-hypointensities 6943.75 +Left-non-WM-hypointensities 5791.03 +Right-non-WM-hypointensities 8967.64 +Optic-Chiasm 6517.13 +CC_Posterior 5547.62 +CC_Mid_Posterior 8212.06 +CC_Central 5733.11 +CC_Mid_Anterior 3930.34 +CC_Anterior 2090.79 +BrainSegVol 1091733.30 +BrainSegVolNotVent 1060309.28 +BrainSegVolNotVentSurf 1059144.82 +lhCortexVol 197659.44 +rhCortexVol 200043.77 +CortexVol 400021.51 +lhCorticalWhiteMatterVol 227104.97 +rhCorticalWhiteMatterVol 226662.03 +CorticalWhiteMatterVol 455074.82 +SubCortGrayVol 46365.10 +TotalGrayVol 551687.51 +SupraTentorialVol 958522.73 +SupraTentorialVolNotVent 920449.15 +SupraTentorialVolNotVentVox 924018.34 +MaskVol 1623622.90 +BrainSegVol-to-eTIV 5224.62 +MaskVol-to-eTIV 5468.84 +lhSurfaceHoles 10611.85 +rhSurfaceHoles 6850.01 +SurfaceHoles 5251.45 +EstimatedTotalIntraCranialVol 1590478.61 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject54_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject54_aseg_stats.txt new file mode 100755 index 000000000..6ef1452ee --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject54_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject54 +Left-Lateral-Ventricle 922.40 +Left-Inf-Lat-Vent 16123.68 +Left-Cerebellum-White-Matter 3309.53 +Left-Cerebellum-Cortex 35641.78 +Left-Thalamus-Proper 7847.47 +Left-Caudate 8749.39 +Left-Putamen 13154.26 +Left-Pallidum 9432.98 +3rd-Ventricle 7960.97 +4th-Ventricle 7127.09 +Brain-Stem 8654.17 +Left-Hippocampus 5467.63 +Left-Amygdala 14245.41 +CSF 10421.25 +Left-Accumbens-area 9729.69 +Left-VentralDC 10699.26 +Left-vessel 11459.91 +Left-choroid-plexus 11274.87 +Right-Lateral-Ventricle 4833.45 +Right-Inf-Lat-Vent 9570.83 +Right-Cerebellum-White-Matter 4540.90 +Right-Cerebellum-Cortex 30613.74 +Right-Thalamus-Proper 14826.46 +Right-Caudate 5744.75 +Right-Putamen 11159.47 +Right-Pallidum 9933.73 +Right-Hippocampus 14252.24 +Right-Amygdala 12890.22 +Right-Accumbens-area 20833.79 +Right-VentralDC 8152.56 +Right-vessel 11586.60 +Right-choroid-plexus 7727.68 +5th-Ventricle 17255.45 +WM-hypointensities 16403.34 +Left-WM-hypointensities 14516.17 +Right-WM-hypointensities 11055.61 +non-WM-hypointensities 13997.43 +Left-non-WM-hypointensities 12475.44 +Right-non-WM-hypointensities 17067.62 +Optic-Chiasm 13554.35 +CC_Posterior 12493.84 +CC_Mid_Posterior 16033.81 +CC_Central 12204.73 +CC_Mid_Anterior 9937.34 +CC_Anterior 7401.14 +BrainSegVol 1082814.48 +BrainSegVolNotVent 1054483.88 +BrainSegVolNotVentSurf 1053042.54 +lhCortexVol 191004.80 +rhCortexVol 194169.16 +CortexVol 392330.59 +lhCorticalWhiteMatterVol 220139.75 +rhCorticalWhiteMatterVol 219349.20 +CorticalWhiteMatterVol 445307.72 +SubCortGrayVol 38663.99 +TotalGrayVol 544493.41 +SupraTentorialVol 952102.96 +SupraTentorialVolNotVent 911207.63 +SupraTentorialVolNotVentVox 917108.59 +MaskVol 1616429.14 +BrainSegVol-to-eTIV 11479.02 +MaskVol-to-eTIV 12094.42 +lhSurfaceHoles 19788.55 +rhSurfaceHoles 13925.47 +SurfaceHoles 11427.66 +EstimatedTotalIntraCranialVol 1580889.98 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject55_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject55_aseg_stats.txt new file mode 100755 index 000000000..9ad6e1113 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject55_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject55 +Left-Lateral-Ventricle 6583.40 +Left-Inf-Lat-Vent 7841.98 +Left-Cerebellum-White-Matter 11311.25 +Left-Cerebellum-Cortex 41593.62 +Left-Thalamus-Proper 69.01 +Left-Caudate 2865.15 +Left-Putamen 4000.10 +Left-Pallidum 4358.48 +3rd-Ventricle 3258.27 +4th-Ventricle 3028.35 +Brain-Stem 13918.54 +Left-Hippocampus 744.24 +Left-Amygdala 6327.32 +CSF 4616.60 +Left-Accumbens-area 4832.95 +Left-VentralDC 3500.80 +Left-vessel 5893.84 +Left-choroid-plexus 4858.18 +Right-Lateral-Ventricle 5215.72 +Right-Inf-Lat-Vent 4787.25 +Right-Cerebellum-White-Matter 12160.70 +Right-Cerebellum-Cortex 39639.93 +Right-Thalamus-Proper 3588.78 +Right-Caudate 1645.36 +Right-Putamen 3419.52 +Right-Pallidum 4517.87 +Right-Hippocampus 4766.60 +Right-Amygdala 5883.87 +Right-Accumbens-area 9976.04 +Right-VentralDC 2470.37 +Right-vessel 5907.56 +Right-choroid-plexus 3321.72 +5th-Ventricle 8367.81 +WM-hypointensities 7409.96 +Left-WM-hypointensities 7379.47 +Right-WM-hypointensities 5585.08 +non-WM-hypointensities 6895.59 +Left-non-WM-hypointensities 6412.81 +Right-non-WM-hypointensities 8567.29 +Optic-Chiasm 6725.69 +CC_Posterior 5621.73 +CC_Mid_Posterior 7872.52 +CC_Central 6092.88 +CC_Mid_Anterior 4938.45 +CC_Anterior 3582.50 +BrainSegVol 1092293.58 +BrainSegVolNotVent 1059373.96 +BrainSegVolNotVentSurf 1058271.73 +lhCortexVol 197068.84 +rhCortexVol 199448.28 +CortexVol 400302.39 +lhCorticalWhiteMatterVol 226854.41 +rhCorticalWhiteMatterVol 226360.49 +CorticalWhiteMatterVol 456546.94 +SubCortGrayVol 46557.04 +TotalGrayVol 551471.18 +SupraTentorialVol 957669.35 +SupraTentorialVolNotVent 921493.33 +SupraTentorialVolNotVentVox 923825.88 +MaskVol 1623446.07 +BrainSegVol-to-eTIV 6022.21 +MaskVol-to-eTIV 6107.28 +lhSurfaceHoles 9812.88 +rhSurfaceHoles 7137.76 +SurfaceHoles 5849.74 +EstimatedTotalIntraCranialVol 1591824.56 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject56_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject56_aseg_stats.txt new file mode 100755 index 000000000..e895ce7d0 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject56_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject56 +Left-Lateral-Ventricle 5515.96 +Left-Inf-Lat-Vent 8900.92 +Left-Cerebellum-White-Matter 10301.76 +Left-Cerebellum-Cortex 40940.17 +Left-Thalamus-Proper 1113.50 +Left-Caudate 3736.80 +Left-Putamen 5466.80 +Left-Pallidum 4015.91 +3rd-Ventricle 3666.98 +4th-Ventricle 2588.07 +Brain-Stem 14383.39 +Left-Hippocampus 706.48 +Left-Amygdala 7514.24 +CSF 5078.68 +Left-Accumbens-area 5133.67 +Left-VentralDC 3855.22 +Left-vessel 5998.13 +Left-choroid-plexus 5917.28 +Right-Lateral-Ventricle 3194.32 +Right-Inf-Lat-Vent 4684.23 +Right-Cerebellum-White-Matter 11278.26 +Right-Cerebellum-Cortex 38238.68 +Right-Thalamus-Proper 5991.33 +Right-Caudate 1139.44 +Right-Putamen 4153.92 +Right-Pallidum 4521.94 +Right-Hippocampus 6720.14 +Right-Amygdala 6065.32 +Right-Accumbens-area 11806.23 +Right-VentralDC 2203.62 +Right-vessel 6230.69 +Right-choroid-plexus 3317.21 +5th-Ventricle 10324.43 +WM-hypointensities 8426.65 +Left-WM-hypointensities 7784.88 +Right-WM-hypointensities 6169.28 +non-WM-hypointensities 8148.12 +Left-non-WM-hypointensities 6633.50 +Right-non-WM-hypointensities 9385.50 +Optic-Chiasm 7426.09 +CC_Posterior 6676.11 +CC_Mid_Posterior 8612.95 +CC_Central 6170.72 +CC_Mid_Anterior 5015.69 +CC_Anterior 3057.50 +BrainSegVol 1090996.82 +BrainSegVolNotVent 1059187.28 +BrainSegVolNotVentSurf 1058165.63 +lhCortexVol 196416.17 +rhCortexVol 199033.05 +CortexVol 399217.87 +lhCorticalWhiteMatterVol 226261.01 +rhCorticalWhiteMatterVol 225585.13 +CorticalWhiteMatterVol 454337.15 +SubCortGrayVol 45886.83 +TotalGrayVol 550598.36 +SupraTentorialVol 957760.88 +SupraTentorialVolNotVent 919596.46 +SupraTentorialVolNotVentVox 922965.45 +MaskVol 1622298.82 +BrainSegVol-to-eTIV 5782.50 +MaskVol-to-eTIV 6781.06 +lhSurfaceHoles 11084.05 +rhSurfaceHoles 7289.94 +SurfaceHoles 6006.52 +EstimatedTotalIntraCranialVol 1589203.11 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject57_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject57_aseg_stats.txt new file mode 100755 index 000000000..adadd9aca --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject57_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject57 +Left-Lateral-Ventricle 8801.48 +Left-Inf-Lat-Vent 5480.46 +Left-Cerebellum-White-Matter 13730.57 +Left-Cerebellum-Cortex 43707.00 +Left-Thalamus-Proper 2211.97 +Left-Caudate 1049.46 +Left-Putamen 1760.17 +Left-Pallidum 1503.04 +3rd-Ventricle 1328.34 +4th-Ventricle 468.12 +Brain-Stem 16957.10 +Left-Hippocampus 1758.54 +Left-Amygdala 4059.01 +CSF 2391.62 +Left-Accumbens-area 2761.72 +Left-VentralDC 643.67 +Left-vessel 3313.17 +Left-choroid-plexus 3064.90 +Right-Lateral-Ventricle 7301.21 +Right-Inf-Lat-Vent 2353.79 +Right-Cerebellum-White-Matter 14599.78 +Right-Cerebellum-Cortex 42001.66 +Right-Thalamus-Proper 1581.92 +Right-Caudate 976.27 +Right-Putamen 837.07 +Right-Pallidum 1896.84 +Right-Hippocampus 2836.04 +Right-Amygdala 2899.79 +Right-Accumbens-area 7517.24 +Right-VentralDC 503.36 +Right-vessel 3502.95 +Right-choroid-plexus 1122.44 +5th-Ventricle 6698.41 +WM-hypointensities 4709.99 +Left-WM-hypointensities 4691.37 +Right-WM-hypointensities 3642.32 +non-WM-hypointensities 5087.37 +Left-non-WM-hypointensities 3809.49 +Right-non-WM-hypointensities 5831.19 +Optic-Chiasm 4401.89 +CC_Posterior 3675.92 +CC_Mid_Posterior 5186.13 +CC_Central 3408.84 +CC_Mid_Anterior 2529.37 +CC_Anterior 928.36 +BrainSegVol 1094924.13 +BrainSegVolNotVent 1061603.29 +BrainSegVolNotVentSurf 1060708.70 +lhCortexVol 199230.87 +rhCortexVol 201509.32 +CortexVol 402581.31 +lhCorticalWhiteMatterVol 229249.21 +rhCorticalWhiteMatterVol 228718.04 +CorticalWhiteMatterVol 458736.39 +SubCortGrayVol 49244.48 +TotalGrayVol 553689.62 +SupraTentorialVol 960443.73 +SupraTentorialVolNotVent 923719.01 +SupraTentorialVolNotVentVox 925936.27 +MaskVol 1625394.45 +BrainSegVol-to-eTIV 3164.89 +MaskVol-to-eTIV 3984.43 +lhSurfaceHoles 7017.68 +rhSurfaceHoles 4258.26 +SurfaceHoles 3399.93 +EstimatedTotalIntraCranialVol 1593510.60 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject58_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject58_aseg_stats.txt new file mode 100755 index 000000000..10cb3aead --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject58_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject58 +Left-Lateral-Ventricle 723.35 +Left-Inf-Lat-Vent 14574.88 +Left-Cerebellum-White-Matter 5053.37 +Left-Cerebellum-Cortex 37444.33 +Left-Thalamus-Proper 6229.93 +Left-Caudate 7283.56 +Left-Putamen 11878.34 +Left-Pallidum 6706.33 +3rd-Ventricle 6141.65 +4th-Ventricle 4590.97 +Brain-Stem 11529.74 +Left-Hippocampus 2973.17 +Left-Amygdala 12590.41 +CSF 8509.46 +Left-Accumbens-area 7829.57 +Left-VentralDC 8337.41 +Left-vessel 9083.64 +Left-choroid-plexus 9932.28 +Right-Lateral-Ventricle 3772.70 +Right-Inf-Lat-Vent 7292.73 +Right-Cerebellum-White-Matter 6386.65 +Right-Cerebellum-Cortex 32120.71 +Right-Thalamus-Proper 14127.73 +Right-Caudate 3151.27 +Right-Putamen 9230.22 +Right-Pallidum 7500.44 +Right-Hippocampus 13282.31 +Right-Amygdala 10353.07 +Right-Accumbens-area 19613.52 +Right-VentralDC 5417.59 +Right-vessel 9400.92 +Right-choroid-plexus 5628.73 +5th-Ventricle 16497.82 +WM-hypointensities 14583.91 +Left-WM-hypointensities 12399.22 +Right-WM-hypointensities 9412.84 +non-WM-hypointensities 12773.19 +Left-non-WM-hypointensities 10183.71 +Right-non-WM-hypointensities 15127.15 +Optic-Chiasm 11720.20 +CC_Posterior 11079.08 +CC_Mid_Posterior 14098.66 +CC_Central 9910.12 +CC_Mid_Anterior 7645.47 +CC_Anterior 4633.05 +BrainSegVol 1084525.69 +BrainSegVolNotVent 1056584.20 +BrainSegVolNotVentSurf 1055305.72 +lhCortexVol 192846.32 +rhCortexVol 195974.13 +CortexVol 393890.03 +lhCorticalWhiteMatterVol 222065.90 +rhCorticalWhiteMatterVol 221228.66 +CorticalWhiteMatterVol 446179.33 +SubCortGrayVol 40663.37 +TotalGrayVol 546212.42 +SupraTentorialVol 954670.91 +SupraTentorialVolNotVent 912312.74 +SupraTentorialVolNotVentVox 918733.74 +MaskVol 1617863.81 +BrainSegVol-to-eTIV 8835.06 +MaskVol-to-eTIV 10272.41 +lhSurfaceHoles 18019.87 +rhSurfaceHoles 11509.99 +SurfaceHoles 9257.15 +EstimatedTotalIntraCranialVol 1581318.23 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject59_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject59_aseg_stats.txt new file mode 100755 index 000000000..d70e98005 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject59_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject59 +Left-Lateral-Ventricle 3957.97 +Left-Inf-Lat-Vent 10946.79 +Left-Cerebellum-White-Matter 8437.38 +Left-Cerebellum-Cortex 39675.86 +Left-Thalamus-Proper 2870.50 +Left-Caudate 4809.97 +Left-Putamen 7507.36 +Left-Pallidum 5837.21 +3rd-Ventricle 4618.60 +4th-Ventricle 4131.01 +Brain-Stem 12350.78 +Left-Hippocampus 1992.61 +Left-Amygdala 9107.91 +CSF 6498.46 +Left-Accumbens-area 6313.61 +Left-VentralDC 5957.20 +Left-vessel 7588.27 +Left-choroid-plexus 7058.37 +Right-Lateral-Ventricle 1404.03 +Right-Inf-Lat-Vent 6220.17 +Right-Cerebellum-White-Matter 9481.27 +Right-Cerebellum-Cortex 36291.61 +Right-Thalamus-Proper 8037.42 +Right-Caudate 2752.84 +Right-Putamen 6199.16 +Right-Pallidum 6153.78 +Right-Hippocampus 8356.91 +Right-Amygdala 8234.38 +Right-Accumbens-area 14245.16 +Right-VentralDC 4234.69 +Right-vessel 7648.29 +Right-choroid-plexus 4592.46 +5th-Ventricle 11745.21 +WM-hypointensities 10779.27 +Left-WM-hypointensities 9906.74 +Right-WM-hypointensities 7364.14 +non-WM-hypointensities 9428.44 +Left-non-WM-hypointensities 8360.49 +Right-non-WM-hypointensities 11709.82 +Optic-Chiasm 9078.63 +CC_Posterior 8033.58 +CC_Mid_Posterior 10875.19 +CC_Central 8142.81 +CC_Mid_Anterior 6384.06 +CC_Anterior 4453.26 +BrainSegVol 1088752.37 +BrainSegVolNotVent 1057943.36 +BrainSegVolNotVentSurf 1056700.79 +lhCortexVol 195110.56 +rhCortexVol 197769.80 +CortexVol 397385.87 +lhCorticalWhiteMatterVol 224555.47 +rhCorticalWhiteMatterVol 223972.91 +CorticalWhiteMatterVol 452086.75 +SubCortGrayVol 43697.21 +TotalGrayVol 549067.90 +SupraTentorialVol 955972.51 +SupraTentorialVolNotVent 917509.61 +SupraTentorialVolNotVentVox 921507.21 +MaskVol 1621016.13 +BrainSegVol-to-eTIV 7698.27 +MaskVol-to-eTIV 8022.82 +lhSurfaceHoles 13607.35 +rhSurfaceHoles 9450.55 +SurfaceHoles 7633.22 +EstimatedTotalIntraCranialVol 1587513.18 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject5_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject5_aseg_stats.txt new file mode 100755 index 000000000..c6c9ece6f --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject5_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject5 +Left-Lateral-Ventricle 1801.26 +Left-Inf-Lat-Vent 13140.68 +Left-Cerebellum-White-Matter 6290.77 +Left-Cerebellum-Cortex 38105.86 +Left-Thalamus-Proper 5017.87 +Left-Caudate 6572.04 +Left-Putamen 10204.33 +Left-Pallidum 6326.37 +3rd-Ventricle 5801.36 +4th-Ventricle 4392.06 +Brain-Stem 11963.60 +Left-Hippocampus 2770.24 +Left-Amygdala 11440.40 +CSF 7850.72 +Left-Accumbens-area 7399.66 +Left-VentralDC 7376.07 +Left-vessel 8581.57 +Left-choroid-plexus 9062.92 +Right-Lateral-Ventricle 1980.31 +Right-Inf-Lat-Vent 6888.67 +Right-Cerebellum-White-Matter 7497.56 +Right-Cerebellum-Cortex 33641.92 +Right-Thalamus-Proper 11904.22 +Right-Caudate 2946.85 +Right-Putamen 8033.55 +Right-Pallidum 7026.98 +Right-Hippocampus 11599.42 +Right-Amygdala 9464.86 +Right-Accumbens-area 17499.46 +Right-VentralDC 4864.38 +Right-vessel 8874.63 +Right-choroid-plexus 5314.34 +5th-Ventricle 14905.21 +WM-hypointensities 13029.19 +Left-WM-hypointensities 11337.89 +Right-WM-hypointensities 8785.50 +non-WM-hypointensities 11695.93 +Left-non-WM-hypointensities 9516.65 +Right-non-WM-hypointensities 13707.19 +Optic-Chiasm 10781.49 +CC_Posterior 10082.66 +CC_Mid_Posterior 12752.41 +CC_Central 9135.90 +CC_Mid_Anterior 7284.21 +CC_Anterior 4632.02 +BrainSegVol 1086152.53 +BrainSegVolNotVent 1056956.97 +BrainSegVolNotVentSurf 1055752.76 +lhCortexVol 193525.47 +rhCortexVol 196534.37 +CortexVol 395185.67 +lhCorticalWhiteMatterVol 222971.61 +rhCorticalWhiteMatterVol 222159.18 +CorticalWhiteMatterVol 448416.03 +SubCortGrayVol 41913.38 +TotalGrayVol 547170.40 +SupraTentorialVol 955175.74 +SupraTentorialVolNotVent 914244.21 +SupraTentorialVolNotVentVox 919661.99 +MaskVol 1618842.69 +BrainSegVol-to-eTIV 8325.32 +MaskVol-to-eTIV 9622.95 +lhSurfaceHoles 16228.06 +rhSurfaceHoles 10607.56 +SurfaceHoles 8653.41 +EstimatedTotalIntraCranialVol 1583461.42 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject60_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject60_aseg_stats.txt new file mode 100755 index 000000000..13e81366a --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject60_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject60 +Left-Lateral-Ventricle 4785.37 +Left-Inf-Lat-Vent 9013.55 +Left-Cerebellum-White-Matter 9772.89 +Left-Cerebellum-Cortex 39813.59 +Left-Thalamus-Proper 1601.59 +Left-Caudate 4687.72 +Left-Putamen 5340.00 +Left-Pallidum 5497.73 +3rd-Ventricle 5073.73 +4th-Ventricle 4090.81 +Brain-Stem 12958.51 +Left-Hippocampus 2512.72 +Left-Amygdala 8248.47 +CSF 6138.96 +Left-Accumbens-area 6384.41 +Left-VentralDC 4761.06 +Left-vessel 7381.87 +Left-choroid-plexus 6689.53 +Right-Lateral-Ventricle 3205.24 +Right-Inf-Lat-Vent 5951.15 +Right-Cerebellum-White-Matter 10583.67 +Right-Cerebellum-Cortex 37997.23 +Right-Thalamus-Proper 5358.47 +Right-Caudate 2626.93 +Right-Putamen 4666.21 +Right-Pallidum 5911.01 +Right-Hippocampus 6735.29 +Right-Amygdala 7081.46 +Right-Accumbens-area 11291.84 +Right-VentralDC 3501.07 +Right-vessel 7602.81 +Right-choroid-plexus 4647.74 +5th-Ventricle 10293.82 +WM-hypointensities 8556.65 +Left-WM-hypointensities 8376.38 +Right-WM-hypointensities 7150.09 +non-WM-hypointensities 8676.94 +Left-non-WM-hypointensities 7800.28 +Right-non-WM-hypointensities 9648.64 +Optic-Chiasm 8209.61 +CC_Posterior 7318.08 +CC_Mid_Posterior 8913.98 +CC_Central 7058.79 +CC_Mid_Anterior 6512.37 +CC_Anterior 4979.53 +BrainSegVol 1090826.22 +BrainSegVolNotVent 1057778.05 +BrainSegVolNotVentSurf 1056795.82 +lhCortexVol 195282.92 +rhCortexVol 197958.71 +CortexVol 398869.04 +lhCorticalWhiteMatterVol 225441.49 +rhCorticalWhiteMatterVol 224686.35 +CorticalWhiteMatterVol 455006.59 +SubCortGrayVol 45448.46 +TotalGrayVol 549794.26 +SupraTentorialVol 956384.76 +SupraTentorialVolNotVent 919882.08 +SupraTentorialVolNotVentVox 922208.42 +MaskVol 1621534.16 +BrainSegVol-to-eTIV 7089.46 +MaskVol-to-eTIV 7959.64 +lhSurfaceHoles 11037.69 +rhSurfaceHoles 8155.56 +SurfaceHoles 7108.31 +EstimatedTotalIntraCranialVol 1589761.32 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject61_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject61_aseg_stats.txt new file mode 100755 index 000000000..7d033cf2b --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject61_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject61 +Left-Lateral-Ventricle 4617.40 +Left-Inf-Lat-Vent 19052.41 +Left-Cerebellum-White-Matter 130.05 +Left-Cerebellum-Cortex 32092.46 +Left-Thalamus-Proper 11215.62 +Left-Caudate 12242.28 +Left-Putamen 16314.73 +Left-Pallidum 12333.23 +3rd-Ventricle 11424.63 +4th-Ventricle 9760.07 +Brain-Stem 5921.69 +Left-Hippocampus 9082.06 +Left-Amygdala 18150.06 +CSF 13650.52 +Left-Accumbens-area 12893.67 +Left-VentralDC 13878.19 +Left-vessel 14762.48 +Left-choroid-plexus 14799.46 +Right-Lateral-Ventricle 8904.62 +Right-Inf-Lat-Vent 12331.82 +Right-Cerebellum-White-Matter 1060.90 +Right-Cerebellum-Cortex 26998.43 +Right-Thalamus-Proper 18599.94 +Right-Caudate 8289.59 +Right-Putamen 14245.53 +Right-Pallidum 13113.11 +Right-Hippocampus 18178.41 +Right-Amygdala 16020.40 +Right-Accumbens-area 24132.66 +Right-VentralDC 10979.87 +Right-vessel 15114.00 +Right-choroid-plexus 10603.96 +5th-Ventricle 20993.84 +WM-hypointensities 19461.92 +Left-WM-hypointensities 17266.80 +Right-WM-hypointensities 14220.36 +non-WM-hypointensities 17494.97 +Left-non-WM-hypointensities 15674.45 +Right-non-WM-hypointensities 20024.00 +Optic-Chiasm 16821.66 +CC_Posterior 15913.95 +CC_Mid_Posterior 18898.94 +CC_Central 14857.31 +CC_Mid_Anterior 13263.90 +CC_Anterior 10514.19 +BrainSegVol 1079315.69 +BrainSegVolNotVent 1051200.05 +BrainSegVolNotVentSurf 1049828.08 +lhCortexVol 187423.29 +rhCortexVol 191073.89 +CortexVol 389089.37 +lhCorticalWhiteMatterVol 216949.44 +rhCorticalWhiteMatterVol 215798.29 +CorticalWhiteMatterVol 441780.97 +SubCortGrayVol 35720.37 +TotalGrayVol 540992.47 +SupraTentorialVol 949007.46 +SupraTentorialVolNotVent 907620.12 +SupraTentorialVolNotVentVox 913743.46 +MaskVol 1612704.26 +BrainSegVol-to-eTIV 14301.17 +MaskVol-to-eTIV 15748.53 +lhSurfaceHoles 23041.78 +rhSurfaceHoles 16758.02 +SurfaceHoles 14366.66 +EstimatedTotalIntraCranialVol 1576849.09 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject62_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject62_aseg_stats.txt new file mode 100755 index 000000000..bb67ad6c1 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject62_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject62 +Left-Lateral-Ventricle 3016.02 +Left-Inf-Lat-Vent 12614.76 +Left-Cerebellum-White-Matter 7206.57 +Left-Cerebellum-Cortex 39425.01 +Left-Thalamus-Proper 4090.55 +Left-Caudate 5205.59 +Left-Putamen 9578.84 +Left-Pallidum 5578.50 +3rd-Ventricle 4348.49 +4th-Ventricle 3644.80 +Brain-Stem 12517.28 +Left-Hippocampus 1364.77 +Left-Amygdala 10134.68 +CSF 6777.95 +Left-Accumbens-area 6226.40 +Left-VentralDC 6674.59 +Left-vessel 7523.55 +Left-choroid-plexus 7729.76 +Right-Lateral-Ventricle 753.71 +Right-Inf-Lat-Vent 6094.10 +Right-Cerebellum-White-Matter 8482.32 +Right-Cerebellum-Cortex 34581.29 +Right-Thalamus-Proper 11012.98 +Right-Caudate 2280.58 +Right-Putamen 7389.05 +Right-Pallidum 6052.12 +Right-Hippocampus 10370.57 +Right-Amygdala 8810.73 +Right-Accumbens-area 17032.12 +Right-VentralDC 4273.01 +Right-vessel 7618.23 +Right-choroid-plexus 4328.01 +5th-Ventricle 13672.54 +WM-hypointensities 12583.60 +Left-WM-hypointensities 10895.88 +Right-WM-hypointensities 7644.26 +non-WM-hypointensities 10466.95 +Left-non-WM-hypointensities 8598.58 +Right-non-WM-hypointensities 13288.08 +Optic-Chiasm 9827.87 +CC_Posterior 8920.42 +CC_Mid_Posterior 12346.64 +CC_Central 8644.07 +CC_Mid_Anterior 6095.73 +CC_Anterior 3527.09 +BrainSegVol 1086881.03 +BrainSegVolNotVent 1058175.68 +BrainSegVolNotVentSurf 1056824.90 +lhCortexVol 194841.78 +rhCortexVol 197615.39 +CortexVol 395998.26 +lhCorticalWhiteMatterVol 223863.23 +rhCorticalWhiteMatterVol 223289.13 +CorticalWhiteMatterVol 449077.70 +SubCortGrayVol 42407.60 +TotalGrayVol 548305.45 +SupraTentorialVol 956030.26 +SupraTentorialVolNotVent 915052.30 +SupraTentorialVolNotVentVox 920757.76 +MaskVol 1620209.56 +BrainSegVol-to-eTIV 7679.79 +MaskVol-to-eTIV 8234.06 +lhSurfaceHoles 15781.50 +rhSurfaceHoles 10116.61 +SurfaceHoles 7826.62 +EstimatedTotalIntraCranialVol 1584670.08 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject63_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject63_aseg_stats.txt new file mode 100755 index 000000000..158b543ff --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject63_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject63 +Left-Lateral-Ventricle 8557.93 +Left-Inf-Lat-Vent 5606.36 +Left-Cerebellum-White-Matter 13522.42 +Left-Cerebellum-Cortex 43401.18 +Left-Thalamus-Proper 2014.98 +Left-Caudate 1318.27 +Left-Putamen 1847.59 +Left-Pallidum 1871.15 +3rd-Ventricle 1676.37 +4th-Ventricle 828.43 +Brain-Stem 16598.37 +Left-Hippocampus 1327.98 +Left-Amygdala 4308.42 +CSF 2681.97 +Left-Accumbens-area 3080.03 +Left-VentralDC 919.49 +Left-vessel 3667.17 +Left-choroid-plexus 3303.52 +Right-Lateral-Ventricle 7178.83 +Right-Inf-Lat-Vent 2674.02 +Right-Cerebellum-White-Matter 14362.23 +Right-Cerebellum-Cortex 41839.99 +Right-Thalamus-Proper 1590.96 +Right-Caudate 619.10 +Right-Putamen 1038.56 +Right-Pallidum 2250.07 +Right-Hippocampus 2956.80 +Right-Amygdala 3195.95 +Right-Accumbens-area 7545.97 +Right-VentralDC 165.69 +Right-vessel 3855.96 +Right-choroid-plexus 1451.09 +5th-Ventricle 6802.33 +WM-hypointensities 4848.30 +Left-WM-hypointensities 4901.70 +Right-WM-hypointensities 3912.16 +non-WM-hypointensities 5284.35 +Left-non-WM-hypointensities 4124.96 +Right-non-WM-hypointensities 5990.81 +Optic-Chiasm 4647.94 +CC_Posterior 3893.36 +CC_Mid_Posterior 5349.34 +CC_Central 3667.53 +CC_Mid_Anterior 2899.59 +CC_Anterior 1371.54 +BrainSegVol 1094771.44 +BrainSegVolNotVent 1061252.42 +BrainSegVolNotVentSurf 1060361.75 +lhCortexVol 198922.28 +rhCortexVol 201222.60 +CortexVol 402410.60 +lhCorticalWhiteMatterVol 228997.16 +rhCorticalWhiteMatterVol 228445.99 +CorticalWhiteMatterVol 458734.87 +SubCortGrayVol 49056.31 +TotalGrayVol 553437.48 +SupraTentorialVol 960091.29 +SupraTentorialVolNotVent 923650.27 +SupraTentorialVolNotVentVox 925697.06 +MaskVol 1625149.95 +BrainSegVol-to-eTIV 3501.72 +MaskVol-to-eTIV 4301.40 +lhSurfaceHoles 7131.85 +rhSurfaceHoles 4520.71 +SurfaceHoles 3696.01 +EstimatedTotalIntraCranialVol 1593489.94 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject64_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject64_aseg_stats.txt new file mode 100755 index 000000000..2e91203e7 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject64_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject64 +Left-Lateral-Ventricle 772.85 +Left-Inf-Lat-Vent 14809.01 +Left-Cerebellum-White-Matter 4916.42 +Left-Cerebellum-Cortex 37424.67 +Left-Thalamus-Proper 6306.27 +Left-Caudate 7117.27 +Left-Putamen 11902.51 +Left-Pallidum 7495.06 +3rd-Ventricle 6138.20 +4th-Ventricle 5316.67 +Brain-Stem 10574.51 +Left-Hippocampus 3321.60 +Left-Amygdala 12486.29 +CSF 8713.26 +Left-Accumbens-area 8003.27 +Left-VentralDC 8908.98 +Left-vessel 9527.93 +Left-choroid-plexus 9707.24 +Right-Lateral-Ventricle 3356.50 +Right-Inf-Lat-Vent 7848.17 +Right-Cerebellum-White-Matter 6224.15 +Right-Cerebellum-Cortex 32141.73 +Right-Thalamus-Proper 13672.29 +Right-Caudate 3946.45 +Right-Putamen 9604.57 +Right-Pallidum 8019.69 +Right-Hippocampus 12837.71 +Right-Amygdala 11039.94 +Right-Accumbens-area 19640.83 +Right-VentralDC 6272.57 +Right-vessel 9647.22 +Right-choroid-plexus 6009.86 +5th-Ventricle 15966.00 +WM-hypointensities 14969.53 +Left-WM-hypointensities 12986.97 +Right-WM-hypointensities 9460.70 +non-WM-hypointensities 12523.62 +Left-non-WM-hypointensities 10643.94 +Right-non-WM-hypointensities 15600.00 +Optic-Chiasm 11916.79 +CC_Posterior 10963.30 +CC_Mid_Posterior 14585.94 +CC_Central 10589.35 +CC_Mid_Anterior 7998.69 +CC_Anterior 5296.07 +BrainSegVol 1084352.64 +BrainSegVolNotVent 1056336.35 +BrainSegVolNotVentSurf 1054913.55 +lhCortexVol 192809.63 +rhCortexVol 195810.73 +CortexVol 393788.76 +lhCorticalWhiteMatterVol 221789.31 +rhCorticalWhiteMatterVol 221106.15 +CorticalWhiteMatterVol 446432.80 +SubCortGrayVol 40182.29 +TotalGrayVol 546169.51 +SupraTentorialVol 954028.88 +SupraTentorialVolNotVent 912499.38 +SupraTentorialVolNotVentVox 918708.46 +MaskVol 1618079.43 +BrainSegVol-to-eTIV 9624.74 +MaskVol-to-eTIV 10264.62 +lhSurfaceHoles 18350.87 +rhSurfaceHoles 12228.15 +SurfaceHoles 9719.91 +EstimatedTotalIntraCranialVol 1582059.18 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject65_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject65_aseg_stats.txt new file mode 100755 index 000000000..83e9ccdd9 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject65_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject65 +Left-Lateral-Ventricle 9387.56 +Left-Inf-Lat-Vent 6302.74 +Left-Cerebellum-White-Matter 13740.20 +Left-Cerebellum-Cortex 45044.14 +Left-Thalamus-Proper 2233.83 +Left-Caudate 181.06 +Left-Putamen 2862.10 +Left-Pallidum 247.79 +3rd-Ventricle 626.33 +4th-Ventricle 977.61 +Brain-Stem 17931.04 +Left-Hippocampus 4039.24 +Left-Amygdala 3450.94 +CSF 1337.60 +Left-Accumbens-area 1267.99 +Left-VentralDC 351.47 +Left-vessel 1926.69 +Left-choroid-plexus 2129.82 +Right-Lateral-Ventricle 6752.57 +Right-Inf-Lat-Vent 1203.58 +Right-Cerebellum-White-Matter 14901.86 +Right-Cerebellum-Cortex 41583.65 +Right-Thalamus-Proper 3261.67 +Right-Caudate 2326.53 +Right-Putamen 1068.42 +Right-Pallidum 562.11 +Right-Hippocampus 3258.85 +Right-Amygdala 2517.11 +Right-Accumbens-area 9442.34 +Right-VentralDC 1321.35 +Right-vessel 1948.89 +Right-choroid-plexus 345.89 +5th-Ventricle 7055.55 +WM-hypointensities 5721.20 +Left-WM-hypointensities 4944.49 +Right-WM-hypointensities 2536.13 +non-WM-hypointensities 4606.55 +Left-non-WM-hypointensities 2854.93 +Right-non-WM-hypointensities 6656.63 +Optic-Chiasm 3908.07 +CC_Posterior 3114.70 +CC_Mid_Posterior 5929.58 +CC_Central 3152.23 +CC_Mid_Anterior 806.20 +CC_Anterior 1320.00 +BrainSegVol 1094148.84 +BrainSegVolNotVent 1063293.24 +BrainSegVolNotVentSurf 1062155.33 +lhCortexVol 200551.76 +rhCortexVol 202677.18 +CortexVol 402323.07 +lhCorticalWhiteMatterVol 229735.03 +rhCorticalWhiteMatterVol 229464.91 +CorticalWhiteMatterVol 456792.28 +SubCortGrayVol 48766.21 +TotalGrayVol 554358.11 +SupraTentorialVol 961619.47 +SupraTentorialVolNotVent 922451.05 +SupraTentorialVolNotVentVox 926566.82 +MaskVol 1626250.68 +BrainSegVol-to-eTIV 2244.17 +MaskVol-to-eTIV 2534.66 +lhSurfaceHoles 8366.90 +rhSurfaceHoles 4142.42 +SurfaceHoles 2512.87 +EstimatedTotalIntraCranialVol 1592271.97 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject66_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject66_aseg_stats.txt new file mode 100755 index 000000000..7b6c5d9f0 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject66_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject66 +Left-Lateral-Ventricle 4632.30 +Left-Inf-Lat-Vent 10044.34 +Left-Cerebellum-White-Matter 9213.37 +Left-Cerebellum-Cortex 40085.58 +Left-Thalamus-Proper 2110.22 +Left-Caudate 4367.70 +Left-Putamen 6452.43 +Left-Pallidum 5606.97 +3rd-Ventricle 4412.88 +4th-Ventricle 4014.91 +Brain-Stem 12615.31 +Left-Hippocampus 1875.82 +Left-Amygdala 8388.20 +CSF 6090.10 +Left-Accumbens-area 6050.51 +Left-VentralDC 5357.35 +Left-vessel 7280.54 +Left-choroid-plexus 6515.62 +Right-Lateral-Ventricle 2532.79 +Right-Inf-Lat-Vent 5973.44 +Right-Cerebellum-White-Matter 10176.60 +Right-Cerebellum-Cortex 37248.07 +Right-Thalamus-Proper 6633.38 +Right-Caudate 2633.18 +Right-Putamen 5448.72 +Right-Pallidum 5864.09 +Right-Hippocampus 7297.26 +Right-Amygdala 7681.26 +Right-Accumbens-area 12910.77 +Right-VentralDC 3894.23 +Right-vessel 7325.24 +Right-choroid-plexus 4402.59 +5th-Ventricle 10742.13 +WM-hypointensities 9801.03 +Left-WM-hypointensities 9242.00 +Right-WM-hypointensities 6975.08 +non-WM-hypointensities 8753.30 +Left-non-WM-hypointensities 7947.54 +Right-non-WM-hypointensities 10817.24 +Optic-Chiasm 8492.28 +CC_Posterior 7410.03 +CC_Mid_Posterior 10029.27 +CC_Central 7660.68 +CC_Mid_Anterior 6165.69 +CC_Anterior 4464.33 +BrainSegVol 1089775.78 +BrainSegVolNotVent 1058169.51 +BrainSegVolNotVentSurf 1056973.95 +lhCortexVol 195531.33 +rhCortexVol 198116.05 +CortexVol 398199.63 +lhCorticalWhiteMatterVol 225120.82 +rhCorticalWhiteMatterVol 224553.40 +CorticalWhiteMatterVol 453499.31 +SubCortGrayVol 44481.69 +TotalGrayVol 549666.26 +SupraTentorialVol 956282.02 +SupraTentorialVolNotVent 918727.63 +SupraTentorialVolNotVentVox 922087.13 +MaskVol 1621627.89 +BrainSegVol-to-eTIV 7385.23 +MaskVol-to-eTIV 7621.03 +lhSurfaceHoles 12478.73 +rhSurfaceHoles 8887.55 +SurfaceHoles 7259.75 +EstimatedTotalIntraCranialVol 1588866.19 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject67_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject67_aseg_stats.txt new file mode 100755 index 000000000..955cdbdd3 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject67_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject67 +Left-Lateral-Ventricle 8492.12 +Left-Inf-Lat-Vent 5853.60 +Left-Cerebellum-White-Matter 13303.67 +Left-Cerebellum-Cortex 43200.01 +Left-Thalamus-Proper 1863.41 +Left-Caudate 1304.63 +Left-Putamen 1844.88 +Left-Pallidum 2900.43 +3rd-Ventricle 1901.36 +4th-Ventricle 1798.77 +Brain-Stem 15412.08 +Left-Hippocampus 685.36 +Left-Amygdala 4319.94 +CSF 3056.46 +Left-Accumbens-area 3456.37 +Left-VentralDC 1635.42 +Left-vessel 4335.55 +Left-choroid-plexus 3201.37 +Right-Lateral-Ventricle 7603.42 +Right-Inf-Lat-Vent 3434.83 +Right-Cerebellum-White-Matter 14090.42 +Right-Cerebellum-Cortex 41827.19 +Right-Thalamus-Proper 1023.98 +Right-Caudate 418.22 +Right-Putamen 1492.15 +Right-Pallidum 2994.38 +Right-Hippocampus 2508.47 +Right-Amygdala 4045.46 +Right-Accumbens-area 7481.49 +Right-VentralDC 899.11 +Right-vessel 4324.37 +Right-choroid-plexus 2048.32 +5th-Ventricle 6259.64 +WM-hypointensities 5249.41 +Left-WM-hypointensities 5582.11 +Right-WM-hypointensities 4117.86 +non-WM-hypointensities 5117.15 +Left-non-WM-hypointensities 4773.24 +Right-non-WM-hypointensities 6501.38 +Optic-Chiasm 4969.00 +CC_Posterior 3878.72 +CC_Mid_Posterior 5880.81 +CC_Central 4488.90 +CC_Mid_Anterior 3495.86 +CC_Anterior 2348.39 +BrainSegVol 1094576.53 +BrainSegVolNotVent 1060775.84 +BrainSegVolNotVentSurf 1059747.56 +lhCortexVol 198703.05 +rhCortexVol 200885.85 +CortexVol 402257.16 +lhCorticalWhiteMatterVol 228590.10 +rhCorticalWhiteMatterVol 228180.16 +CorticalWhiteMatterVol 459105.90 +SubCortGrayVol 48508.27 +TotalGrayVol 553266.82 +SupraTentorialVol 959226.43 +SupraTentorialVolNotVent 923890.67 +SupraTentorialVolNotVentVox 925551.59 +MaskVol 1625244.33 +BrainSegVol-to-eTIV 4502.92 +MaskVol-to-eTIV 4483.66 +lhSurfaceHoles 7448.67 +rhSurfaceHoles 5376.88 +SurfaceHoles 4336.45 +EstimatedTotalIntraCranialVol 1594329.95 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject68_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject68_aseg_stats.txt new file mode 100755 index 000000000..9554fe999 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject68_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject68 +Left-Lateral-Ventricle 2534.50 +Left-Inf-Lat-Vent 12230.58 +Left-Cerebellum-White-Matter 7108.89 +Left-Cerebellum-Cortex 38607.54 +Left-Thalamus-Proper 4218.78 +Left-Caudate 6052.32 +Left-Putamen 9161.73 +Left-Pallidum 5974.61 +3rd-Ventricle 5480.25 +4th-Ventricle 4152.50 +Brain-Stem 12344.91 +Left-Hippocampus 2505.03 +Left-Amygdala 10661.57 +CSF 7355.84 +Left-Accumbens-area 7034.10 +Left-VentralDC 6702.76 +Left-vessel 8160.52 +Left-choroid-plexus 8457.59 +Right-Lateral-Ventricle 854.47 +Right-Inf-Lat-Vent 6538.14 +Right-Cerebellum-White-Matter 8248.80 +Right-Cerebellum-Cortex 34616.54 +Right-Thalamus-Proper 10554.78 +Right-Caudate 2705.01 +Right-Putamen 7242.30 +Right-Pallidum 6623.51 +Right-Hippocampus 10540.42 +Right-Amygdala 8829.11 +Right-Accumbens-area 16209.79 +Right-VentralDC 4417.76 +Right-vessel 8439.25 +Right-choroid-plexus 5015.33 +5th-Ventricle 13906.45 +WM-hypointensities 12042.01 +Left-WM-hypointensities 10625.67 +Right-WM-hypointensities 8316.42 +non-WM-hypointensities 10978.48 +Left-non-WM-hypointensities 9008.43 +Right-non-WM-hypointensities 12794.56 +Optic-Chiasm 10131.71 +CC_Posterior 9407.40 +CC_Mid_Posterior 11883.24 +CC_Central 8581.56 +CC_Mid_Anterior 6943.08 +CC_Anterior 4484.91 +BrainSegVol 1087188.14 +BrainSegVolNotVent 1057298.68 +BrainSegVolNotVentSurf 1056138.15 +lhCortexVol 194038.74 +rhCortexVol 196968.41 +CortexVol 396026.68 +lhCorticalWhiteMatterVol 223603.39 +rhCorticalWhiteMatterVol 222812.59 +CorticalWhiteMatterVol 449770.97 +SubCortGrayVol 42732.52 +TotalGrayVol 547833.86 +SupraTentorialVol 955597.93 +SupraTentorialVolNotVent 915436.54 +SupraTentorialVolNotVentVox 920303.16 +MaskVol 1619516.27 +BrainSegVol-to-eTIV 7905.30 +MaskVol-to-eTIV 9124.90 +lhSurfaceHoles 15105.28 +rhSurfaceHoles 9974.33 +SurfaceHoles 8189.95 +EstimatedTotalIntraCranialVol 1584766.07 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject69_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject69_aseg_stats.txt new file mode 100755 index 000000000..a5970ce0d --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject69_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject69 +Left-Lateral-Ventricle 1487.00 +Left-Inf-Lat-Vent 16797.07 +Left-Cerebellum-White-Matter 2689.45 +Left-Cerebellum-Cortex 35233.87 +Left-Thalamus-Proper 8452.15 +Left-Caudate 9164.51 +Left-Putamen 13916.86 +Left-Pallidum 9742.86 +3rd-Ventricle 8245.71 +4th-Ventricle 7355.14 +Brain-Stem 8324.53 +Left-Hippocampus 5725.02 +Left-Amygdala 14843.68 +CSF 10821.87 +Left-Accumbens-area 10041.74 +Left-VentralDC 11225.82 +Left-vessel 11817.37 +Left-choroid-plexus 11746.80 +Right-Lateral-Ventricle 5661.28 +Right-Inf-Lat-Vent 9872.39 +Right-Cerebellum-White-Matter 3964.30 +Right-Cerebellum-Cortex 29888.45 +Right-Thalamus-Proper 15797.34 +Right-Caudate 5973.96 +Right-Putamen 11759.21 +Right-Pallidum 10278.44 +Right-Hippocampus 15031.81 +Right-Amygdala 13392.95 +Right-Accumbens-area 21764.78 +Right-VentralDC 8525.85 +Right-vessel 11954.20 +Right-choroid-plexus 7993.53 +5th-Ventricle 17989.13 +WM-hypointensities 17134.04 +Left-WM-hypointensities 15060.51 +Right-WM-hypointensities 11434.51 +non-WM-hypointensities 14543.45 +Left-non-WM-hypointensities 12889.54 +Right-non-WM-hypointensities 17748.06 +Optic-Chiasm 14059.37 +CC_Posterior 13012.72 +CC_Mid_Posterior 16683.59 +CC_Central 12643.16 +CC_Mid_Anterior 10239.91 +CC_Anterior 7575.65 +BrainSegVol 1082046.76 +BrainSegVolNotVent 1054183.90 +BrainSegVolNotVentSurf 1052711.79 +lhCortexVol 190588.14 +rhCortexVol 193812.81 +CortexVol 391699.88 +lhCorticalWhiteMatterVol 219646.73 +rhCorticalWhiteMatterVol 218837.54 +CorticalWhiteMatterVol 444334.06 +SubCortGrayVol 38046.28 +TotalGrayVol 543977.61 +SupraTentorialVol 951744.92 +SupraTentorialVolNotVent 910340.36 +SupraTentorialVolNotVentVox 916610.81 +MaskVol 1615907.26 +BrainSegVol-to-eTIV 11833.08 +MaskVol-to-eTIV 12501.46 +lhSurfaceHoles 20612.91 +rhSurfaceHoles 14421.15 +SurfaceHoles 11806.60 +EstimatedTotalIntraCranialVol 1579949.47 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject6_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject6_aseg_stats.txt new file mode 100755 index 000000000..36adb4fa3 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject6_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject6 +Left-Lateral-Ventricle 5201.02 +Left-Inf-Lat-Vent 8957.11 +Left-Cerebellum-White-Matter 10071.02 +Left-Cerebellum-Cortex 40460.55 +Left-Thalamus-Proper 1326.87 +Left-Caudate 4142.56 +Left-Putamen 5423.35 +Left-Pallidum 4643.81 +3rd-Ventricle 4262.94 +4th-Ventricle 3223.71 +Brain-Stem 13779.21 +Left-Hippocampus 1470.28 +Left-Amygdala 7831.15 +CSF 5530.29 +Left-Accumbens-area 5664.31 +Left-VentralDC 4243.44 +Left-vessel 6585.36 +Left-choroid-plexus 6248.55 +Right-Lateral-Ventricle 3188.13 +Right-Inf-Lat-Vent 5221.54 +Right-Cerebellum-White-Matter 10978.32 +Right-Cerebellum-Cortex 38127.58 +Right-Thalamus-Proper 5737.54 +Right-Caudate 1768.67 +Right-Putamen 4377.41 +Right-Pallidum 5111.24 +Right-Hippocampus 6736.68 +Right-Amygdala 6499.68 +Right-Accumbens-area 11601.80 +Right-VentralDC 2754.72 +Right-vessel 6813.15 +Right-choroid-plexus 3880.84 +5th-Ventricle 10321.10 +WM-hypointensities 8490.90 +Left-WM-hypointensities 8041.00 +Right-WM-hypointensities 6587.14 +non-WM-hypointensities 8377.87 +Left-non-WM-hypointensities 7130.12 +Right-non-WM-hypointensities 9505.15 +Optic-Chiasm 7762.54 +CC_Posterior 6953.14 +CC_Mid_Posterior 8748.15 +CC_Central 6550.32 +CC_Mid_Anterior 5649.75 +CC_Anterior 3868.97 +BrainSegVol 1090914.99 +BrainSegVolNotVent 1058590.07 +BrainSegVolNotVentSurf 1057584.62 +lhCortexVol 195933.64 +rhCortexVol 198576.10 +CortexVol 399062.79 +lhCorticalWhiteMatterVol 225909.56 +rhCorticalWhiteMatterVol 225200.07 +CorticalWhiteMatterVol 454606.30 +SubCortGrayVol 45694.23 +TotalGrayVol 550253.11 +SupraTentorialVol 957176.86 +SupraTentorialVolNotVent 919705.41 +SupraTentorialVolNotVentVox 922640.25 +MaskVol 1621970.09 +BrainSegVol-to-eTIV 6337.35 +MaskVol-to-eTIV 7282.55 +lhSurfaceHoles 11075.27 +rhSurfaceHoles 7660.83 +SurfaceHoles 6475.32 +EstimatedTotalIntraCranialVol 1589425.87 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject70_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject70_aseg_stats.txt new file mode 100755 index 000000000..e652a0ea2 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject70_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject70 +Left-Lateral-Ventricle 1217.01 +Left-Inf-Lat-Vent 15840.12 +Left-Cerebellum-White-Matter 3300.48 +Left-Cerebellum-Cortex 35214.66 +Left-Thalamus-Proper 7901.05 +Left-Caudate 9282.26 +Left-Putamen 12959.56 +Left-Pallidum 9265.62 +3rd-Ventricle 8555.72 +4th-Ventricle 7044.34 +Brain-Stem 9016.63 +Left-Hippocampus 5894.49 +Left-Amygdala 14591.28 +CSF 10635.44 +Left-Accumbens-area 10072.94 +Left-VentralDC 10457.39 +Left-vessel 11585.73 +Left-choroid-plexus 11777.57 +Right-Lateral-Ventricle 5121.60 +Right-Inf-Lat-Vent 9541.20 +Right-Cerebellum-White-Matter 4476.29 +Right-Cerebellum-Cortex 30591.85 +Right-Thalamus-Proper 14852.44 +Right-Caudate 5585.48 +Right-Putamen 10926.66 +Right-Pallidum 9988.89 +Right-Hippocampus 14587.72 +Right-Amygdala 12586.27 +Right-Accumbens-area 20436.32 +Right-VentralDC 7826.45 +Right-vessel 11903.66 +Right-choroid-plexus 7906.31 +5th-Ventricle 17664.37 +WM-hypointensities 15967.60 +Left-WM-hypointensities 14113.89 +Right-WM-hypointensities 11393.17 +non-WM-hypointensities 14403.99 +Left-non-WM-hypointensities 12479.17 +Right-non-WM-hypointensities 16612.10 +Optic-Chiasm 13635.57 +CC_Posterior 12821.61 +CC_Mid_Posterior 15585.48 +CC_Central 11860.32 +CC_Mid_Anterior 10213.26 +CC_Anterior 7577.89 +BrainSegVol 1083024.87 +BrainSegVolNotVent 1054141.59 +BrainSegVolNotVentSurf 1052866.90 +lhCortexVol 190593.02 +rhCortexVol 193901.64 +CortexVol 392368.53 +lhCorticalWhiteMatterVol 220120.53 +rhCorticalWhiteMatterVol 219142.97 +CorticalWhiteMatterVol 445500.60 +SubCortGrayVol 39039.49 +TotalGrayVol 544250.84 +SupraTentorialVol 952178.40 +SupraTentorialVolNotVent 911278.63 +SupraTentorialVolNotVentVox 916866.92 +MaskVol 1615946.71 +BrainSegVol-to-eTIV 11225.38 +MaskVol-to-eTIV 12572.54 +lhSurfaceHoles 19314.07 +rhSurfaceHoles 13523.49 +SurfaceHoles 11404.81 +EstimatedTotalIntraCranialVol 1580540.33 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject71_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject71_aseg_stats.txt new file mode 100755 index 000000000..7477ec4f6 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject71_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject71 +Left-Lateral-Ventricle 5054.23 +Left-Inf-Lat-Vent 10159.07 +Left-Cerebellum-White-Matter 9454.00 +Left-Cerebellum-Cortex 40878.07 +Left-Thalamus-Proper 1898.08 +Left-Caudate 3720.49 +Left-Putamen 6789.52 +Left-Pallidum 4495.08 +3rd-Ventricle 3354.44 +4th-Ventricle 2860.90 +Brain-Stem 13674.75 +Left-Hippocampus 483.62 +Left-Amygdala 7973.63 +CSF 5349.37 +Left-Accumbens-area 5127.50 +Left-VentralDC 4781.01 +Left-vessel 6263.13 +Left-choroid-plexus 6031.34 +Right-Lateral-Ventricle 2270.08 +Right-Inf-Lat-Vent 5034.04 +Right-Cerebellum-White-Matter 10565.53 +Right-Cerebellum-Cortex 37222.34 +Right-Thalamus-Proper 7446.50 +Right-Caudate 1491.95 +Right-Putamen 5215.36 +Right-Pallidum 4838.43 +Right-Hippocampus 7523.94 +Right-Amygdala 7007.79 +Right-Accumbens-area 13615.17 +Right-VentralDC 2951.96 +Right-vessel 6320.39 +Right-choroid-plexus 3400.43 +5th-Ventricle 10992.00 +WM-hypointensities 9919.18 +Left-WM-hypointensities 8927.14 +Right-WM-hypointensities 6292.41 +non-WM-hypointensities 8490.00 +Left-non-WM-hypointensities 7124.21 +Right-non-WM-hypointensities 10811.55 +Optic-Chiasm 8008.97 +CC_Posterior 7046.26 +CC_Mid_Posterior 9983.32 +CC_Central 7071.80 +CC_Mid_Anterior 5039.47 +CC_Anterior 2952.41 +BrainSegVol 1089679.34 +BrainSegVolNotVent 1059225.31 +BrainSegVolNotVentSurf 1057988.21 +lhCortexVol 196326.57 +rhCortexVol 198881.81 +CortexVol 398290.37 +lhCorticalWhiteMatterVol 225637.13 +rhCorticalWhiteMatterVol 225128.55 +CorticalWhiteMatterVol 452655.55 +SubCortGrayVol 44649.34 +TotalGrayVol 550163.03 +SupraTentorialVol 957293.05 +SupraTentorialVolNotVent 918229.10 +SupraTentorialVolNotVentVox 922551.08 +MaskVol 1622090.67 +BrainSegVol-to-eTIV 6429.31 +MaskVol-to-eTIV 6785.91 +lhSurfaceHoles 12769.24 +rhSurfaceHoles 8334.50 +SurfaceHoles 6478.56 +EstimatedTotalIntraCranialVol 1588123.19 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject72_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject72_aseg_stats.txt new file mode 100755 index 000000000..23773c30e --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject72_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject72 +Left-Lateral-Ventricle 4101.27 +Left-Inf-Lat-Vent 18642.53 +Left-Cerebellum-White-Matter 362.64 +Left-Cerebellum-Cortex 32627.68 +Left-Thalamus-Proper 10742.66 +Left-Caudate 11750.62 +Left-Putamen 15919.51 +Left-Pallidum 11756.93 +3rd-Ventricle 10882.85 +4th-Ventricle 9224.20 +Brain-Stem 6493.69 +Left-Hippocampus 8447.38 +Left-Amygdala 17613.98 +CSF 13137.39 +Left-Accumbens-area 12378.80 +Left-VentralDC 13335.98 +Left-vessel 14185.97 +Left-choroid-plexus 14324.24 +Right-Lateral-Ventricle 8441.23 +Right-Inf-Lat-Vent 11818.47 +Right-Cerebellum-White-Matter 1574.03 +Right-Cerebellum-Cortex 27472.47 +Right-Thalamus-Proper 18224.59 +Right-Caudate 7757.19 +Right-Putamen 13768.79 +Right-Pallidum 12542.33 +Right-Hippocampus 17735.15 +Right-Amygdala 15461.71 +Right-Accumbens-area 23747.65 +Right-VentralDC 10417.83 +Right-vessel 14534.91 +Right-choroid-plexus 10093.47 +5th-Ventricle 20588.83 +WM-hypointensities 19015.05 +Left-WM-hypointensities 16799.79 +Right-WM-hypointensities 13741.01 +non-WM-hypointensities 17044.01 +Left-non-WM-hypointensities 15124.85 +Right-non-WM-hypointensities 19569.34 +Optic-Chiasm 16324.74 +CC_Posterior 15447.60 +CC_Mid_Posterior 18451.28 +CC_Central 14369.56 +CC_Mid_Anterior 12687.69 +CC_Anterior 9894.80 +BrainSegVol 1079794.43 +BrainSegVolNotVent 1051751.09 +BrainSegVolNotVentSurf 1050385.77 +lhCortexVol 187965.24 +rhCortexVol 191565.90 +CortexVol 389539.24 +lhCorticalWhiteMatterVol 217449.36 +rhCorticalWhiteMatterVol 216330.20 +CorticalWhiteMatterVol 442147.98 +SubCortGrayVol 36187.20 +TotalGrayVol 541501.04 +SupraTentorialVol 949582.24 +SupraTentorialVolNotVent 908031.25 +SupraTentorialVolNotVentVox 914229.12 +MaskVol 1613205.56 +BrainSegVol-to-eTIV 13747.38 +MaskVol-to-eTIV 15199.71 +lhSurfaceHoles 22589.95 +rhSurfaceHoles 16244.10 +SurfaceHoles 13854.48 +EstimatedTotalIntraCranialVol 1577227.57 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject7_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject7_aseg_stats.txt new file mode 100755 index 000000000..c0b94e84c --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject7_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject7 +Left-Lateral-Ventricle 11393.47 +Left-Inf-Lat-Vent 3301.20 +Left-Cerebellum-White-Matter 16162.81 +Left-Cerebellum-Cortex 46012.72 +Left-Thalamus-Proper 4618.42 +Left-Caudate 1323.75 +Left-Putamen 741.29 +Left-Pallidum 14.56 +3rd-Ventricle 804.41 +4th-Ventricle 818.35 +Brain-Stem 18300.76 +Left-Hippocampus 3771.04 +Left-Amygdala 1293.37 +CSF 349.28 +Left-Accumbens-area 839.25 +Left-VentralDC 1339.09 +Left-vessel 1396.21 +Left-choroid-plexus 582.84 +Right-Lateral-Ventricle 10562.46 +Right-Inf-Lat-Vent 836.00 +Right-Cerebellum-White-Matter 16991.77 +Right-Cerebellum-Cortex 44720.10 +Right-Thalamus-Proper 1704.30 +Right-Caudate 2184.83 +Right-Putamen 1274.12 +Right-Pallidum 94.44 +Right-Hippocampus 308.45 +Right-Amygdala 1024.51 +Right-Accumbens-area 4754.61 +Right-VentralDC 1993.80 +Right-vessel 1362.52 +Right-choroid-plexus 498.45 +5th-Ventricle 3662.22 +WM-hypointensities 2470.47 +Left-WM-hypointensities 2919.96 +Right-WM-hypointensities 1583.75 +non-WM-hypointensities 2523.95 +Left-non-WM-hypointensities 1890.19 +Right-non-WM-hypointensities 3743.55 +Optic-Chiasm 2218.21 +CC_Posterior 1247.53 +CC_Mid_Posterior 3187.70 +CC_Central 1852.08 +CC_Mid_Anterior 618.43 +CC_Anterior 578.28 +BrainSegVol 1097536.97 +BrainSegVolNotVent 1063539.30 +BrainSegVolNotVentSurf 1062574.33 +lhCortexVol 201555.15 +rhCortexVol 203450.91 +CortexVol 404939.00 +lhCorticalWhiteMatterVol 231340.89 +rhCorticalWhiteMatterVol 231092.76 +CorticalWhiteMatterVol 461800.41 +SubCortGrayVol 51250.62 +TotalGrayVol 556080.93 +SupraTentorialVol 962158.73 +SupraTentorialVolNotVent 926662.57 +SupraTentorialVolNotVentVox 928244.70 +MaskVol 1628033.11 +BrainSegVol-to-eTIV 1667.71 +MaskVol-to-eTIV 1611.86 +lhSurfaceHoles 4544.51 +rhSurfaceHoles 2561.36 +SurfaceHoles 1657.42 +EstimatedTotalIntraCranialVol 1597038.53 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject8_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject8_aseg_stats.txt new file mode 100755 index 000000000..337149682 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject8_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject8 +Left-Lateral-Ventricle 3025.27 +Left-Inf-Lat-Vent 11811.48 +Left-Cerebellum-White-Matter 7502.33 +Left-Cerebellum-Cortex 38806.52 +Left-Thalamus-Proper 3773.29 +Left-Caudate 5630.82 +Left-Putamen 8403.57 +Left-Pallidum 6702.00 +3rd-Ventricle 5427.98 +4th-Ventricle 4902.03 +Brain-Stem 11480.28 +Left-Hippocampus 2898.79 +Left-Amygdala 10083.19 +CSF 7337.19 +Left-Accumbens-area 7105.63 +Left-VentralDC 6900.35 +Left-vessel 8479.55 +Left-choroid-plexus 7890.74 +Right-Lateral-Ventricle 389.78 +Right-Inf-Lat-Vent 7004.57 +Right-Cerebellum-White-Matter 8545.57 +Right-Cerebellum-Cortex 35321.04 +Right-Thalamus-Proper 9024.47 +Right-Caudate 3520.31 +Right-Putamen 7103.79 +Right-Pallidum 7031.12 +Right-Hippocampus 9320.32 +Right-Amygdala 9184.24 +Right-Accumbens-area 15221.86 +Right-VentralDC 5117.26 +Right-vessel 8548.24 +Right-choroid-plexus 5353.73 +5th-Ventricle 12637.26 +WM-hypointensities 11720.10 +Left-WM-hypointensities 10769.11 +Right-WM-hypointensities 8150.23 +non-WM-hypointensities 10272.43 +Left-non-WM-hypointensities 9250.58 +Right-non-WM-hypointensities 12632.32 +Optic-Chiasm 9955.36 +CC_Posterior 8881.15 +CC_Mid_Posterior 11772.37 +CC_Central 8971.79 +CC_Mid_Anterior 7244.73 +CC_Anterior 5295.34 +BrainSegVol 1087752.77 +BrainSegVolNotVent 1057114.44 +BrainSegVolNotVentSurf 1055846.90 +lhCortexVol 194228.29 +rhCortexVol 196980.91 +CortexVol 396496.53 +lhCorticalWhiteMatterVol 223681.74 +rhCorticalWhiteMatterVol 223050.37 +CorticalWhiteMatterVol 451108.22 +SubCortGrayVol 42794.61 +TotalGrayVol 548171.21 +SupraTentorialVol 955083.01 +SupraTentorialVolNotVent 916536.56 +SupraTentorialVolNotVentVox 920648.03 +MaskVol 1620124.82 +BrainSegVol-to-eTIV 8560.28 +MaskVol-to-eTIV 8908.06 +lhSurfaceHoles 14605.75 +rhSurfaceHoles 10342.60 +SurfaceHoles 8458.85 +EstimatedTotalIntraCranialVol 1586539.10 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject9_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject9_aseg_stats.txt new file mode 100755 index 000000000..0246112d4 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/subject9_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject9 +Left-Lateral-Ventricle 5615.34 +Left-Inf-Lat-Vent 8460.10 +Left-Cerebellum-White-Matter 10527.09 +Left-Cerebellum-Cortex 40757.64 +Left-Thalamus-Proper 882.03 +Left-Caudate 3839.48 +Left-Putamen 4859.53 +Left-Pallidum 4420.48 +3rd-Ventricle 4057.91 +4th-Ventricle 3060.90 +Brain-Stem 14017.35 +Left-Hippocampus 1286.94 +Left-Amygdala 7391.97 +CSF 5238.34 +Left-Accumbens-area 5438.50 +Left-VentralDC 3857.88 +Left-vessel 6326.51 +Left-choroid-plexus 5902.84 +Right-Lateral-Ventricle 3799.70 +Right-Inf-Lat-Vent 5003.55 +Right-Cerebellum-White-Matter 11401.64 +Right-Cerebellum-Cortex 38662.45 +Right-Thalamus-Proper 5017.96 +Right-Caudate 1604.95 +Right-Putamen 3936.31 +Right-Pallidum 4861.83 +Right-Hippocampus 6160.87 +Right-Amygdala 6132.13 +Right-Accumbens-area 10912.13 +Right-VentralDC 2483.85 +Right-vessel 6546.77 +Right-choroid-plexus 3689.46 +5th-Ventricle 9779.01 +WM-hypointensities 7951.62 +Left-WM-hypointensities 7641.12 +Right-WM-hypointensities 6310.94 +non-WM-hypointensities 7976.51 +Left-non-WM-hypointensities 6828.61 +Right-non-WM-hypointensities 9003.50 +Optic-Chiasm 7392.42 +CC_Posterior 6572.25 +CC_Mid_Posterior 8269.29 +CC_Central 6229.79 +CC_Mid_Anterior 5431.87 +CC_Anterior 3747.29 +BrainSegVol 1091481.47 +BrainSegVolNotVent 1058806.36 +BrainSegVolNotVentSurf 1057823.79 +lhCortexVol 196237.16 +rhCortexVol 198835.29 +CortexVol 399527.39 +lhCorticalWhiteMatterVol 226270.68 +rhCorticalWhiteMatterVol 225574.66 +CorticalWhiteMatterVol 455328.07 +SubCortGrayVol 46148.89 +TotalGrayVol 550631.10 +SupraTentorialVol 957436.17 +SupraTentorialVolNotVent 920347.15 +SupraTentorialVolNotVentVox 923005.11 +MaskVol 1622352.73 +BrainSegVol-to-eTIV 6080.73 +MaskVol-to-eTIV 6986.31 +lhSurfaceHoles 10466.13 +rhSurfaceHoles 7297.93 +SurfaceHoles 6199.54 +EstimatedTotalIntraCranialVol 1590122.72 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/site2_Covariate.csv b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/site2_Covariate.csv new file mode 100755 index 000000000..5d2a566b7 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/site2_Covariate.csv @@ -0,0 +1,51 @@ +freesurferfile,isControl,age +subject0_aseg_stats.txt,True,53.0 +subject1_aseg_stats.txt,False,21.0 +subject2_aseg_stats.txt,True,38.0 +subject3_aseg_stats.txt,True,49.0 +subject4_aseg_stats.txt,False,41.0 +subject5_aseg_stats.txt,False,52.0 +subject6_aseg_stats.txt,False,39.0 +subject7_aseg_stats.txt,True,23.0 +subject8_aseg_stats.txt,True,66.0 +subject9_aseg_stats.txt,False,47.0 +subject10_aseg_stats.txt,True,26.0 +subject11_aseg_stats.txt,False,74.0 +subject12_aseg_stats.txt,False,43.0 +subject13_aseg_stats.txt,True,59.0 +subject14_aseg_stats.txt,True,37.0 +subject15_aseg_stats.txt,True,78.0 +subject16_aseg_stats.txt,True,68.0 +subject17_aseg_stats.txt,False,52.0 +subject18_aseg_stats.txt,True,38.0 +subject19_aseg_stats.txt,True,30.0 +subject20_aseg_stats.txt,True,63.0 +subject21_aseg_stats.txt,False,70.0 +subject22_aseg_stats.txt,True,24.0 +subject23_aseg_stats.txt,False,23.0 +subject24_aseg_stats.txt,False,71.0 +subject25_aseg_stats.txt,False,27.0 +subject26_aseg_stats.txt,False,47.0 +subject27_aseg_stats.txt,True,38.0 +subject28_aseg_stats.txt,True,32.0 +subject29_aseg_stats.txt,True,80.0 +subject30_aseg_stats.txt,False,34.0 +subject31_aseg_stats.txt,True,74.0 +subject32_aseg_stats.txt,False,27.0 +subject33_aseg_stats.txt,True,69.0 +subject34_aseg_stats.txt,False,38.0 +subject35_aseg_stats.txt,False,62.0 +subject36_aseg_stats.txt,False,46.0 +subject37_aseg_stats.txt,False,31.0 +subject38_aseg_stats.txt,False,26.0 +subject39_aseg_stats.txt,True,48.0 +subject40_aseg_stats.txt,True,50.0 +subject41_aseg_stats.txt,True,70.0 +subject42_aseg_stats.txt,False,39.0 +subject43_aseg_stats.txt,True,28.0 +subject44_aseg_stats.txt,True,42.0 +subject45_aseg_stats.txt,True,37.0 +subject46_aseg_stats.txt,True,64.0 +subject47_aseg_stats.txt,False,38.0 +subject48_aseg_stats.txt,True,29.0 +subject49_aseg_stats.txt,True,32.0 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/site2_Data.csv b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/site2_Data.csv new file mode 100644 index 000000000..fbd55bd8f --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/site2_Data.csv @@ -0,0 +1,51 @@ 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+Left-Lateral-Ventricle 9877.14 +Left-Inf-Lat-Vent 9656.61 +Left-Cerebellum-White-Matter 10026.22 +Left-Cerebellum-Cortex 39410.85 +Left-Thalamus-Proper 1116.39 +Left-Caudate 9740.32 +Left-Putamen 2811.57 +Left-Pallidum 11717.87 +3rd-Ventricle 3312.43 +4th-Ventricle 6142.13 +Brain-Stem 7011.82 +Left-Hippocampus 1709.81 +Left-Amygdala 11625.53 +CSF 1979.47 +Left-Accumbens-area 2533.00 +Left-VentralDC 1029.30 +Left-vessel 5431.61 +Left-choroid-plexus 8556.87 +Right-Lateral-Ventricle 1586.33 +Right-Inf-Lat-Vent 9974.62 +Right-Cerebellum-White-Matter 10968.45 +Right-Cerebellum-Cortex 43749.35 +Right-Thalamus-Proper 174.56 +Right-Caudate 8739.96 +Right-Putamen 577.36 +Right-Pallidum 5472.23 +Right-Hippocampus 1066.36 +Right-Amygdala 5232.91 +Right-Accumbens-area 4515.62 +Right-VentralDC 3119.74 +Right-vessel 4782.53 +Right-choroid-plexus 4227.63 +5th-Ventricle 6298.05 +WM-hypointensities 4736.15 +Left-WM-hypointensities 6091.12 +Right-WM-hypointensities 7335.03 +non-WM-hypointensities 6822.95 +Left-non-WM-hypointensities 8365.37 +Right-non-WM-hypointensities 10748.60 +Optic-Chiasm 3033.32 +CC_Posterior 9935.40 +CC_Mid_Posterior 3864.42 +CC_Central 11550.13 +CC_Mid_Anterior 5792.86 +CC_Anterior 7042.71 +BrainSegVol 1091240.53 +BrainSegVolNotVent 1051920.97 +BrainSegVolNotVentSurf 1060406.82 +lhCortexVol 196624.16 +rhCortexVol 199324.59 +CortexVol 405400.62 +lhCorticalWhiteMatterVol 225528.27 +rhCorticalWhiteMatterVol 221309.88 +CorticalWhiteMatterVol 457246.30 +SubCortGrayVol 44931.53 +TotalGrayVol 548802.84 +SupraTentorialVol 956390.32 +SupraTentorialVolNotVent 922951.66 +SupraTentorialVolNotVentVox 923381.20 +MaskVol 1621705.35 +BrainSegVol-to-eTIV 11083.69 +MaskVol-to-eTIV 8361.52 +lhSurfaceHoles 10555.46 +rhSurfaceHoles 10239.56 +SurfaceHoles 6965.02 +EstimatedTotalIntraCranialVol 1595777.24 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject10_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject10_aseg_stats.txt new file mode 100755 index 000000000..08c48e3cd --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject10_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject10 +Left-Lateral-Ventricle 11484.79 +Left-Inf-Lat-Vent 4797.77 +Left-Cerebellum-White-Matter 14380.52 +Left-Cerebellum-Cortex 43346.48 +Left-Thalamus-Proper 4018.50 +Left-Caudate 3601.11 +Left-Putamen 554.75 +Left-Pallidum 5502.28 +3rd-Ventricle 1314.56 +4th-Ventricle 2511.10 +Brain-Stem 13049.77 +Left-Hippocampus 1034.07 +Left-Amygdala 5312.70 +CSF 585.69 +Left-Accumbens-area 1435.44 +Left-VentralDC 2160.86 +Left-vessel 3093.69 +Left-choroid-plexus 3879.59 +Right-Lateral-Ventricle 7795.61 +Right-Inf-Lat-Vent 5193.53 +Right-Cerebellum-White-Matter 14925.78 +Right-Cerebellum-Cortex 45752.18 +Right-Thalamus-Proper 3102.91 +Right-Caudate 3185.69 +Right-Putamen 2071.37 +Right-Pallidum 2401.20 +Right-Hippocampus 1110.25 +Right-Amygdala 2312.18 +Right-Accumbens-area 2530.22 +Right-VentralDC 38.20 +Right-vessel 2871.65 +Right-choroid-plexus 1700.95 +5th-Ventricle 3553.92 +WM-hypointensities 2090.63 +Left-WM-hypointensities 3358.95 +Right-WM-hypointensities 4008.00 +non-WM-hypointensities 3743.62 +Left-non-WM-hypointensities 4438.63 +Right-non-WM-hypointensities 5597.54 +Optic-Chiasm 1858.61 +CC_Posterior 4837.49 +CC_Mid_Posterior 2260.37 +CC_Central 5850.45 +CC_Mid_Anterior 2995.25 +CC_Anterior 3305.82 +BrainSegVol 1095936.85 +BrainSegVolNotVent 1057867.00 +BrainSegVolNotVentSurf 1061635.27 +lhCortexVol 199439.20 +rhCortexVol 201740.28 +CortexVol 406496.72 +lhCorticalWhiteMatterVol 229226.45 +rhCorticalWhiteMatterVol 227174.05 +CorticalWhiteMatterVol 461991.51 +SubCortGrayVol 49330.85 +TotalGrayVol 553246.34 +SupraTentorialVol 959738.62 +SupraTentorialVolNotVent 926693.51 +SupraTentorialVolNotVentVox 926725.91 +MaskVol 1625613.98 +BrainSegVol-to-eTIV 5914.94 +MaskVol-to-eTIV 4449.98 +lhSurfaceHoles 5592.81 +rhSurfaceHoles 5596.72 +SurfaceHoles 3929.97 +EstimatedTotalIntraCranialVol 1598478.74 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject11_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject11_aseg_stats.txt new file mode 100755 index 000000000..e0f067c44 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject11_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject11 +Left-Lateral-Ventricle 5699.68 +Left-Inf-Lat-Vent 16901.98 +Left-Cerebellum-White-Matter 2909.33 +Left-Cerebellum-Cortex 32843.84 +Left-Thalamus-Proper 4820.67 +Left-Caudate 17998.63 +Left-Putamen 8463.98 +Left-Pallidum 19457.32 +3rd-Ventricle 7670.72 +4th-Ventricle 12427.17 +Brain-Stem 750.57 +Left-Hippocampus 6841.18 +Left-Amygdala 19562.85 +CSF 6655.15 +Left-Accumbens-area 6630.88 +Left-VentralDC 3106.07 +Left-vessel 10755.40 +Left-choroid-plexus 15202.83 +Right-Lateral-Ventricle 5794.14 +Right-Inf-Lat-Vent 16925.15 +Right-Cerebellum-White-Matter 5058.48 +Right-Cerebellum-Cortex 38941.10 +Right-Thalamus-Proper 4838.97 +Right-Caudate 15609.95 +Right-Putamen 3714.64 +Right-Pallidum 11264.76 +Right-Hippocampus 5344.33 +Right-Amygdala 10561.47 +Right-Accumbens-area 8890.68 +Right-VentralDC 8945.98 +Right-vessel 9324.28 +Right-choroid-plexus 9348.69 +5th-Ventricle 11115.82 +WM-hypointensities 9842.36 +Left-WM-hypointensities 11230.46 +Right-WM-hypointensities 13062.58 +non-WM-hypointensities 12389.95 +Left-non-WM-hypointensities 14558.08 +Right-non-WM-hypointensities 18189.72 +Optic-Chiasm 7018.87 +CC_Posterior 16708.75 +CC_Mid_Posterior 8072.95 +CC_Central 19339.16 +CC_Mid_Anterior 11081.83 +CC_Anterior 13609.53 +BrainSegVol 1084620.63 +BrainSegVolNotVent 1044562.42 +BrainSegVolNotVentSurf 1056585.67 +lhCortexVol 191424.67 +rhCortexVol 194717.97 +CortexVol 401033.45 +lhCorticalWhiteMatterVol 219688.48 +rhCorticalWhiteMatterVol 213558.54 +CorticalWhiteMatterVol 450372.40 +SubCortGrayVol 38208.63 +TotalGrayVol 542034.16 +SupraTentorialVol 950300.92 +SupraTentorialVolNotVent 917248.89 +SupraTentorialVolNotVentVox 917508.06 +MaskVol 1616039.34 +BrainSegVol-to-eTIV 17680.40 +MaskVol-to-eTIV 15088.28 +lhSurfaceHoles 17761.41 +rhSurfaceHoles 16716.25 +SurfaceHoles 12312.55 +EstimatedTotalIntraCranialVol 1590445.53 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject12_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject12_aseg_stats.txt new file mode 100755 index 000000000..983166c9c --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject12_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject12 +Left-Lateral-Ventricle 9191.51 +Left-Inf-Lat-Vent 9850.51 +Left-Cerebellum-White-Matter 9631.17 +Left-Cerebellum-Cortex 38886.55 +Left-Thalamus-Proper 298.90 +Left-Caudate 9323.42 +Left-Putamen 2862.66 +Left-Pallidum 10783.86 +3rd-Ventricle 3741.43 +4th-Ventricle 6634.16 +Brain-Stem 7872.64 +Left-Hippocampus 2163.52 +Left-Amygdala 10815.16 +CSF 3434.08 +Left-Accumbens-area 3820.67 +Left-VentralDC 216.15 +Left-vessel 6286.04 +Left-choroid-plexus 8272.81 +Right-Lateral-Ventricle 2854.17 +Right-Inf-Lat-Vent 9662.06 +Right-Cerebellum-White-Matter 11270.86 +Right-Cerebellum-Cortex 42848.44 +Right-Thalamus-Proper 124.49 +Right-Caudate 7754.35 +Right-Putamen 348.40 +Right-Pallidum 6074.04 +Right-Hippocampus 1294.39 +Right-Amygdala 5506.72 +Right-Accumbens-area 4941.56 +Right-VentralDC 3682.21 +Right-vessel 5372.87 +Right-choroid-plexus 4896.01 +5th-Ventricle 6461.46 +WM-hypointensities 5052.36 +Left-WM-hypointensities 6602.84 +Right-WM-hypointensities 7659.28 +non-WM-hypointensities 7266.97 +Left-non-WM-hypointensities 8564.60 +Right-non-WM-hypointensities 10705.16 +Optic-Chiasm 4023.31 +CC_Posterior 9192.50 +CC_Mid_Posterior 4512.05 +CC_Central 11162.07 +CC_Mid_Anterior 6318.89 +CC_Anterior 7669.76 +BrainSegVol 1091789.66 +BrainSegVolNotVent 1052972.72 +BrainSegVolNotVentSurf 1059666.53 +lhCortexVol 196402.80 +rhCortexVol 198975.72 +CortexVol 403889.97 +lhCorticalWhiteMatterVol 225547.22 +rhCorticalWhiteMatterVol 221782.16 +CorticalWhiteMatterVol 457298.27 +SubCortGrayVol 45036.66 +TotalGrayVol 548874.68 +SupraTentorialVol 955827.05 +SupraTentorialVolNotVent 923166.70 +SupraTentorialVolNotVentVox 922846.28 +MaskVol 1622051.05 +BrainSegVol-to-eTIV 10260.92 +MaskVol-to-eTIV 8912.21 +lhSurfaceHoles 10376.87 +rhSurfaceHoles 9655.81 +SurfaceHoles 7108.65 +EstimatedTotalIntraCranialVol 1595204.64 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject13_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject13_aseg_stats.txt new file mode 100755 index 000000000..a06d9c882 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject13_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject13 +Left-Lateral-Ventricle 10016.35 +Left-Inf-Lat-Vent 10292.14 +Left-Cerebellum-White-Matter 9578.12 +Left-Cerebellum-Cortex 38995.93 +Left-Thalamus-Proper 1010.62 +Left-Caudate 10614.02 +Left-Putamen 3035.95 +Left-Pallidum 12635.53 +3rd-Ventricle 3263.12 +4th-Ventricle 6459.19 +Brain-Stem 6180.00 +Left-Hippocampus 1858.91 +Left-Amygdala 12576.07 +CSF 1800.35 +Left-Accumbens-area 2309.38 +Left-VentralDC 1257.62 +Left-vessel 5412.75 +Left-choroid-plexus 9125.80 +Right-Lateral-Ventricle 664.69 +Right-Inf-Lat-Vent 10502.11 +Right-Cerebellum-White-Matter 10592.37 +Right-Cerebellum-Cortex 43789.21 +Right-Thalamus-Proper 6.79 +Right-Caudate 9528.31 +Right-Putamen 743.29 +Right-Pallidum 5652.58 +Right-Hippocampus 1082.29 +Right-Amygdala 5368.83 +Right-Accumbens-area 4453.24 +Right-VentralDC 3284.02 +Right-vessel 4677.11 +Right-choroid-plexus 4321.10 +5th-Ventricle 6454.32 +WM-hypointensities 4795.45 +Left-WM-hypointensities 6248.66 +Right-WM-hypointensities 7596.79 +non-WM-hypointensities 7028.44 +Left-non-WM-hypointensities 8790.09 +Right-non-WM-hypointensities 11419.63 +Optic-Chiasm 2797.66 +CC_Posterior 10566.66 +CC_Mid_Posterior 3702.34 +CC_Central 12324.19 +CC_Mid_Anterior 5946.79 +CC_Anterior 7375.69 +BrainSegVol 1090732.85 +BrainSegVolNotVent 1051077.21 +BrainSegVolNotVentSurf 1060637.65 +lhCortexVol 196525.23 +rhCortexVol 199235.42 +CortexVol 405639.03 +lhCorticalWhiteMatterVol 225192.85 +rhCorticalWhiteMatterVol 220456.34 +CorticalWhiteMatterVol 456637.50 +SubCortGrayVol 44489.85 +TotalGrayVol 548339.82 +SupraTentorialVol 956153.51 +SupraTentorialVolNotVent 922609.24 +SupraTentorialVolNotVentVox 923089.75 +MaskVol 1621296.43 +BrainSegVol-to-eTIV 11784.40 +MaskVol-to-eTIV 8722.51 +lhSurfaceHoles 11149.55 +rhSurfaceHoles 10749.57 +SurfaceHoles 7120.94 +EstimatedTotalIntraCranialVol 1595676.81 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject14_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject14_aseg_stats.txt new file mode 100755 index 000000000..cdbbe1c92 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject14_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject14 +Left-Lateral-Ventricle 7764.79 +Left-Inf-Lat-Vent 9519.77 +Left-Cerebellum-White-Matter 9399.17 +Left-Cerebellum-Cortex 38905.20 +Left-Thalamus-Proper 492.36 +Left-Caudate 9130.96 +Left-Putamen 4049.83 +Left-Pallidum 10896.67 +3rd-Ventricle 5173.85 +4th-Ventricle 7014.55 +Brain-Stem 7441.55 +Left-Hippocampus 2927.74 +Left-Amygdala 10677.04 +CSF 4171.61 +Left-Accumbens-area 4768.93 +Left-VentralDC 1262.20 +Left-vessel 7370.16 +Left-choroid-plexus 8689.66 +Right-Lateral-Ventricle 2437.11 +Right-Inf-Lat-Vent 10444.16 +Right-Cerebellum-White-Matter 10206.10 +Right-Cerebellum-Cortex 41942.36 +Right-Thalamus-Proper 1071.86 +Right-Caudate 8201.62 +Right-Putamen 1611.42 +Right-Pallidum 6752.22 +Right-Hippocampus 2664.37 +Right-Amygdala 6670.11 +Right-Accumbens-area 6448.03 +Right-VentralDC 4507.07 +Right-vessel 6922.65 +Right-choroid-plexus 5619.70 +5th-Ventricle 7471.92 +WM-hypointensities 6431.84 +Left-WM-hypointensities 7247.85 +Right-WM-hypointensities 8311.88 +non-WM-hypointensities 7954.16 +Left-non-WM-hypointensities 8803.60 +Right-non-WM-hypointensities 10620.32 +Optic-Chiasm 5403.74 +CC_Posterior 10011.25 +CC_Mid_Posterior 6115.19 +CC_Central 11213.34 +CC_Mid_Anterior 7022.87 +CC_Anterior 7899.35 +BrainSegVol 1090714.70 +BrainSegVolNotVent 1052496.12 +BrainSegVolNotVentSurf 1058024.33 +lhCortexVol 195041.04 +rhCortexVol 197992.43 +CortexVol 403074.48 +lhCorticalWhiteMatterVol 224716.84 +rhCorticalWhiteMatterVol 222009.15 +CorticalWhiteMatterVol 457306.72 +SubCortGrayVol 44229.70 +TotalGrayVol 548198.36 +SupraTentorialVol 955242.84 +SupraTentorialVolNotVent 922149.46 +SupraTentorialVolNotVentVox 922573.83 +MaskVol 1621183.70 +BrainSegVol-to-eTIV 10785.91 +MaskVol-to-eTIV 9181.29 +lhSurfaceHoles 10755.38 +rhSurfaceHoles 10709.25 +SurfaceHoles 8367.79 +EstimatedTotalIntraCranialVol 1594291.90 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject15_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject15_aseg_stats.txt new file mode 100755 index 000000000..9d19f7fb0 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject15_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject15 +Left-Lateral-Ventricle 1452.09 +Left-Inf-Lat-Vent 20362.06 +Left-Cerebellum-White-Matter 1264.17 +Left-Cerebellum-Cortex 29344.33 +Left-Thalamus-Proper 9103.54 +Left-Caudate 22279.01 +Left-Putamen 13245.43 +Left-Pallidum 23950.31 +3rd-Ventricle 12054.24 +4th-Ventricle 16348.14 +Brain-Stem 5703.86 +Left-Hippocampus 10686.56 +Left-Amygdala 23790.34 +CSF 10100.26 +Left-Accumbens-area 10081.34 +Left-VentralDC 6721.89 +Left-vessel 15118.88 +Left-choroid-plexus 19460.89 +Right-Lateral-Ventricle 10564.85 +Right-Inf-Lat-Vent 21876.09 +Right-Cerebellum-White-Matter 271.81 +Right-Cerebellum-Cortex 35119.47 +Right-Thalamus-Proper 9284.86 +Right-Caudate 20113.30 +Right-Putamen 7763.03 +Right-Pallidum 15331.09 +Right-Hippocampus 9617.26 +Right-Amygdala 15106.83 +Right-Accumbens-area 13389.81 +Right-VentralDC 13245.36 +Right-vessel 13957.87 +Right-choroid-plexus 13106.08 +5th-Ventricle 15175.65 +WM-hypointensities 14571.15 +Left-WM-hypointensities 14902.81 +Right-WM-hypointensities 17088.20 +non-WM-hypointensities 16363.90 +Left-non-WM-hypointensities 18259.17 +Right-non-WM-hypointensities 22135.86 +Optic-Chiasm 11060.93 +CC_Posterior 21664.15 +CC_Mid_Posterior 12594.59 +CC_Central 23709.27 +CC_Mid_Anterior 14918.76 +CC_Anterior 17452.99 +BrainSegVol 1079403.83 +BrainSegVolNotVent 1039742.80 +BrainSegVolNotVentSurf 1052230.07 +lhCortexVol 186659.62 +rhCortexVol 190833.35 +CortexVol 397651.43 +lhCorticalWhiteMatterVol 215308.05 +rhCorticalWhiteMatterVol 209598.19 +CorticalWhiteMatterVol 446625.52 +SubCortGrayVol 33369.83 +TotalGrayVol 537361.31 +SupraTentorialVol 946202.77 +SupraTentorialVolNotVent 912653.32 +SupraTentorialVolNotVentVox 913971.50 +MaskVol 1611663.83 +BrainSegVol-to-eTIV 22127.48 +MaskVol-to-eTIV 19084.29 +lhSurfaceHoles 22258.35 +rhSurfaceHoles 21827.96 +SurfaceHoles 17020.19 +EstimatedTotalIntraCranialVol 1586291.40 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject16_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject16_aseg_stats.txt new file mode 100755 index 000000000..08a1f204b --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject16_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject16 +Left-Lateral-Ventricle 4814.85 +Left-Inf-Lat-Vent 16086.37 +Left-Cerebellum-White-Matter 3244.39 +Left-Cerebellum-Cortex 33364.22 +Left-Thalamus-Proper 5023.45 +Left-Caudate 17270.71 +Left-Putamen 9079.54 +Left-Pallidum 19064.11 +3rd-Ventricle 8564.72 +4th-Ventricle 12272.90 +Brain-Stem 625.04 +Left-Hippocampus 7102.59 +Left-Amygdala 18931.03 +CSF 6859.09 +Left-Accumbens-area 7068.84 +Left-VentralDC 3628.43 +Left-vessel 11251.85 +Left-choroid-plexus 15106.16 +Right-Lateral-Ventricle 5711.07 +Right-Inf-Lat-Vent 17123.32 +Right-Cerebellum-White-Matter 4543.10 +Right-Cerebellum-Cortex 38564.33 +Right-Thalamus-Proper 5508.15 +Right-Caudate 15570.49 +Right-Putamen 4434.16 +Right-Pallidum 11394.89 +Right-Hippocampus 6203.74 +Right-Amygdala 11164.77 +Right-Accumbens-area 9847.50 +Right-VentralDC 9202.72 +Right-vessel 10295.49 +Right-choroid-plexus 9561.54 +5th-Ventricle 11631.24 +WM-hypointensities 10644.88 +Left-WM-hypointensities 11384.71 +Right-WM-hypointensities 13193.91 +non-WM-hypointensities 12554.52 +Left-non-WM-hypointensities 14308.20 +Right-non-WM-hypointensities 17587.88 +Optic-Chiasm 7857.15 +CC_Posterior 16979.98 +CC_Mid_Posterior 9110.11 +CC_Central 18852.82 +CC_Mid_Anterior 11275.24 +CC_Anterior 13296.15 +BrainSegVol 1084130.67 +BrainSegVolNotVent 1044607.09 +BrainSegVolNotVentSurf 1055493.40 +lhCortexVol 190637.74 +rhCortexVol 194223.30 +CortexVol 400744.06 +lhCorticalWhiteMatterVol 219389.02 +rhCorticalWhiteMatterVol 214276.29 +CorticalWhiteMatterVol 450867.32 +SubCortGrayVol 37986.67 +TotalGrayVol 541930.25 +SupraTentorialVol 950270.38 +SupraTentorialVolNotVent 916765.50 +SupraTentorialVolNotVentVox 917728.77 +MaskVol 1615673.72 +BrainSegVol-to-eTIV 17716.51 +MaskVol-to-eTIV 14802.61 +lhSurfaceHoles 17584.64 +rhSurfaceHoles 17200.23 +SurfaceHoles 13005.71 +EstimatedTotalIntraCranialVol 1590078.43 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject17_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject17_aseg_stats.txt new file mode 100755 index 000000000..f04634cc7 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject17_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject17 +Left-Lateral-Ventricle 5003.99 +Left-Inf-Lat-Vent 14737.48 +Left-Cerebellum-White-Matter 4358.51 +Left-Cerebellum-Cortex 34193.66 +Left-Thalamus-Proper 4634.03 +Left-Caudate 14978.16 +Left-Putamen 7836.67 +Left-Pallidum 16265.61 +3rd-Ventricle 8035.57 +4th-Ventricle 11447.43 +Brain-Stem 2109.11 +Left-Hippocampus 6466.38 +Left-Amygdala 16246.32 +CSF 7494.38 +Left-Accumbens-area 7625.27 +Left-VentralDC 4122.30 +Left-vessel 11025.50 +Left-choroid-plexus 13292.30 +Right-Lateral-Ventricle 2585.77 +Right-Inf-Lat-Vent 15190.65 +Right-Cerebellum-White-Matter 6249.60 +Right-Cerebellum-Cortex 38613.98 +Right-Thalamus-Proper 4404.03 +Right-Caudate 12885.75 +Right-Putamen 4508.87 +Right-Pallidum 10790.85 +Right-Hippocampus 5460.48 +Right-Amygdala 10254.62 +Right-Accumbens-area 9307.31 +Right-VentralDC 8537.84 +Right-vessel 9908.64 +Right-choroid-plexus 9180.59 +5th-Ventricle 10712.08 +WM-hypointensities 9822.18 +Left-WM-hypointensities 10820.61 +Right-WM-hypointensities 12281.00 +non-WM-hypointensities 11815.15 +Left-non-WM-hypointensities 13167.93 +Right-non-WM-hypointensities 15906.03 +Optic-Chiasm 8068.32 +CC_Posterior 14581.33 +CC_Mid_Posterior 8860.75 +CC_Central 16684.74 +CC_Mid_Anterior 10691.98 +CC_Anterior 12574.25 +BrainSegVol 1086282.10 +BrainSegVolNotVent 1047478.00 +BrainSegVolNotVentSurf 1055551.28 +lhCortexVol 191590.90 +rhCortexVol 194877.88 +CortexVol 399979.41 +lhCorticalWhiteMatterVol 220736.82 +rhCorticalWhiteMatterVol 216520.39 +CorticalWhiteMatterVol 452438.36 +SubCortGrayVol 39628.10 +TotalGrayVol 543536.20 +SupraTentorialVol 950979.93 +SupraTentorialVolNotVent 918321.91 +SupraTentorialVolNotVentVox 918408.10 +MaskVol 1617367.16 +BrainSegVol-to-eTIV 15278.25 +MaskVol-to-eTIV 13954.29 +lhSurfaceHoles 15772.93 +rhSurfaceHoles 15040.89 +SurfaceHoles 11934.35 +EstimatedTotalIntraCranialVol 1590627.24 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject18_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject18_aseg_stats.txt new file mode 100755 index 000000000..b4e004baf --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject18_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject18 +Left-Lateral-Ventricle 9348.46 +Left-Inf-Lat-Vent 8229.45 +Left-Cerebellum-White-Matter 10957.42 +Left-Cerebellum-Cortex 40280.86 +Left-Thalamus-Proper 1184.62 +Left-Caudate 7734.61 +Left-Putamen 2441.19 +Left-Pallidum 9592.46 +3rd-Ventricle 3615.19 +4th-Ventricle 5527.75 +Brain-Stem 8905.78 +Left-Hippocampus 1504.69 +Left-Amygdala 9413.78 +CSF 2605.19 +Left-Accumbens-area 3262.18 +Left-VentralDC 283.89 +Left-vessel 5674.71 +Left-choroid-plexus 7305.74 +Right-Lateral-Ventricle 3723.69 +Right-Inf-Lat-Vent 8850.57 +Right-Cerebellum-White-Matter 11725.47 +Right-Cerebellum-Cortex 43473.23 +Right-Thalamus-Proper 418.24 +Right-Caudate 6931.37 +Right-Putamen 18.68 +Right-Pallidum 5204.08 +Right-Hippocampus 1196.76 +Right-Amygdala 5079.88 +Right-Accumbens-area 4854.82 +Right-VentralDC 2898.44 +Right-vessel 5239.00 +Right-choroid-plexus 4164.25 +5th-Ventricle 6072.42 +WM-hypointensities 4780.26 +Left-WM-hypointensities 5860.90 +Right-WM-hypointensities 6854.41 +non-WM-hypointensities 6483.46 +Left-non-WM-hypointensities 7466.58 +Right-non-WM-hypointensities 9243.39 +Optic-Chiasm 3803.23 +CC_Posterior 8539.81 +CC_Mid_Posterior 4458.33 +CC_Central 9794.22 +CC_Mid_Anterior 5578.26 +CC_Anterior 6391.30 +BrainSegVol 1092314.67 +BrainSegVolNotVent 1053856.59 +BrainSegVolNotVentSurf 1059646.40 +lhCortexVol 196679.85 +rhCortexVol 199384.61 +CortexVol 404629.19 +lhCorticalWhiteMatterVol 226189.79 +rhCorticalWhiteMatterVol 223280.10 +CorticalWhiteMatterVol 458606.12 +SubCortGrayVol 45840.67 +TotalGrayVol 549769.54 +SupraTentorialVol 956797.75 +SupraTentorialVolNotVent 923629.72 +SupraTentorialVolNotVentVox 923945.40 +MaskVol 1622560.36 +BrainSegVol-to-eTIV 9494.89 +MaskVol-to-eTIV 7643.98 +lhSurfaceHoles 9255.38 +rhSurfaceHoles 9154.38 +SurfaceHoles 6763.93 +EstimatedTotalIntraCranialVol 1595846.41 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject19_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject19_aseg_stats.txt new file mode 100755 index 000000000..789f13876 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject19_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject19 +Left-Lateral-Ventricle 10655.00 +Left-Inf-Lat-Vent 6046.95 +Left-Cerebellum-White-Matter 13116.34 +Left-Cerebellum-Cortex 42215.66 +Left-Thalamus-Proper 2946.08 +Left-Caudate 5095.23 +Left-Putamen 568.02 +Left-Pallidum 6975.56 +3rd-Ventricle 2198.35 +4th-Ventricle 3632.76 +Brain-Stem 11547.57 +Left-Hippocampus 78.63 +Left-Amygdala 6786.93 +CSF 1374.73 +Left-Accumbens-area 2155.17 +Left-VentralDC 1421.48 +Left-vessel 4081.65 +Left-choroid-plexus 5133.15 +Right-Lateral-Ventricle 6329.70 +Right-Inf-Lat-Vent 6539.35 +Right-Cerebellum-White-Matter 13739.71 +Right-Cerebellum-Cortex 44877.58 +Right-Thalamus-Proper 2093.54 +Right-Caudate 4539.95 +Right-Putamen 1256.66 +Right-Pallidum 3454.51 +Right-Hippocampus 230.37 +Right-Amygdala 3356.37 +Right-Accumbens-area 3424.45 +Right-VentralDC 1114.98 +Right-vessel 3786.41 +Right-choroid-plexus 2632.98 +5th-Ventricle 4500.92 +WM-hypointensities 3112.46 +Left-WM-hypointensities 4299.51 +Right-WM-hypointensities 5070.01 +non-WM-hypointensities 4770.39 +Left-non-WM-hypointensities 5554.11 +Right-non-WM-hypointensities 6925.09 +Optic-Chiasm 2624.55 +CC_Posterior 6190.49 +CC_Mid_Posterior 3115.93 +CC_Central 7281.78 +CC_Mid_Anterior 3967.13 +CC_Anterior 4452.22 +BrainSegVol 1094602.42 +BrainSegVolNotVent 1056416.99 +BrainSegVolNotVentSurf 1060852.89 +lhCortexVol 198394.59 +rhCortexVol 200848.95 +CortexVol 405759.97 +lhCorticalWhiteMatterVol 228098.94 +rhCorticalWhiteMatterVol 225769.49 +CorticalWhiteMatterVol 460757.41 +SubCortGrayVol 48040.42 +TotalGrayVol 551963.10 +SupraTentorialVol 958638.10 +SupraTentorialVolNotVent 925556.31 +SupraTentorialVolNotVentVox 925691.98 +MaskVol 1624487.16 +BrainSegVol-to-eTIV 7214.42 +MaskVol-to-eTIV 5635.11 +lhSurfaceHoles 6934.25 +rhSurfaceHoles 6906.27 +SurfaceHoles 4997.53 +EstimatedTotalIntraCranialVol 1597482.81 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject1_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject1_aseg_stats.txt new file mode 100755 index 000000000..666615927 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject1_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject1 +Left-Lateral-Ventricle 11938.37 +Left-Inf-Lat-Vent 4605.74 +Left-Cerebellum-White-Matter 14682.78 +Left-Cerebellum-Cortex 43423.80 +Left-Thalamus-Proper 4224.04 +Left-Caudate 2901.21 +Left-Putamen 1395.99 +Left-Pallidum 4377.51 +3rd-Ventricle 685.84 +4th-Ventricle 2257.79 +Brain-Stem 14268.42 +Left-Hippocampus 1405.50 +Left-Amygdala 4362.23 +CSF 883.49 +Left-Accumbens-area 1573.22 +Left-VentralDC 2094.51 +Left-vessel 2822.74 +Left-choroid-plexus 3100.02 +Right-Lateral-Ventricle 9239.75 +Right-Inf-Lat-Vent 4217.98 +Right-Cerebellum-White-Matter 15952.16 +Right-Cerebellum-Cortex 45883.92 +Right-Thalamus-Proper 3908.43 +Right-Caudate 1937.97 +Right-Putamen 2310.12 +Right-Pallidum 2118.46 +Right-Hippocampus 1833.01 +Right-Amygdala 1641.66 +Right-Accumbens-area 1866.32 +Right-VentralDC 335.17 +Right-vessel 2281.67 +Right-choroid-plexus 1482.67 +5th-Ventricle 2912.81 +WM-hypointensities 1366.82 +Left-WM-hypointensities 3075.30 +Right-WM-hypointensities 3566.11 +non-WM-hypointensities 3372.09 +Left-non-WM-hypointensities 4068.68 +Right-non-WM-hypointensities 5137.10 +Optic-Chiasm 1628.50 +CC_Posterior 3586.81 +CC_Mid_Posterior 1704.22 +CC_Central 5092.32 +CC_Mid_Anterior 2685.49 +CC_Anterior 3185.13 +BrainSegVol 1097167.52 +BrainSegVolNotVent 1059199.89 +BrainSegVolNotVentSurf 1062125.71 +lhCortexVol 200220.79 +rhCortexVol 202239.70 +CortexVol 406178.13 +lhCorticalWhiteMatterVol 229968.37 +rhCorticalWhiteMatterVol 227861.70 +CorticalWhiteMatterVol 462454.70 +SubCortGrayVol 50172.52 +TotalGrayVol 554013.17 +SupraTentorialVol 960023.45 +SupraTentorialVolNotVent 927631.24 +SupraTentorialVolNotVentVox 926879.32 +MaskVol 1626566.30 +BrainSegVol-to-eTIV 4752.99 +MaskVol-to-eTIV 4254.03 +lhSurfaceHoles 4860.80 +rhSurfaceHoles 4362.70 +SurfaceHoles 3134.82 +EstimatedTotalIntraCranialVol 1598852.72 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject20_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject20_aseg_stats.txt new file mode 100755 index 000000000..c90083ff8 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject20_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject20 +Left-Lateral-Ventricle 2553.41 +Left-Inf-Lat-Vent 17476.43 +Left-Cerebellum-White-Matter 1372.73 +Left-Cerebellum-Cortex 31723.54 +Left-Thalamus-Proper 7265.19 +Left-Caudate 18662.63 +Left-Putamen 11155.66 +Left-Pallidum 20302.81 +3rd-Ventricle 10737.47 +4th-Ventricle 14125.51 +Brain-Stem 2135.61 +Left-Hippocampus 8969.02 +Left-Amygdala 20093.56 +CSF 9120.95 +Left-Accumbens-area 9275.55 +Left-VentralDC 5892.06 +Left-vessel 13594.27 +Left-choroid-plexus 16665.13 +Right-Lateral-Ventricle 6923.12 +Right-Inf-Lat-Vent 18995.61 +Right-Cerebellum-White-Matter 2681.38 +Right-Cerebellum-Cortex 36435.50 +Right-Thalamus-Proper 7455.48 +Right-Caudate 16840.61 +Right-Putamen 6724.24 +Right-Pallidum 13414.42 +Right-Hippocampus 8211.89 +Right-Amygdala 13269.03 +Right-Accumbens-area 12075.66 +Right-VentralDC 11315.14 +Right-vessel 12674.00 +Right-choroid-plexus 11506.13 +5th-Ventricle 13460.96 +WM-hypointensities 12879.76 +Left-WM-hypointensities 13196.41 +Right-WM-hypointensities 15039.60 +non-WM-hypointensities 14452.40 +Left-non-WM-hypointensities 15889.83 +Right-non-WM-hypointensities 19075.55 +Optic-Chiasm 10200.03 +CC_Posterior 18621.64 +CC_Mid_Posterior 11486.01 +CC_Central 20336.25 +CC_Mid_Anterior 13168.39 +CC_Anterior 15168.36 +BrainSegVol 1082237.63 +BrainSegVolNotVent 1043246.40 +BrainSegVolNotVentSurf 1053123.80 +lhCortexVol 188444.36 +rhCortexVol 192363.11 +CortexVol 398462.48 +lhCorticalWhiteMatterVol 217566.55 +rhCorticalWhiteMatterVol 213044.59 +CorticalWhiteMatterVol 449448.63 +SubCortGrayVol 36038.63 +TotalGrayVol 540049.82 +SupraTentorialVol 948275.64 +SupraTentorialVolNotVent 914937.21 +SupraTentorialVolNotVentVox 916019.12 +MaskVol 1614028.04 +BrainSegVol-to-eTIV 19068.14 +MaskVol-to-eTIV 16698.11 +lhSurfaceHoles 19288.00 +rhSurfaceHoles 19029.84 +SurfaceHoles 15116.61 +EstimatedTotalIntraCranialVol 1588001.84 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject21_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject21_aseg_stats.txt new file mode 100755 index 000000000..df65ee9c2 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject21_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject21 +Left-Lateral-Ventricle 5523.10 +Left-Inf-Lat-Vent 16553.25 +Left-Cerebellum-White-Matter 3120.40 +Left-Cerebellum-Cortex 33042.88 +Left-Thalamus-Proper 4841.13 +Left-Caudate 17498.95 +Left-Putamen 8402.77 +Left-Pallidum 18923.79 +3rd-Ventricle 7786.83 +4th-Ventricle 12298.46 +Brain-Stem 282.09 +Left-Hippocampus 6819.51 +Left-Amygdala 19005.48 +CSF 6857.07 +Left-Accumbens-area 6858.85 +Left-VentralDC 3339.25 +Left-vessel 10858.84 +Left-choroid-plexus 14902.93 +Right-Lateral-Ventricle 5257.03 +Right-Inf-Lat-Vent 16663.77 +Right-Cerebellum-White-Matter 5224.26 +Right-Cerebellum-Cortex 38832.70 +Right-Thalamus-Proper 4808.62 +Right-Caudate 15159.64 +Right-Putamen 3909.29 +Right-Pallidum 11229.25 +Right-Hippocampus 5412.65 +Right-Amygdala 10557.46 +Right-Accumbens-area 9017.24 +Right-VentralDC 8924.29 +Right-vessel 9484.01 +Right-choroid-plexus 9365.35 +5th-Ventricle 11088.17 +WM-hypointensities 9892.02 +Left-WM-hypointensities 11201.31 +Right-WM-hypointensities 12968.67 +non-WM-hypointensities 12333.75 +Left-non-WM-hypointensities 14350.52 +Right-non-WM-hypointensities 17822.30 +Optic-Chiasm 7259.80 +CC_Posterior 16372.56 +CC_Mid_Posterior 8268.51 +CC_Central 18906.24 +CC_Mid_Anterior 11058.15 +CC_Anterior 13471.49 +BrainSegVol 1084868.64 +BrainSegVolNotVent 1045044.33 +BrainSegVolNotVentSurf 1056346.76 +lhCortexVol 191401.76 +rhCortexVol 194701.88 +CortexVol 400793.17 +lhCorticalWhiteMatterVol 219830.01 +rhCorticalWhiteMatterVol 214051.69 +CorticalWhiteMatterVol 450703.06 +SubCortGrayVol 38412.64 +TotalGrayVol 542254.34 +SupraTentorialVol 950373.19 +SupraTentorialVolNotVent 917394.63 +SupraTentorialVolNotVentVox 917626.11 +MaskVol 1616234.38 +BrainSegVol-to-eTIV 17288.83 +MaskVol-to-eTIV 14933.38 +lhSurfaceHoles 17451.20 +rhSurfaceHoles 16464.28 +SurfaceHoles 12296.11 +EstimatedTotalIntraCranialVol 1590428.13 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject22_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject22_aseg_stats.txt new file mode 100755 index 000000000..91ebc6577 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject22_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject22 +Left-Lateral-Ventricle 9430.21 +Left-Inf-Lat-Vent 6382.76 +Left-Cerebellum-White-Matter 12428.45 +Left-Cerebellum-Cortex 41625.44 +Left-Thalamus-Proper 1872.95 +Left-Caudate 5294.25 +Left-Putamen 1488.76 +Left-Pallidum 7071.62 +3rd-Ventricle 3326.27 +4th-Ventricle 4386.80 +Brain-Stem 11264.30 +Left-Hippocampus 779.55 +Left-Amygdala 6825.43 +CSF 2622.81 +Left-Accumbens-area 3401.08 +Left-VentralDC 144.05 +Left-vessel 5277.81 +Left-choroid-plexus 5592.95 +Right-Lateral-Ventricle 6249.43 +Right-Inf-Lat-Vent 7181.65 +Right-Cerebellum-White-Matter 13015.18 +Right-Cerebellum-Cortex 43777.35 +Right-Thalamus-Proper 1205.23 +Right-Caudate 4726.70 +Right-Putamen 1.93 +Right-Pallidum 4372.08 +Right-Hippocampus 776.53 +Right-Amygdala 4342.52 +Right-Accumbens-area 4587.96 +Right-VentralDC 2088.84 +Right-vessel 5050.90 +Right-choroid-plexus 3562.87 +5th-Ventricle 5336.37 +WM-hypointensities 4209.01 +Left-WM-hypointensities 5125.11 +Right-WM-hypointensities 5852.53 +non-WM-hypointensities 5611.86 +Left-non-WM-hypointensities 6108.78 +Right-non-WM-hypointensities 7289.77 +Optic-Chiasm 3946.33 +CC_Posterior 6656.08 +CC_Mid_Posterior 4411.86 +CC_Central 7584.73 +CC_Mid_Anterior 4836.03 +CC_Anterior 5206.98 +BrainSegVol 1093938.16 +BrainSegVolNotVent 1056216.47 +BrainSegVolNotVentSurf 1059520.39 +lhCortexVol 197341.97 +rhCortexVol 199959.27 +CortexVol 404467.62 +lhCorticalWhiteMatterVol 227370.76 +rhCorticalWhiteMatterVol 225639.89 +CorticalWhiteMatterVol 460391.65 +SubCortGrayVol 47310.16 +TotalGrayVol 551279.40 +SupraTentorialVol 957765.72 +SupraTentorialVolNotVent 924829.24 +SupraTentorialVolNotVentVox 924995.46 +MaskVol 1623890.94 +BrainSegVol-to-eTIV 7493.09 +MaskVol-to-eTIV 6385.45 +lhSurfaceHoles 7452.56 +rhSurfaceHoles 7537.08 +SurfaceHoles 5975.46 +EstimatedTotalIntraCranialVol 1596490.15 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject23_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject23_aseg_stats.txt new file mode 100755 index 000000000..fc6aa8bf7 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject23_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject23 +Left-Lateral-Ventricle 9907.67 +Left-Inf-Lat-Vent 6676.10 +Left-Cerebellum-White-Matter 12359.84 +Left-Cerebellum-Cortex 41362.32 +Left-Thalamus-Proper 1933.11 +Left-Caudate 5244.92 +Left-Putamen 869.82 +Left-Pallidum 6622.98 +3rd-Ventricle 2733.18 +4th-Ventricle 4412.87 +Brain-Stem 11857.60 +Left-Hippocampus 571.48 +Left-Amygdala 6571.47 +CSF 2869.07 +Left-Accumbens-area 3454.69 +Left-VentralDC 163.29 +Left-vessel 5069.04 +Left-choroid-plexus 5257.99 +Right-Lateral-Ventricle 7015.53 +Right-Inf-Lat-Vent 6632.04 +Right-Cerebellum-White-Matter 13720.96 +Right-Cerebellum-Cortex 43868.34 +Right-Thalamus-Proper 1831.84 +Right-Caudate 4066.46 +Right-Putamen 282.17 +Right-Pallidum 4279.29 +Right-Hippocampus 129.34 +Right-Amygdala 3833.85 +Right-Accumbens-area 3952.39 +Right-VentralDC 1897.27 +Right-vessel 4464.23 +Right-choroid-plexus 3471.89 +5th-Ventricle 4862.42 +WM-hypointensities 3598.13 +Left-WM-hypointensities 5008.91 +Right-WM-hypointensities 5651.45 +non-WM-hypointensities 5443.80 +Left-non-WM-hypointensities 6084.16 +Right-non-WM-hypointensities 7342.45 +Optic-Chiasm 3628.08 +CC_Posterior 5895.89 +CC_Mid_Posterior 3819.66 +CC_Central 7411.02 +CC_Mid_Anterior 4693.84 +CC_Anterior 5377.33 +BrainSegVol 1094755.96 +BrainSegVolNotVent 1056920.55 +BrainSegVolNotVentSurf 1060094.76 +lhCortexVol 197984.48 +rhCortexVol 200337.09 +CortexVol 404241.04 +lhCorticalWhiteMatterVol 227821.53 +rhCorticalWhiteMatterVol 225696.09 +CorticalWhiteMatterVol 460387.09 +SubCortGrayVol 47782.96 +TotalGrayVol 551664.73 +SupraTentorialVol 957822.25 +SupraTentorialVolNotVent 925470.78 +SupraTentorialVolNotVentVox 924891.84 +MaskVol 1624506.82 +BrainSegVol-to-eTIV 6860.47 +MaskVol-to-eTIV 6500.73 +lhSurfaceHoles 7187.25 +rhSurfaceHoles 6715.52 +SurfaceHoles 5356.26 +EstimatedTotalIntraCranialVol 1596727.76 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject24_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject24_aseg_stats.txt new file mode 100755 index 000000000..ebaa2380d --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject24_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject24 +Left-Lateral-Ventricle 6539.81 +Left-Inf-Lat-Vent 15770.22 +Left-Cerebellum-White-Matter 4085.37 +Left-Cerebellum-Cortex 33893.61 +Left-Thalamus-Proper 3779.84 +Left-Caudate 16662.83 +Left-Putamen 7392.16 +Left-Pallidum 18148.99 +3rd-Ventricle 6791.48 +4th-Ventricle 11371.04 +Brain-Stem 599.79 +Left-Hippocampus 5922.51 +Left-Amygdala 18258.75 +CSF 5848.92 +Left-Accumbens-area 5885.99 +Left-VentralDC 2341.06 +Left-vessel 9778.24 +Left-choroid-plexus 14056.27 +Right-Lateral-Ventricle 4493.70 +Right-Inf-Lat-Vent 15681.10 +Right-Cerebellum-White-Matter 6168.84 +Right-Cerebellum-Cortex 39809.79 +Right-Thalamus-Proper 3870.06 +Right-Caudate 14398.63 +Right-Putamen 2885.17 +Right-Pallidum 10254.51 +Right-Hippocampus 4479.22 +Right-Amygdala 9553.22 +Right-Accumbens-area 7999.09 +Right-VentralDC 7910.06 +Right-vessel 8405.68 +Right-choroid-plexus 8444.35 +5th-Ventricle 10206.61 +WM-hypointensities 8844.09 +Left-WM-hypointensities 10327.80 +Right-WM-hypointensities 12056.57 +non-WM-hypointensities 11409.83 +Left-non-WM-hypointensities 13524.99 +Right-non-WM-hypointensities 16986.27 +Optic-Chiasm 6226.52 +CC_Posterior 15473.94 +CC_Mid_Posterior 7203.80 +CC_Central 18049.59 +CC_Mid_Anterior 10147.72 +CC_Anterior 12531.51 +BrainSegVol 1085856.57 +BrainSegVolNotVent 1045859.43 +BrainSegVolNotVentSurf 1057393.47 +lhCortexVol 192439.16 +rhCortexVol 195582.85 +CortexVol 401797.46 +lhCorticalWhiteMatterVol 220747.50 +rhCorticalWhiteMatterVol 214809.20 +CorticalWhiteMatterVol 451493.50 +SubCortGrayVol 39411.57 +TotalGrayVol 543226.64 +SupraTentorialVol 951348.84 +SupraTentorialVolNotVent 918316.35 +SupraTentorialVolNotVentVox 918481.71 +MaskVol 1617086.11 +BrainSegVol-to-eTIV 16509.30 +MaskVol-to-eTIV 13976.47 +lhSurfaceHoles 16532.15 +rhSurfaceHoles 15505.21 +SurfaceHoles 11284.40 +EstimatedTotalIntraCranialVol 1591411.78 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject25_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject25_aseg_stats.txt new file mode 100755 index 000000000..18d63c25e --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject25_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject25 +Left-Lateral-Ventricle 13682.10 +Left-Inf-Lat-Vent 3805.60 +Left-Cerebellum-White-Matter 15913.72 +Left-Cerebellum-Cortex 44494.50 +Left-Thalamus-Proper 5860.73 +Left-Caudate 2189.41 +Left-Putamen 2864.13 +Left-Pallidum 3796.86 +3rd-Ventricle 957.68 +4th-Ventricle 991.72 +Brain-Stem 15084.73 +Left-Hippocampus 2745.18 +Left-Amygdala 3850.95 +CSF 875.59 +Left-Accumbens-area 161.38 +Left-VentralDC 3873.45 +Left-vessel 1063.79 +Left-choroid-plexus 2148.46 +Right-Lateral-Ventricle 9798.97 +Right-Inf-Lat-Vent 3016.49 +Right-Cerebellum-White-Matter 17202.80 +Right-Cerebellum-Cortex 47491.05 +Right-Thalamus-Proper 5301.58 +Right-Caudate 1285.10 +Right-Putamen 4085.33 +Right-Pallidum 676.05 +Right-Hippocampus 3328.85 +Right-Amygdala 119.14 +Right-Accumbens-area 176.43 +Right-VentralDC 1853.10 +Right-vessel 463.11 +Right-choroid-plexus 63.58 +5th-Ventricle 1603.29 +WM-hypointensities 282.26 +Left-WM-hypointensities 1779.73 +Right-WM-hypointensities 2284.39 +non-WM-hypointensities 2030.14 +Left-non-WM-hypointensities 3045.83 +Right-non-WM-hypointensities 4277.34 +Optic-Chiasm 212.48 +CC_Posterior 2596.90 +CC_Mid_Posterior 133.73 +CC_Central 4274.54 +CC_Mid_Anterior 1327.65 +CC_Anterior 1910.41 +BrainSegVol 1098392.00 +BrainSegVolNotVent 1059899.61 +BrainSegVolNotVentSurf 1063984.85 +lhCortexVol 201823.89 +rhCortexVol 203597.30 +CortexVol 407974.29 +lhCorticalWhiteMatterVol 231204.98 +rhCorticalWhiteMatterVol 228461.27 +CorticalWhiteMatterVol 463286.33 +SubCortGrayVol 51463.00 +TotalGrayVol 555245.04 +SupraTentorialVol 961426.05 +SupraTentorialVolNotVent 928869.56 +SupraTentorialVolNotVentVox 928048.11 +MaskVol 1627643.00 +BrainSegVol-to-eTIV 4006.14 +MaskVol-to-eTIV 2972.45 +lhSurfaceHoles 3810.73 +rhSurfaceHoles 3186.54 +SurfaceHoles 1614.87 +EstimatedTotalIntraCranialVol 1600367.90 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject26_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject26_aseg_stats.txt new file mode 100755 index 000000000..2fe7499d3 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject26_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject26 +Left-Lateral-Ventricle 8096.49 +Left-Inf-Lat-Vent 11337.02 +Left-Cerebellum-White-Matter 8089.44 +Left-Cerebellum-Cortex 37510.15 +Left-Thalamus-Proper 1061.55 +Left-Caudate 11079.62 +Left-Putamen 4265.22 +Left-Pallidum 12504.81 +3rd-Ventricle 4888.76 +4th-Ventricle 8017.51 +Brain-Stem 6097.99 +Left-Hippocampus 3365.07 +Left-Amygdala 12531.04 +CSF 4484.29 +Left-Accumbens-area 4790.17 +Left-VentralDC 1211.86 +Left-vessel 7561.64 +Left-choroid-plexus 9777.72 +Right-Lateral-Ventricle 1143.47 +Right-Inf-Lat-Vent 11293.69 +Right-Cerebellum-White-Matter 9815.89 +Right-Cerebellum-Cortex 41714.77 +Right-Thalamus-Proper 1142.90 +Right-Caudate 9346.84 +Right-Putamen 1429.13 +Right-Pallidum 7395.59 +Right-Hippocampus 2424.17 +Right-Amygdala 6825.06 +Right-Accumbens-area 6104.82 +Right-VentralDC 5037.07 +Right-vessel 6570.82 +Right-choroid-plexus 6078.08 +5th-Ventricle 7650.76 +WM-hypointensities 6356.59 +Left-WM-hypointensities 7783.60 +Right-WM-hypointensities 8976.42 +non-WM-hypointensities 8549.54 +Left-non-WM-hypointensities 9919.37 +Right-non-WM-hypointensities 12285.76 +Optic-Chiasm 5054.61 +CC_Posterior 10813.49 +CC_Mid_Posterior 5644.64 +CC_Central 12856.55 +CC_Mid_Anterior 7540.67 +CC_Anterior 9081.92 +BrainSegVol 1090168.89 +BrainSegVolNotVent 1051267.58 +BrainSegVolNotVentSurf 1058614.98 +lhCortexVol 195076.84 +rhCortexVol 197845.23 +CortexVol 402895.71 +lhCorticalWhiteMatterVol 224159.84 +rhCorticalWhiteMatterVol 220137.40 +CorticalWhiteMatterVol 455826.06 +SubCortGrayVol 43459.89 +TotalGrayVol 547311.27 +SupraTentorialVol 954455.53 +SupraTentorialVolNotVent 921768.20 +SupraTentorialVolNotVentVox 921570.97 +MaskVol 1620678.65 +BrainSegVol-to-eTIV 11799.69 +MaskVol-to-eTIV 10368.87 +lhSurfaceHoles 11990.09 +rhSurfaceHoles 11244.09 +SurfaceHoles 8453.24 +EstimatedTotalIntraCranialVol 1593941.64 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject27_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject27_aseg_stats.txt new file mode 100755 index 000000000..1a1ada907 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject27_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject27 +Left-Lateral-Ventricle 10779.98 +Left-Inf-Lat-Vent 6948.58 +Left-Cerebellum-White-Matter 12455.42 +Left-Cerebellum-Cortex 41606.29 +Left-Thalamus-Proper 2739.21 +Left-Caudate 6320.07 +Left-Putamen 931.16 +Left-Pallidum 8255.71 +3rd-Ventricle 2192.87 +4th-Ventricle 4115.33 +Brain-Stem 10376.20 +Left-Hippocampus 176.43 +Left-Amygdala 8109.57 +CSF 1195.60 +Left-Accumbens-area 1914.12 +Left-VentralDC 1667.31 +Left-vessel 4122.25 +Left-choroid-plexus 5949.19 +Right-Lateral-Ventricle 5044.88 +Right-Inf-Lat-Vent 7308.01 +Right-Cerebellum-White-Matter 13176.80 +Right-Cerebellum-Cortex 44871.50 +Right-Thalamus-Proper 1810.85 +Right-Caudate 5645.55 +Right-Putamen 1417.09 +Right-Pallidum 3756.30 +Right-Hippocampus 152.00 +Right-Amygdala 3600.26 +Right-Accumbens-area 3402.79 +Right-VentralDC 1397.61 +Right-vessel 3710.58 +Right-choroid-plexus 2814.78 +5th-Ventricle 4764.67 +WM-hypointensities 3256.09 +Left-WM-hypointensities 4564.47 +Right-WM-hypointensities 5477.35 +non-WM-hypointensities 5102.86 +Left-non-WM-hypointensities 6175.10 +Right-non-WM-hypointensities 7877.65 +Optic-Chiasm 2371.01 +CC_Posterior 7093.43 +CC_Mid_Posterior 2963.15 +CC_Central 8374.02 +CC_Mid_Anterior 4229.50 +CC_Anterior 4956.95 +BrainSegVol 1093860.06 +BrainSegVolNotVent 1055233.65 +BrainSegVolNotVentSurf 1061099.13 +lhCortexVol 198198.36 +rhCortexVol 200675.38 +CortexVol 406018.98 +lhCorticalWhiteMatterVol 227592.31 +rhCorticalWhiteMatterVol 224576.53 +CorticalWhiteMatterVol 459891.23 +SubCortGrayVol 47386.06 +TotalGrayVol 551281.69 +SupraTentorialVol 958260.39 +SupraTentorialVolNotVent 925040.02 +SupraTentorialVolNotVentVox 925248.20 +MaskVol 1623885.79 +BrainSegVol-to-eTIV 8203.41 +MaskVol-to-eTIV 6178.52 +lhSurfaceHoles 7788.50 +rhSurfaceHoles 7650.01 +SurfaceHoles 5268.75 +EstimatedTotalIntraCranialVol 1597287.84 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject28_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject28_aseg_stats.txt new file mode 100755 index 000000000..2b1f46cb4 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject28_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject28 +Left-Lateral-Ventricle 10752.38 +Left-Inf-Lat-Vent 6213.18 +Left-Cerebellum-White-Matter 13020.32 +Left-Cerebellum-Cortex 42124.55 +Left-Thalamus-Proper 2966.19 +Left-Caudate 5336.09 +Left-Putamen 589.05 +Left-Pallidum 7233.84 +3rd-Ventricle 2131.27 +4th-Ventricle 3688.15 +Brain-Stem 11322.66 +Left-Hippocampus 76.23 +Left-Amygdala 7057.34 +CSF 1264.82 +Left-Accumbens-area 2032.63 +Left-VentralDC 1546.85 +Left-vessel 4020.07 +Left-choroid-plexus 5274.49 +Right-Lateral-Ventricle 6069.53 +Right-Inf-Lat-Vent 6660.25 +Right-Cerebellum-White-Matter 13666.03 +Right-Cerebellum-Cortex 44940.66 +Right-Thalamus-Proper 2087.21 +Right-Caudate 4756.95 +Right-Putamen 1363.10 +Right-Pallidum 3463.07 +Right-Hippocampus 273.09 +Right-Amygdala 3348.99 +Right-Accumbens-area 3351.95 +Right-VentralDC 1116.30 +Right-vessel 3696.84 +Right-choroid-plexus 2616.09 +5th-Ventricle 4506.44 +WM-hypointensities 3077.96 +Left-WM-hypointensities 4305.85 +Right-WM-hypointensities 5108.22 +non-WM-hypointensities 4789.73 +Left-non-WM-hypointensities 5649.69 +Right-non-WM-hypointensities 7100.14 +Optic-Chiasm 2495.00 +CC_Posterior 6349.41 +CC_Mid_Posterior 3008.66 +CC_Central 7489.23 +CC_Mid_Anterior 3970.41 +CC_Anterior 4512.14 +BrainSegVol 1094488.23 +BrainSegVolNotVent 1056184.78 +BrainSegVolNotVentSurf 1060981.57 +lhCortexVol 198415.69 +rhCortexVol 200865.19 +CortexVol 405888.93 +lhCorticalWhiteMatterVol 228037.08 +rhCorticalWhiteMatterVol 225531.15 +CorticalWhiteMatterVol 460600.23 +SubCortGrayVol 47948.23 +TotalGrayVol 551862.61 +SupraTentorialVol 958611.24 +SupraTentorialVolNotVent 925492.40 +SupraTentorialVolNotVentVox 925641.22 +MaskVol 1624398.05 +BrainSegVol-to-eTIV 7402.00 +MaskVol-to-eTIV 5703.26 +lhSurfaceHoles 7080.04 +rhSurfaceHoles 7022.70 +SurfaceHoles 4996.26 +EstimatedTotalIntraCranialVol 1597500.66 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject29_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject29_aseg_stats.txt new file mode 100755 index 000000000..0697b5ff1 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject29_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject29 +Left-Lateral-Ventricle 6103.78 +Left-Inf-Lat-Vent 16453.26 +Left-Cerebellum-White-Matter 3405.63 +Left-Cerebellum-Cortex 33470.01 +Left-Thalamus-Proper 4137.61 +Left-Caudate 18019.56 +Left-Putamen 8462.37 +Left-Pallidum 19955.80 +3rd-Ventricle 7462.10 +4th-Ventricle 11909.98 +Brain-Stem 1250.70 +Left-Hippocampus 6463.17 +Left-Amygdala 19911.47 +CSF 5505.80 +Left-Accumbens-area 5670.01 +Left-VentralDC 2195.22 +Left-vessel 10118.22 +Left-choroid-plexus 15286.44 +Right-Lateral-Ventricle 6621.73 +Right-Inf-Lat-Vent 17089.41 +Right-Cerebellum-White-Matter 4815.44 +Right-Cerebellum-Cortex 39631.11 +Right-Thalamus-Proper 4860.64 +Right-Caudate 16239.52 +Right-Putamen 3088.78 +Right-Pallidum 10733.59 +Right-Hippocampus 5283.50 +Right-Amygdala 10392.12 +Right-Accumbens-area 8697.75 +Right-VentralDC 8471.85 +Right-vessel 9005.72 +Right-choroid-plexus 8795.89 +5th-Ventricle 11020.64 +WM-hypointensities 9687.56 +Left-WM-hypointensities 10784.63 +Right-WM-hypointensities 12745.37 +non-WM-hypointensities 11990.94 +Left-non-WM-hypointensities 14245.97 +Right-non-WM-hypointensities 17965.86 +Optic-Chiasm 6374.81 +CC_Posterior 17221.50 +CC_Mid_Posterior 7730.50 +CC_Central 19398.41 +CC_Mid_Anterior 10631.00 +CC_Anterior 12949.60 +BrainSegVol 1084206.22 +BrainSegVolNotVent 1043891.63 +BrainSegVolNotVentSurf 1056980.55 +lhCortexVol 191511.80 +rhCortexVol 194956.12 +CortexVol 402201.94 +lhCorticalWhiteMatterVol 219708.24 +rhCorticalWhiteMatterVol 213484.37 +CorticalWhiteMatterVol 450556.88 +SubCortGrayVol 38194.22 +TotalGrayVol 542071.64 +SupraTentorialVol 950829.24 +SupraTentorialVolNotVent 917076.21 +SupraTentorialVolNotVentVox 918065.52 +MaskVol 1615791.51 +BrainSegVol-to-eTIV 18206.28 +MaskVol-to-eTIV 14490.12 +lhSurfaceHoles 17737.33 +rhSurfaceHoles 17158.32 +SurfaceHoles 12262.10 +EstimatedTotalIntraCranialVol 1590895.06 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject2_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject2_aseg_stats.txt new file mode 100755 index 000000000..8a284ef20 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject2_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject2 +Left-Lateral-Ventricle 8235.37 +Left-Inf-Lat-Vent 9225.40 +Left-Cerebellum-White-Matter 9792.64 +Left-Cerebellum-Cortex 39250.27 +Left-Thalamus-Proper 24.15 +Left-Caudate 8834.50 +Left-Putamen 3615.32 +Left-Pallidum 10631.85 +3rd-Ventricle 4721.13 +4th-Ventricle 6625.98 +Brain-Stem 7762.45 +Left-Hippocampus 2537.48 +Left-Amygdala 10427.87 +CSF 3701.23 +Left-Accumbens-area 4310.37 +Left-VentralDC 791.80 +Left-vessel 6881.84 +Left-choroid-plexus 8360.53 +Right-Lateral-Ventricle 2696.40 +Right-Inf-Lat-Vent 10050.00 +Right-Cerebellum-White-Matter 10596.99 +Right-Cerebellum-Cortex 42385.99 +Right-Thalamus-Proper 664.60 +Right-Caudate 7931.17 +Right-Putamen 1135.06 +Right-Pallidum 6329.82 +Right-Hippocampus 2245.51 +Right-Amygdala 6230.36 +Right-Accumbens-area 5983.85 +Right-VentralDC 4065.42 +Right-vessel 6427.42 +Right-choroid-plexus 5213.54 +5th-Ventricle 7089.26 +WM-hypointensities 5965.39 +Left-WM-hypointensities 6868.95 +Right-WM-hypointensities 7925.15 +non-WM-hypointensities 7556.94 +Left-non-WM-hypointensities 8470.77 +Right-non-WM-hypointensities 10305.33 +Optic-Chiasm 4916.87 +CC_Posterior 9664.44 +CC_Mid_Posterior 5620.91 +CC_Central 10898.51 +CC_Mid_Anterior 6627.01 +CC_Anterior 7506.58 +BrainSegVol 1091113.05 +BrainSegVolNotVent 1052785.85 +BrainSegVolNotVentSurf 1058516.81 +lhCortexVol 195499.12 +rhCortexVol 198380.96 +CortexVol 403548.55 +lhCorticalWhiteMatterVol 225099.26 +rhCorticalWhiteMatterVol 222272.05 +CorticalWhiteMatterVol 457606.87 +SubCortGrayVol 44639.05 +TotalGrayVol 548593.77 +SupraTentorialVol 955660.47 +SupraTentorialVolNotVent 922533.13 +SupraTentorialVolNotVentVox 922932.41 +MaskVol 1621529.77 +BrainSegVol-to-eTIV 10499.09 +MaskVol-to-eTIV 8783.47 +lhSurfaceHoles 10395.96 +rhSurfaceHoles 10324.11 +SurfaceHoles 7926.51 +EstimatedTotalIntraCranialVol 1594725.63 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject30_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject30_aseg_stats.txt new file mode 100755 index 000000000..37d7b6e0e --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject30_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject30 +Left-Lateral-Ventricle 10131.51 +Left-Inf-Lat-Vent 7869.31 +Left-Cerebellum-White-Matter 11505.49 +Left-Cerebellum-Cortex 40572.60 +Left-Thalamus-Proper 1705.13 +Left-Caudate 6877.69 +Left-Putamen 1314.28 +Left-Pallidum 8334.63 +3rd-Ventricle 2673.96 +4th-Ventricle 5025.09 +Brain-Stem 10300.38 +Left-Hippocampus 873.94 +Left-Amygdala 8342.70 +CSF 2571.56 +Left-Accumbens-area 3074.27 +Left-VentralDC 551.57 +Left-vessel 5068.47 +Left-choroid-plexus 6330.76 +Right-Lateral-Ventricle 5296.90 +Right-Inf-Lat-Vent 7632.91 +Right-Cerebellum-White-Matter 12999.68 +Right-Cerebellum-Cortex 43910.77 +Right-Thalamus-Proper 1493.74 +Right-Caudate 5539.94 +Right-Putamen 554.91 +Right-Pallidum 4641.65 +Right-Hippocampus 188.10 +Right-Amygdala 4115.45 +Right-Accumbens-area 3869.85 +Right-VentralDC 2231.35 +Right-vessel 4304.44 +Right-choroid-plexus 3672.83 +5th-Ventricle 5177.57 +WM-hypointensities 3740.24 +Left-WM-hypointensities 5326.14 +Right-WM-hypointensities 6161.53 +non-WM-hypointensities 5850.80 +Left-non-WM-hypointensities 6891.11 +Right-non-WM-hypointensities 8602.60 +Optic-Chiasm 3227.42 +CC_Posterior 7084.89 +CC_Mid_Posterior 3555.28 +CC_Central 8861.26 +CC_Mid_Anterior 5005.60 +CC_Anterior 6019.22 +BrainSegVol 1093791.36 +BrainSegVolNotVent 1055343.47 +BrainSegVolNotVentSurf 1060486.11 +lhCortexVol 197769.82 +rhCortexVol 200145.33 +CortexVol 404647.67 +lhCorticalWhiteMatterVol 227175.87 +rhCorticalWhiteMatterVol 224102.86 +CorticalWhiteMatterVol 459242.79 +SubCortGrayVol 46939.36 +TotalGrayVol 550782.72 +SupraTentorialVol 957356.05 +SupraTentorialVolNotVent 924812.11 +SupraTentorialVolNotVentVox 924328.96 +MaskVol 1623728.10 +BrainSegVol-to-eTIV 8173.42 +MaskVol-to-eTIV 7194.67 +lhSurfaceHoles 8308.55 +rhSurfaceHoles 7683.51 +SurfaceHoles 5674.88 +EstimatedTotalIntraCranialVol 1596512.05 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject31_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject31_aseg_stats.txt new file mode 100755 index 000000000..97088dbab --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject31_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject31 +Left-Lateral-Ventricle 3391.64 +Left-Inf-Lat-Vent 18119.89 +Left-Cerebellum-White-Matter 1161.31 +Left-Cerebellum-Cortex 31502.68 +Left-Thalamus-Proper 6825.96 +Left-Caudate 19688.29 +Left-Putamen 10952.03 +Left-Pallidum 21440.74 +3rd-Ventricle 10067.80 +4th-Ventricle 14131.53 +Brain-Stem 3061.73 +Left-Hippocampus 8701.40 +Left-Amygdala 21305.04 +CSF 8218.45 +Left-Accumbens-area 8316.55 +Left-VentralDC 4910.03 +Left-vessel 12927.40 +Left-choroid-plexus 17155.68 +Right-Lateral-Ventricle 8074.71 +Right-Inf-Lat-Vent 19334.42 +Right-Cerebellum-White-Matter 2583.00 +Right-Cerebellum-Cortex 37078.06 +Right-Thalamus-Proper 7195.88 +Right-Caudate 17762.23 +Right-Putamen 5835.27 +Right-Pallidum 13155.41 +Right-Hippocampus 7691.77 +Right-Amygdala 12915.59 +Right-Accumbens-area 11369.92 +Right-VentralDC 11005.07 +Right-vessel 11858.23 +Right-choroid-plexus 11127.89 +5th-Ventricle 13214.84 +WM-hypointensities 12367.72 +Left-WM-hypointensities 12957.22 +Right-WM-hypointensities 14958.65 +non-WM-hypointensities 14266.85 +Left-non-WM-hypointensities 16142.49 +Right-non-WM-hypointensities 19749.54 +Optic-Chiasm 9184.68 +CC_Posterior 19189.87 +CC_Mid_Posterior 10579.92 +CC_Central 21176.94 +CC_Mid_Anterior 12901.27 +CC_Anterior 15194.63 +BrainSegVol 1081936.30 +BrainSegVolNotVent 1042260.35 +BrainSegVolNotVentSurf 1054138.66 +lhCortexVol 188881.44 +rhCortexVol 192725.33 +CortexVol 399465.60 +lhCorticalWhiteMatterVol 217522.85 +rhCorticalWhiteMatterVol 212007.78 +CorticalWhiteMatterVol 448855.89 +SubCortGrayVol 35858.30 +TotalGrayVol 539816.82 +SupraTentorialVol 948437.18 +SupraTentorialVolNotVent 914883.83 +SupraTentorialVolNotVentVox 916015.40 +MaskVol 1613818.18 +BrainSegVol-to-eTIV 19826.80 +MaskVol-to-eTIV 16763.08 +lhSurfaceHoles 19779.73 +rhSurfaceHoles 19352.17 +SurfaceHoles 14793.52 +EstimatedTotalIntraCranialVol 1588404.77 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject32_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject32_aseg_stats.txt new file mode 100755 index 000000000..ee15ac58a --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject32_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject32 +Left-Lateral-Ventricle 11983.66 +Left-Inf-Lat-Vent 5325.31 +Left-Cerebellum-White-Matter 14136.39 +Left-Cerebellum-Cortex 42921.92 +Left-Thalamus-Proper 4016.27 +Left-Caudate 3867.72 +Left-Putamen 1072.54 +Left-Pallidum 5382.86 +3rd-Ventricle 729.86 +4th-Ventricle 2667.51 +Brain-Stem 13340.13 +Left-Hippocampus 1169.25 +Left-Amygdala 5398.35 +CSF 796.84 +Left-Accumbens-area 1438.05 +Left-VentralDC 2232.06 +Left-vessel 2905.73 +Left-choroid-plexus 3757.96 +Right-Lateral-Ventricle 8231.43 +Right-Inf-Lat-Vent 4846.68 +Right-Cerebellum-White-Matter 15480.86 +Right-Cerebellum-Cortex 45832.04 +Right-Thalamus-Proper 3649.28 +Right-Caudate 2810.69 +Right-Putamen 2381.85 +Right-Pallidum 2393.80 +Right-Hippocampus 1728.58 +Right-Amygdala 1874.65 +Right-Accumbens-area 1899.21 +Right-VentralDC 72.42 +Right-vessel 2276.53 +Right-choroid-plexus 1664.68 +5th-Ventricle 3154.89 +WM-hypointensities 1526.12 +Left-WM-hypointensities 3317.90 +Right-WM-hypointensities 3918.23 +non-WM-hypointensities 3668.16 +Left-non-WM-hypointensities 4578.13 +Right-non-WM-hypointensities 5897.74 +Optic-Chiasm 1486.81 +CC_Posterior 4312.97 +CC_Mid_Posterior 1640.24 +CC_Central 5959.56 +CC_Mid_Anterior 2927.92 +CC_Anterior 3612.21 +BrainSegVol 1096558.45 +BrainSegVolNotVent 1058265.77 +BrainSegVolNotVentSurf 1062261.22 +lhCortexVol 200022.22 +rhCortexVol 202065.84 +CortexVol 406325.35 +lhCorticalWhiteMatterVol 229540.93 +rhCorticalWhiteMatterVol 226923.10 +CorticalWhiteMatterVol 461761.58 +SubCortGrayVol 49629.45 +TotalGrayVol 553450.93 +SupraTentorialVol 959690.68 +SupraTentorialVolNotVent 927196.29 +SupraTentorialVolNotVentVox 926502.39 +MaskVol 1626070.42 +BrainSegVol-to-eTIV 5538.44 +MaskVol-to-eTIV 4711.18 +lhSurfaceHoles 5551.13 +rhSurfaceHoles 4971.42 +SurfaceHoles 3388.84 +EstimatedTotalIntraCranialVol 1598657.71 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject33_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject33_aseg_stats.txt new file mode 100755 index 000000000..4057fee41 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject33_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject33 +Left-Lateral-Ventricle 7644.17 +Left-Inf-Lat-Vent 13681.48 +Left-Cerebellum-White-Matter 6106.15 +Left-Cerebellum-Cortex 35893.22 +Left-Thalamus-Proper 1993.72 +Left-Caudate 14643.48 +Left-Putamen 6156.93 +Left-Pallidum 16596.72 +3rd-Ventricle 5768.41 +4th-Ventricle 9557.06 +Brain-Stem 2118.69 +Left-Hippocampus 4523.74 +Left-Amygdala 16532.89 +CSF 4066.10 +Left-Accumbens-area 4389.05 +Left-VentralDC 878.53 +Left-vessel 8205.51 +Left-choroid-plexus 12541.83 +Right-Lateral-Ventricle 3274.84 +Right-Inf-Lat-Vent 14187.45 +Right-Cerebellum-White-Matter 7325.36 +Right-Cerebellum-Cortex 41311.94 +Right-Thalamus-Proper 2806.25 +Right-Caudate 13181.36 +Right-Putamen 1592.07 +Right-Pallidum 8586.94 +Right-Hippocampus 3562.49 +Right-Amygdala 8287.02 +Right-Accumbens-area 6990.78 +Right-VentralDC 6288.11 +Right-vessel 7281.86 +Right-choroid-plexus 6931.83 +5th-Ventricle 9093.79 +WM-hypointensities 7667.02 +Left-WM-hypointensities 8869.66 +Right-WM-hypointensities 10538.18 +non-WM-hypointensities 9882.47 +Left-non-WM-hypointensities 11847.38 +Right-non-WM-hypointensities 15022.54 +Optic-Chiasm 5010.37 +CC_Posterior 14249.96 +CC_Mid_Posterior 6152.19 +CC_Central 16197.89 +CC_Mid_Anterior 8656.99 +CC_Anterior 10539.99 +BrainSegVol 1087075.39 +BrainSegVolNotVent 1047165.82 +BrainSegVolNotVentSurf 1058379.58 +lhCortexVol 193597.90 +rhCortexVol 196738.66 +CortexVol 403508.11 +lhCorticalWhiteMatterVol 222082.40 +rhCorticalWhiteMatterVol 216675.34 +CorticalWhiteMatterVol 453284.98 +SubCortGrayVol 40942.39 +TotalGrayVol 544817.25 +SupraTentorialVol 953098.03 +SupraTentorialVolNotVent 919472.96 +SupraTentorialVolNotVentVox 920233.99 +MaskVol 1618203.72 +BrainSegVol-to-eTIV 15301.69 +MaskVol-to-eTIV 11990.11 +lhSurfaceHoles 14808.21 +rhSurfaceHoles 14336.31 +SurfaceHoles 10100.79 +EstimatedTotalIntraCranialVol 1592887.22 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject34_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject34_aseg_stats.txt new file mode 100755 index 000000000..7100bedfa --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject34_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject34 +Left-Lateral-Ventricle 12479.39 +Left-Inf-Lat-Vent 6275.23 +Left-Cerebellum-White-Matter 13566.56 +Left-Cerebellum-Cortex 42383.94 +Left-Thalamus-Proper 4083.56 +Left-Caudate 5231.81 +Left-Putamen 914.88 +Left-Pallidum 6840.62 +3rd-Ventricle 400.49 +4th-Ventricle 3011.47 +Brain-Stem 12062.20 +Left-Hippocampus 1119.07 +Left-Amygdala 6921.87 +CSF 231.60 +Left-Accumbens-area 801.58 +Left-VentralDC 2883.10 +Left-vessel 2610.29 +Left-choroid-plexus 4573.08 +Right-Lateral-Ventricle 6763.74 +Right-Inf-Lat-Vent 5554.57 +Right-Cerebellum-White-Matter 15035.24 +Right-Cerebellum-Cortex 46140.06 +Right-Thalamus-Proper 3575.69 +Right-Caudate 4039.95 +Right-Putamen 2927.30 +Right-Pallidum 2481.18 +Right-Hippocampus 1926.00 +Right-Amygdala 1875.21 +Right-Accumbens-area 1540.88 +Right-VentralDC 23.40 +Right-vessel 1826.44 +Right-choroid-plexus 1609.31 +5th-Ventricle 3221.65 +WM-hypointensities 1378.74 +Left-WM-hypointensities 3388.89 +Right-WM-hypointensities 4166.75 +non-WM-hypointensities 3812.93 +Left-non-WM-hypointensities 5139.78 +Right-non-WM-hypointensities 6898.49 +Optic-Chiasm 814.12 +CC_Posterior 5227.25 +CC_Mid_Posterior 1091.87 +CC_Central 7140.05 +CC_Mid_Anterior 2983.50 +CC_Anterior 3981.67 +BrainSegVol 1095887.37 +BrainSegVolNotVent 1056950.25 +BrainSegVolNotVentSurf 1062928.50 +lhCortexVol 200095.99 +rhCortexVol 202119.24 +CortexVol 406995.96 +lhCorticalWhiteMatterVol 229161.66 +rhCorticalWhiteMatterVol 225576.11 +CorticalWhiteMatterVol 460861.37 +SubCortGrayVol 49079.37 +TotalGrayVol 552856.13 +SupraTentorialVol 959502.28 +SupraTentorialVolNotVent 926805.48 +SupraTentorialVolNotVentVox 926186.96 +MaskVol 1625543.44 +BrainSegVol-to-eTIV 6606.09 +MaskVol-to-eTIV 5126.77 +lhSurfaceHoles 6393.82 +rhSurfaceHoles 5653.69 +SurfaceHoles 3423.47 +EstimatedTotalIntraCranialVol 1598715.77 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject35_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject35_aseg_stats.txt new file mode 100755 index 000000000..2cde8184f --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject35_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject35 +Left-Lateral-Ventricle 6433.88 +Left-Inf-Lat-Vent 14724.87 +Left-Cerebellum-White-Matter 4865.18 +Left-Cerebellum-Cortex 34611.24 +Left-Thalamus-Proper 3509.46 +Left-Caudate 15250.64 +Left-Putamen 6947.07 +Left-Pallidum 16676.45 +3rd-Ventricle 6763.22 +4th-Ventricle 10793.95 +Brain-Stem 1953.18 +Left-Hippocampus 5603.41 +Left-Amygdala 16739.21 +CSF 6016.31 +Left-Accumbens-area 6124.54 +Left-VentralDC 2584.12 +Left-vessel 9694.97 +Left-choroid-plexus 13105.38 +Right-Lateral-Ventricle 3016.29 +Right-Inf-Lat-Vent 14779.01 +Right-Cerebellum-White-Matter 6837.25 +Right-Cerebellum-Cortex 39850.48 +Right-Thalamus-Proper 3518.33 +Right-Caudate 13123.71 +Right-Putamen 3030.89 +Right-Pallidum 9879.94 +Right-Hippocampus 4358.40 +Right-Amygdala 9243.02 +Right-Accumbens-area 7988.31 +Right-VentralDC 7555.77 +Right-vessel 8453.98 +Right-choroid-plexus 8207.16 +5th-Ventricle 9878.22 +WM-hypointensities 8645.61 +Left-WM-hypointensities 9998.33 +Right-WM-hypointensities 11564.97 +non-WM-hypointensities 11002.38 +Left-non-WM-hypointensities 12795.10 +Right-non-WM-hypointensities 15881.58 +Optic-Chiasm 6477.08 +CC_Posterior 14423.12 +CC_Mid_Posterior 7339.48 +CC_Central 16786.43 +CC_Mid_Anterior 9819.90 +CC_Anterior 11928.97 +BrainSegVol 1086729.14 +BrainSegVolNotVent 1047224.03 +BrainSegVolNotVentSurf 1057151.63 +lhCortexVol 192696.69 +rhCortexVol 195809.36 +CortexVol 401539.72 +lhCorticalWhiteMatterVol 221351.41 +rhCorticalWhiteMatterVol 216182.67 +CorticalWhiteMatterVol 452499.06 +SubCortGrayVol 40185.14 +TotalGrayVol 544029.84 +SupraTentorialVol 951809.16 +SupraTentorialVolNotVent 918931.33 +SupraTentorialVolNotVentVox 919012.51 +MaskVol 1617794.74 +BrainSegVol-to-eTIV 15365.41 +MaskVol-to-eTIV 13329.67 +lhSurfaceHoles 15535.61 +rhSurfaceHoles 14632.08 +SurfaceHoles 10943.08 +EstimatedTotalIntraCranialVol 1591666.02 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject36_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject36_aseg_stats.txt new file mode 100755 index 000000000..5312ed8b3 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject36_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject36 +Left-Lateral-Ventricle 9416.98 +Left-Inf-Lat-Vent 10028.82 +Left-Cerebellum-White-Matter 9570.22 +Left-Cerebellum-Cortex 38823.41 +Left-Thalamus-Proper 415.27 +Left-Caudate 9606.25 +Left-Putamen 2810.45 +Left-Pallidum 11097.14 +3rd-Ventricle 3561.92 +4th-Ventricle 6638.90 +Brain-Stem 7616.82 +Left-Hippocampus 2093.46 +Left-Amygdala 11148.43 +CSF 3191.04 +Left-Accumbens-area 3562.09 +Left-VentralDC 48.63 +Left-vessel 6107.58 +Left-choroid-plexus 8409.58 +Right-Lateral-Ventricle 2537.20 +Right-Inf-Lat-Vent 9757.86 +Right-Cerebellum-White-Matter 11240.84 +Right-Cerebellum-Cortex 43020.61 +Right-Thalamus-Proper 192.23 +Right-Caudate 8008.53 +Right-Putamen 109.12 +Right-Pallidum 6006.58 +Right-Hippocampus 1155.51 +Right-Amygdala 5413.58 +Right-Accumbens-area 4752.27 +Right-VentralDC 3600.95 +Right-vessel 5153.75 +Right-choroid-plexus 4795.82 +5th-Ventricle 6397.21 +WM-hypointensities 4916.06 +Left-WM-hypointensities 6540.46 +Right-WM-hypointensities 7640.23 +non-WM-hypointensities 7219.41 +Left-non-WM-hypointensities 8636.35 +Right-non-WM-hypointensities 10891.98 +Optic-Chiasm 3749.54 +CC_Posterior 9350.65 +CC_Mid_Posterior 4268.22 +CC_Central 11394.48 +CC_Mid_Anterior 6249.01 +CC_Anterior 7680.09 +BrainSegVol 1091704.08 +BrainSegVolNotVent 1052700.77 +BrainSegVolNotVentSurf 1059940.11 +lhCortexVol 196518.67 +rhCortexVol 199071.67 +CortexVol 404160.49 +lhCorticalWhiteMatterVol 225532.21 +rhCorticalWhiteMatterVol 221496.54 +CorticalWhiteMatterVol 457133.79 +SubCortGrayVol 44984.08 +TotalGrayVol 548807.81 +SupraTentorialVol 955867.89 +SupraTentorialVolNotVent 923149.04 +SupraTentorialVolNotVentVox 922842.40 +MaskVol 1621990.91 +BrainSegVol-to-eTIV 10470.66 +MaskVol-to-eTIV 8933.15 +lhSurfaceHoles 10514.20 +rhSurfaceHoles 9747.02 +SurfaceHoles 7023.82 +EstimatedTotalIntraCranialVol 1595311.36 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject37_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject37_aseg_stats.txt new file mode 100755 index 000000000..9a9eec1aa --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject37_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject37 +Left-Lateral-Ventricle 10127.05 +Left-Inf-Lat-Vent 7493.26 +Left-Cerebellum-White-Matter 11797.70 +Left-Cerebellum-Cortex 40840.37 +Left-Thalamus-Proper 1828.75 +Left-Caudate 6376.48 +Left-Putamen 1133.38 +Left-Pallidum 7814.98 +3rd-Ventricle 2633.89 +4th-Ventricle 4802.29 +Brain-Stem 10783.20 +Left-Hippocampus 738.95 +Left-Amygdala 7808.09 +CSF 2596.98 +Left-Accumbens-area 3124.73 +Left-VentralDC 500.36 +Left-vessel 5007.27 +Left-choroid-plexus 5984.57 +Right-Lateral-Ventricle 5817.84 +Right-Inf-Lat-Vent 7298.97 +Right-Cerebellum-White-Matter 13253.76 +Right-Cerebellum-Cortex 43954.47 +Right-Thalamus-Proper 1640.99 +Right-Caudate 5087.26 +Right-Putamen 537.28 +Right-Pallidum 4485.60 +Right-Hippocampus 118.76 +Right-Amygdala 3980.17 +Right-Accumbens-area 3834.97 +Right-VentralDC 2080.91 +Right-vessel 4287.61 +Right-choroid-plexus 3564.69 +5th-Ventricle 5039.93 +WM-hypointensities 3641.24 +Left-WM-hypointensities 5188.38 +Right-WM-hypointensities 5967.99 +non-WM-hypointensities 5685.23 +Left-non-WM-hypointensities 6619.98 +Right-non-WM-hypointensities 8204.94 +Optic-Chiasm 3280.08 +CC_Posterior 6703.44 +CC_Mid_Posterior 3568.29 +CC_Central 8409.60 +CC_Mid_Anterior 4867.26 +CC_Anterior 5787.47 +BrainSegVol 1094115.52 +BrainSegVolNotVent 1055828.01 +BrainSegVolNotVentSurf 1060436.80 +lhCortexVol 197888.39 +rhCortexVol 200248.65 +CortexVol 404591.71 +lhCorticalWhiteMatterVol 227407.40 +rhCorticalWhiteMatterVol 224588.62 +CorticalWhiteMatterVol 459605.67 +SubCortGrayVol 47230.52 +TotalGrayVol 551083.04 +SupraTentorialVol 957541.01 +SupraTentorialVolNotVent 925047.49 +SupraTentorialVolNotVentVox 924533.97 +MaskVol 1623992.87 +BrainSegVol-to-eTIV 7764.29 +MaskVol-to-eTIV 6947.49 +lhSurfaceHoles 7944.76 +rhSurfaceHoles 7360.05 +SurfaceHoles 5528.89 +EstimatedTotalIntraCranialVol 1596627.85 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject38_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject38_aseg_stats.txt new file mode 100755 index 000000000..c64c1fd37 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject38_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject38 +Left-Lateral-Ventricle 11290.83 +Left-Inf-Lat-Vent 5818.54 +Left-Cerebellum-White-Matter 13510.35 +Left-Cerebellum-Cortex 42371.08 +Left-Thalamus-Proper 3306.71 +Left-Caudate 4383.78 +Left-Putamen 403.59 +Left-Pallidum 5855.21 +3rd-Ventricle 1403.40 +4th-Ventricle 3275.36 +Brain-Stem 12790.95 +Left-Hippocampus 572.78 +Left-Amygdala 5849.99 +CSF 1486.06 +Left-Accumbens-area 2105.90 +Left-VentralDC 1546.89 +Left-vessel 3635.07 +Left-choroid-plexus 4297.69 +Right-Lateral-Ventricle 7767.02 +Right-Inf-Lat-Vent 5480.33 +Right-Cerebellum-White-Matter 14864.65 +Right-Cerebellum-Cortex 45171.33 +Right-Thalamus-Proper 3025.82 +Right-Caudate 3280.76 +Right-Putamen 1682.59 +Right-Pallidum 3040.97 +Right-Hippocampus 1100.33 +Right-Amygdala 2544.12 +Right-Accumbens-area 2588.82 +Right-VentralDC 602.25 +Right-vessel 3009.04 +Right-choroid-plexus 2280.35 +5th-Ventricle 3740.56 +WM-hypointensities 2229.20 +Left-WM-hypointensities 3898.08 +Right-WM-hypointensities 4518.74 +non-WM-hypointensities 4279.72 +Left-non-WM-hypointensities 5111.46 +Right-non-WM-hypointensities 6424.76 +Optic-Chiasm 2196.04 +CC_Posterior 4884.33 +CC_Mid_Posterior 2366.65 +CC_Central 6494.88 +CC_Mid_Anterior 3533.17 +CC_Anterior 4227.66 +BrainSegVol 1095920.17 +BrainSegVolNotVent 1057762.26 +BrainSegVolNotVentSurf 1061543.21 +lhCortexVol 199328.40 +rhCortexVol 201476.92 +CortexVol 405635.52 +lhCorticalWhiteMatterVol 228940.78 +rhCorticalWhiteMatterVol 226458.92 +CorticalWhiteMatterVol 461261.91 +SubCortGrayVol 48980.17 +TotalGrayVol 552820.77 +SupraTentorialVol 959045.97 +SupraTentorialVolNotVent 926593.66 +SupraTentorialVolNotVentVox 925941.56 +MaskVol 1625518.58 +BrainSegVol-to-eTIV 6025.77 +MaskVol-to-eTIV 5336.51 +lhSurfaceHoles 6138.28 +rhSurfaceHoles 5590.12 +SurfaceHoles 4062.25 +EstimatedTotalIntraCranialVol 1598000.19 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject39_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject39_aseg_stats.txt new file mode 100755 index 000000000..834f554a7 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject39_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject39 +Left-Lateral-Ventricle 9731.64 +Left-Inf-Lat-Vent 9153.40 +Left-Cerebellum-White-Matter 10368.77 +Left-Cerebellum-Cortex 39729.30 +Left-Thalamus-Proper 1172.50 +Left-Caudate 9041.39 +Left-Putamen 2655.70 +Left-Pallidum 10980.71 +3rd-Ventricle 3382.82 +4th-Ventricle 5907.02 +Brain-Stem 7674.70 +Left-Hippocampus 1612.93 +Left-Amygdala 10860.29 +CSF 2157.79 +Left-Accumbens-area 2747.13 +Left-VentralDC 810.52 +Left-vessel 5479.33 +Left-choroid-plexus 8110.71 +Right-Lateral-Ventricle 2327.14 +Right-Inf-Lat-Vent 9566.83 +Right-Cerebellum-White-Matter 11251.94 +Right-Cerebellum-Cortex 43687.32 +Right-Thalamus-Proper 285.68 +Right-Caudate 8109.50 +Right-Putamen 409.49 +Right-Pallidum 5351.78 +Right-Hippocampus 1080.88 +Right-Amygdala 5150.15 +Right-Accumbens-area 4597.52 +Right-VentralDC 3013.76 +Right-vessel 4901.89 +Right-choroid-plexus 4177.54 +5th-Ventricle 6194.77 +WM-hypointensities 4718.14 +Left-WM-hypointensities 5986.56 +Right-WM-hypointensities 7145.27 +non-WM-hypointensities 6680.15 +Left-non-WM-hypointensities 8038.06 +Right-non-WM-hypointensities 10217.55 +Optic-Chiasm 3259.22 +CC_Posterior 9439.16 +CC_Mid_Posterior 4030.30 +CC_Central 10934.35 +CC_Mid_Anterior 5692.38 +CC_Anterior 6794.79 +BrainSegVol 1091631.74 +BrainSegVolNotVent 1052595.73 +BrainSegVolNotVentSurf 1060184.52 +lhCortexVol 196675.31 +rhCortexVol 199372.30 +CortexVol 405173.30 +lhCorticalWhiteMatterVol 225778.88 +rhCorticalWhiteMatterVol 221994.44 +CorticalWhiteMatterVol 457727.16 +SubCortGrayVol 45267.74 +TotalGrayVol 549157.53 +SupraTentorialVol 956557.52 +SupraTentorialVolNotVent 923207.95 +SupraTentorialVolNotVentVox 923597.23 +MaskVol 1622018.80 +BrainSegVol-to-eTIV 10526.37 +MaskVol-to-eTIV 8090.89 +lhSurfaceHoles 10090.62 +rhSurfaceHoles 9845.54 +SurfaceHoles 6865.90 +EstimatedTotalIntraCranialVol 1595831.24 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject3_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject3_aseg_stats.txt new file mode 100755 index 000000000..8dcbafc1f --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject3_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject3 +Left-Lateral-Ventricle 6317.47 +Left-Inf-Lat-Vent 12334.95 +Left-Cerebellum-White-Matter 6697.07 +Left-Cerebellum-Cortex 36477.52 +Left-Thalamus-Proper 2578.00 +Left-Caudate 12583.62 +Left-Putamen 6318.98 +Left-Pallidum 14343.45 +3rd-Ventricle 6789.90 +4th-Ventricle 9351.38 +Brain-Stem 4005.28 +Left-Hippocampus 4827.20 +Left-Amygdala 14150.39 +CSF 5512.66 +Left-Accumbens-area 5946.83 +Left-VentralDC 2473.31 +Left-vessel 9203.96 +Left-choroid-plexus 11462.88 +Right-Lateral-Ventricle 998.90 +Right-Inf-Lat-Vent 13358.75 +Right-Cerebellum-White-Matter 7704.34 +Right-Cerebellum-Cortex 40336.41 +Right-Thalamus-Proper 3086.25 +Right-Caudate 11328.41 +Right-Putamen 3010.41 +Right-Pallidum 8858.27 +Right-Hippocampus 4322.21 +Right-Amygdala 8725.65 +Right-Accumbens-area 8073.74 +Right-VentralDC 6644.94 +Right-vessel 8554.35 +Right-choroid-plexus 7433.49 +5th-Ventricle 9360.98 +WM-hypointensities 8387.87 +Left-WM-hypointensities 9125.81 +Right-WM-hypointensities 10495.50 +non-WM-hypointensities 10029.49 +Left-non-WM-hypointensities 11209.95 +Right-non-WM-hypointensities 13608.82 +Optic-Chiasm 6659.01 +CC_Posterior 13017.41 +CC_Mid_Posterior 7593.51 +CC_Central 14473.56 +CC_Mid_Anterior 8956.71 +CC_Anterior 10294.45 +BrainSegVol 1087836.33 +BrainSegVolNotVent 1049148.50 +BrainSegVolNotVentSurf 1056734.68 +lhCortexVol 193012.56 +rhCortexVol 196258.03 +CortexVol 401875.87 +lhCorticalWhiteMatterVol 222355.24 +rhCorticalWhiteMatterVol 218739.19 +CorticalWhiteMatterVol 454539.87 +SubCortGrayVol 41483.33 +TotalGrayVol 545449.38 +SupraTentorialVol 953005.96 +SupraTentorialVolNotVent 919764.46 +SupraTentorialVolNotVentVox 920420.37 +MaskVol 1618768.02 +BrainSegVol-to-eTIV 13744.26 +MaskVol-to-eTIV 11669.94 +lhSurfaceHoles 13711.92 +rhSurfaceHoles 13542.84 +SurfaceHoles 10482.11 +EstimatedTotalIntraCranialVol 1592353.35 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject40_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject40_aseg_stats.txt new file mode 100755 index 000000000..28594adb7 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject40_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject40 +Left-Lateral-Ventricle 10841.31 +Left-Inf-Lat-Vent 8413.87 +Left-Cerebellum-White-Matter 11332.05 +Left-Cerebellum-Cortex 40575.46 +Left-Thalamus-Proper 2291.92 +Left-Caudate 8281.96 +Left-Putamen 1608.92 +Left-Pallidum 10293.72 +3rd-Ventricle 2309.95 +4th-Ventricle 4963.62 +Brain-Stem 8489.59 +Left-Hippocampus 676.06 +Left-Amygdala 10208.42 +CSF 1051.10 +Left-Accumbens-area 1671.31 +Left-VentralDC 1914.17 +Left-vessel 4319.94 +Left-choroid-plexus 7292.77 +Right-Lateral-Ventricle 3001.25 +Right-Inf-Lat-Vent 8596.91 +Right-Cerebellum-White-Matter 12204.56 +Right-Cerebellum-Cortex 44739.18 +Right-Thalamus-Proper 1264.13 +Right-Caudate 7417.23 +Right-Putamen 1531.22 +Right-Pallidum 4336.54 +Right-Hippocampus 84.39 +Right-Amygdala 4096.46 +Right-Accumbens-area 3498.22 +Right-VentralDC 1953.77 +Right-vessel 3731.51 +Right-choroid-plexus 3206.37 +5th-Ventricle 5275.53 +WM-hypointensities 3605.82 +Left-WM-hypointensities 5076.14 +Right-WM-hypointensities 6209.70 +non-WM-hypointensities 5723.21 +Left-non-WM-hypointensities 7220.38 +Right-non-WM-hypointensities 9426.82 +Optic-Chiasm 2116.87 +CC_Posterior 8575.28 +CC_Mid_Posterior 2865.73 +CC_Central 10137.51 +CC_Mid_Anterior 4741.89 +CC_Anterior 5840.41 +BrainSegVol 1092610.37 +BrainSegVolNotVent 1053337.30 +BrainSegVolNotVentSurf 1061340.50 +lhCortexVol 197770.22 +rhCortexVol 200301.30 +CortexVol 406285.05 +lhCorticalWhiteMatterVol 226708.80 +rhCorticalWhiteMatterVol 222672.86 +CorticalWhiteMatterVol 458478.75 +SubCortGrayVol 46268.37 +TotalGrayVol 550126.34 +SupraTentorialVol 957564.97 +SupraTentorialVolNotVent 924141.32 +SupraTentorialVolNotVentVox 924467.74 +MaskVol 1622866.96 +BrainSegVol-to-eTIV 9800.69 +MaskVol-to-eTIV 7122.73 +lhSurfaceHoles 9199.11 +rhSurfaceHoles 8898.17 +SurfaceHoles 5807.33 +EstimatedTotalIntraCranialVol 1596868.38 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject41_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject41_aseg_stats.txt new file mode 100755 index 000000000..0fd1fc2c6 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject41_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject41 +Left-Lateral-Ventricle 6171.98 +Left-Inf-Lat-Vent 15125.43 +Left-Cerebellum-White-Matter 4466.62 +Left-Cerebellum-Cortex 34439.49 +Left-Thalamus-Proper 3635.31 +Left-Caudate 16266.76 +Left-Putamen 7771.73 +Left-Pallidum 18146.05 +3rd-Ventricle 7245.99 +4th-Ventricle 11085.35 +Brain-Stem 444.03 +Left-Hippocampus 5936.12 +Left-Amygdala 18053.72 +CSF 5508.74 +Left-Accumbens-area 5759.99 +Left-VentralDC 2285.63 +Left-vessel 9824.10 +Left-choroid-plexus 14053.73 +Right-Lateral-Ventricle 4808.59 +Right-Inf-Lat-Vent 15886.76 +Right-Cerebellum-White-Matter 5746.60 +Right-Cerebellum-Cortex 39857.91 +Right-Thalamus-Proper 4288.97 +Right-Caudate 14655.95 +Right-Putamen 3064.24 +Right-Pallidum 10129.39 +Right-Hippocampus 4974.10 +Right-Amygdala 9855.31 +Right-Accumbens-area 8497.20 +Right-VentralDC 7883.29 +Right-vessel 8860.90 +Right-choroid-plexus 8357.10 +5th-Ventricle 10485.94 +WM-hypointensities 9269.09 +Left-WM-hypointensities 10250.19 +Right-WM-hypointensities 12020.31 +non-WM-hypointensities 11358.92 +Left-non-WM-hypointensities 13267.27 +Right-non-WM-hypointensities 16561.06 +Optic-Chiasm 6467.22 +CC_Posterior 15866.08 +CC_Mid_Posterior 7687.07 +CC_Central 17810.48 +CC_Mid_Anterior 10091.60 +CC_Anterior 12093.83 +BrainSegVol 1085376.43 +BrainSegVolNotVent 1045586.69 +BrainSegVolNotVentSurf 1056900.49 +lhCortexVol 191995.14 +rhCortexVol 195375.43 +CortexVol 402096.04 +lhCorticalWhiteMatterVol 220561.39 +rhCorticalWhiteMatterVol 215178.81 +CorticalWhiteMatterVol 451841.05 +SubCortGrayVol 39254.43 +TotalGrayVol 543160.46 +SupraTentorialVol 951530.66 +SupraTentorialVolNotVent 917942.66 +SupraTentorialVolNotVentVox 918824.48 +MaskVol 1616750.99 +BrainSegVol-to-eTIV 16767.58 +MaskVol-to-eTIV 13581.14 +lhSurfaceHoles 16439.56 +rhSurfaceHoles 15992.81 +SurfaceHoles 11688.67 +EstimatedTotalIntraCranialVol 1591364.74 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject42_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject42_aseg_stats.txt new file mode 100755 index 000000000..f07e2482d --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject42_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject42 +Left-Lateral-Ventricle 10487.13 +Left-Inf-Lat-Vent 8184.51 +Left-Cerebellum-White-Matter 11382.81 +Left-Cerebellum-Cortex 40448.69 +Left-Thalamus-Proper 1877.20 +Left-Caudate 7368.99 +Left-Putamen 1248.51 +Left-Pallidum 8875.59 +3rd-Ventricle 2394.79 +4th-Ventricle 5052.88 +Brain-Stem 9853.33 +Left-Hippocampus 775.85 +Left-Amygdala 8916.51 +CSF 2186.34 +Left-Accumbens-area 2662.27 +Left-VentralDC 973.41 +Left-vessel 4792.89 +Left-choroid-plexus 6577.81 +Right-Lateral-Ventricle 4750.01 +Right-Inf-Lat-Vent 7814.28 +Right-Cerebellum-White-Matter 12929.21 +Right-Cerebellum-Cortex 44178.04 +Right-Thalamus-Proper 1587.04 +Right-Caudate 5981.67 +Right-Putamen 933.52 +Right-Pallidum 4549.60 +Right-Hippocampus 24.39 +Right-Amygdala 3981.04 +Right-Accumbens-area 3574.82 +Right-VentralDC 2117.03 +Right-vessel 3960.75 +Right-choroid-plexus 3524.84 +5th-Ventricle 5088.90 +WM-hypointensities 3534.53 +Left-WM-hypointensities 5240.41 +Right-WM-hypointensities 6149.16 +non-WM-hypointensities 5790.95 +Left-non-WM-hypointensities 7028.86 +Right-non-WM-hypointensities 8933.18 +Optic-Chiasm 2791.30 +CC_Posterior 7368.83 +CC_Mid_Posterior 3169.94 +CC_Central 9268.58 +CC_Mid_Anterior 4908.11 +CC_Anterior 6056.61 +BrainSegVol 1093626.97 +BrainSegVolNotVent 1054870.84 +BrainSegVolNotVentSurf 1060921.64 +lhCortexVol 197941.56 +rhCortexVol 200287.08 +CortexVol 405078.98 +lhCorticalWhiteMatterVol 227131.13 +rhCorticalWhiteMatterVol 223608.59 +CorticalWhiteMatterVol 458950.57 +SubCortGrayVol 46829.97 +TotalGrayVol 550649.98 +SupraTentorialVol 957403.53 +SupraTentorialVolNotVent 924762.83 +SupraTentorialVolNotVentVox 924304.16 +MaskVol 1623609.19 +BrainSegVol-to-eTIV 8541.17 +MaskVol-to-eTIV 7250.20 +lhSurfaceHoles 8558.09 +rhSurfaceHoles 7856.71 +SurfaceHoles 5554.54 +EstimatedTotalIntraCranialVol 1596669.62 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject43_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject43_aseg_stats.txt new file mode 100755 index 000000000..9dbf4ecb9 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject43_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject43 +Left-Lateral-Ventricle 10925.71 +Left-Inf-Lat-Vent 5551.38 +Left-Cerebellum-White-Matter 13597.55 +Left-Cerebellum-Cortex 42647.57 +Left-Thalamus-Proper 3325.71 +Left-Caudate 4490.65 +Left-Putamen 158.73 +Left-Pallidum 6373.56 +3rd-Ventricle 1899.72 +4th-Ventricle 3214.20 +Brain-Stem 12150.56 +Left-Hippocampus 422.56 +Left-Amygdala 6181.18 +CSF 1122.19 +Left-Accumbens-area 1931.09 +Left-VentralDC 1651.82 +Left-vessel 3744.04 +Left-choroid-plexus 4643.01 +Right-Lateral-Ventricle 6929.58 +Right-Inf-Lat-Vent 6021.81 +Right-Cerebellum-White-Matter 14186.56 +Right-Cerebellum-Cortex 45174.04 +Right-Thalamus-Proper 2457.95 +Right-Caudate 3992.34 +Right-Putamen 1519.40 +Right-Pallidum 3073.68 +Right-Hippocampus 534.46 +Right-Amygdala 2983.31 +Right-Accumbens-area 3123.59 +Right-VentralDC 727.76 +Right-vessel 3482.98 +Right-choroid-plexus 2302.89 +5th-Ventricle 4159.14 +WM-hypointensities 2755.07 +Left-WM-hypointensities 3959.81 +Right-WM-hypointensities 4677.71 +non-WM-hypointensities 4396.07 +Left-non-WM-hypointensities 5126.45 +Right-non-WM-hypointensities 6398.88 +Optic-Chiasm 2385.84 +CC_Posterior 5659.68 +CC_Mid_Posterior 2838.75 +CC_Central 6709.17 +CC_Mid_Anterior 3617.04 +CC_Anterior 4023.50 +BrainSegVol 1095113.98 +BrainSegVolNotVent 1057003.29 +BrainSegVolNotVentSurf 1061097.76 +lhCortexVol 198763.95 +rhCortexVol 201164.60 +CortexVol 405988.36 +lhCorticalWhiteMatterVol 228521.43 +rhCorticalWhiteMatterVol 226341.19 +CorticalWhiteMatterVol 461245.01 +SubCortGrayVol 48529.98 +TotalGrayVol 552452.41 +SupraTentorialVol 959041.03 +SupraTentorialVolNotVent 925982.86 +SupraTentorialVolNotVentVox 926077.72 +MaskVol 1624917.07 +BrainSegVol-to-eTIV 6694.76 +MaskVol-to-eTIV 5190.16 +lhSurfaceHoles 6411.28 +rhSurfaceHoles 6403.02 +SurfaceHoles 4614.35 +EstimatedTotalIntraCranialVol 1597835.58 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject44_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject44_aseg_stats.txt new file mode 100755 index 000000000..e25db5de7 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject44_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject44 +Left-Lateral-Ventricle 7312.14 +Left-Inf-Lat-Vent 10558.20 +Left-Cerebellum-White-Matter 8430.68 +Left-Cerebellum-Cortex 38032.92 +Left-Thalamus-Proper 1198.05 +Left-Caudate 10420.96 +Left-Putamen 4836.67 +Left-Pallidum 12192.39 +3rd-Ventricle 5697.77 +4th-Ventricle 7839.84 +Brain-Stem 6164.25 +Left-Hippocampus 3579.63 +Left-Amygdala 11987.25 +CSF 4582.29 +Left-Accumbens-area 5118.09 +Left-VentralDC 1621.49 +Left-vessel 7971.14 +Left-choroid-plexus 9702.65 +Right-Lateral-Ventricle 1144.24 +Right-Inf-Lat-Vent 11496.51 +Right-Cerebellum-White-Matter 9316.18 +Right-Cerebellum-Cortex 41420.12 +Right-Thalamus-Proper 1764.88 +Right-Caudate 9369.36 +Right-Putamen 2043.49 +Right-Pallidum 7477.64 +Right-Hippocampus 3213.43 +Right-Amygdala 7371.14 +Right-Accumbens-area 6972.86 +Right-VentralDC 5240.18 +Right-vessel 7441.95 +Right-choroid-plexus 6233.67 +5th-Ventricle 8121.64 +WM-hypointensities 7086.73 +Left-WM-hypointensities 7894.13 +Right-WM-hypointensities 9077.05 +non-WM-hypointensities 8673.84 +Left-non-WM-hypointensities 9670.56 +Right-non-WM-hypointensities 11722.04 +Optic-Chiasm 5776.30 +CC_Posterior 11111.86 +CC_Mid_Posterior 6574.07 +CC_Central 12422.56 +CC_Mid_Anterior 7686.93 +CC_Anterior 8746.62 +BrainSegVol 1089677.74 +BrainSegVolNotVent 1051245.95 +BrainSegVolNotVentSurf 1057639.60 +lhCortexVol 194355.38 +rhCortexVol 197405.37 +CortexVol 402721.07 +lhCorticalWhiteMatterVol 223880.19 +rhCorticalWhiteMatterVol 220782.87 +CorticalWhiteMatterVol 456288.88 +SubCortGrayVol 43247.74 +TotalGrayVol 547211.82 +SupraTentorialVol 954464.47 +SupraTentorialVolNotVent 921303.87 +SupraTentorialVolNotVentVox 921813.43 +MaskVol 1620316.42 +BrainSegVol-to-eTIV 11882.88 +MaskVol-to-eTIV 10064.26 +lhSurfaceHoles 11833.16 +rhSurfaceHoles 11731.87 +SurfaceHoles 9091.67 +EstimatedTotalIntraCranialVol 1593635.61 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject45_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject45_aseg_stats.txt new file mode 100755 index 000000000..9dd97ea27 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject45_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject45 +Left-Lateral-Ventricle 9142.70 +Left-Inf-Lat-Vent 8286.87 +Left-Cerebellum-White-Matter 10841.07 +Left-Cerebellum-Cortex 40180.99 +Left-Thalamus-Proper 1004.00 +Left-Caudate 7769.39 +Left-Putamen 2596.36 +Left-Pallidum 9609.99 +3rd-Ventricle 3804.79 +4th-Ventricle 5655.03 +Brain-Stem 8856.90 +Left-Hippocampus 1649.23 +Left-Amygdala 9421.67 +CSF 2814.81 +Left-Accumbens-area 3471.36 +Left-VentralDC 69.41 +Left-vessel 5875.84 +Left-choroid-plexus 7383.91 +Right-Lateral-Ventricle 3708.82 +Right-Inf-Lat-Vent 8959.37 +Right-Cerebellum-White-Matter 11603.07 +Right-Cerebellum-Cortex 43288.26 +Right-Thalamus-Proper 268.60 +Right-Caudate 6963.95 +Right-Putamen 229.43 +Right-Pallidum 5358.66 +Right-Hippocampus 1366.11 +Right-Amygdala 5245.91 +Right-Accumbens-area 5050.38 +Right-VentralDC 3062.45 +Right-vessel 5451.48 +Right-choroid-plexus 4320.77 +5th-Ventricle 6213.15 +WM-hypointensities 4964.75 +Left-WM-hypointensities 5999.97 +Right-WM-hypointensities 6986.40 +non-WM-hypointensities 6625.27 +Left-non-WM-hypointensities 7560.49 +Right-non-WM-hypointensities 9305.72 +Optic-Chiasm 4025.16 +CC_Posterior 8619.05 +CC_Mid_Posterior 4676.01 +CC_Central 9846.33 +CC_Mid_Anterior 5724.61 +CC_Anterior 6518.72 +BrainSegVol 1092202.21 +BrainSegVolNotVent 1053821.60 +BrainSegVolNotVentSurf 1059422.66 +lhCortexVol 196502.68 +rhCortexVol 199234.86 +CortexVol 404412.22 +lhCorticalWhiteMatterVol 226066.84 +rhCorticalWhiteMatterVol 223257.03 +CorticalWhiteMatterVol 458543.70 +SubCortGrayVol 45717.21 +TotalGrayVol 549653.87 +SupraTentorialVol 956650.70 +SupraTentorialVolNotVent 923506.94 +SupraTentorialVolNotVentVox 923827.84 +MaskVol 1622459.49 +BrainSegVol-to-eTIV 9542.80 +MaskVol-to-eTIV 7770.70 +lhSurfaceHoles 9343.43 +rhSurfaceHoles 9261.22 +SurfaceHoles 6928.61 +EstimatedTotalIntraCranialVol 1595679.33 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject46_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject46_aseg_stats.txt new file mode 100755 index 000000000..cd7410eac --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject46_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject46 +Left-Lateral-Ventricle 5905.58 +Left-Inf-Lat-Vent 14603.71 +Left-Cerebellum-White-Matter 4781.62 +Left-Cerebellum-Cortex 34736.65 +Left-Thalamus-Proper 3667.66 +Left-Caudate 15518.74 +Left-Putamen 7681.51 +Left-Pallidum 17347.17 +3rd-Ventricle 7421.66 +4th-Ventricle 10893.78 +Brain-Stem 1145.19 +Left-Hippocampus 5905.03 +Left-Amygdala 17219.06 +CSF 5813.10 +Left-Accumbens-area 6103.38 +Left-VentralDC 2636.87 +Left-vessel 9980.90 +Left-choroid-plexus 13605.32 +Right-Lateral-Ventricle 4004.33 +Right-Inf-Lat-Vent 15496.32 +Right-Cerebellum-White-Matter 5993.73 +Right-Cerebellum-Cortex 39693.81 +Right-Thalamus-Proper 4244.93 +Right-Caudate 13981.84 +Right-Putamen 3357.74 +Right-Pallidum 10077.67 +Right-Hippocampus 5078.00 +Right-Amygdala 9850.86 +Right-Accumbens-area 8688.59 +Right-VentralDC 7852.36 +Right-vessel 9102.13 +Right-choroid-plexus 8383.52 +5th-Ventricle 10445.86 +WM-hypointensities 9345.21 +Left-WM-hypointensities 10207.84 +Right-WM-hypointensities 11880.90 +non-WM-hypointensities 11276.09 +Left-non-WM-hypointensities 12957.30 +Right-non-WM-hypointensities 16011.38 +Optic-Chiasm 6830.14 +CC_Posterior 15363.33 +CC_Mid_Posterior 7982.00 +CC_Central 17162.60 +CC_Mid_Anterior 10057.50 +CC_Anterior 11888.30 +BrainSegVol 1085746.80 +BrainSegVolNotVent 1046308.10 +BrainSegVolNotVentSurf 1056540.59 +lhCortexVol 191959.15 +rhCortexVol 195349.92 +CortexVol 401734.15 +lhCorticalWhiteMatterVol 220772.19 +rhCorticalWhiteMatterVol 215917.16 +CorticalWhiteMatterVol 452335.67 +SubCortGrayVol 39558.80 +TotalGrayVol 543489.13 +SupraTentorialVol 951637.51 +SupraTentorialVolNotVent 918159.78 +SupraTentorialVolNotVentVox 919000.18 +MaskVol 1617042.15 +BrainSegVol-to-eTIV 16181.62 +MaskVol-to-eTIV 13350.35 +lhSurfaceHoles 15975.81 +rhSurfaceHoles 15616.45 +SurfaceHoles 11665.60 +EstimatedTotalIntraCranialVol 1591337.11 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject47_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject47_aseg_stats.txt new file mode 100755 index 000000000..4d37682cd --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject47_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject47 +Left-Lateral-Ventricle 4672.02 +Left-Inf-Lat-Vent 13260.98 +Left-Cerebellum-White-Matter 5396.59 +Left-Cerebellum-Cortex 35155.18 +Left-Thalamus-Proper 4395.01 +Left-Caudate 12946.61 +Left-Putamen 7320.66 +Left-Pallidum 14131.10 +3rd-Ventricle 8157.72 +4th-Ventricle 10714.69 +Brain-Stem 4042.67 +Left-Hippocampus 6125.12 +Left-Amygdala 14034.91 +CSF 7919.40 +Left-Accumbens-area 8153.78 +Left-VentralDC 4661.97 +Left-vessel 11077.28 +Left-choroid-plexus 11971.57 +Right-Lateral-Ventricle 441.88 +Right-Inf-Lat-Vent 13967.55 +Right-Cerebellum-White-Matter 7119.86 +Right-Cerebellum-Cortex 38513.98 +Right-Thalamus-Proper 4019.53 +Right-Caudate 11052.70 +Right-Putamen 4903.22 +Right-Pallidum 10377.28 +Right-Hippocampus 5430.06 +Right-Amygdala 9944.89 +Right-Accumbens-area 9460.12 +Right-VentralDC 8162.00 +Right-vessel 10162.28 +Right-choroid-plexus 8969.23 +5th-Ventricle 10353.98 +WM-hypointensities 9691.44 +Left-WM-hypointensities 10459.50 +Right-WM-hypointensities 11677.11 +non-WM-hypointensities 11342.57 +Left-non-WM-hypointensities 12183.39 +Right-non-WM-hypointensities 14347.13 +Optic-Chiasm 8625.35 +CC_Posterior 13115.63 +CC_Mid_Posterior 9246.41 +CC_Central 14885.70 +CC_Mid_Anterior 10339.56 +CC_Anterior 11804.48 +BrainSegVol 1087458.95 +BrainSegVolNotVent 1049439.89 +BrainSegVolNotVentSurf 1055005.41 +lhCortexVol 191814.15 +rhCortexVol 195079.49 +CortexVol 399416.17 +lhCorticalWhiteMatterVol 221512.44 +rhCorticalWhiteMatterVol 218505.50 +CorticalWhiteMatterVol 453852.48 +SubCortGrayVol 40650.95 +TotalGrayVol 544609.02 +SupraTentorialVol 951525.18 +SupraTentorialVolNotVent 919113.83 +SupraTentorialVolNotVentVox 919081.63 +MaskVol 1618314.68 +BrainSegVol-to-eTIV 13649.70 +MaskVol-to-eTIV 13119.30 +lhSurfaceHoles 14394.07 +rhSurfaceHoles 13858.37 +SurfaceHoles 11578.01 +EstimatedTotalIntraCranialVol 1590854.39 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject48_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject48_aseg_stats.txt new file mode 100755 index 000000000..04611334a --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject48_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject48 +Left-Lateral-Ventricle 11058.79 +Left-Inf-Lat-Vent 5558.98 +Left-Cerebellum-White-Matter 13637.85 +Left-Cerebellum-Cortex 42680.15 +Left-Thalamus-Proper 3427.41 +Left-Caudate 4527.69 +Left-Putamen 80.22 +Left-Pallidum 6423.89 +3rd-Ventricle 1782.32 +4th-Ventricle 3158.62 +Brain-Stem 12124.80 +Left-Hippocampus 499.67 +Left-Amygdala 6239.49 +CSF 984.13 +Left-Accumbens-area 1790.34 +Left-VentralDC 1796.07 +Left-vessel 3621.72 +Left-choroid-plexus 4633.70 +Right-Lateral-Ventricle 6877.38 +Right-Inf-Lat-Vent 5991.32 +Right-Cerebellum-White-Matter 14235.28 +Right-Cerebellum-Cortex 45288.01 +Right-Thalamus-Proper 2536.89 +Right-Caudate 4025.03 +Right-Putamen 1657.26 +Right-Pallidum 2992.61 +Right-Hippocampus 635.34 +Right-Amygdala 2892.39 +Right-Accumbens-area 3001.74 +Right-VentralDC 639.94 +Right-vessel 3348.09 +Right-choroid-plexus 2214.88 +5th-Ventricle 4084.80 +WM-hypointensities 2647.96 +Left-WM-hypointensities 3886.55 +Right-WM-hypointensities 4615.63 +non-WM-hypointensities 4324.34 +Left-non-WM-hypointensities 5098.10 +Right-non-WM-hypointensities 6405.88 +Optic-Chiasm 2236.63 +CC_Posterior 5653.86 +CC_Mid_Posterior 2696.96 +CC_Central 6729.16 +CC_Mid_Anterior 3539.16 +CC_Anterior 3968.89 +BrainSegVol 1095147.99 +BrainSegVolNotVent 1056968.37 +BrainSegVolNotVentSurf 1061247.74 +lhCortexVol 198864.02 +rhCortexVol 201248.82 +CortexVol 406134.78 +lhCorticalWhiteMatterVol 228573.18 +rhCorticalWhiteMatterVol 226298.45 +CorticalWhiteMatterVol 461242.19 +SubCortGrayVol 48574.99 +TotalGrayVol 552491.31 +SupraTentorialVol 959113.84 +SupraTentorialVolNotVent 926034.05 +SupraTentorialVolNotVentVox 926129.15 +MaskVol 1624950.65 +BrainSegVol-to-eTIV 6712.41 +MaskVol-to-eTIV 5137.83 +lhSurfaceHoles 6397.69 +rhSurfaceHoles 6372.55 +SurfaceHoles 4525.56 +EstimatedTotalIntraCranialVol 1597929.49 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject49_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject49_aseg_stats.txt new file mode 100755 index 000000000..14d18bc19 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject49_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject49 +Left-Lateral-Ventricle 12710.67 +Left-Inf-Lat-Vent 4460.98 +Left-Cerebellum-White-Matter 15069.56 +Left-Cerebellum-Cortex 43937.71 +Left-Thalamus-Proper 5092.83 +Left-Caudate 3401.02 +Left-Putamen 1476.64 +Left-Pallidum 5405.20 +3rd-Ventricle 185.56 +4th-Ventricle 1755.98 +Brain-Stem 13334.16 +Left-Hippocampus 1893.26 +Left-Amygdala 5273.20 +CSF 663.47 +Left-Accumbens-area 188.50 +Left-VentralDC 3439.35 +Left-vessel 1896.33 +Left-choroid-plexus 3418.76 +Right-Lateral-Ventricle 7876.89 +Right-Inf-Lat-Vent 4550.05 +Right-Cerebellum-White-Matter 15651.41 +Right-Cerebellum-Cortex 46853.48 +Right-Thalamus-Proper 3992.28 +Right-Caudate 2997.97 +Right-Putamen 3327.20 +Right-Pallidum 1482.52 +Right-Hippocampus 2118.18 +Right-Amygdala 1324.90 +Right-Accumbens-area 1365.60 +Right-VentralDC 936.81 +Right-vessel 1605.99 +Right-choroid-plexus 770.03 +5th-Ventricle 2717.47 +WM-hypointensities 992.92 +Left-WM-hypointensities 2532.36 +Right-WM-hypointensities 3224.43 +non-WM-hypointensities 2901.10 +Left-non-WM-hypointensities 3882.97 +Right-non-WM-hypointensities 5231.82 +Optic-Chiasm 535.74 +CC_Posterior 4370.80 +CC_Mid_Posterior 963.29 +CC_Central 5546.42 +CC_Mid_Anterior 2125.32 +CC_Anterior 2549.98 +BrainSegVol 1096602.30 +BrainSegVolNotVent 1058068.57 +BrainSegVolNotVentSurf 1062968.89 +lhCortexVol 200492.99 +rhCortexVol 202630.94 +CortexVol 407790.14 +lhCorticalWhiteMatterVol 229955.70 +rhCorticalWhiteMatterVol 227304.64 +CorticalWhiteMatterVol 462358.25 +SubCortGrayVol 50062.30 +TotalGrayVol 553931.20 +SupraTentorialVol 960612.11 +SupraTentorialVolNotVent 927421.66 +SupraTentorialVolNotVentVox 927423.42 +MaskVol 1626211.21 +BrainSegVol-to-eTIV 5635.28 +MaskVol-to-eTIV 3698.53 +lhSurfaceHoles 5073.37 +rhSurfaceHoles 4964.75 +SurfaceHoles 2950.89 +EstimatedTotalIntraCranialVol 1599472.49 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject4_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject4_aseg_stats.txt new file mode 100755 index 000000000..675962f62 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject4_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject4 +Left-Lateral-Ventricle 11251.72 +Left-Inf-Lat-Vent 7753.75 +Left-Cerebellum-White-Matter 11984.98 +Left-Cerebellum-Cortex 40975.35 +Left-Thalamus-Proper 2621.87 +Left-Caudate 6950.56 +Left-Putamen 565.73 +Left-Pallidum 8510.84 +3rd-Ventricle 1664.79 +4th-Ventricle 4449.97 +Brain-Stem 10313.76 +Left-Hippocampus 159.17 +Left-Amygdala 8579.05 +CSF 1419.44 +Left-Accumbens-area 1911.42 +Left-VentralDC 1743.57 +Left-vessel 4007.74 +Left-choroid-plexus 6086.88 +Right-Lateral-Ventricle 5105.63 +Right-Inf-Lat-Vent 7216.22 +Right-Cerebellum-White-Matter 13531.97 +Right-Cerebellum-Cortex 44892.84 +Right-Thalamus-Proper 2229.78 +Right-Caudate 5599.36 +Right-Putamen 1709.14 +Right-Pallidum 3883.37 +Right-Hippocampus 695.75 +Right-Amygdala 3284.03 +Right-Accumbens-area 2825.56 +Right-VentralDC 1418.84 +Right-vessel 3158.81 +Right-choroid-plexus 2878.98 +5th-Ventricle 4484.90 +WM-hypointensities 2789.63 +Left-WM-hypointensities 4642.52 +Right-WM-hypointensities 5545.56 +non-WM-hypointensities 5166.81 +Left-non-WM-hypointensities 6522.51 +Right-non-WM-hypointensities 8471.67 +Optic-Chiasm 1994.21 +CC_Posterior 6853.61 +CC_Mid_Posterior 2365.80 +CC_Central 8814.10 +CC_Mid_Anterior 4282.75 +CC_Anterior 5448.00 +BrainSegVol 1094233.06 +BrainSegVolNotVent 1055280.44 +BrainSegVolNotVentSurf 1061727.41 +lhCortexVol 198670.41 +rhCortexVol 200904.92 +CortexVol 405855.70 +lhCorticalWhiteMatterVol 227722.96 +rhCorticalWhiteMatterVol 223974.48 +CorticalWhiteMatterVol 459392.37 +SubCortGrayVol 47458.06 +TotalGrayVol 551254.28 +SupraTentorialVol 958058.39 +SupraTentorialVolNotVent 925356.22 +SupraTentorialVolNotVentVox 924860.61 +MaskVol 1624137.85 +BrainSegVol-to-eTIV 8126.82 +MaskVol-to-eTIV 6635.31 +lhSurfaceHoles 8020.19 +rhSurfaceHoles 7271.99 +SurfaceHoles 4856.40 +EstimatedTotalIntraCranialVol 1597359.30 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject5_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject5_aseg_stats.txt new file mode 100755 index 000000000..337835db8 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject5_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject5 +Left-Lateral-Ventricle 3853.16 +Left-Inf-Lat-Vent 15767.20 +Left-Cerebellum-White-Matter 3154.23 +Left-Cerebellum-Cortex 33128.12 +Left-Thalamus-Proper 5883.80 +Left-Caudate 16115.34 +Left-Putamen 9050.62 +Left-Pallidum 17340.24 +3rd-Ventricle 9179.01 +4th-Ventricle 12582.90 +Brain-Stem 927.01 +Left-Hippocampus 7534.19 +Left-Amygdala 17294.81 +CSF 8627.59 +Left-Accumbens-area 8709.01 +Left-VentralDC 5234.46 +Left-vessel 12273.56 +Left-choroid-plexus 14382.86 +Right-Lateral-Ventricle 3647.90 +Right-Inf-Lat-Vent 16430.75 +Right-Cerebellum-White-Matter 5082.85 +Right-Cerebellum-Cortex 37489.88 +Right-Thalamus-Proper 5523.59 +Right-Caudate 13919.45 +Right-Putamen 5663.11 +Right-Pallidum 11954.76 +Right-Hippocampus 6544.79 +Right-Amygdala 11444.12 +Right-Accumbens-area 10474.63 +Right-VentralDC 9744.39 +Right-vessel 11137.37 +Right-choroid-plexus 10265.47 +5th-Ventricle 11763.40 +WM-hypointensities 11047.50 +Left-WM-hypointensities 11862.84 +Right-WM-hypointensities 13388.05 +non-WM-hypointensities 12925.05 +Left-non-WM-hypointensities 14206.18 +Right-non-WM-hypointensities 17003.98 +Optic-Chiasm 9219.72 +CC_Posterior 15744.10 +CC_Mid_Posterior 10062.75 +CC_Central 17826.47 +CC_Mid_Anterior 11776.29 +CC_Anterior 13727.35 +BrainSegVol 1085039.73 +BrainSegVolNotVent 1046370.95 +BrainSegVolNotVentSurf 1054383.39 +lhCortexVol 190370.14 +rhCortexVol 193840.20 +CortexVol 398862.13 +lhCorticalWhiteMatterVol 219609.30 +rhCorticalWhiteMatterVol 215478.16 +CorticalWhiteMatterVol 451405.23 +SubCortGrayVol 38385.73 +TotalGrayVol 542320.55 +SupraTentorialVol 949804.08 +SupraTentorialVolNotVent 917188.13 +SupraTentorialVolNotVentVox 917360.75 +MaskVol 1616301.62 +BrainSegVol-to-eTIV 16316.49 +MaskVol-to-eTIV 15132.42 +lhSurfaceHoles 16952.19 +rhSurfaceHoles 16250.28 +SurfaceHoles 13136.35 +EstimatedTotalIntraCranialVol 1589468.45 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject6_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject6_aseg_stats.txt new file mode 100755 index 000000000..7e98de640 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject6_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject6 +Left-Lateral-Ventricle 8141.28 +Left-Inf-Lat-Vent 10283.49 +Left-Cerebellum-White-Matter 8928.02 +Left-Cerebellum-Cortex 38276.70 +Left-Thalamus-Proper 670.32 +Left-Caudate 9687.03 +Left-Putamen 3723.01 +Left-Pallidum 11066.13 +3rd-Ventricle 4725.58 +4th-Ventricle 7367.44 +Brain-Stem 7443.74 +Left-Hippocampus 2952.49 +Left-Amygdala 11053.74 +CSF 4496.26 +Left-Accumbens-area 4871.36 +Left-VentralDC 1293.63 +Left-vessel 7336.93 +Left-choroid-plexus 8800.80 +Right-Lateral-Ventricle 2584.97 +Right-Inf-Lat-Vent 10342.10 +Right-Cerebellum-White-Matter 10550.91 +Right-Cerebellum-Cortex 41886.67 +Right-Thalamus-Proper 695.07 +Right-Caudate 8088.76 +Right-Putamen 1419.29 +Right-Pallidum 6922.11 +Right-Hippocampus 2185.85 +Right-Amygdala 6405.70 +Right-Accumbens-area 5954.28 +Right-VentralDC 4576.47 +Right-vessel 6465.39 +Right-choroid-plexus 5736.25 +5th-Ventricle 7231.92 +WM-hypointensities 6032.21 +Left-WM-hypointensities 7364.89 +Right-WM-hypointensities 8405.77 +non-WM-hypointensities 8053.35 +Left-non-WM-hypointensities 9145.22 +Right-non-WM-hypointensities 11171.24 +Optic-Chiasm 5138.31 +CC_Posterior 9739.02 +CC_Mid_Posterior 5620.10 +CC_Central 11595.89 +CC_Mid_Anterior 7118.35 +CC_Anterior 8407.10 +BrainSegVol 1091094.52 +BrainSegVolNotVent 1052614.23 +BrainSegVolNotVentSurf 1058541.02 +lhCortexVol 195453.15 +rhCortexVol 198171.87 +CortexVol 402801.51 +lhCorticalWhiteMatterVol 224832.80 +rhCorticalWhiteMatterVol 221484.11 +CorticalWhiteMatterVol 456844.63 +SubCortGrayVol 44297.52 +TotalGrayVol 548172.01 +SupraTentorialVol 955006.69 +SupraTentorialVolNotVent 922451.75 +SupraTentorialVolNotVentVox 922169.25 +MaskVol 1621437.20 +BrainSegVol-to-eTIV 10657.54 +MaskVol-to-eTIV 9651.68 +lhSurfaceHoles 10961.89 +rhSurfaceHoles 10321.94 +SurfaceHoles 8004.70 +EstimatedTotalIntraCranialVol 1594307.55 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject7_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject7_aseg_stats.txt new file mode 100755 index 000000000..cf77b7b79 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject7_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject7 +Left-Lateral-Ventricle 13646.69 +Left-Inf-Lat-Vent 2483.33 +Left-Cerebellum-White-Matter 16939.71 +Left-Cerebellum-Cortex 45620.07 +Left-Thalamus-Proper 6494.73 +Left-Caudate 959.22 +Left-Putamen 3020.83 +Left-Pallidum 2959.69 +3rd-Ventricle 877.97 +4th-Ventricle 150.84 +Brain-Stem 15757.83 +Left-Hippocampus 3179.16 +Left-Amygdala 2804.37 +CSF 1522.08 +Left-Accumbens-area 554.16 +Left-VentralDC 4203.23 +Left-vessel 683.08 +Left-choroid-plexus 1480.48 +Right-Lateral-Ventricle 10315.94 +Right-Inf-Lat-Vent 2525.18 +Right-Cerebellum-White-Matter 17376.20 +Right-Cerebellum-Cortex 47911.93 +Right-Thalamus-Proper 5357.66 +Right-Caudate 787.13 +Right-Putamen 4226.52 +Right-Pallidum 54.16 +Right-Hippocampus 3220.73 +Right-Amygdala 62.26 +Right-Accumbens-area 297.93 +Right-VentralDC 2383.50 +Right-vessel 541.81 +Right-choroid-plexus 449.40 +5th-Ventricle 1437.22 +WM-hypointensities 314.96 +Left-WM-hypointensities 1259.26 +Right-WM-hypointensities 1730.51 +non-WM-hypointensities 1488.75 +Left-non-WM-hypointensities 2213.06 +Right-non-WM-hypointensities 3133.05 +Optic-Chiasm 256.17 +CC_Posterior 2267.20 +CC_Mid_Posterior 10.67 +CC_Central 3249.55 +CC_Mid_Anterior 815.77 +CC_Anterior 903.42 +BrainSegVol 1098599.70 +BrainSegVolNotVent 1060435.49 +BrainSegVolNotVentSurf 1063784.44 +lhCortexVol 201855.79 +rhCortexVol 203796.97 +CortexVol 408543.98 +lhCorticalWhiteMatterVol 231580.46 +rhCorticalWhiteMatterVol 229621.74 +CorticalWhiteMatterVol 464299.20 +SubCortGrayVol 51960.70 +TotalGrayVol 555835.04 +SupraTentorialVol 962137.04 +SupraTentorialVolNotVent 929063.15 +SupraTentorialVolNotVentVox 928902.48 +MaskVol 1627884.57 +BrainSegVol-to-eTIV 3551.37 +MaskVol-to-eTIV 1985.06 +lhSurfaceHoles 3009.13 +rhSurfaceHoles 2996.64 +SurfaceHoles 1521.27 +EstimatedTotalIntraCranialVol 1600775.90 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject8_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject8_aseg_stats.txt new file mode 100755 index 000000000..d7cb4aaee --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject8_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject8 +Left-Lateral-Ventricle 5361.94 +Left-Inf-Lat-Vent 15343.50 +Left-Cerebellum-White-Matter 4014.81 +Left-Cerebellum-Cortex 34052.03 +Left-Thalamus-Proper 4343.68 +Left-Caudate 16393.02 +Left-Putamen 8378.71 +Left-Pallidum 18204.03 +3rd-Ventricle 7991.48 +4th-Ventricle 11581.64 +Brain-Stem 261.85 +Left-Hippocampus 6502.21 +Left-Amygdala 18073.47 +CSF 6334.40 +Left-Accumbens-area 6584.49 +Left-VentralDC 3130.98 +Left-vessel 10614.50 +Left-choroid-plexus 14354.11 +Right-Lateral-Ventricle 4856.11 +Right-Inf-Lat-Vent 16307.96 +Right-Cerebellum-White-Matter 5270.17 +Right-Cerebellum-Cortex 39130.76 +Right-Thalamus-Proper 4874.86 +Right-Caudate 14774.62 +Right-Putamen 3894.22 +Right-Pallidum 10734.54 +Right-Hippocampus 5639.25 +Right-Amygdala 10506.03 +Right-Accumbens-area 9266.29 +Right-VentralDC 8525.73 +Right-vessel 9696.96 +Right-choroid-plexus 8970.91 +5th-Ventricle 11036.97 +WM-hypointensities 9993.21 +Left-WM-hypointensities 10794.71 +Right-WM-hypointensities 12535.74 +non-WM-hypointensities 11913.64 +Left-non-WM-hypointensities 13631.20 +Right-non-WM-hypointensities 16797.99 +Optic-Chiasm 7341.92 +CC_Posterior 16169.92 +CC_Mid_Posterior 8544.25 +CC_Central 18006.00 +CC_Mid_Anterior 10664.75 +CC_Anterior 12590.50 +BrainSegVol 1084940.60 +BrainSegVolNotVent 1045459.26 +BrainSegVolNotVentSurf 1056018.75 +lhCortexVol 191300.27 +rhCortexVol 194788.16 +CortexVol 401240.78 +lhCorticalWhiteMatterVol 220082.30 +rhCorticalWhiteMatterVol 215098.29 +CorticalWhiteMatterVol 451603.04 +SubCortGrayVol 38774.60 +TotalGrayVol 542711.51 +SupraTentorialVol 950955.71 +SupraTentorialVolNotVent 917464.34 +SupraTentorialVolNotVentVox 918366.05 +MaskVol 1616359.53 +BrainSegVol-to-eTIV 16947.51 +MaskVol-to-eTIV 14074.72 +lhSurfaceHoles 16778.45 +rhSurfaceHoles 16406.53 +SurfaceHoles 12333.85 +EstimatedTotalIntraCranialVol 1590709.50 diff --git a/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject9_aseg_stats.txt b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject9_aseg_stats.txt new file mode 100755 index 000000000..ae5c5ea84 --- /dev/null +++ b/algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/subject9_aseg_stats.txt @@ -0,0 +1,67 @@ +Measure:volume subject9 +Left-Lateral-Ventricle 6786.11 +Left-Inf-Lat-Vent 12509.50 +Left-Cerebellum-White-Matter 6718.20 +Left-Cerebellum-Cortex 36296.88 +Left-Thalamus-Proper 2484.59 +Left-Caudate 12374.46 +Left-Putamen 5647.47 +Left-Pallidum 13728.44 +3rd-Ventricle 6190.73 +4th-Ventricle 9310.41 +Brain-Stem 4752.00 +Left-Hippocampus 4580.92 +Left-Amygdala 13724.89 +CSF 5774.60 +Left-Accumbens-area 6024.16 +Left-VentralDC 2478.21 +Left-vessel 8982.73 +Left-choroid-plexus 11019.47 +Right-Lateral-Ventricle 65.91 +Right-Inf-Lat-Vent 12705.72 +Right-Cerebellum-White-Matter 8487.38 +Right-Cerebellum-Cortex 40434.81 +Right-Thalamus-Proper 2417.68 +Right-Caudate 10523.86 +Right-Putamen 2743.40 +Right-Pallidum 8720.87 +Right-Hippocampus 3658.81 +Right-Amygdala 8179.47 +Right-Accumbens-area 7433.97 +Right-VentralDC 6410.90 +Right-vessel 7969.90 +Right-choroid-plexus 7313.36 +5th-Ventricle 8847.84 +WM-hypointensities 7751.79 +Left-WM-hypointensities 8970.32 +Right-WM-hypointensities 10236.95 +non-WM-hypointensities 9813.31 +Left-non-WM-hypointensities 11101.57 +Right-non-WM-hypointensities 13535.93 +Optic-Chiasm 6365.64 +CC_Posterior 12137.46 +CC_Mid_Posterior 7013.29 +CC_Central 14156.57 +CC_Mid_Anterior 8775.31 +CC_Anterior 10394.89 +BrainSegVol 1088754.28 +BrainSegVolNotVent 1050007.05 +BrainSegVolNotVentSurf 1057285.18 +lhCortexVol 193686.82 +rhCortexVol 196663.69 +CortexVol 401623.53 +lhCorticalWhiteMatterVol 222876.01 +rhCorticalWhiteMatterVol 218950.68 +CorticalWhiteMatterVol 454649.69 +SubCortGrayVol 42045.28 +TotalGrayVol 545927.08 +SupraTentorialVol 953116.66 +SupraTentorialVolNotVent 920477.24 +SupraTentorialVolNotVentVox 920378.42 +MaskVol 1619465.38 +BrainSegVol-to-eTIV 12981.88 +MaskVol-to-eTIV 11710.33 +lhSurfaceHoles 13332.85 +rhSurfaceHoles 12621.16 +SurfaceHoles 9821.89 +EstimatedTotalIntraCranialVol 1592622.19 diff --git a/packages/coinstac-desktop-app/app/main/services/files.js b/packages/coinstac-desktop-app/app/main/services/files.js index c949a028e..95692cc7b 100644 --- a/packages/coinstac-desktop-app/app/main/services/files.js +++ b/packages/coinstac-desktop-app/app/main/services/files.js @@ -12,9 +12,18 @@ function mockFileDialog() { const { TEST_INSTANCE } = process.env; let testFilePath; - if (['test-msr-csv', 'test-regression-csv', 'test-ssr-csv'].includes(TEST_INSTANCE)) { + if ( + [ + 'test-msr-csv', + 'test-regression-csv', + 'test-ssr-csv', + 'test-dpsvm-csv-1', + 'test-dpsvm-csv-2', + ].includes(TEST_INSTANCE) + ) { testFilePath = mockFileDialogCalled === 0 - ? process.env.DATA_FILE_PATH : process.env.COVARIATE_FILE_PATH; + ? process.env.DATA_FILE_PATH + : process.env.COVARIATE_FILE_PATH; mockFileDialogCalled += 1; } else if (TEST_INSTANCE === 'test-regression-vbm') { testFilePath = process.env.COVARIATE_FILE_PATH; @@ -49,13 +58,7 @@ module.exports = { return mockFileDialog(); } - return dialog.showOpenDialog( - mainWindow, - { - filters, - properties, - }, - ); + return dialog.showOpenDialog(mainWindow, { filters, properties }); }, /** diff --git a/packages/coinstac-desktop-app/package.json b/packages/coinstac-desktop-app/package.json index 42b16be12..91ccaa4d5 100644 --- a/packages/coinstac-desktop-app/package.json +++ b/packages/coinstac-desktop-app/package.json @@ -146,7 +146,7 @@ "test:e2e-single": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/computation-run.test.js", "test:e2e-multi": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/computation-run-2-members.test.js", "test:e2e": "npm run build:webpack && env NODE_ENV=test mocha --timeout=120000 test/e2e/*.test.js", - "test:comp": "npm run build:webpack && env NODE_ENV=test mocha --timeout=400000 test/e2e/computations/computation-ssr-csv.test.js", + "test:comp": "npm run build:webpack && env NODE_ENV=test mocha --timeout=400000 test/e2e/computations/computation-dpsvm-csv.test.js", "watch": "cross-env NODE_ENV=development webpack-dev-server --mode=development", "eslint": "eslint ./ --ext js,jsx,ts,tsx", "eslint-fix": "eslint ./ --ext js,jsx,ts,tsx --fix" diff --git a/packages/coinstac-desktop-app/test/e2e/computations/computation-dpsvm-csv.test.js b/packages/coinstac-desktop-app/test/e2e/computations/computation-dpsvm-csv.test.js new file mode 100644 index 000000000..cd5f57164 --- /dev/null +++ b/packages/coinstac-desktop-app/test/e2e/computations/computation-dpsvm-csv.test.js @@ -0,0 +1,116 @@ +const path = require('path'); +const { + setup, + beforeHandler, + afterHandler, + beforeEachHandler, + afterEachHandler, +} = require('../../lib/setup'); +const user = require('../../lib/user'); +const { USER_1, USER_2 } = require('../../lib/constants'); +const consortia = require('../../lib/consortia'); +const pipeline = require('../../lib/pipeline'); + +const DATA = { + consortium: { + name: 'e2e-consortium-2-member', + description: 'e2e-description-2-member', + }, + pipeline: { + name: 'e2e-pipeline-2-member', + description: 'e2e-pipeline-description-2-member', + }, + computation: { + name: 'Differentially Private Support Vector Machines - CSV Based (*2 Sites min. to run)', + }, +}; + +let appWindow1; +let appWindow2; + +describe('e2e run dpsvm-csv computation with 2 members', () => { + before(async () => { + [appWindow1, appWindow2] = await setup(2, { + instanceData: [ + { + appId: 'dpsvm-csv-1', + env: { + DATA_FILE_PATH: path.join( + __dirname, + '../../../../../algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/site1_Data.csv', + ), + COVARIATE_FILE_PATH: path.join( + __dirname, + '../../../../../algorithm-development/test-data/dpsvm-csv-test-data/input/local0/simulatorRun/site1_Covariate.csv', + ), + }, + }, + { + appId: 'dpsvm-csv-2', + env: { + DATA_FILE_PATH: path.join( + __dirname, + '../../../../../algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/site2_Data.csv', + ), + COVARIATE_FILE_PATH: path.join( + __dirname, + '../../../../../algorithm-development/test-data/dpsvm-csv-test-data/input/local1/simulatorRun/site2_Covariate.csv', + ), + }, + }, + ], + }); + beforeHandler(); + }); + + after(afterHandler); + + beforeEach(beforeEachHandler); + + afterEach(afterEachHandler); + + it('displays the correct title', async () => { + await appWindow1.title().should.eventually.equal('COINSTAC'); + }); + + it('authenticates demo user on first instance', async () => { + await user.logIn(USER_1, appWindow1); + }); + + it('authenticates demo user on second instance', async () => { + await user.logIn(USER_2, appWindow2); + }); + + it('creates a consortium', async () => { + await consortia.create(DATA.consortium, appWindow1); + }); + + it('creates a pipeline', async () => { + await pipeline.createDpsvmCsvPipeline(DATA, appWindow1); + }); + + it('joins a consortium', async () => { + await consortia.join(DATA, appWindow2); + }); + + it('map data to consortium on site 1', async () => { + await consortia.mapDataToConsortiumDpsvmCsv(DATA.consortium.name, appWindow1); + }); + + it('map data to consortium on site 2', async () => { + await consortia.mapDataToConsortiumDpsvmCsv(DATA.consortium.name, appWindow2); + }); + + it('runs a computation', async () => { + await consortia.runDpsvmCsvComputation(DATA, appWindow1); + }); + + it('deletes consortium', async () => { + await consortia.delete(DATA.consortium.name, appWindow1); + }); + + it('logs out', async () => { + await user.logOut(appWindow1); + await user.logOut(appWindow2); + }); +}); diff --git a/packages/coinstac-desktop-app/test/e2e/computations/computation-msr-csv.test.js b/packages/coinstac-desktop-app/test/e2e/computations/computation-msr-csv.test.js index b86133aa5..a889240e4 100644 --- a/packages/coinstac-desktop-app/test/e2e/computations/computation-msr-csv.test.js +++ b/packages/coinstac-desktop-app/test/e2e/computations/computation-msr-csv.test.js @@ -68,11 +68,11 @@ describe('e2e run msr-csv computation', () => { }); it('creates a pipeline', async () => { - await pipeline.createRegressionCSVPipeline(DATA, appWindow); + await pipeline.createRegressionCsvPipeline(DATA, appWindow); }); it('map data to consortium', async () => { - await consortium.mapDataToConsortiumRegressionCSV( + await consortium.mapDataToConsortiumRegressionCsv( DATA.consortium.name, appWindow, ); diff --git a/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-csv.test.js b/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-csv.test.js index bb7ca2b45..195ff3f09 100644 --- a/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-csv.test.js +++ b/packages/coinstac-desktop-app/test/e2e/computations/computation-regression-csv.test.js @@ -68,11 +68,11 @@ describe('e2e run regression-csv computation', () => { }); it('creates a pipeline', async () => { - await pipeline.createRegressionCSVPipeline(DATA, appWindow); + await pipeline.createRegressionCsvPipeline(DATA, appWindow); }); it('map data to consortium', async () => { - await consortium.mapDataToConsortiumRegressionCSV( + await consortium.mapDataToConsortiumRegressionCsv( DATA.consortium.name, appWindow, ); diff --git a/packages/coinstac-desktop-app/test/e2e/computations/computation-ssr-csv.test.js b/packages/coinstac-desktop-app/test/e2e/computations/computation-ssr-csv.test.js index 41743c98c..aebfc95fe 100644 --- a/packages/coinstac-desktop-app/test/e2e/computations/computation-ssr-csv.test.js +++ b/packages/coinstac-desktop-app/test/e2e/computations/computation-ssr-csv.test.js @@ -68,11 +68,11 @@ describe('e2e run ssr-csv computation', () => { }); it('creates a pipeline', async () => { - await pipeline.createRegressionCSVPipeline(DATA, appWindow); + await pipeline.createRegressionCsvPipeline(DATA, appWindow); }); it('map data to consortium', async () => { - await consortium.mapDataToConsortiumRegressionCSV( + await consortium.mapDataToConsortiumRegressionCsv( DATA.consortium.name, appWindow, ); diff --git a/packages/coinstac-desktop-app/test/lib/consortia.js b/packages/coinstac-desktop-app/test/lib/consortia.js index a1eda22b4..871d94a28 100644 --- a/packages/coinstac-desktop-app/test/lib/consortia.js +++ b/packages/coinstac-desktop-app/test/lib/consortia.js @@ -149,7 +149,27 @@ const mapDataToConsortium = async (consortiumName, app) => { }).should.eventually.not.equal(null); }; -const mapDataToConsortiumRegressionCSV = async (consortiumName, app) => { +const mapDataToConsortiumRegressionCsv = async (consortiumName, app) => { + await app.click('a:has-text("Map")', { timeout: EXIST_TIMEOUT }); + + await app.click(`a[name="${consortiumName}"]`, { timeout: EXIST_TIMEOUT }); + + await app.locator(':nth-match(:text("Select File(s)"), 1)').click(); + + await app.locator(':nth-match(:text("Select File(s)"), 2)').click(); + + await app.click('button:has-text("Save")', { timeout: EXIST_TIMEOUT }); + + await app.click('a:has-text("Consortia")', { timeout: EXIST_TIMEOUT }); + + // Assert + app.waitForSelector('button:has-text("Start Pipeline")', { + state: 'visible', + timeout: EXIST_TIMEOUT, + }).should.eventually.not.equal(null); +}; + +const mapDataToConsortiumDpsvmCsv = async (consortiumName, app) => { await app.click('a:has-text("Map")', { timeout: EXIST_TIMEOUT }); await app.click(`a[name="${consortiumName}"]`, { timeout: EXIST_TIMEOUT }); @@ -243,6 +263,28 @@ const runRegressionVBMComputation = async ( ]); }; +const runDpsvmCsvComputation = async ( + data, + app, + computationTimeout = COMPUTATION_TIMEOUT, +) => { + await runComputationBasic(data, app, computationTimeout); + + const { consortium, pipeline } = data; + + // Assert + await Promise.all([ + app.waitForSelector('h3:has-text("Differentially private SVM classifier")', { + state: 'visible', + timeout: EXIST_TIMEOUT, + }).should.eventually.not.equal(null), + app.waitForSelector(`h6:has-text("Results: ${consortium.name} | ${pipeline.name}")`, { + state: 'visible', + timeout: EXIST_TIMEOUT, + }).should.eventually.not.equal(null), + ]); +}; + const deleteConsortium = async (name, app) => { await app.click('a:has-text("Consortia")', { timeout: EXIST_TIMEOUT }); @@ -267,8 +309,10 @@ module.exports = { setPipeline, join: joinConsortium, mapData: mapDataToConsortium, - mapDataToConsortiumRegressionCSV, + mapDataToConsortiumRegressionCsv, + mapDataToConsortiumDpsvmCsv, runComputation, runRegressionVBMComputation, + runDpsvmCsvComputation, delete: deleteConsortium, }; diff --git a/packages/coinstac-desktop-app/test/lib/pipeline.js b/packages/coinstac-desktop-app/test/lib/pipeline.js index 0047c3c76..81ce9d3b6 100644 --- a/packages/coinstac-desktop-app/test/lib/pipeline.js +++ b/packages/coinstac-desktop-app/test/lib/pipeline.js @@ -64,7 +64,7 @@ const createPipeline = async (data, app) => { await savePipeline(app); }; -const createRegressionCSVPipeline = async (data, app) => { +const createRegressionCsvPipeline = async (data, app) => { await addPipelineCommonData(data, app); await app.click('button:has-text("Add Local Data")', { timeout: EXIST_TIMEOUT }); @@ -92,8 +92,23 @@ const createRegressionVBMPipeline = async (data, app) => { await savePipeline(app); }; +const createDpsvmCsvPipeline = async (data, app) => { + await addPipelineCommonData(data, app); + + await app.click('button:has-text("Add Local Data")', { timeout: EXIST_TIMEOUT }); + await app.click('button:has-text("Data Type")', { timeout: EXIST_TIMEOUT }); + await app.click('li:has-text("Data CSV File")', { timeout: EXIST_TIMEOUT }); + + await app.click('button:has-text("Add Local Covariates")', { timeout: EXIST_TIMEOUT }); + await app.click('button:has-text("Data Type")', { timeout: EXIST_TIMEOUT }); + await app.click('li:has-text("Covariate CSV File")', { timeout: EXIST_TIMEOUT }); + + await savePipeline(app); +}; + module.exports = { create: createPipeline, - createRegressionCSVPipeline, + createRegressionCsvPipeline, createRegressionVBMPipeline, + createDpsvmCsvPipeline, };