FIX: Merge/SplitSeries write to path of input image, instead of cwd #503
Conversation
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Addresses an oversight in #489 .
|
Best reviewed: commit by commit
Optimal code review plan (1 warning)
|
Codecov Report
@@ Coverage Diff @@
## master #503 +/- ##
=======================================
Coverage 63.29% 63.29%
=======================================
Files 43 43
Lines 5176 5176
Branches 753 753
=======================================
Hits 3276 3276
Misses 1745 1745
Partials 155 155
Continue to review full report at Codecov.
|
mgxd
approved these changes
Apr 22, 2020
4 tasks
oesteban
added a commit
to oesteban/dmriprep
that referenced
this pull request
Apr 22, 2020
Adds a new subworkflow based on FSL TOPUP to integrate SD estimation for the ds001771 dataset. - [x] Pin niworkflows to current master (while I release 1.2.0rc5 containing nipreps/niworkflows#503, nipreps/niworkflows#504, which are used here). - [x] Create a new sdc estimation workflow, with the expectation of upstreaming it to SDCFlows. - [x] Implement the barebones of how nipreps/sdcflows#101 could look like. Also to be upstreamed to SDCFlows when mature. - [x] Stick TOPUP from FSL 6.0.3 in the Docker image, since topup from FSL 5.0.x is really unstable (for instance, it fails with a segmentation fault on the workflow of ds001771) Resolves: nipreps#92
oesteban
added a commit
to oesteban/dmriprep
that referenced
this pull request
May 5, 2020
Adds a new subworkflow based on FSL TOPUP to integrate SD estimation for the ds001771 dataset. - [x] Pin niworkflows to current master (while I release 1.2.0rc5 containing nipreps/niworkflows#503, nipreps/niworkflows#504, which are used here). - [x] Create a new sdc estimation workflow, with the expectation of upstreaming it to SDCFlows. - [x] Implement the barebones of how nipreps/sdcflows#101 could look like. Also to be upstreamed to SDCFlows when mature. - [x] Stick TOPUP from FSL 6.0.3 in the Docker image, since topup from FSL 5.0.x is really unstable (for instance, it fails with a segmentation fault on the workflow of ds001771) Resolves: nipreps#92
oesteban
added a commit
to oesteban/dmriprep
that referenced
this pull request
Jun 2, 2020
Adds a new subworkflow based on FSL TOPUP to integrate SD estimation for the ds001771 dataset. - [x] Pin niworkflows to current master (while I release 1.2.0rc5 containing nipreps/niworkflows#503, nipreps/niworkflows#504, which are used here). - [x] Create a new sdc estimation workflow, with the expectation of upstreaming it to SDCFlows. - [x] Implement the barebones of how nipreps/sdcflows#101 could look like. Also to be upstreamed to SDCFlows when mature. - [x] Stick TOPUP from FSL 6.0.3 in the Docker image, since topup from FSL 5.0.x is really unstable (for instance, it fails with a segmentation fault on the workflow of ds001771) Resolves: nipreps#92
oesteban
added a commit
to oesteban/dmriprep
that referenced
this pull request
Jun 2, 2020
Adds a new subworkflow based on FSL TOPUP to integrate SD estimation for the ds001771 dataset. - [x] Pin niworkflows to current master (while I release 1.2.0rc5 containing nipreps/niworkflows#503, nipreps/niworkflows#504, which are used here). - [x] Create a new sdc estimation workflow, with the expectation of upstreaming it to SDCFlows. - [x] Implement the barebones of how nipreps/sdcflows#101 could look like. Also to be upstreamed to SDCFlows when mature. - [x] Stick TOPUP from FSL 6.0.3 in the Docker image, since topup from FSL 5.0.x is really unstable (for instance, it fails with a segmentation fault on the workflow of ds001771) Resolves: nipreps#92
oesteban
added a commit
to oesteban/dmriprep
that referenced
this pull request
Jun 2, 2020
Adds a new subworkflow based on FSL TOPUP to integrate SD estimation for the ds001771 dataset. - [x] Pin niworkflows to current master (while I release 1.2.0rc5 containing nipreps/niworkflows#503, nipreps/niworkflows#504, which are used here). - [x] Create a new sdc estimation workflow, with the expectation of upstreaming it to SDCFlows. - [x] Implement the barebones of how nipreps/sdcflows#101 could look like. Also to be upstreamed to SDCFlows when mature. - [x] Stick TOPUP from FSL 6.0.3 in the Docker image, since topup from FSL 5.0.x is really unstable (for instance, it fails with a segmentation fault on the workflow of ds001771) Resolves: nipreps#92
oesteban
added a commit
to oesteban/dmriprep
that referenced
this pull request
Jun 2, 2020
Adds a new subworkflow based on FSL TOPUP to integrate SD estimation for the ds001771 dataset. - [x] Pin niworkflows to current master (while I release 1.2.0rc5 containing nipreps/niworkflows#503, nipreps/niworkflows#504, which are used here). - [x] Create a new sdc estimation workflow, with the expectation of upstreaming it to SDCFlows. - [x] Implement the barebones of how nipreps/sdcflows#101 could look like. Also to be upstreamed to SDCFlows when mature. - [x] Stick TOPUP from FSL 6.0.3 in the Docker image, since topup from FSL 5.0.x is really unstable (for instance, it fails with a segmentation fault on the workflow of ds001771) Resolves: nipreps#92
oesteban
added a commit
to oesteban/dmriprep
that referenced
this pull request
Jun 2, 2020
Adds a new subworkflow based on FSL TOPUP to integrate SD estimation for the ds001771 dataset. - [x] Pin niworkflows to current master (while I release 1.2.0rc5 containing nipreps/niworkflows#503, nipreps/niworkflows#504, which are used here). - [x] Create a new sdc estimation workflow, with the expectation of upstreaming it to SDCFlows. - [x] Implement the barebones of how nipreps/sdcflows#101 could look like. Also to be upstreamed to SDCFlows when mature. - [x] Stick TOPUP from FSL 6.0.3 in the Docker image, since topup from FSL 5.0.x is really unstable (for instance, it fails with a segmentation fault on the workflow of ds001771) Resolves: nipreps#92
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
Addresses an oversight in #489 .