Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Adam monai #38

Draft
wants to merge 64 commits into
base: main
Choose a base branch
from
Draft

Adam monai #38

wants to merge 64 commits into from

Commits on Sep 5, 2023

  1. tv-detection first commit

    @adam-peaston-SC
    adam-peaston-SC committed Sep 5, 2023
    Configuration menu
    Copy the full SHA
    962bf26 View commit details
    Browse the repository at this point in the history

Commits on Sep 6, 2023

  1. tv-detections working, pending epoch completion

    @adam-peaston-SC
    adam-peaston-SC committed Sep 6, 2023
    Configuration menu
    Copy the full SHA
    41e4d05 View commit details
    Browse the repository at this point in the history

  2. all detection and segmentation working pending full epoch

    @adam-peaston-SC
    adam-peaston-SC committed Sep 6, 2023
    Configuration menu
    Copy the full SHA
    a09c24b View commit details
    Browse the repository at this point in the history

  3. removed WIP from isc-demos README

    @adam-peaston-SC
    adam-peaston-SC committed Sep 6, 2023
    Configuration menu
    Copy the full SHA
    7a3cb0c View commit details
    Browse the repository at this point in the history

  4. Updated tv-detection and tv-segmentation to checkpoint (and report) a… 

    …fter every batch
    @adam-peaston-SC
    adam-peaston-SC committed Sep 6, 2023
    Configuration menu
    Copy the full SHA
    ccbc0f6 View commit details
    Browse the repository at this point in the history

Commits on Sep 7, 2023

  1. Updated tv-detection to fix epoch roll-over error and added sophistic… 

    …ated timer function
    @adam-peaston-SC
    adam-peaston-SC committed Sep 7, 2023
    Configuration menu
    Copy the full SHA
    9896974 View commit details
    Browse the repository at this point in the history

  2. Updates

    @adam-peaston-SC
    adam-peaston-SC committed Sep 7, 2023
    Configuration menu
    Copy the full SHA
    cea7e8b View commit details
    Browse the repository at this point in the history

  3. updates

    @adam-peaston-SC
    adam-peaston-SC committed Sep 7, 2023
    Configuration menu
    Copy the full SHA
    7ce8cb4 View commit details
    Browse the repository at this point in the history

  4. updates

    @adam-peaston-SC
    adam-peaston-SC committed Sep 7, 2023
    Configuration menu
    Copy the full SHA
    ba815e8 View commit details
    Browse the repository at this point in the history

  5. Added Timer to cycling_utils/saving

    @adam-peaston-SC
    adam-peaston-SC committed Sep 7, 2023
    Configuration menu
    Copy the full SHA
    3539a17 View commit details
    Browse the repository at this point in the history

  6. moved Timer to its own file, updated training scripts to time imports

    @adam-peaston-SC
    adam-peaston-SC committed Sep 7, 2023
    Configuration menu
    Copy the full SHA
    b61aec5 View commit details
    Browse the repository at this point in the history

  7. Updated timer to only report if the global rank of the process is == … 

    …0 for legible reporting on imports
    @adam-peaston-SC
    adam-peaston-SC committed Sep 7, 2023
    Configuration menu
    Copy the full SHA
    228d6e3 View commit details
    Browse the repository at this point in the history

Commits on Sep 10, 2023

  1. Updated tv-detection to use new InterruptableDistributedGroupedBatchS… 

    …ampler class
    @adam-peaston-SC
    adam-peaston-SC committed Sep 10, 2023
    Configuration menu
    Copy the full SHA
    a887392 View commit details
    Browse the repository at this point in the history

  2. detection and segmentation working all but detection eval

    @adam-peaston-SC
    adam-peaston-SC committed Sep 10, 2023
    Configuration menu
    Copy the full SHA
    1595277 View commit details
    Browse the repository at this point in the history

  3. minor updates

    @adam-peaston-SC
    adam-peaston-SC committed Sep 10, 2023
    Configuration menu
    Copy the full SHA
    d44cd5b View commit details
    Browse the repository at this point in the history

  4. updates thinking about checkpointing evaluation better

    @adam-peaston-SC
    adam-peaston-SC committed Sep 10, 2023
    Configuration menu
    Copy the full SHA
    62df2d4 View commit details
    Browse the repository at this point in the history

  5. minor updates and full training kickoffs

    @adam-peaston-SC
    adam-peaston-SC committed Sep 10, 2023
    Configuration menu
    Copy the full SHA
    60db14f View commit details
    Browse the repository at this point in the history

Commits on Sep 13, 2023

  1. monai autoencoder traininig interruptably

    @adam-peaston-SC
    adam-peaston-SC committed Sep 13, 2023
    Configuration menu
    Copy the full SHA
    0b7c932 View commit details
    Browse the repository at this point in the history

  2. updateds

    @adam-peaston-SC
    adam-peaston-SC committed Sep 13, 2023
    Configuration menu
    Copy the full SHA
    1ec3b1c View commit details
    Browse the repository at this point in the history

  3. updates

    @adam-peaston-SC
    adam-peaston-SC committed Sep 13, 2023
    Configuration menu
    Copy the full SHA
    bd04c29 View commit details
    Browse the repository at this point in the history

  4. updates

    @adam-peaston-SC
    adam-peaston-SC committed Sep 13, 2023
    Configuration menu
    Copy the full SHA
    fd82382 View commit details
    Browse the repository at this point in the history

  5. potential fix for cudnnbatchnorm error

    @adam-peaston-SC
    adam-peaston-SC committed Sep 13, 2023
    Configuration menu
    Copy the full SHA
    7259776 View commit details
    Browse the repository at this point in the history

  6. minor update

    @adam-peaston-SC
    adam-peaston-SC committed Sep 13, 2023
    Configuration menu
    Copy the full SHA
    91fc314 View commit details
    Browse the repository at this point in the history

  7. still failing when discriminator included in loss

    @adam-peaston-SC
    adam-peaston-SC committed Sep 13, 2023
    Configuration menu
    Copy the full SHA
    70cba9d View commit details
    Browse the repository at this point in the history

Commits on Sep 14, 2023

  1. autoencoder issue fixed

    @adam-peaston-SC
    adam-peaston-SC committed Sep 14, 2023
    Configuration menu
    Copy the full SHA
    e2863d1 View commit details
    Browse the repository at this point in the history

Commits on Sep 15, 2023

  1. diffusion model training, finished 3 epochs

    @adam-peaston-SC
    adam-peaston-SC committed Sep 15, 2023
    Configuration menu
    Copy the full SHA
    43b3bd2 View commit details
    Browse the repository at this point in the history

  2. updates to args to fix issue resuming

    @adam-peaston-SC
    adam-peaston-SC committed Sep 15, 2023
    Configuration menu
    Copy the full SHA
    29c6bfb View commit details
    Browse the repository at this point in the history

Commits on Sep 18, 2023

  1. Latest updates

    @adam-peaston-SC
    adam-peaston-SC committed Sep 18, 2023
    Configuration menu
    Copy the full SHA
    288f0a9 View commit details
    Browse the repository at this point in the history

Commits on Sep 19, 2023

  1. Integrated tensorboard with maskrcnn and monai

    @adam-peaston-SC
    adam-peaston-SC committed Sep 19, 2023
    Configuration menu
    Copy the full SHA
    a560f59 View commit details
    Browse the repository at this point in the history

  2. backup

    @adam-peaston-SC
    adam-peaston-SC committed Sep 19, 2023
    Configuration menu
    Copy the full SHA
    6859b18 View commit details
    Browse the repository at this point in the history

  3. updates, updates, updates

    @adam-peaston-SC
    adam-peaston-SC committed Sep 19, 2023
    Configuration menu
    Copy the full SHA
    5d7a69b View commit details
    Browse the repository at this point in the history

  4. code tidier

    @adam-peaston-SC
    adam-peaston-SC committed Sep 19, 2023
    Configuration menu
    Copy the full SHA
    89bf099 View commit details
    Browse the repository at this point in the history

Commits on Sep 20, 2023

  1. Updates and experiments aligned with literature benchmarks

    @adam-peaston-SC
    adam-peaston-SC committed Sep 20, 2023
    Configuration menu
    Copy the full SHA
    fcd1387 View commit details
    Browse the repository at this point in the history

  2. Fixed reporting issue with mask/retina

    @adam-peaston-SC
    adam-peaston-SC committed Sep 20, 2023
    Configuration menu
    Copy the full SHA
    953cdc4 View commit details
    Browse the repository at this point in the history

Commits on Sep 21, 2023

  1. Merge branch 'main' into adam-tv-detection

    @StrongFennecs
    StrongFennecs authored Sep 21, 2023
    Configuration menu
    Copy the full SHA
    580d095 View commit details
    Browse the repository at this point in the history

  2. tidy up and update of timer etc.

    @adam-peaston-SC
    adam-peaston-SC committed Sep 21, 2023
    Configuration menu
    Copy the full SHA
    ec3760a View commit details
    Browse the repository at this point in the history

  3. just in case

    @adam-peaston-SC
    adam-peaston-SC committed Sep 21, 2023
    Configuration menu
    Copy the full SHA
    62e5360 View commit details
    Browse the repository at this point in the history

  4. changes

    @adam-peaston-SC
    adam-peaston-SC committed Sep 21, 2023
    Configuration menu
    Copy the full SHA
    dc55f1b View commit details
    Browse the repository at this point in the history

  5. changes

    @adam-peaston-SC
    adam-peaston-SC committed Sep 21, 2023
    Configuration menu
    Copy the full SHA
    4683fc0 View commit details
    Browse the repository at this point in the history

  6. fixed mess thank you Calvin!

    @adam-peaston-SC
    adam-peaston-SC committed Sep 21, 2023
    Configuration menu
    Copy the full SHA
    43e7bd1 View commit details
    Browse the repository at this point in the history

Commits on Sep 22, 2023

  1. tidy up, linting, deleting log files

    @adam-peaston-SC
    adam-peaston-SC committed Sep 22, 2023
    Configuration menu
    Copy the full SHA
    37d878b View commit details
    Browse the repository at this point in the history

  2. removed local pyproject.toml files

    @adam-peaston-SC
    adam-peaston-SC committed Sep 22, 2023
    Configuration menu
    Copy the full SHA
    4ef575e View commit details
    Browse the repository at this point in the history

  3. removed monai

    @adam-peaston-SC
    adam-peaston-SC committed Sep 22, 2023
    Configuration menu
    Copy the full SHA
    d09abfb View commit details
    Browse the repository at this point in the history

  4. updated readmes

    @adam-peaston-SC
    adam-peaston-SC committed Sep 22, 2023
    Configuration menu
    Copy the full SHA
    addc304 View commit details
    Browse the repository at this point in the history

  5. updated readme with ref to requirements

    @adam-peaston-SC
    adam-peaston-SC committed Sep 22, 2023
    Configuration menu
    Copy the full SHA
    73531f4 View commit details
    Browse the repository at this point in the history

  6. removed resuming dir arg from fcn_resnet101.isc

    @adam-peaston-SC
    adam-peaston-SC committed Sep 22, 2023
    Configuration menu
    Copy the full SHA
    0d09904 View commit details
    Browse the repository at this point in the history

Commits on Sep 25, 2023

  1. tackling instabilities

    @adam-peaston-SC
    adam-peaston-SC committed Sep 25, 2023
    Configuration menu
    Copy the full SHA
    e043663 View commit details
    Browse the repository at this point in the history

  2. first commit to monai branch

    @adam-peaston-SC
    adam-peaston-SC committed Sep 25, 2023
    Configuration menu
    Copy the full SHA
    2837068 View commit details
    Browse the repository at this point in the history

Commits on Sep 27, 2023

  1. monai updated with bones of pancreas

    @adam-peaston-SC
    adam-peaston-SC committed Sep 27, 2023
    Configuration menu
    Copy the full SHA
    d0cf9a3 View commit details
    Browse the repository at this point in the history

  2. updates to pancreas

    @adam-peaston-SC
    adam-peaston-SC committed Sep 27, 2023
    Configuration menu
    Copy the full SHA
    7ed1204 View commit details
    Browse the repository at this point in the history

  3. monai pancreas search ready to test

    @adam-peaston-SC
    adam-peaston-SC committed Sep 27, 2023
    Configuration menu
    Copy the full SHA
    66099cf View commit details
    Browse the repository at this point in the history

  4. added saving for search space

    @adam-peaston-SC
    adam-peaston-SC committed Sep 27, 2023
    Configuration menu
    Copy the full SHA
    f3f7e0c View commit details
    Browse the repository at this point in the history

Commits on Sep 28, 2023

  1. updates to pancreas mostly

    @adam-peaston-SC
    adam-peaston-SC committed Sep 28, 2023
    Configuration menu
    Copy the full SHA
    11bbb8a View commit details
    Browse the repository at this point in the history

  2. progress on pancreas

    @adam-peaston-SC
    adam-peaston-SC committed Sep 28, 2023
    Configuration menu
    Copy the full SHA
    1ccffe5 View commit details
    Browse the repository at this point in the history

Commits on Sep 29, 2023

  1. latest updates to monai pancreas, ready for isc testing

    @adam-peaston-SC
    adam-peaston-SC committed Sep 29, 2023
    Configuration menu
    Copy the full SHA
    b1ffdb5 View commit details
    Browse the repository at this point in the history

  2. ok now done

    @adam-peaston-SC
    adam-peaston-SC committed Sep 29, 2023
    Configuration menu
    Copy the full SHA
    46903ef View commit details
    Browse the repository at this point in the history

  3. updates to pancreas with timing and imports

    @adam-peaston-SC
    adam-peaston-SC committed Sep 29, 2023
    Configuration menu
    Copy the full SHA
    b15ceff View commit details
    Browse the repository at this point in the history

  4. pancreas search cycling

    @adam-peaston-SC
    adam-peaston-SC committed Sep 29, 2023
    Configuration menu
    Copy the full SHA
    6b1a13a View commit details
    Browse the repository at this point in the history

  5. slimmed down imports for pancreas

    @adam-peaston-SC
    adam-peaston-SC committed Sep 29, 2023
    Configuration menu
    Copy the full SHA
    35cdc2b View commit details
    Browse the repository at this point in the history

Commits on Oct 6, 2023

  1. updates including monai and cycling utils enhancement

    @adam-peaston-SC
    adam-peaston-SC committed Oct 6, 2023
    Configuration menu
    Copy the full SHA
    2c289cb View commit details
    Browse the repository at this point in the history

  2. Updated monai with setup readme

    @adam-peaston-SC
    adam-peaston-SC committed Oct 6, 2023
    Configuration menu
    Copy the full SHA
    b2cd243 View commit details
    Browse the repository at this point in the history

Commits on Oct 9, 2023

  1. fixed tv-detection tensorboard logging of val metrics

    @adam-peaston-SC
    adam-peaston-SC committed Oct 9, 2023
    Configuration menu
    Copy the full SHA
    1dabdb8 View commit details
    Browse the repository at this point in the history

  2. removed data subsetting from tv-detection

    @adam-peaston-SC
    adam-peaston-SC committed Oct 9, 2023
    Configuration menu
    Copy the full SHA
    ee328a8 View commit details
    Browse the repository at this point in the history

Commits on Oct 10, 2023

  1. updates

    @adam-peaston-SC
    adam-peaston-SC committed Oct 10, 2023
    Configuration menu
    Copy the full SHA
    52d5441 View commit details
    Browse the repository at this point in the history