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Code Issues 14 Pull requests 2 Packages Activity Actions

[ENH]: Add support for FreeSurfer via Docker #342

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synchon merged 5 commits from feat/docker-freesurfer-support into main 2024-05-14 13:15:40 +00:00
Conversation 5 Commits 5 Files changed 9 +197 -1
synchon commented 2024-05-14 11:32:45 +00:00 (Migrated from github.com)
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  • description of feature/fix
  • tests added/passed
  • add an entry for the latest changes

This PR adds support for accessing FreeSurfer via Docker wrapper similar to AFNI, FSL and ANTs. Also adds a few FreeSurfer commands which will be used in junifer.

* [x] description of feature/fix * [x] tests added/passed * [x] add an entry for the latest changes This PR adds support for accessing FreeSurfer via Docker wrapper similar to AFNI, FSL and ANTs. Also adds a few FreeSurfer commands which will be used in junifer.
codecov[bot] commented 2024-05-14 11:34:11 +00:00 (Migrated from github.com)
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Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 100.00%. Comparing base (783bc1f) to head (b7656a7).

Additional details and impacted files

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@@            Coverage Diff            @@
##              main      #342   +/-   ##
=========================================
  Coverage   100.00%   100.00%           
=========================================
  Files            1         1           
  Lines            1         1           
=========================================
  Hits             1         1
Flag Coverage Δ
docs 100.00% <ø> (ø)

Flags with carried forward coverage won't be shown. Click here to find out more.

## [Codecov](https://app.codecov.io/gh/juaml/junifer/pull/342?dropdown=coverage&src=pr&el=h1&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=juaml) Report All modified and coverable lines are covered by tests :white_check_mark: > Project coverage is 100.00%. Comparing base [(`783bc1f`)](https://app.codecov.io/gh/juaml/junifer/commit/783bc1f46428bf517888642166532a257b039bb3?dropdown=coverage&el=desc&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=juaml) to head [(`b7656a7`)](https://app.codecov.io/gh/juaml/junifer/pull/342?dropdown=coverage&src=pr&el=desc&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=juaml). <details><summary>Additional details and impacted files</summary> [![Impacted file tree graph](https://app.codecov.io/gh/juaml/junifer/pull/342/graphs/tree.svg?width=650&height=150&src=pr&token=5H21JuZXMw&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=juaml)](https://app.codecov.io/gh/juaml/junifer/pull/342?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=juaml) ```diff @@ Coverage Diff @@ ## main #342 +/- ## ========================================= Coverage 100.00% 100.00% ========================================= Files 1 1 Lines 1 1 ========================================= Hits 1 1 ``` | [Flag](https://app.codecov.io/gh/juaml/junifer/pull/342/flags?src=pr&el=flags&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=juaml) | Coverage Δ | | |---|---|---| | [docs](https://app.codecov.io/gh/juaml/junifer/pull/342/flags?src=pr&el=flag&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=juaml) | `100.00% <ø> (ø)` | | Flags with carried forward coverage won't be shown. [Click here](https://docs.codecov.io/docs/carryforward-flags?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=juaml#carryforward-flags-in-the-pull-request-comment) to find out more. </details>
github-actions[bot] commented 2024-05-14 12:09:59 +00:00 (Migrated from github.com)
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PR Preview Action v1.4.7
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2024-05-14 13:35 UTC
[PR Preview Action](https://github.com/rossjrw/pr-preview-action) v1.4.7 :---: Preview removed because the pull request was closed. 2024-05-14 13:35 UTC <!-- Sticky Pull Request Commentpr-preview -->
fraimondo (Migrated from github.com) reviewed 2024-05-14 13:14:10 +00:00
junifer/api/res/freesurfer/run_freesurfer_docker.sh
@ -0,0 +4,4 @@
docker_args=()
mounts=0
FS_LICENSE="${FS_LICENSE:=$HOME/freesurfer_license.txt}"
fraimondo (Migrated from github.com) commented 2024-05-14 13:14:10 +00:00
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I see what you did here :P

I see what you did here :P
fraimondo (Migrated from github.com) approved these changes 2024-05-14 13:14:26 +00:00
synchon (Migrated from github.com) reviewed 2024-05-14 13:15:14 +00:00
junifer/api/res/freesurfer/run_freesurfer_docker.sh
@ -0,0 +4,4 @@
docker_args=()
mounts=0
FS_LICENSE="${FS_LICENSE:=$HOME/freesurfer_license.txt}"
synchon (Migrated from github.com) commented 2024-05-14 13:15:14 +00:00
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lol :P

lol :P
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