fiuneuro cis-bidsify issues

fiuneuro / cis-bidsify

Tools for Singularity- and heudiconv-based BIDSification and anonymization of MRI data optimized for the FIU HPC.

Apache License 2.0

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issues

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[DOC] Added detailed usage description to argparser help

#62 akimbler closed 4 years ago
0
[STY] Apply 'black' style to all modules.

#61 akimbler closed 4 years ago
0
[FIX] Fix Issue in 'tempdir' cleaning, defacing of symlinked files

#60 akimbler closed 4 years ago
2
'clean_tempdirs' looking for directories that are no longer present in current workflow structure

#59 akimbler closed 4 years ago
1
Consider splitting post-processing from heudiconv

#58 tsalo opened 4 years ago
4
Defacing seems to not be working

#57 tsalo closed 4 years ago
3
Possible race condition during git global variable setting

#56 tsalo opened 4 years ago
2
Temporary directory management needs fixing

#55 tsalo closed 4 years ago
0
Check if Singularity argument pwd works

#54 tsalo opened 4 years ago
1
[REF] Move BIDS validator to end of workflow

#53 tsalo closed 4 years ago
0
[REF] Simplify (hopefully) Dockerfile and add tmpdir var

#52 tsalo closed 4 years ago
0
Validator error in Singularity

#51 tsalo opened 4 years ago
1
[FIX] CWD and permission issues

#50 tsalo closed 4 years ago
0
Change directory into working directory before calling heudiconv

#49 tsalo closed 4 years ago
0
Permission error with jsons during metadata completion

#48 tsalo closed 4 years ago
1
[FIX] Fix absolute path issue

#47 tsalo closed 4 years ago
0
Absolute path error at defacing stage

#46 tsalo closed 4 years ago
0
[FIX] Fix bids_options again

#45 tsalo closed 4 years ago
0
[FIX] Fix heudiconv options

#44 tsalo closed 4 years ago
0
[FIX] Use session in heudiconv call

#43 tsalo closed 4 years ago
0
[FIX] Fix path handling

#42 tsalo closed 4 years ago
0
[FIX] Try to fix pathlib issues

#41 tsalo closed 4 years ago
0
[FIX] Convert heudiconv arguments to strings

#40 tsalo closed 4 years ago
0
[FIX] Convert subject to list before heudiconv call

#39 tsalo closed 4 years ago
0
[FIX] Treat heuristic as a string, not a Path

#38 tsalo closed 4 years ago
0
[FIX] Use heudiconv fork temporarily

#37 tsalo closed 4 years ago
0
[FIX] Fix argparser construction

#36 tsalo closed 4 years ago
0
[REF] Simplify workflow

#35 tsalo closed 4 years ago
2
Add entrypoints for dataset-merging

#34 tsalo closed 4 years ago
1
Check datalad installation within image

#33 tsalo closed 4 years ago
1
[REF] Heuristics -> heuristic

#32 tsalo closed 4 years ago
0
[REF] Sort participants file by 'participant_id', prevent creation of garbage columns

#31 akimbler closed 4 years ago
0
Switch defacing to pydeface

#30 tsalo closed 4 years ago
1
Save/retain face mask

#29 tsalo opened 4 years ago
0
Change heuristics to heuristic

#28 tsalo closed 4 years ago
0
[FIX] Fixed build issue

#27 akimbler closed 4 years ago
0
[STY] Switched to F-strings

#26 akimbler closed 4 years ago
2
[STY] Change to f-strings and cleanup setup files

#25 akimbler closed 4 years ago
0
Transient error in 'mri_deface' results in full crashout

#24 akimbler closed 4 years ago
1
Sort 'participants.tsv' by 'participant_id' and clean outputs if multiple sessions appear

#23 akimbler closed 4 years ago
0
[MAINT] Change bidsutils dependency

#22 tsalo closed 4 years ago
0
[DOC] Add badges

#21 tsalo closed 4 years ago
0
[TST] Add CircleCI config

#20 tsalo closed 4 years ago
0
Structure changes for 0.0.3 release

#19 akimbler closed 4 years ago
0
[REF] Convert to Python package

#18 tsalo closed 4 years ago
1
Reorganize into package and make bidsify.py official CLI

#17 tsalo closed 4 years ago
0
Move utility functions to bidsutils

#16 tsalo closed 4 years ago
0
Add Examples and Documentation

#15 akimbler opened 4 years ago
2
New version for new heudiconv

#14 tsalo closed 4 years ago
0
[REF] Convert to pure Python

#13 tsalo closed 4 years ago
6