MMV-Lab/mmv_im2im issues and pull requests

#97 - update github action and fix cpu error

Pull Request - State: closed - Opened by jxchen01 about 1 month ago

#96 - docs(docker): Update the docker instruction

Pull Request - State: closed - Opened by audreyeternal 8 months ago
Labels: documentation

#95 - Minor fixes

Pull Request - State: closed - Opened by Justin-Sonneck 9 months ago - 1 comment

#94 - pin version due to third party bugs

Pull Request - State: closed - Opened by jxchen01 9 months ago

#93 - Hotfix/docker

Pull Request - State: closed - Opened by jxchen01 9 months ago

#92 - update doc

Pull Request - State: closed - Opened by jxchen01 9 months ago

#91 - update github action

Pull Request - State: closed - Opened by jxchen01 9 months ago

#90 - fix build

Pull Request - State: closed - Opened by jxchen01 9 months ago

#89 - Prepare for resubmission: Docker support, minor fixes, update data preparation + yaml files

Pull Request - State: closed - Opened by Justin-Sonneck 9 months ago - 2 comments

#88 - Feat/docker

Pull Request - State: closed - Opened by audreyeternal 10 months ago - 2 comments
Labels: enhancement

#87 - update to pytorch-lightning 2.0

Pull Request - State: closed - Opened by jxchen01 about 1 year ago

#86 - pin plt version until new PR for plt 2.0.0

Issue - State: open - Opened by jxchen01 about 1 year ago

#85 - naming errors in debugging images when using multiGPU

Issue - State: open - Opened by jxchen01 about 1 year ago

#84 - fail when not specifying reader during inference

Issue - State: open - Opened by jxchen01 about 1 year ago

#83 - add DiNTS support

Pull Request - State: open - Opened by jxchen01 over 1 year ago

#82 - Doc update

Pull Request - State: closed - Opened by jxchen01 over 1 year ago

#81 - minor update the data prep

Pull Request - State: closed - Opened by jxchen01 over 1 year ago

#80 - Bugfix

Pull Request - State: closed - Opened by jxchen01 over 1 year ago

#79 - Reproduce

Pull Request - State: closed - Opened by jxchen01 over 1 year ago - 1 comment

#78 - Hotfix

Pull Request - State: closed - Opened by jxchen01 over 1 year ago

#77 - Fea/embedseg sampling

Pull Request - State: closed - Opened by jxchen01 over 1 year ago

#76 - Dl v3

Pull Request - State: closed - Opened by Justin-Sonneck over 1 year ago

#75 - Fea/debug seg

Pull Request - State: closed - Opened by jxchen01 over 1 year ago

#74 - double check resume training

Issue - State: open - Opened by jxchen01 over 1 year ago

#73 - checklist

Issue - State: closed - Opened by jxchen01 over 1 year ago

#72 - copy yaml file into lightnign log

Issue - State: closed - Opened by jxchen01 over 1 year ago

#71 - Update AICSImage Citation

Issue - State: open - Opened by evamaxfield over 1 year ago

#70 - add params for deeplabv3_2d

Pull Request - State: closed - Opened by Justin-Sonneck over 1 year ago

#69 - Doc

Pull Request - State: closed - Opened by jxchen01 almost 2 years ago

#68 - Bugfix

Pull Request - State: closed - Opened by jxchen01 almost 2 years ago

#67 - use the right Dataloder to handle random state properly

Pull Request - State: closed - Opened by jxchen01 almost 2 years ago

#66 - Fea/tmpfile

Pull Request - State: closed - Opened by jxchen01 almost 2 years ago

#65 - add instructions for how to use costmap

Issue - State: open - Opened by jxchen01 almost 2 years ago

#64 - Fea/deeplab

Pull Request - State: closed - Opened by jxchen01 almost 2 years ago

#63 - save training dictionary and package version hash in checkpoint for future reference

Issue - State: open - Opened by jxchen01 almost 2 years ago

#62 - Fea/deeplab

Pull Request - State: closed - Opened by jxchen01 almost 2 years ago

#61 - Feature/val pix2pix

Pull Request - State: closed - Opened by jxchen01 almost 2 years ago - 1 comment

#60 - Dev

Pull Request - State: closed - Opened by jxchen01 almost 2 years ago

#59 - Dev

Pull Request - State: closed - Opened by jxchen01 almost 2 years ago

#58 - add python API for applying a model on a new image

Issue - State: open - Opened by jxchen01 almost 2 years ago

#57 - Dev

Pull Request - State: closed - Opened by jxchen01 almost 2 years ago - 1 comment

#56 - minor fix on val dataloader

Pull Request - State: closed - Opened by jxchen01 almost 2 years ago

#55 - minor fixes

Pull Request - State: closed - Opened by jxchen01 about 2 years ago - 1 comment

#54 - Dev

Pull Request - State: closed - Opened by jxchen01 about 2 years ago

#53 - added fnet_2d (1 channel as in AllenCellModeling repo), renamed fnet_3d

Pull Request - State: closed - Opened by Justin-Sonneck about 2 years ago

#52 - Dev

Pull Request - State: closed - Opened by jxchen01 about 2 years ago

#51 - allow loading pre-trained generator in pix2pix

Issue - State: open - Opened by jxchen01 about 2 years ago

#50 - update verbose to support rgb images

Issue - State: open - Opened by jxchen01 about 2 years ago

#49 - update cyclegan config preset to use reconstruction loss as monitor metric

Issue - State: closed - Opened by jxchen01 about 2 years ago

#48 - New config

Pull Request - State: closed - Opened by jxchen01 about 2 years ago

#47 - new MONAI dataloader

Pull Request - State: closed - Opened by jxchen01 about 2 years ago

#46 - test masked/weighted loss (see MONAI MaskedLoss)

Issue - State: closed - Opened by jxchen01 about 2 years ago

#45 - fill in the other cases in new monai dataloader

Issue - State: open - Opened by jxchen01 about 2 years ago

#44 - rewrite config using pyrallis

Issue - State: closed - Opened by jxchen01 about 2 years ago

#43 - support models from other packages

Issue - State: open - Opened by jxchen01 about 2 years ago

#42 - for verbose need to allow creating parent path

Issue - State: open - Opened by jxchen01 about 2 years ago

#41 - resume training is not working

Issue - State: open - Opened by jxchen01 about 2 years ago

#40 - test MONAI dataloader

Issue - State: closed - Opened by jxchen01 about 2 years ago

#39 - add center extraction method in embedseg allowing calculating based only on largest CC

Issue - State: open - Opened by jxchen01 about 2 years ago

#38 - add post-processing function to get class map

Pull Request - State: closed - Opened by jxchen01 about 2 years ago

#37 - Fix embedseg

Pull Request - State: closed - Opened by jxchen01 about 2 years ago

#36 - check multi-gpu training for fcn, pix2pix and embedseg

Issue - State: open - Opened by jxchen01 about 2 years ago

#35 - pix2pix validation step

Issue - State: open - Opened by jxchen01 about 2 years ago

#34 - embedseg validation step

Issue - State: open - Opened by jxchen01 about 2 years ago

#33 - update readme about how the code is organized

Issue - State: open - Opened by jxchen01 about 2 years ago

#32 - Pix2pix

Pull Request - State: closed - Opened by jxchen01 about 2 years ago

#31 - generate a combined class map from FCN segmentation post-processing

Issue - State: open - Opened by jxchen01 about 2 years ago

#30 - Cycle gan

Pull Request - State: closed - Opened by jxchen01 about 2 years ago

#29 - 2d sliding window application

Issue - State: closed - Opened by jxchen01 about 2 years ago

#28 - use different patch sampler for unpair dataloader

Issue - State: closed - Opened by jxchen01 about 2 years ago

#27 - check model weight init scheme

Issue - State: open - Opened by jxchen01 about 2 years ago

#26 - merge dev

Pull Request - State: closed - Opened by jxchen01 about 2 years ago

#25 - improve the robustness of embedseg where prediction may out of bound

Issue - State: closed - Opened by jxchen01 about 2 years ago

#24 - Embedseg inferece

Pull Request - State: closed - Opened by jxchen01 about 2 years ago

#23 - automatically parse grid_x, grid_y from data in embedseg

Issue - State: open - Opened by jxchen01 about 2 years ago

#22 - better handling output

Pull Request - State: closed - Opened by jxchen01 about 2 years ago

#21 - Embedseg

Pull Request - State: closed - Opened by jxchen01 about 2 years ago

#20 - support loading pre-trained models in better way

Issue - State: open - Opened by jxchen01 about 2 years ago

#19 - support layer swap

Issue - State: open - Opened by jxchen01 about 2 years ago

#18 - Pix2pix hd

Pull Request - State: closed - Opened by saipreethamsata over 2 years ago - 5 comments
Labels: enhancement

#17 - pix2pixHD

Pull Request - State: closed - Opened by saipreethamsata over 2 years ago - 1 comment
Labels: enhancement

#16 - Bugfix action

Pull Request - State: closed - Opened by jxchen01 over 2 years ago

#15 - Updated code for segmentation

Pull Request - State: closed - Opened by saipreethamsata over 2 years ago

#14 - Code update to generate synthetic data for pix2pix and cycleGAN

Pull Request - State: closed - Opened by saipreethamsata over 2 years ago
Labels: enhancement

#13 - Fnet

Pull Request - State: closed - Opened by Justin-Sonneck over 2 years ago - 1 comment
Labels: enhancement

#12 - Added shuffle feature

Pull Request - State: closed - Opened by saipreethamsata over 2 years ago - 3 comments
Labels: enhancement

#11 - support different preprocessing for source and target

Issue - State: closed - Opened by jxchen01 over 2 years ago

#10 - update code to support no preprocessing or no data augmentation

Pull Request - State: closed - Opened by jxchen01 over 2 years ago - 1 comment

#9 - Support 2 d fcn

Pull Request - State: closed - Opened by jxchen01 over 2 years ago

#8 - update codebase for labelfree project

Pull Request - State: closed - Opened by jxchen01 over 2 years ago

#7 - Pix2Pix and CycleGAN

Pull Request - State: closed - Opened by saipreethamsata over 2 years ago

#6 - Added CycleGAN and Pix2Pix

Pull Request - State: closed - Opened by saipreethamsata over 2 years ago

#5 - add code for logging in comment

Pull Request - State: closed - Opened by jxchen01 over 2 years ago

#4 - dev

Pull Request - State: closed - Opened by jxchen01 over 2 years ago

#3 - Inference

Pull Request - State: closed - Opened by jxchen01 over 2 years ago

#2 - support torchio queue in dataloader

Pull Request - State: closed - Opened by jxchen01 over 2 years ago

#1 - Dev

Pull Request - State: closed - Opened by jxchen01 over 2 years ago

GitHub / MMV-Lab/mmv_im2im issues and pull requests