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@Remi-Gau Remi-Gau released this 27 Jan 12:46
v0.1.0
ca89d72

What's Changed

  • Bids report by @Remi-Gau in #1
  • small fix in a filter that skipped json files when they were in the root folder by @Remi-Gau in #8
  • Readme update: Add converter and viewer by @tanguyduval in #13
  • [WIP] Unit tests - read metadata by @Remi-Gau in #10
  • Query by @tanguyduval in #12
  • multi file datasets (such as BrainVision) should be represented as a single dataset, not multiple by @robertoostenveld in #14
  • Add some extra comments to better explain each function by @Remi-Gau in #21
  • More detailed error messages by @apjanke in #30
  • gitignore: ignore local copy of bids-examples by @apjanke in #31
  • util.tsvread: Make it a recursive call to self by @apjanke in #33
  • util: Support jsonencode/jsondecode as regular functions by @apjanke in #24
  • Include QUERY in the H1 line for query's helptext by @apjanke in #29
  • Make function helptext more concise with a +bids/Contents.m by @apjanke in #32
  • README: Document requirements by @apjanke in #36
  • Handle non-standard-format metadata JSON files by @apjanke in #37
  • Doc: Typo fixes in comments and helptext by @apjanke in #38
  • Refactoring and renaming by @Remi-Gau in #41
  • Create a tsvwrite function by @Remi-Gau in #40
  • Tolerant option for bids.layout by @tanguyduval in #11
  • docs: add gllmflndn as a contributor by @allcontributors in #52
  • docs: add Remi-Gau as a contributor by @allcontributors in #53
  • docs: add apjanke as a contributor by @allcontributors in #54
  • docs: add tanguyduval as a contributor by @allcontributors in #55
  • docs: add robertoostenveld as a contributor by @allcontributors in #56
  • Fix or suppress M-lint code inspection warnings by @Remi-Gau in #57
  • Move +bids/private stuff to +bids/+internal? by @apjanke in #25
  • [INFRA] Use Ubuntu Focal 20.04 in Travis tests by @gllmflndn in #72
  • [FIX] Filter subjects and sessions when querying modalities (issue #65) by @gllmflndn in #71
  • [FIX] fix writing nan issues when dealing with arrays by @Remi-Gau in #74
  • Add Brainstorm to README by @cMadan in #62
  • add code of conduct from bids-specs by @Remi-Gau in #80
  • [INFRA] set up miss_hit linter config and github action by @Remi-Gau in #58
  • Add tsvwrite to documentation by @gllmflndn in #85
  • miss_hit.cfg: define project_root by @apjanke in #87
  • docs: add apjanke as a contributor by @allcontributors in #88
  • README: fix MISS_HIT name styling by @apjanke in #89
  • Add .editorconfig? by @apjanke in #86
  • docs: add apjanke as a contributor by @allcontributors in #90
  • docs: add cMadan as a contributor by @allcontributors in #91
  • docs: add guiomar as a contributor by @allcontributors in #93
  • Skip datasets when labelled as non-conformant by @gllmflndn in #94
  • [DOC] Describe what bids-matlab can and cannot do by @Remi-Gau in #84
  • apply MISS_HIT linter across the board by @Remi-Gau in #95
  • Decision making & contributing by @Remi-Gau in #81
  • [FIX] add "dir" to the list of func entities by @Remi-Gau in #99
  • [INFRA] Customize code suggestions & completions by adding a functionSignatures file by @mslw in #42
  • docs: add mslw as a contributor by @allcontributors in #106
  • [INFRA] conversion BIDS schema to json by @Remi-Gau in #101
  • Changes by create-pull-request action by @github-actions in #110
  • [INFRA] run tests with github action by @Remi-Gau in #100
  • [INFRA] switch to moxunit for tests by @Remi-Gau in #108
  • refactoring and linting by @Remi-Gau in #109
  • [ENH] update schema - changes by create-pull-request action by @github-actions in #119
  • Changes by create-pull-request action by @github-actions in #120
  • Changes by create-pull-request action by @github-actions in #125
  • Changes by create-pull-request action by @github-actions in #128
  • Feature #asl bids by @HenkMutsaerts in #127
  • [MISC] refactor and add tests for layout asl by @Remi-Gau in #132
  • docs: add HenkMutsaerts as a contributor by @allcontributors in #135
  • Changes by create-pull-request action by @github-actions in #136
  • Changes by create-pull-request action by @github-actions in #138
  • docs: add nbeliy as a contributor by @allcontributors in #139
  • [ENH] implement bids-schema - part 1 by @Remi-Gau in #124
  • [ENH] schemaless layout indexes json files by @Remi-Gau in #147
  • [ENH] add possibility to query for (and filter queries with) extensions by @Remi-Gau in #150
  • [ENH] improve management of "intended_for" by @Remi-Gau in #151
  • [ENH] update fieldname m0 scan estimate by @Remi-Gau in #149
  • docs: add mnoergaard as a contributor by @allcontributors in #158
  • docs: add nbeliy as a contributor by @allcontributors in #159
  • Bug in file_utils by @nbeliy in #166
  • [HOT FIX] fixed bug in file_utils by @Remi-Gau in #168
  • [HOT FIX] implement hot fix for tsv write by @Remi-Gau in #170
  • [ENH] schema-less indexing collects files prefix that can be returned / filtered by query by @Remi-Gau in #154
  • [HOT FIX] implement hot fix for tsv write by @Remi-Gau in #173
  • [INFRA] BIDS schema update by @Remi-Gau in #180
  • [INFRA] remove obsolete schema files by @Remi-Gau in #181
  • [FIX] lower priority to use SPM function to deal with json files by @Remi-Gau in #178
  • Changes by create-pull-request action by @github-actions in #188
  • [DOC] update instructions to run the tests by @Remi-Gau in #183
  • [ENH] index sessions.tsv and scans.tsv by @Remi-Gau in #182
  • [FIX] default pattern of get_metada expects suffixes to be preceded by underscore by @Remi-Gau in #179
  • [FIX] default pattern of get_metada expects suffixes to be preceded by underscore by @Remi-Gau in #189
  • Changes by create-pull-request action by @github-actions in #191
  • Changes by create-pull-request action by @github-actions in #193
  • [FIX] ensures that metadata file have the same prefix as the queried file by @Remi-Gau in #195
  • [DOC] update install isntructions in README by @Remi-Gau in #197
  • [INFRA] update miss_hit version and add pre-commit hook by @Remi-Gau in #198
  • [WIP] Function to copy derivatives by @Remi-Gau in #171
  • [FIX] fix and refactor report by @Remi-Gau in #206
  • [Fix] fix issues when parsing prefix and ordering entities after parsing filename by @Remi-Gau in #210
  • [FIX] fix bugs in copy to derivatives by @Remi-Gau in #207
  • [FIX] return empty output of append to layout when failing to parse using schema by @Remi-Gau in #212
  • [INFRA] remove unnecessary tsv files in test folder by @Remi-Gau in #216
  • [INFRA] remove unnecessary tsv files in test folder by @Remi-Gau in #217
  • [INFRA] add copyright checks from miss_hit by @Remi-Gau in #218
  • Changes by create-pull-request action by @github-actions in #220
  • [ENH] implement input parser for copy_to_derivatives by @Remi-Gau in #221
  • [ENH] copy participants, sessions, scans TSV to derivatives by @Remi-Gau in #222
  • [ENH] add basic function to generate and update dataset_description by @Remi-Gau in #184
  • [ENH] add basic filename, path and derivatives JSON creation by @Remi-Gau in #203
  • [ENH] add basic capabilities to initialize a dataset by @Remi-Gau in #224
  • [REF] refactor schema functions into a class by @Remi-Gau in #225
  • [INFRA] fix CI by @Remi-Gau in #227
  • [DOC] set up sphinx and read the docs by @Remi-Gau in #229
  • Refactor report and update doc, jupyter notebook, binder by @Remi-Gau in #230
  • Update binder and jupyter notebooks by @Remi-Gau in #231
  • Refactoring by @Remi-Gau in #232
  • [FIX] files with missing required entities, unknown entities or extensions are skipped when using layout with schema by @Remi-Gau in #237
  • Refactor error and warning handling by @Remi-Gau in #239
  • [ENH] Index nested derivatives by @Remi-Gau in #240
  • [FIX] copy to derivatives for windows by @Remi-Gau in #242
  • [FIX] typos in filename function by @Remi-Gau in #246
  • [FIX] fix bug in create filename when entities is missing by @Remi-Gau in #247
  • Speed up dependencies indexing by @Remi-Gau in #243
  • Dev - jsonwrite by default by @CPernet in #249
  • docs: add CPernet as a contributor for code, ideas by @allcontributors in #251
  • Changes by create-pull-request action by @github-actions in #253
  • Changes by create-pull-request action by @github-actions in #254
  • Changes by create-pull-request action by @github-actions in #255
  • [FIX] enforce valid fieldnames in schema content and skip schema metadata loading by default by @Remi-Gau in #256
  • [FIX] update bids init related functions to more BIDS compliant default output by @Remi-Gau in #257
  • Changes by create-pull-request action by @github-actions in #260
  • [FIX] allows filtering with entities for query than "data" by @Remi-Gau in #259
  • [ENH] Index tsv and json files in root folder by @Remi-Gau in #261
  • add error message to parse_filename by @Remi-Gau in #264
  • Improve bids.init by @Remi-Gau in #263
  • Changes by create-pull-request action by @github-actions in #266
  • [DOC] add matlab exchange badge in README by @Remi-Gau in #270
  • [DOC] General update of the sphinx doc by @Remi-Gau in #269
  • [ENH] improves constructors for schema and dataset description by @Remi-Gau in #271
  • Added treatment of bids-incomatible files in dataset by @nbeliy in #268
  • [ENH] refactor create_filename and create_path into a bids.File class by @Remi-Gau in #273
  • [ENH] update Schema class to new schema structure by @Remi-Gau in #285
  • [INFRA] implement matlab github action by @Remi-Gau in #201
  • [INFRA] silence codecov by @Remi-Gau in #290
  • [ENH] Improve bids.query by @Remi-Gau in #286
  • Changes by create-pull-request action by @github-actions in #291
  • [ENH] fix and improve bids.report by @Remi-Gau in #280
  • [TEST] add test for copying to derivatives with an exclude filter by @Remi-Gau in #292
  • Changes by create-pull-request action by @github-actions in #296
  • Changes by create-pull-request action by @github-actions in #297
  • Changes by create-pull-request action by @github-actions in #299
  • Improvement of File.m interface by @nbeliy in #289
  • Changes by create-pull-request action by @github-actions in #301
  • [FIX] fix the regex when querying subjects by @Remi-Gau in #295
  • docs: add ChristophePhillips as a contributor for ideas by @allcontributors in #303
  • [INFRA] add CITATION.cff file by @Remi-Gau in #284
  • [ENH] update and standardize API by @Remi-Gau in #305
  • [ENH] do not index json with bids.layout by @Remi-Gau in #307
  • [ENH] make bids.query return list of availables labels for some common derivative entities by @Remi-Gau in #308
  • [ENH] validate entity keys provided when using BIDS schema to create filenames by @Remi-Gau in #309
  • [INFRA] test for matlab octave difference by @Remi-Gau in #310
  • [INFRA] fix failing tests on windows by @Remi-Gau in #311
  • Changes by create-pull-request action by @github-actions in #312
  • [ENH] add support for microscoy by @Remi-Gau in #315
  • Changes by create-pull-request action by @github-actions in #317
  • [REL] rc0.1.0 by @Remi-Gau in #287

New Contributors

Full Changelog: https://github.com/bids-standard/bids-matlab/commits/v0.1.0

Contributors

robertoostenveld, apjanke, and 9 other contributors
Assets 2
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