khanlab/hippunfold issues and pull requests

#217 - missing subfield.dlabel.gii outputs

Issue - State: closed - Opened by jordandekraker almost 2 years ago - 2 comments

#216 - Added missing container for hippdwi_to_template

Pull Request - State: closed - Opened by kaitj about 2 years ago - 2 comments
Labels: bug

#215 - resample_hippdwi_to_template container missing

Issue - State: closed - Opened by kaitj about 2 years ago - 1 comment
Labels: bug

#214 - Update_documentation

Pull Request - State: closed - Opened by mcespedes99 about 2 years ago
Labels: documentation

#213 - updated deploy workflow with bumpversion changes

Pull Request - State: closed - Opened by akhanf about 2 years ago
Labels: maintenance

#212 - Add DAG generation to a github action

Issue - State: open - Opened by akhanf about 2 years ago
Labels: maintenance

#211 - bugfix: subfields label.gii wasn't being generated properly

Pull Request - State: closed - Opened by akhanf about 2 years ago - 1 comment
Labels: bug

#210 - added --version to CLI (via snakebids.yml)

Pull Request - State: closed - Opened by akhanf about 2 years ago
Labels: enhancement

#209 - Test data

Pull Request - State: closed - Opened by akhanf about 2 years ago
Labels: documentation

#208 - bugfix: subfield+tissue for new atlases, and tsv files

Pull Request - State: closed - Opened by akhanf about 2 years ago - 1 comment
Labels: bug

#207 - Extras moved to toolbox

Pull Request - State: closed - Opened by jordandekraker about 2 years ago - 1 comment
Labels: maintenance

#206 - Summary statistics of the surface metrics

Issue - State: open - Opened by romeopenheiro about 2 years ago - 3 comments
Labels: enhancement, good first issue

#205 - Multiple atlases updating docs & coding style

Pull Request - State: closed - Opened by akhanf about 2 years ago
Labels: documentation

#204 - hippdwi bounding box for L and R flipped

Pull Request - State: closed - Opened by akhanf about 2 years ago
Labels: bug

#203 - Unfolddentatetemplate patch

Pull Request - State: closed - Opened by jordandekraker about 2 years ago - 4 comments
Labels: maintenance

#202 - unfolded DG template not rectangular

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

#201 - added missing canonical surfaces for label-dentate

Pull Request - State: closed - Opened by jordandekraker about 2 years ago - 3 comments
Labels: maintenance

#200 - allows output of subfields using multiple unfolded atlases

Pull Request - State: closed - Opened by jordandekraker about 2 years ago - 1 comment
Labels: enhancement

#199 - Update Dockerfile

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: maintenance

#198 - adds unsupported note for M1

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: documentation

#197 - run inference duration

Issue - State: closed - Opened by OliverWarrington over 2 years ago - 4 comments

#196 - long staging

Issue - State: open - Opened by jordandekraker over 2 years ago - 1 comment
Labels: documentation

#195 - freeview formatted subfield label file

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

#194 - Drop generic copy_to_results rule

Pull Request - State: closed - Opened by akhanf over 2 years ago - 1 comment
Labels: maintenance

#193 - Cryptic error given when running hippunfold before `hippunfold_download_models` is run

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

#192 - Force creation of .snakebids file

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: bug

#191 - `.snakebids` file not found

Issue - State: closed - Opened by romeopenheiro over 2 years ago - 10 comments
Labels: bug

#190 - update snakebids dependency

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: maintenance

#189 - fixes group-level analysis

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: bug

#188 - group-level analysis broken

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

#187 - change --nnunet-disable-tta to --nnunet-enable-tta

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: bug

#186 - Freesurfer atlas

Pull Request - State: closed - Opened by akhanf over 2 years ago - 4 comments
Labels: enhancement

#185 - test-time augmentation actually disabled by default

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

#184 - expose crop_native_box as a config and CLI variable

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

#183 - doc updates

Pull Request - State: closed - Opened by akhanf over 2 years ago - 2 comments
Labels: documentation

#182 - Total Intracranial volume estimates

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

#181 - update release drafter

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: maintenance

#180 - bugfix for warps hemi-L

Pull Request - State: closed - Opened by jordandekraker over 2 years ago - 8 comments
Labels: bug

#179 - added myelin map to docs

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: documentation

#178 - added rule to summarize surf metrics over subfields

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

#177 - adds missing output space default

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: maintenance

#176 - Custom atlas

Pull Request - State: closed - Opened by akhanf over 2 years ago - 10 comments
Labels: enhancement, breaking

#175 - CI updates, remove circleci, use github actions to build/push to dockerhub

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: maintenance

#174 - simplified outputs by concatenating label-hipp/dentate

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

#173 - error with tempmodel/nnUNet

Issue - State: closed - Opened by sheyma over 2 years ago - 8 comments

#172 - myelin mapping (T1w/T2w)

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

#171 - add better support for conda

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

#170 - added details about downloading models

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: documentation

#169 - Updates to Docs with environment management tips

Pull Request - State: closed - Opened by jordandekraker over 2 years ago - 1 comment
Labels: documentation

#168 - hippunfold simple use case returns error

Issue - State: closed - Opened by sheyma over 2 years ago - 20 comments

#167 - upgrade to autotop_deps v0.4.2 - python 3.9

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: maintenance

#166 - fixes to get group analysis_level working again

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: bug

#165 - error in rule run_inference

Issue - State: closed - Opened by x-avent over 2 years ago - 7 comments

#164 - singularity run not working

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

#163 - replace pypi badge with github version tag

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: documentation

#162 - pypi deploy too large (>100MB)

Issue - State: closed - Opened by akhanf over 2 years ago - 1 comment
Labels: maintenance

#161 - updates to add imagemagick and graphviz

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: bug

#160 - added logging

Pull Request - State: closed - Opened by akhanf over 2 years ago - 1 comment
Labels: maintenance

#159 - allowing qc to use corobl

Pull Request - State: closed - Opened by jordandekraker over 2 years ago - 2 comments
Labels: bug

#158 - qc for modality cropseg missing files

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

#157 - quick patch to prevent source config file from being modified

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: bug

#156 - bug when executing singularity container for hippunfold

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

#155 - output refactoring, removed datatype=seg folders, added coords, warps

Pull Request - State: closed - Opened by akhanf over 2 years ago - 12 comments
Labels: maintenance

#154 - version number

Issue - State: closed - Opened by akhanf over 2 years ago - 1 comment
Labels: maintenance

#153 - workflow updates to allow T2w without T1w

Pull Request - State: closed - Opened by akhanf over 2 years ago - 13 comments
Labels: enhancement

#152 - patch for skip_templateshape

Pull Request - State: closed - Opened by jordandekraker over 2 years ago
Labels: bug

#151 - simple version for non-contributors

Pull Request - State: closed - Opened by jordandekraker over 2 years ago - 5 comments
Labels: documentation

#150 - Docs from RST to Markdown

Pull Request - State: closed - Opened by akhanf over 2 years ago - 3 comments
Labels: documentation

#149 - add generate dags github workflow

Pull Request - State: closed - Opened by akhanf over 2 years ago
Labels: maintenance

#139 - update readme with contributing instructions

Pull Request - State: closed - Opened by akhanf almost 3 years ago - 12 comments
Labels: documentation

#127 - renaming/refactoring output directories

Issue - State: closed - Opened by akhanf almost 3 years ago - 4 comments

#122 - installation dependencies

Issue - State: closed - Opened by sheyma almost 3 years ago - 1 comment

#121 - updates for snakebids 0.4.0

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

#80 - filter and path confusion

Issue - State: closed - Opened by jordandekraker about 3 years ago - 4 comments

#79 - template surfaces on zenodo

Issue - State: closed - Opened by jordandekraker about 3 years ago - 4 comments

#67 - Update readme.md

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

#65 - documentation for installation & usage

Issue - State: closed - Opened by jordandekraker over 3 years ago - 1 comment

#43 - graddev integration

Pull Request - State: closed - Opened by akhanf over 3 years ago - 4 comments
Labels: enhancement, wontfix

#40 - Laplace gradient not same domain as grey matter labels

Issue - State: closed - Opened by jordandekraker over 3 years ago - 1 comment

#6 - Documentation for extended projects

Issue - State: open - Opened by jordandekraker almost 4 years ago
Labels: documentation

GitHub / khanlab/hippunfold issues and pull requests