From b94a879be692cb871d1275d3da34ae1e1d4919a3 Mon Sep 17 00:00:00 2001
From: Ryan Layer <ryan.layer@gmail.com>
Date: Thu, 5 Oct 2023 16:26:59 +0000
Subject: [PATCH 01/13] add functional tests and all tests jobs to ci

---
 .github/workflows/unit_test.yml | 18 +++++++++++++++++-
 1 file changed, 17 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/unit_test.yml b/.github/workflows/unit_test.yml
index 02e22ff..c2ebb00 100644
--- a/.github/workflows/unit_test.yml
+++ b/.github/workflows/unit_test.yml
@@ -11,4 +11,20 @@ jobs:
       - uses: actions/checkout@v2
       - run: |
           cd test/unit
-          python -m unittest test_utils
\ No newline at end of file
+          python -m unittest test_utils          
+  run_func_tests:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v2
+      - run: |
+          cd test/func
+          bash test_search.sh
+  run_all_tests:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v2
+      - run: |
+          cd test/unit
+          python -m unittest test_utils
+          cd ../func
+          bash test_search.sh
\ No newline at end of file

From 2762fc52aca112789e61857b5d61a856bbc2cabf Mon Sep 17 00:00:00 2001
From: Ryan Layer <ryan.layer@gmail.com>
Date: Tue, 10 Oct 2023 16:07:16 +0000
Subject: [PATCH 02/13] add import

---
 search.py | 1 +
 1 file changed, 1 insertion(+)

diff --git a/search.py b/search.py
index ebf90d7..1c8debe 100644
--- a/search.py
+++ b/search.py
@@ -2,6 +2,7 @@
 import random
 import time
 import utils
+import numpy as np
 
 
 def get_args():

From aac350136b6988b7c69a2a11ff4f9fb3c7952ff4 Mon Sep 17 00:00:00 2001
From: Ryan Layer <ryan.layer@gmail.com>
Date: Tue, 10 Oct 2023 16:09:28 +0000
Subject: [PATCH 03/13] use pip to fix

---
 .github/workflows/unit_test.yml | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/unit_test.yml b/.github/workflows/unit_test.yml
index c2ebb00..acd85dd 100644
--- a/.github/workflows/unit_test.yml
+++ b/.github/workflows/unit_test.yml
@@ -17,6 +17,7 @@ jobs:
     steps:
       - uses: actions/checkout@v2
       - run: |
+          pip install numpy
           cd test/func
           bash test_search.sh
   run_all_tests:
@@ -27,4 +28,4 @@ jobs:
           cd test/unit
           python -m unittest test_utils
           cd ../func
-          bash test_search.sh
\ No newline at end of file
+          bash test_search.sh

From 0ec9dc5b88380d7fb75b5da88cdc2199ef7b442f Mon Sep 17 00:00:00 2001
From: Ryan Layer <ryan.layer@gmail.com>
Date: Tue, 10 Oct 2023 16:36:57 +0000
Subject: [PATCH 04/13] use conda

---
 .github/workflows/unit_test.yml | 12 ++++++++++--
 1 file changed, 10 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/unit_test.yml b/.github/workflows/unit_test.yml
index acd85dd..4ea572d 100644
--- a/.github/workflows/unit_test.yml
+++ b/.github/workflows/unit_test.yml
@@ -5,21 +5,29 @@ on:
     branches: [ main ]
 
 jobs:
+  defaults:
+    run:
+      shell: bash -el {0}
+      
   run_unit_tests:
     runs-on: ubuntu-latest
     steps:
       - uses: actions/checkout@v2
       - run: |
           cd test/unit
-          python -m unittest test_utils          
+          python -m unittest test_utils    
+          
   run_func_tests:
     runs-on: ubuntu-latest
     steps:
       - uses: actions/checkout@v2
+      - uses: conda-incubator/setup-miniconda@v2
+        with:
+          environment-file: environment.yml
       - run: |
-          pip install numpy
           cd test/func
           bash test_search.sh
+          
   run_all_tests:
     runs-on: ubuntu-latest
     steps:

From 66859aa89a871546883b45c1d9557c5e8a2eb618 Mon Sep 17 00:00:00 2001
From: Ryan Layer <ryan.layer@gmail.com>
Date: Tue, 10 Oct 2023 16:37:27 +0000
Subject: [PATCH 05/13] add env file

---
 environment.yml | 6 ++++++
 1 file changed, 6 insertions(+)
 create mode 100644 environment.yml

diff --git a/environment.yml b/environment.yml
new file mode 100644
index 0000000..1cf2cfa
--- /dev/null
+++ b/environment.yml
@@ -0,0 +1,6 @@
+name: swe4s
+channels:
+  - conda-forge
+dependencies:
+  - pycodestyle
+prefix: /home/jovyan/.conda/envs/swe4s

From 81fc930990691153b938accd05a28c974217f901 Mon Sep 17 00:00:00 2001
From: Ryan Layer <ryan.layer@gmail.com>
Date: Tue, 10 Oct 2023 16:40:15 +0000
Subject: [PATCH 06/13] bug fix

---
 .github/workflows/unit_test.yml | 8 +++++---
 1 file changed, 5 insertions(+), 3 deletions(-)

diff --git a/.github/workflows/unit_test.yml b/.github/workflows/unit_test.yml
index 4ea572d..6d0e51e 100644
--- a/.github/workflows/unit_test.yml
+++ b/.github/workflows/unit_test.yml
@@ -5,12 +5,14 @@ on:
     branches: [ main ]
 
 jobs:
-  defaults:
-    run:
-      shell: bash -el {0}
+  
       
   run_unit_tests:
     runs-on: ubuntu-latest
+    defaults:
+    run:
+      shell: bash -el {0}
+      
     steps:
       - uses: actions/checkout@v2
       - run: |

From c5bda2bda967f9b7116c46a26184a864d48a715f Mon Sep 17 00:00:00 2001
From: Ryan Layer <ryan.layer@gmail.com>
Date: Tue, 10 Oct 2023 16:42:14 +0000
Subject: [PATCH 07/13] bug fix 2

---
 .github/workflows/unit_test.yml | 8 +++-----
 1 file changed, 3 insertions(+), 5 deletions(-)

diff --git a/.github/workflows/unit_test.yml b/.github/workflows/unit_test.yml
index 6d0e51e..a1db9c8 100644
--- a/.github/workflows/unit_test.yml
+++ b/.github/workflows/unit_test.yml
@@ -4,14 +4,12 @@ on:
   pull_request:
     branches: [ main ]
 
-jobs:
-  
-      
+jobs:  
   run_unit_tests:
     runs-on: ubuntu-latest
     defaults:
-    run:
-      shell: bash -el {0}
+      run:
+        shell: bash -el {0}
       
     steps:
       - uses: actions/checkout@v2

From ff001922a239094d0b750eeadf3344f94e9fff5d Mon Sep 17 00:00:00 2001
From: Ryan Layer <ryan.layer@gmail.com>
Date: Tue, 10 Oct 2023 16:46:51 +0000
Subject: [PATCH 08/13] try mamba and numpy

---
 .github/workflows/unit_test.yml | 3 +++
 environment.yml                 | 3 +--
 2 files changed, 4 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/unit_test.yml b/.github/workflows/unit_test.yml
index a1db9c8..3a659a1 100644
--- a/.github/workflows/unit_test.yml
+++ b/.github/workflows/unit_test.yml
@@ -32,6 +32,9 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - uses: actions/checkout@v2
+      - uses: mamba-org/provision-with-micromamba@v16
+        with:
+          environment-file: environment.yml
       - run: |
           cd test/unit
           python -m unittest test_utils
diff --git a/environment.yml b/environment.yml
index 1cf2cfa..2147326 100644
--- a/environment.yml
+++ b/environment.yml
@@ -1,6 +1,5 @@
-name: swe4s
 channels:
   - conda-forge
 dependencies:
   - pycodestyle
-prefix: /home/jovyan/.conda/envs/swe4s
+  - numpy

From 42dd5a16dbc7d4149efe6e9797da0cda68f712e4 Mon Sep 17 00:00:00 2001
From: Ryan Layer <ryan.layer@gmail.com>
Date: Tue, 10 Oct 2023 16:49:40 +0000
Subject: [PATCH 09/13] bug fix 3

---
 .github/workflows/unit_test.yml | 4 +++-
 environment.yml                 | 1 +
 2 files changed, 4 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/unit_test.yml b/.github/workflows/unit_test.yml
index 3a659a1..b4b2d4b 100644
--- a/.github/workflows/unit_test.yml
+++ b/.github/workflows/unit_test.yml
@@ -24,6 +24,7 @@ jobs:
       - uses: conda-incubator/setup-miniconda@v2
         with:
           environment-file: environment.yml
+          activate-environment: swe4s
       - run: |
           cd test/func
           bash test_search.sh
@@ -32,9 +33,10 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - uses: actions/checkout@v2
-      - uses: mamba-org/provision-with-micromamba@v16
+      - uses: mamba-org/setup-micromamba@v1
         with:
           environment-file: environment.yml
+          environment-name: swe4s
       - run: |
           cd test/unit
           python -m unittest test_utils
diff --git a/environment.yml b/environment.yml
index 2147326..907695e 100644
--- a/environment.yml
+++ b/environment.yml
@@ -1,3 +1,4 @@
+name: swe4s
 channels:
   - conda-forge
 dependencies:

From 5ed78014073b7c6cd904cb1800716a642ac1f6fb Mon Sep 17 00:00:00 2001
From: Ryan Layer <ryan.layer@gmail.com>
Date: Tue, 10 Oct 2023 16:56:33 -0600
Subject: [PATCH 10/13] Update unit_test.yml

---
 .github/workflows/unit_test.yml | 1 +
 1 file changed, 1 insertion(+)

diff --git a/.github/workflows/unit_test.yml b/.github/workflows/unit_test.yml
index b4b2d4b..5830e9b 100644
--- a/.github/workflows/unit_test.yml
+++ b/.github/workflows/unit_test.yml
@@ -37,6 +37,7 @@ jobs:
         with:
           environment-file: environment.yml
           environment-name: swe4s
+      - shell: shell: bash -el {0}
       - run: |
           cd test/unit
           python -m unittest test_utils

From fa0fab8a1f7fd9669957892da5d34098ae2f38e0 Mon Sep 17 00:00:00 2001
From: Ryan Layer <ryan.layer@gmail.com>
Date: Tue, 10 Oct 2023 16:57:16 -0600
Subject: [PATCH 11/13] Update unit_test.yml

---
 .github/workflows/unit_test.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/unit_test.yml b/.github/workflows/unit_test.yml
index 5830e9b..e86d421 100644
--- a/.github/workflows/unit_test.yml
+++ b/.github/workflows/unit_test.yml
@@ -37,7 +37,7 @@ jobs:
         with:
           environment-file: environment.yml
           environment-name: swe4s
-      - shell: shell: bash -el {0}
+      - shell: bash -el {0}
       - run: |
           cd test/unit
           python -m unittest test_utils

From feb9b5879a72c80cac3e002949c7b939eb9a23c4 Mon Sep 17 00:00:00 2001
From: Ryan Layer <ryan.layer@gmail.com>
Date: Tue, 10 Oct 2023 16:58:25 -0600
Subject: [PATCH 12/13] Update unit_test.yml

---
 .github/workflows/unit_test.yml | 4 +++-
 1 file changed, 3 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/unit_test.yml b/.github/workflows/unit_test.yml
index e86d421..80f189f 100644
--- a/.github/workflows/unit_test.yml
+++ b/.github/workflows/unit_test.yml
@@ -31,13 +31,15 @@ jobs:
           
   run_all_tests:
     runs-on: ubuntu-latest
+    defaults:
+      run:
+        shell: bash -el {0}
     steps:
       - uses: actions/checkout@v2
       - uses: mamba-org/setup-micromamba@v1
         with:
           environment-file: environment.yml
           environment-name: swe4s
-      - shell: bash -el {0}
       - run: |
           cd test/unit
           python -m unittest test_utils

From 939d343e1d0a7b712bc97c0ecd1d225ec3964ef1 Mon Sep 17 00:00:00 2001
From: Ryan Layer <ryan.layer@gmail.com>
Date: Tue, 10 Oct 2023 17:00:16 -0600
Subject: [PATCH 13/13] Update unit_test.yml

---
 .github/workflows/unit_test.yml | 7 +++----
 1 file changed, 3 insertions(+), 4 deletions(-)

diff --git a/.github/workflows/unit_test.yml b/.github/workflows/unit_test.yml
index 80f189f..e00b113 100644
--- a/.github/workflows/unit_test.yml
+++ b/.github/workflows/unit_test.yml
@@ -7,10 +7,6 @@ on:
 jobs:  
   run_unit_tests:
     runs-on: ubuntu-latest
-    defaults:
-      run:
-        shell: bash -el {0}
-      
     steps:
       - uses: actions/checkout@v2
       - run: |
@@ -19,6 +15,9 @@ jobs:
           
   run_func_tests:
     runs-on: ubuntu-latest
+    defaults:
+      run:
+        shell: bash -el {0}  
     steps:
       - uses: actions/checkout@v2
       - uses: conda-incubator/setup-miniconda@v2