Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / kitwaremedical/otm-server issues and pull requests

#132 - Change Heroku app name, to use project prefix conventions

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

#131 - Change Heroku app name, to use project prefix conventions

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

#130 - turn registration preview opacity slider into a toggle

Issue - State: open - Opened by ebrahimebrahim almost 2 years ago
Labels: enhancement, client

#129 - skull strip jacobian det preview image

Issue - State: open - Opened by ebrahimebrahim almost 2 years ago
Labels: client, server

#128 - brains are upside down

Issue - State: closed - Opened by ebrahimebrahim almost 2 years ago - 1 comment
Labels: bug, client

#127 - displayed colorbar bounds are incorrect

Issue - State: closed - Opened by ebrahimebrahim almost 2 years ago
Labels: bug, client

#126 - Parallelize image preprocessing

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

#125 - Fix initialization of s3 storage in get_boto_client

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

#123 - Remove all use of RShiny (from the server)

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

#122 - 3D view

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

#121 - add ability to upload data in a preprocessed state

Issue - State: open - Opened by ebrahimebrahim about 2 years ago
Labels: enhancement, low-priority

#120 - Link to uploaded analysis images in AnalysisResult

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

#119 - populate the AnalysisResult data field

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

#118 - Add AnalysisResult model

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

#117 - Add RNifti dependency to install.R

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

#116 - Add interaction to analysis results visualization

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 1 comment

#115 - Load images into the views in the analysis results visualization

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 1 comment

#114 - Create initial UI layout in the analysis results visualization

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 3 comments

#113 - Build needed data model for analysis results

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 3 comments

#112 - Add step to UTM code to write out analysis images as nifti

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 1 comment

#109 - update user guide to describe downloading and visualizing results

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: documentation, client

#108 - Zip analysis data and save in field

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

#107 - Use python3.8 in worker image

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

#106 - make analysis results downloadable

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: enhancement, client, server

#105 - run preprocessing button is not displayed

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 1 comment
Labels: bug, client

#104 - Fix inconsistent migration history

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

#103 - Refactor Preprocessed Image Models

Issue - State: open - Opened by jjnesbitt over 2 years ago
Labels: minor

#102 - Update preprocess models

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

#101 - replace atlas image files by compressed ones

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

#100 - refresh properly to show analysis running state

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: bug, client

#99 - automate worker deployment

Issue - State: open - Opened by ebrahimebrahim over 2 years ago
Labels: server

#98 - disable analysis button

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 1 comment
Labels: enhancement, client

#97 - compress atlas

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: enhancement, client, server

#96 - Refresh/navigate after uploading images

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: bug, client

#95 - preprocessed image viewer bugs

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 1 comment
Labels: bug, client

#94 - Compress images

Pull Request - State: closed - Opened by ebrahimebrahim over 2 years ago - 2 comments
Labels: server

#93 - Handle multiple preprocessed image runs

Issue - State: closed - Opened by jjnesbitt over 2 years ago
Labels: server

#92 - the home tab for a dataset should be "Images" not "Upload table"

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: enhancement, client

#91 - Ensure 'name' field in image metadata during analysis

Pull Request - State: closed - Opened by jjnesbitt over 2 years ago - 3 comments

#90 - add ability to abort tasks

Issue - State: open - Opened by ebrahimebrahim over 2 years ago

#89 - display preprocessing status of dataset

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 1 comment
Labels: enhancement, client

#88 - display all images in tables

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: bug, client

#87 - allow skipping upload of pending uploads that were already done

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: enhancement, client

#86 - analysis fails due to missing image metadata key

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: bug, server

#85 - switch to grey matter analysis as the default

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

#84 - do something when image batch is done being uploaded

Issue - State: open - Opened by ebrahimebrahim over 2 years ago

#83 - hitting "enter" on the "create dataset" dialog cancels it

Issue - State: open - Opened by ebrahimebrahim over 2 years ago
Labels: bug, client

#82 - Restructure tabs on dataset page to not be individually routed

Issue - State: closed - Opened by jjnesbitt over 2 years ago - 1 comment
Labels: client

#81 - create a quality checking step that precedes any processing

Issue - State: open - Opened by ebrahimebrahim over 2 years ago - 1 comment
Labels: enhancement, client, server

#80 - Update how atlases are handled

Issue - State: open - Opened by jjnesbitt over 2 years ago

#79 - Tab focus weirdness: "Images" tab gets underlined when it shouldn't

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: bug, client

#78 - Improve handling of failed / killed tasks

Issue - State: closed - Opened by jjnesbitt over 2 years ago - 2 comments
Labels: client, server

#77 - Add missing extra `worker` to celery Dockerfile

Pull Request - State: closed - Opened by jjnesbitt over 2 years ago - 5 comments

#76 - Fix import error in preprocessing task

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 3 comments
Labels: bug

#75 - Make pending uploads page more intuitive

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 4 comments
Labels: client

#74 - Adjust landing page

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: client

#73 - Restructure API to obey permission model

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

#72 - Create demo video and written instructions

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 1 comment
Labels: client

#71 - Optimize preprocessed images endpoint

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

#70 - Replace complete fields with status fields

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

#69 - Restrict all dataset actions based on permissions

Issue - State: closed - Opened by jjnesbitt over 2 years ago - 4 comments
Labels: client, server

#68 - Move analysis and preprocessing dispatch method into dataset viewset

Issue - State: closed - Opened by jjnesbitt over 2 years ago
Labels: server

#67 - Update models and upload csv requirements.

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

#66 - Dataset access control

Pull Request - State: closed - Opened by jjnesbitt over 2 years ago - 8 comments

#65 - Option to precache preprocessed images

Issue - State: open - Opened by ebrahimebrahim over 2 years ago - 1 comment
Labels: enhancement, client

#64 - Cache the atlas image after the first time it is loaded

Issue - State: open - Opened by ebrahimebrahim over 2 years ago
Labels: enhancement, client

#63 - indicate loading progress in preprocessing preview

Issue - State: open - Opened by ebrahimebrahim over 2 years ago
Labels: enhancement, client

#62 - Deploy worker onto EC2 Instance

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 2 comments
Labels: bug, server

#61 - Data access control

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: enhancement, client, server

#60 - fix signing up for a user account

Issue - State: open - Opened by ebrahimebrahim over 2 years ago - 1 comment
Labels: bug, server

#59 - Add dataset creation

Issue - State: closed - Opened by jjnesbitt over 2 years ago
Labels: enhancement, client

#58 - Investigate Heroku alternatives for worker nodes

Issue - State: closed - Opened by jjnesbitt over 2 years ago - 1 comment
Labels: server

#57 - Add custom migration to populate atlases

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

#56 - missing icon in title bar

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 3 comments
Labels: bug, minor

#56 - missing icon in title bar

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 3 comments
Labels: bug, minor

#55 - pending upload "batch" display page has no header

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: bug, minor

#54 - Show preprocessing time and performance metrics

Issue - State: open - Opened by ebrahimebrahim over 2 years ago
Labels: enhancement

#53 - need button to return to datasets page

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: bug, minor

#52 - "Re-Run utm analysis" displayed before it was run once

Issue - State: open - Opened by ebrahimebrahim over 2 years ago
Labels: bug

#51 - fix jacobian calculation

Pull Request - State: closed - Opened by ebrahimebrahim over 2 years ago - 3 comments

#50 - Fix heroku builds

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

#49 - Add endpoint for fetching all dataset images

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

#48 - use nearest neighbor interpolation to draw segmentation image

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: bug

#47 - preview registered image

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 3 comments

#46 - Use github actions for CI and deploy

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

#45 - preview jacobian image and feature image

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago - 1 comment

#44 - improve preprocessing page structure

Issue - State: closed - Opened by ebrahimebrahim over 2 years ago
Labels: enhancement

#43 - allow configuring analysis

Issue - State: open - Opened by ebrahimebrahim almost 3 years ago
Labels: enhancement

#42 - allow configuring preprocessing

Issue - State: open - Opened by ebrahimebrahim almost 3 years ago
Labels: enhancement

#41 - registration type incorrectly indicated as "affine"

Issue - State: open - Opened by ebrahimebrahim almost 3 years ago
Labels: bug, minor

#40 - preview the output of segmentation

Issue - State: closed - Opened by ebrahimebrahim almost 3 years ago - 7 comments
Labels: enhancement

#39 - there should be a way to create datasets

Issue - State: closed - Opened by ebrahimebrahim almost 3 years ago - 1 comment
Labels: enhancement

#38 - preprocessing should cover gray matter

Issue - State: open - Opened by ebrahimebrahim almost 3 years ago
Labels: enhancement

#37 - indicate error when R dependencies fail to install

Issue - State: open - Opened by ebrahimebrahim almost 3 years ago
Labels: bug, minor

#36 - extend timeout for R package download

Pull Request - State: closed - Opened by ebrahimebrahim almost 3 years ago

#35 - PendingUpload Batch still exists after uploading

Issue - State: open - Opened by ebrahimebrahim almost 3 years ago
Labels: bug, minor

#34 - Add `--include-images` flag in `populate_db`

Pull Request - State: closed - Opened by jjnesbitt almost 3 years ago