Commits · e7341f6503e353201217ba845aa842da8a1877ea · Michiel Cottaar / fslpy · GitLab

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Mar 29, 2020
- BF: Image creation does not fail if a sidecar file with invalid JSON is · e7341f65
  Paul McCarthy authored 4 years ago
  
  present
  e7341f65
Mar 28, 2020
- MNT: pre-release version bump · dcdaa020
  Paul McCarthy authored 4 years ago
  
  dcdaa020
- MNT: Aah. Remove all the deprecated things. · 630b9e1a
  Paul McCarthy authored 4 years ago
  
  630b9e1a
- RF: Loaded wrapper outputs are named sensibly when possible · c53e6122
  Paul McCarthy authored 4 years ago
  
  c53e6122
- RF: make FileOrThing+Results classes "public:, for type testing · 96736732
  Paul McCarthy authored 4 years ago
  
  96736732
- RF: make option dicts class attributes · 346147da
  Paul McCarthy authored 4 years ago
  
  346147da
Mar 27, 2020
- RF: Handle -t/-K for 3D images/single label · 6e91d3fb
  Paul McCarthy authored 4 years ago
  
  6e91d3fb
- RF: Hook to get the raw output, for testing · 195cb21f
  Paul McCarthy authored 4 years ago
  
  195cb21f
- RF: fslstats returns a numpy array instead of lists · 17e02232
  Paul McCarthy authored 4 years ago
  
  17e02232
- DOC: fslstats example · c383e2d3
  Paul McCarthy authored 4 years ago
  
  c383e2d3
- ENH: fslstats wrapper. Needs tweaking/testing · d1ed8be7
  Paul McCarthy authored 4 years ago
  
  d1ed8be7
- RF: Allow passing log=None · 2fce4822
  Paul McCarthy authored 4 years ago
  
  2fce4822
- REF: set partial_fill to False again · 2211bbd6
  Michiel Cottaar authored 4 years ago
  
  Still using `partial_fill` when creating FileTreeQuery
  2211bbd6
- BUG: produce prettier JSON · 998165d7
  Michiel Cottaar authored 4 years ago
  
  998165d7
- BF: Minor fixes · e7c48926
  Paul McCarthy authored 4 years ago
  
  e7c48926
- ENH: I/O to of filetree to JSON files · 4147343d
  Michiel Cottaar authored 4 years ago
  
  Added test for I/O to both JSON and pickle files
  4147343d
Mar 26, 2020
- BUG: open output pickle file as writable · 833be15c
  Michiel Cottaar authored 4 years ago
  
  833be15c
- BUG: Make SubmitParams compatible with existing code · c1a2c2e5
  Michiel Cottaar authored 4 years ago
  
  Also added test for add_to_parser
  c1a2c2e5
- Copied in SubmitParams from mcutils · 651cd844
  Michiel Cottaar authored 5 years ago
  
  651cd844
Mar 24, 2020
- BF: DeformationField.transform works with single set of coords · 23ff16c8
  Paul McCarthy authored 5 years ago
  
  23ff16c8
- ENH: applyDeformation accepts a premat option · 0f391b2e
  Paul McCarthy authored 5 years ago
  
  0f391b2e
Mar 20, 2020
- BF: fix wait for single jobid string, make info ignore non-conformant lines · 4866ec80
  Paul McCarthy authored 5 years ago
  
  4866ec80
- BF: qstat -j returns non-0 code for non-existent job · 884c3473
  Paul McCarthy authored 5 years ago
  
  884c3473
- RF,ENH: run(submit) args can be passed as a dict or as kwargs. submit accepts · 8d948830
  Paul McCarthy authored 5 years ago
  
  env option
  8d948830
- BF: fixes to info function · f50ff414
  Paul McCarthy authored 5 years ago
  
  f50ff414
Mar 19, 2020
- RF: runfsl errors on non-FSL commands · cc5d6ffc
  Paul McCarthy authored 5 years ago
  
  cc5d6ffc
- RF: run function now passes all extra kwargs through to sp.Popen · 184dd60f
  Paul McCarthy authored 5 years ago
  
  184dd60f
Mar 18, 2020
- DOC: typo · 744d2475
  Paul McCarthy authored 5 years ago
  
  744d2475
- RF: update docs, remove unnecessary try:except (setattr accepts invalid identifiers) · 9efdc615
  Paul McCarthy authored 5 years ago
  
  9efdc615
- RF/BF: Update fileOrText decorator to work with input files - they must be · aac90673
  Paul McCarthy authored 5 years ago
  
  specified as pathlib.Path objects, so they can be differentiated from input values.
  aac90673
- RF/ENH: Wrapper outputs are now accessible as attributes in addition to dict · e48be57c
  Paul McCarthy authored 5 years ago
  
  items (where possible). Result standard output renamed from "output" to "stdout".
  e48be57c
- ENH: new applyxfm4D wrapper · d2f522f6
  Paul McCarthy authored 5 years ago
  
  d2f522f6
- DOC: listen to sphinx warnings · b362fae5
  Paul McCarthy authored 5 years ago
  
  b362fae5
- RF: FileOrThing passes-through if submit=True, and errors if in-memory or LOAD · 4026cbba
  Paul McCarthy authored 5 years ago
  
  is used in conjunction with submit=True
  4026cbba
- ENH: new prelude wrapper · 60ca36b2
  Paul McCarthy authored 5 years ago
  
  60ca36b2
- RF: prepareArgs should use shlex · d7c678c3
  Paul McCarthy authored 5 years ago
  
  d7c678c3
- RF,ENH: Rewrite gifti.relatedFiles to support BIDS-style naming conventions · 8bbff876
  Paul McCarthy authored 5 years ago
  
  8bbff876
- ENH: BIDSFile.match option to disable suffix match · 87844728
  Paul McCarthy authored 5 years ago
  
  87844728
- RF: bids module updated to support files with any extension. · 23c46fa1
  Paul McCarthy authored 5 years ago
  
  23c46fa1
- ENH: new "firstDot" option to addget/remove/splitExt, for general · a35946ea
  Paul McCarthy authored 5 years ago
  
  double-barrelled filename support (but not HCP files :( )
  a35946ea