Releases: scitran-apps/freesurfer-recon-all
Releases · scitran-apps/freesurfer-recon-all
0.4.1_6.0.1
This release has one change
- Update the Dockerfile to use
FROM ubuntu:xenial
instead ofFROM ubuntu:trusty
- Ensures that Python 2.7.12 is used instead of Python 2.7.6
- Gives Freesurfer recon-all the python urllib3 (1.25.9) and requests (2.23.0) packages that works with Flywheel >= v12.0.0
- All top level files are shown to be exactly the same (md5 hash)
- Differences in the archive are primarily due to datestring differences between runs
0.3.1_6.0.1
UPDATES
- Upgrade FreeSurfer to v6.0.1
0.3.0
0.2.0
NEW
- #16 Allows for previous output of freesurfer-recon-all gear to be used as input **, which allows a user to make some modifications, create a zip containing those modifications, and run the next stage in the processing pipeline using that zip as input***.
- Simplified license configuration. Now the key
freesurfer_license
can accept the license file contents, which means the user can simply copy/paste the license file content to this single field.
USAGE NOTES
** A freesurfer-recon-all gear output can be used as input, provided the filename is preserved from its initial output (e.g., freesurfer-recon-all_<subject_code>*.zip
)
*** The exact stage of processing run can be configured by setting the reconall_options
key within the config. For example, if you want to run autorecon3, you can modify the reconall_options
key to -autorecon3
.
0.1.4
0.1.3
v0.1.2
FreeSurfer Recon-All v0.1.1
NEW FEATURES
- None
FIXES
- Issue #8 - spaces in input filenames and subject ids cause recon-all to crash. We now 'de-space' the input filenames and subject ID. Spaces are replaced with an underscore.
FreeSurfer Recon-All v0.1.0
NEW FEATURES
- FreeSurfer version 6.0.0
- DICOM support for input (archive or raw files)
- Matlab Compiler Runtime included (MCRv80) for optional FreeSurfer pipelines
- Configure default FreeSurfer license within
manifest.json
- Hippocampal subfield processing (with results optionally exported to csv)
- Brainstem structure processing (with results optionally exported to csv)
FreeSurfer Recon-All v0.0.2
Add build-time estimate