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Changelog

Unreleased

  • [ENH] Add use of session entity as example of encoding multi-site studies in a single dataset #1803 (yarikoptic)
  • [ENH] Describe Inheritance Principle in Common Principles #1807 (Lestropie)
  • [ENH] Use deidentification consistently in place of anonymization #1799 (DimitriPapadopoulos)
  • [INFRA] Introduce metaschema #1787 (bendichter)
  • [ENH] Add warning about deidentification when sharing sourcedata #1769 (Remi-Gau)
  • ENH: Use "Tag XXXX, YYYY" not "Tag (XXXX,YYYY)" for DICOM Tags #1758 (yarikoptic)
  • [ENH][SCHEMA] Allow .bval and .bvec files for pepolar fmaps #1754 (mattcieslak)
  • FIX: Move \_stim.\<ext\> specification within the Task Events module #1750 (oesteban)
  • ENH: Add compressed TSV files to the common principles #1749 (oesteban)
  • [MAINT] split physio metadata tables #1746 (Remi-Gau)
  • [FIX] Move rawdata/ into sourcedata/raw in alternative structure example, clarify on naming of datasets themselves #1741 (yarikoptic)
  • [FIX] Remove mentions of sourcedata in the datatype specific pages #1737 (Remi-Gau)
  • [ENH] events.tsv should be sorted by onset values #1732 (Remi-Gau)
  • [FIX] fix typo in motion.md #1731 (Remi-Gau)
  • [ENH] Specify the naming of scanner-generated TRACE and ADC volumes #1725 (effigies)
  • FIX: Re-add run entity to electrodes.tsv #1722 (effigies)
  • [FIX] Add misssing files in filename template for NIRS #1716 (Remi-Gau)
  • [FIX] Missing word in genetic-descriptor.md #1715 (markmikkelsen)
  • Add descriptions.tsv to the schema #1707 (tsalo)
  • [FIX] Remove task entity from DWI and PERF time series file templates #1703 (Remi-Gau)
  • ENH: Clarify the relation of motion.tsv columns to channels.tsv rows #1699 (effigies)
  • [STY] apply black 24.1.0 #1688 (Remi-Gau)
  • [ENH] Describe parametric images above the suffix table, rather than below #1687 (CPernet)
  • [ENH] Add support for HiP-CT #1686 (balbasty)
  • [FIX] Add part-<value> to the PEPOLAR fieldmaps #1685 (oesteban)
  • [MISC] Restructure MEG empty room example texts #1677 (guiomar)
  • ENH: Add sample metadata to MRI and PET #1593 (effigies)
  • [ENH] Add noRF suffix for MR excitation-free noise scans #1451 (tsalo)
  • [ENH] Add generic metadata from BEP22 to MRI #1396 (Remi-Gau)
  • [FIX] Consistently refer to Neuromag/Elekta/MEGIN #1310 (sappelhoff)

v1.9.0 (2023-11-20)

  • [ENH] Add descriptions.tsv file relating to the desc-<label> entity #1613 (CPernet)
  • [INFRA] Publish schema tools API docs to additional ReadTheDocs site #1491 (bendhouseart)
  • [ENH] Extend BIDS for Motion data (BEP029) #981 (JuliusWelzel)
  • [FIX] mention phenotype dir in folder structure #1644 (Remi-Gau)
  • [ENH] add ElectricalStimulation and *Parameters metadata to MEEG jsons #1638 (sappelhoff)
  • [FIX] years and degrees Units and unit to be singular to match the rest #1631 (yarikoptic)
  • [FIX] Hierarchical Event Descriptors (HED) page update #1623 (effigies)
  • [FIX] Do not require notch frequencies to be parsed as numbers, accommodating multiples #1605 (effigies)
  • [ENH] Allow Levels field of column descriptions to be objects with TermURLs for each level #1603 (Remi-Gau)
  • [ENH] Add optional low_cutoff and high_cutoff columns for fnirs channels.tsv #1597 (Remi-Gau)
  • [FIX] Recommend SliceTiming if MRAcquisitionType is "2D" #1594 (tsalo)
  • [ENH] Add Level objects to channels.json for motion #1591 (effigies)
  • [ENH] Add "chunk" entity to MRI datatype #1586 (valosekj)
  • [SCHEMA][ENH] Remove atlas entity and replace it with seg in prep of BEP038 #1579 (melanieganz)
  • [FIX] Correct PDw suffix description #1578 (jeremie-fouquet)
  • [FIX] improve longitudinal example #1576 (Remi-Gau)
  • [INFRA] Adds Kim Ray as maintainer. #1571 (arokem)
  • [ENH] Allow for "echo" entity to be used with T1w and other nonparametric anatomical suffixes #1570 (yarikoptic)
  • [FIX] Update templates in modality-agnostic-files #1564 (sappelhoff)
  • [FIX] Clarify that electrodes.tsv is optional for MEG, for use with simultaneous (i)EEG #1555 (effigies)
  • [ENH] Allow UNKNOWN and NONE ContrastBolusIngredients #1547 (Remi-Gau)
  • [FIX] Update links to BIDS examples #1545 (Remi-Gau)
  • [ENH] add schema in appendix #1543 (Remi-Gau)
  • [ENH] add "visual correction" and "head stabilization" metadata #1539 (Remi-Gau)
  • [ENH] Clarify meaning of raw vs derivative datasets #1537 (CPernet)
  • [FIX] match subject label in folder and filename in func example #1536 (Remi-Gau)
  • [FIX] Trail MEG directory formats with / #1534 (effigies)
  • [ENH] Permit CITATION.cff as structured alternative to some dataset_description fields #1525 (effigies)
  • [FIX] Add missing column description in physio example #1514 (sappelhoff)
  • [ENH] Clarify that data files must be uniquely identified by entities/suffix #1508 (sappelhoff)
  • [FIX] Remove references to unspecified aslcontext.json #1485 (Remi-Gau)
  • ENH: Define channel column for events and Delimiter field for column descriptions #1483 (effigies)
  • [FIX] Revert index (entity format) definition to be a non-negative number, permitting zero #1482 (TheChymera)
  • [FIX] Clean up qMRI RB1COR notes #1465 (lukeje)
  • [ENH] Allow fractional seconds in StartTime #1459 (sappelhoff)
  • [MISC] consistently list filename templates; ext --> extension; _photo.jpg --> _photo.<extension> #1458 (sappelhoff)
  • [FIX] Demote sample and value columns in events.tsv from OPTIONAL to arbitrary #1457 (sappelhoff)
  • [ENH] Clarify shape of PDT2 images and recommend acq entity for split PDw/T2w images #1448 (effigies)
  • [ENH] clarify guiding principles for requirement levels #1444 (sappelhoff)
  • [FIX] Clarify that dataset_description.Genetics object is required for genetics data #1442 (sappelhoff)
  • [ENH] Clarify that BIDS specification is in American English #1439 (yarikoptic)
  • [MISC] Link to new BEP guidelines. #1426 (arokem)
  • [FIX] reorganize anat filename templates #1419 (Remi-Gau)
  • [FIX] Rename channels.tsv column: orientation_component to component #1417 (sjeung)
  • [ENH] Some missing docstrings for bidsschematools #1413 (anibalsolon)
  • [FIX] fixing some minor issues introduced recently #1411 (yarikoptic)
  • [ENH] Add paragraph about richness versus distinctness in filenames #1392 (CPernet)
  • [FIX] Updated HED score library version #1390 (VisLab)
  • [FIX] Updated links and fixed typos in hed appendix #1383 (VisLab)
  • [ENH] add screen parameters metadata #1369 (Remi-Gau)
  • [MISC] allow for any "recording" file to be listed in _scans.tsv not just "neural recording" #1368 (yarikoptic)
  • [FIX] wrong usage of DOI in SourceDatasets example #1361 (sappelhoff)
  • [FIX] make references to Neuromag/Elekta/MEGIN consistent #1359 (sappelhoff)
  • [ENH] Add reference for ASL BEP #1357 (Remi-Gau)
  • [FIX] remove redundant entity definitions in behavioral page #1356 (Remi-Gau)
  • [FIX] add missing processing entity for MEG physio files and render physio filename templates for fNIRS #1355 (Remi-Gau)
  • [ENH] Recommend gzip header fields be set to empty values #1349 (kousu)
  • [FIX] clarify TriggerChannelCount and TRIG type #1342 (sappelhoff)
  • [ENH] Add qMRI fieldmap filename templates #1336 (Remi-Gau)
  • [ENH] Introduce GIFTI formats in derivatives #1333 (effigies)
  • [ENH] Add ParallelReductionFactorOutOfPlane to MRI metadata #1221 (lukeje)
  • [ENH][SCHEMA] Adding an OPTIONAL _task-<label> to structural MRI acquisitions #1185 (melanieganz)
  • [INFRA] use tributors to list contributors and CITATION.cff for referencing #1115 (Remi-Gau)
  • [SCHEMA] Add full object definitions for valid values in schema #919 (tsalo)

v1.8.0 (2022-10-29)

  • [ENH] allow for .png and .tif in eeg/ieeg/meg as allowed for micr #1049 (yarikoptic)
  • [ENH] Add BIDS URIs and deprecate relative paths, RawSources and (possibly unused) BasedOn #918 (effigies)
  • [FIX] Drop the functional and f for NIRS #1325 (rob-luke)
  • [FIX][SCHEMA] Add conditionals for PET ReconMethod* and ReconFilter #1299 (bendhouseart)
  • [ENH] use schema to mention which "top directories" are allowed #1289 (Remi-Gau)
  • [ENH] Add glossary links to all tables #1268 (tsalo)
  • [ENH] Remove redundant entity definitions on MRI page #1265 (tsalo)
  • [ENH] Standardize and organize entity descriptions #1264 (tsalo)
  • [ENH] Add filename template legend #1259 (Remi-Gau)
  • [MISC] Reorder appendices #1256 (tsalo)
  • [MISC] Clarify: FieldMap PE technique --> no SPM #1253 (CPernet)
  • [MISC] Adding qMRI BIDS article reference (BEP001) #1251 (agahkarakuzu)
  • [ENH] Link to filename element definitions in filename templates #1228 (tsalo)
  • [MISC] Remove label format and inheritance principle redundancies in fMRI section #1197 (Remi-Gau)
  • [ENH] add task metadata to PET #1196 (Remi-Gau)
  • [FIX] clarify which file to list in scans.tsv for file formats with multiple files #1178 (sappelhoff)
  • [FIX] add recommendation to fully omit non-compulsory data that is n/a #1171 (sappelhoff)
  • [FIX] Discourage use of "sample" in events if sampling frequency is ambiguous, add guidelines for precision #1140 (sappelhoff)
  • [FIX] Clarify MEG empty-room recommendations #1125 (robertoostenveld)
  • [FIX] clarify no blank and duplicated headers in TSV #1116 (sappelhoff)
  • [ENH] Added the specification for using HED libraries in BIDS #1106 (VisLab)
  • [ENH] Microscopy: NGFF format support #1104 (TheChymera)
  • [ENH] Add Microscopy-BIDS citation #1102 (mariehbourget)
  • [FIX] MEG link typo #1100 (xi)
  • [FIX] IntendedFor in (i)EEG is dataset relative #1093 (sappelhoff)
  • [MISC] make dataset_description.Authors RECOMMENDED #1092 (sappelhoff)
  • [ENH] adding optional _rec-label to DWI #1090 (dorahermes)
  • [SCHEMA] Conform the schema/rules files consistently #1078 (ericearl)
  • [ENH] State of the schema sprint #1075 (effigies)
  • SCHEMA: Convert datatype lists to objects #1074 (effigies)
  • [SCHEMA] Define common derivatives rules #1072 (rwblair)
  • [SCHEMA] Define blood.tsv columns #1070 (rwblair)
  • [SCHEMA] Create context schema in meta/ #1069 (effigies)
  • [SCHEMA] Replace addendum with description_addendum #1066 (tsalo)
  • [SCHEMA] Encode requirement levels for dataset_description and genetic_info #1064 (effigies)
  • [SCHEMA] Correlating existing validator issues to schema entries #1063 (bendhouseart)
  • [SCHEMA] Specify column requirement levels for several tabular files #1061 (effigies)
  • [SCHEMA] Start drafting validation rules for ASL data #1060 (tsalo)
  • [SCHEMA] Add MEG, func, and fmap metadata tables #1054 (tsalo)
  • [MISC] Preface each macro call with comment #1052 (Remi-Gau)
  • [FIX] typo in "rawdata" example #1045 (sappelhoff)
  • [MISC] consistently use "directory" instead of "folder" as a term #1044 (sappelhoff)
  • [MISC] Update CODEOWNERS #1040 (erdalkaraca)
  • [ENH] Allow README file extensions. #1033 (mateuszpawlik)
  • [MISC] Rewrite and update html build instructions #1032 (sappelhoff)
  • [FIX] Clarify that BIDS standard template data is to be in scanner coordinates (MEG, iEEG, EEG) #1031 (alexrockhill)
  • [SCHEMA] Define YAML tables for DWI/ASL/(i)EEG/micr/beh metadata #1029 (tsalo)
  • [FIX] Add coordsystem-specific definition of DigitizedHeadPoints #1023 (tsalo)
  • [FIX] PET Spec; added known DICOM tags, fixed tag error, updated citation, clarified scale factor. #1021 (bendhouseart)
  • [MISC] clarify copyright for logo #1019 (sappelhoff)
  • [SCHEMA] Define YAML tables for MRI common metadata fields and anatomy data #1017 (tsalo)
  • SCHEMA: Encode first two MR metadata tables as "sidecars.yml" #1016 (tsalo)
  • [SCHEMA] Add datatypes field to datatype rule files #1012 (tsalo)
  • [FIX] Change recording entity to REQUIRED for pet/blood modality #1005 (ghisvail)
  • [ENH] Microscopy: Add IntendedFor metadata field to photo files #1000 (mariehbourget)
  • [ENH] Introduce the atlas entity for derivatives data #997 (sebastientourbier)
  • [ENH] Clearly define "entity" in common principles #947 (Lestropie)
  • [ENH] BEP030: Functional Near-Infrared Spectroscopy #802 (rob-luke)
  • [FIX] Clarify run entity to accommodate multiple imaging modalities #760 (yarikoptic)

v1.7.0 (2022-02-15)

  • [ENH] add metadata to PET calibration factor: "DoseCalibrationFactor" #825 (CPernet)
  • [FIX] Use wikipedia for TIFF URL, adobe's page is 404ing now #1007 (yarikoptic)
  • [FIX] update highlighting of examples, JSON keys and values, and TSV headers or values in the schema #998 (Remi-Gau)
  • [MISC] minor wording and consistency improvements for channels.tsv in EEG, MEG, iEEG #993 (sappelhoff)
  • [FIX] typo: extra sentence in anat section #991 (Remi-Gau)
  • [FIX] Optionally support echo entity for VFA suffix #989 (TheChymera)
  • [FIX] update definition acq_time for sessions.tsv #986 (Remi-Gau)
  • [FIX] add microscopy to modalities in schema #984 (Remi-Gau)
  • [MISC] update steering group composition #976 (Remi-Gau)
  • [MISC] customize footer on html spec #975 (sappelhoff)
  • [FIX] Update HED appendix to comply with current HED version #970 (VisLab)
  • [ENH] Update B0Field metadata to accommodate single-blip fieldmaps #968 (effigies)
  • [FIX] Reword front page #958 (arokem)
  • [MISC] Update links to starter kit website #957 (effigies)
  • [FIX] Entity table: Clarify meaning of empty cells #955 (Lestropie)
  • [MISC] Add Eric Earl as a Maintainer #953 (ericearl)
  • [FIX] Spelling errors in appendices #951 (Lestropie)
  • [FIX] Broken hyperlink in entity list file #949 (Lestropie)
  • [FIX] Rewrite inheritance principle #946 (Lestropie)
  • Address BEP031 macro requests #945 (tsalo)
  • [FIX] Typo: ECG_headshape #942 (Moo-Marc)
  • [FIX] description: dwi is specialized T2 weighting, not T2* #939 (sappelhoff)
  • [FIX] relax unrealistically strict requirements with ieeg channels.tsv 'name' column #938 (sappelhoff)
  • [FIX] Add links from derivatives section to entity list #936 (sappelhoff)
  • [FIX] Remove repeated words #934 (DimitriPapadopoulos)
  • [FIX] Clarify that EDF/BDF files MUST have lower case extensions in BIDS #927 (adam2392)
  • [ENH] Generate glossary page from schema #923 (tsalo)
  • [ENH] Render valid value restrictions in tables based on object definitions in schema #921 (tsalo)
  • [ENH] add hemi entity to schema #917 (Remi-Gau)
  • [ENH] update and reformat table for template in coordinate system page #903 (Remi-Gau)
  • [ENH] add details for content of *_beh.json #902 (Remi-Gau)
  • [FIX] small typo in json example #897 (Remi-Gau)
  • [INFRA] Document *.webm video files as binary #895 (DimitriPapadopoulos)
  • [SCHEMA] Reorganize schema code into a package #892 (tsalo)
  • [FIX] Clarify shifting dates RECOMMENDED, add example EDF #891 (sappelhoff)
  • [INFRA] fix draft rendering css on mobile or when browser window is narrow #889 (sappelhoff)
  • [MISC] Add an animated BIDS logo #886 (adswa)
  • [SCHEMA] Consolidate schema files by term type #883 (tsalo)
  • [ENH] BEP031: Microscopy #881 (mariehbourget)
  • [INFRA] jQuery 3.4.1 → 3.6.0 #875 (DimitriPapadopoulos)
  • [INFRA] Add "codespell" tool to CI checks to catch typos sooner #873 (DimitriPapadopoulos)
  • [INFRA] Several style fixes (Flake8) for Python code in the repo #872 (DimitriPapadopoulos)
  • [MISC] add Anthony as maintainer #868 (Remi-Gau)
  • [MISC] add "forward slash" requirement for paths to common principles #867 (sappelhoff)
  • [ENH] Add "ScanRAS" as an accepted coordinate frame for ieeg #866 (alexrockhill)
  • [INFRA] Add .lgtm.yml file for better usage of LGTM CI tool #865 (DimitriPapadopoulos)
  • [FIX] update physio bids name in longitudinal study page examples #863 (Remi-Gau)
  • [INFRA] Enforce consistent line endings via .gitattributes #861 (DimitriPapadopoulos)
  • [FIX] Clarify case collision intolerance as a file naming principle #858 (yarikoptic)
  • [INFRA] LGTM recommendation: Unused local variable #853 (DimitriPapadopoulos)
  • [INFRA] LGTM warning: Variable defined multiple times #851 (DimitriPapadopoulos)
  • [FIX] Typos found by codespell #848 (DimitriPapadopoulos)
  • [ENH] Add links to example datasets for each modality #845 (Remi-Gau)
  • [INFRA] Add basic documentation on how to use metadata table macros #840 (Remi-Gau)
  • [ENH] make "Institutional department name" available for all datatypes #839 (Remi-Gau)
  • [INFRA] use macro to render examples in a "tree" like fashion #837 (Remi-Gau)
  • [FIX] Add angio suffix to the non-parametric aMRI suffix table #835 (tsalo)
  • [FIX] Remove last hardcoded suffix table #833 (tsalo)
  • [MISC] make explicit that EDF+ (and for EEG: BDF+) are included in iEEG / EEG format requirements #831 (sappelhoff)
  • [SCHEMA] Add TSV column files #827 (tsalo)
  • [FIX] correct file location of scans.tsv file in example #824 (ghisvail)
  • [MISC] update available datatypes in specification #819 (sappelhoff)
  • [FIX] document required column order MEG, EEG, iEEG, PET, and fix typo iEEG #818 (sappelhoff)
  • [ENH] BEP031 - New columns to participants.tsv file #816 (mariehbourget)
  • [MISC] make table headers bold #815 (Remi-Gau)
  • [FIX] What is a composite instance? Change to measurement for non MRI modalities? #813 (rob-luke)
  • [ENH] BEP031 - New entity: sample and samples.tsv file #812 (mariehbourget)
  • [ENH] Add device and acquisition metadata for physio files #806 (Remi-Gau)
  • [MISC] Move section on sessions.tsv file: longitudinal files -> modality agnostic files #805 (Remi-Gau)
  • [ENH] Make explicit that "task" metadata applies to "beh" modality #804 (Remi-Gau)
  • [MISC] Make MRI-centric language more general in Events #801 (sappelhoff)
  • [ENH] clarify that entities MUST be unique #800 (sappelhoff)
  • [MISC] deprecate DCOffsetCorrection field from ieeg.json: Use SoftwareFilters field instead #799 (sappelhoff)
  • [FIX] Deprecate ScanDate (PET) in favor of AcquisitionTime in scans.tsv files #798 (mnoergaard)
  • [MISC] add IETF standard link for json #797 (sappelhoff)
  • [INFRA] In PDF, color every other row in table in light gray fill #794 (sappelhoff)
  • [MISC] add link to guide on how to write a good README #793 (sappelhoff)
  • [SCHEMA] Apply schema rules to entity values #792 (tsalo)
  • [INFRA] fix md ci and update ci badges #791 (sappelhoff)
  • [SCHEMA] Use macro for filename templates in file collections appendix #787 (tsalo)
  • [FIX] consistently refer to DICOM Tags throughout the specification #786 (Hboni)
  • [FIX] Amend note about *b*-vecs on DWI specs #782 (oesteban)
  • [INFRA] add CI to find trailing whitespace #780 (sappelhoff)
  • [MISC] Add info on HED key to common principles #777 (sappelhoff)
  • [ENH] add EEGLAB as valid coordinate system for EEG #775 (sappelhoff)
  • [SCHEMA] Add metadata term files #774 (tsalo)
  • [SCHEMA] Add suffix term files #772 (tsalo)
  • [ENH] Allow encoding the fieldmapping intent of the protocol #622 (oesteban)
  • [FIX] Correct iEEG example that contained double suffixes #463 (yarikoptic)
  • [ENH] introduce GeneratedBy to "core" BIDS #440 (yarikoptic)

v1.6.0 (2021-04-22)

  • [ENH] Bep 009: Positron Emission Tomography #633 (melanieganz)
  • [FIX] Typos discovered by codespell #784 (yarikoptic)
  • [FIX] Rename "Unit" metadata to "Units" for consistency with existing fields #773 (effigies)
  • [FIX] typo in pet: institution -> institutional #771 (sappelhoff)
  • [INFRA] install git in linkchecker job #767 (sappelhoff)
  • [INFRA] Fix CircleCI workflows #764 (sappelhoff)
  • [FIX] Mix up (typo) between ficiduals and landmarks in EEG spec #754 (rob-luke)
  • [INFRA] updating remark, CIs, contributor docs #745 (sappelhoff)
  • [FIX] schema for i/eeg coordsys+elecs: sub-ses-acq-space are allowed entities #743 (sappelhoff)
  • [MISC] move schema documentation into the schema directory #740 (Remi-Gau)
  • [MISC] standardize string examples format in tables #739 (Remi-Gau)
  • [MISC] Clarify participant_id in participants.tsv file if it exists #738 (adam2392)
  • [FIX] split MEG files should be listed separately in scans.tsv #735 (eort)
  • [FIX] 1) Clarify appropriate labels for space entity, 2) Clarify channels+electrodes do not have to match #734 (sappelhoff)
  • [MISC] refactor stimuli mentioning sections in the events page #697 (Remi-Gau)

v1.5.0 (2021-02-23)

  • [ENH] Add "multipart DWI" acquisitions and refactor DWI specifications #624 (oesteban)
  • [MISC] Updated TotalAcquiredVolumes into TotalAcquiredPairs #742 (effigies)
  • [SCHEMA] Update qMRI fieldmap schema #728 (effigies)
  • [FIX] Add deprecated anatomical MRI suffixes back into schema #725 (tsalo)
  • [FIX] Correct schema irregularities for func datatype #724 (tsalo)
  • [FIX] Make flip optional for MP2RAGE #722 (tsalo)
  • [FIX] Correct entity names in YAML files #720 (tsalo)
  • [ENH] Clarify run indexing information for MRI acquisitions #719 (effigies)
  • [ENH] Harmonize CoordinateSystem details for MRI, MEG, EEG, iEEG #717 (sappelhoff)
  • [SCHEMA] Update entity YAML keys #714 (effigies)
  • [MISC] Added full names for some contributors in .mailmap file #705 (yarikoptic)
  • [INFRA] Migrate md and yml checks from travis to GH actions #693 (sappelhoff)
  • [INFRA] Move part entity to before recording entity #692 (tsalo)
  • [ENH] BEP001 - qMRI maps and some additional metadata #690 (agahkarakuzu)
  • [ENH] BEP001 - Entity-linked file collections #688 (effigies)
  • [ENH] BEP001 - New entities: inv & mt #681 (agahkarakuzu)
  • [MISC] add contributing guidelines to add figures in the specs #679 (Remi-Gau)
  • [MISC] use RFC 2119 language in legend of the "volume timing" table #678 (Remi-Gau)
  • [FIX] Add OPTIONAL acq entity to channels.tsv, events.tsv to match electrophysiological acquisitions #677 (sappelhoff)
  • [MISC] Update all links to use HTTPS whenever possible. #676 (gllmflndn)
  • [INFRA] Relax line length limit for linting YAML files #673 (effigies)
  • [ENH] BEP001 - New entity: flip #672 (agahkarakuzu)
  • [ENH] BEP001 - RepetitionTimeExcitation and RepetitionTimePreparation #671 (agahkarakuzu)
  • [ENH] Bep 005: Arterial Spin Labeling #669 (sappelhoff)
  • [FIX] Added white space after table #660 (robertoostenveld)
  • [MISC] add remi as maintainer #657 (Remi-Gau)
  • [MISC] update Contributing with info on how to respond to reviews #655 (Remi-Gau)
  • [FIX] add paragraph on MEG specific "markers" suffix in MEG spec #653 (sappelhoff)
  • [FIX] Rewrite the MRI/fieldmaps subsection for consistency with the rest of specs #651 (oesteban)
  • [FIX] Fixing template string on electrodes for eeg and ieeg. #650 (adam2392)
  • [ENH] Update genetics-BIDS citation #646 (effigies)
  • [SCHEMA] Add derivatives entities to the schema #645 (tsalo)
  • [MISC] add brief note that TSV example in the spec may currently use either tab or space characters #643 (yarikoptic)
  • [SCHEMA] Render schema elements in text #610 (tsalo)
  • [ENH] Add part entity for complex-valued data #424 (tsalo)

v1.4.1 (2020-10-13)

  • [ENH] Extend date time information to include optional UTC syntax, warn about FIF requirements #546 (sappelhoff)
  • [INFRA] minor robustness enhancements to pdf build shell script #642 (yarikoptic)
  • [FIX] consistent CoordinateSystem fields for ephys #641 (sappelhoff)
  • [INFRA] set up github action to detect latin phrases #636 (Remi-Gau)
  • [ENH] Add a definition for "deprecation" #634 (sappelhoff)
  • [MISC] consolidate BIDS citations in introduction #630 (sappelhoff)
  • [FIX] URI "definition" and recommendation #629 (Remi-Gau)
  • [FIX] change remaining latin expressions (etc and i.e.) #628 (Remi-Gau)
  • [FIX] replace "e.g.," by "for example" #626 (Remi-Gau)
  • [FIX] arrays of 3D coordinates MUST supply numeric values in x, y, z order #623 (sappelhoff)
  • [FIX] Accidentally swapped Neuromag/Elekta/MEGIN cross-talk & fine-calibration filename extensions #621 (hoechenberger)
  • [FIX] improve HED documentation #619 (VisLab)
  • [INFRA] Move MRI section headings up a level #618 (tsalo)
  • [INFRA] SCHEMA: Declare entities by concept names, add entity field for filename components #616 (effigies)
  • [FIX] Change wrong text references from *CoordinateSystemUnits to *CoordinateUnits #614 (sappelhoff)
  • [ENH] Describe arbitrary units in Common Principles #606 (tsalo)
  • [FIX] Clarify data types and requirement levels for all JSON files #605 (sappelhoff)
  • [INFRA] downgrade github-changelog-generator to 1.14.3 due to issue with 1.15.2 #600 (sappelhoff)
  • [FIX] tighter rules for sharing MEG cross-talk and fine-calibration .fif files #598 (sappelhoff)
  • [MISC] Add tsalo as a BIDS maintainer #597 (tsalo)
  • [FIX] clarify definition of events in common principles #595 (sappelhoff)
  • [INFRA] use --release-branch option in github-changelog-generator #594 (sappelhoff)
  • [ENH] Define "modality" and clarify "data type" #592 (effigies)
  • [FIX] Adjust index definition to be nonnegative integer #590 (nicholst)
  • [MISC] fix links, make json object links consistent, fix pandoc rendering #587 (sappelhoff)
  • [FIX] Fix link in Common principles #583 (tsalo)
  • [ENH] Specify how to share cross-talk and fine-calibration for Neuromag/Elekta/MEGIN data #581 (sappelhoff)
  • [ENH] Specify echo and run indices are nonnegative integers in schema #578 (tsalo)
  • Updating the bep009 with the latest master branch updates #576 (melanieganz)
  • [ENH] add optional presentation software name, version, OS, and code to events.json #573 (Remi-Gau)
  • [ENH] added PPG as an accepted channel type for EEG, MEG and iEEG #570 (robertoostenveld)
  • [INFRA] Move entity definitions to a separate page #568 (tsalo)
  • [INFRA] enable pandoc emojis for the pdf build #562 (sappelhoff)
  • [INFRA] Auto adjust table fences before PDF conversion #560 (sebastientourbier)
  • [ENH] Support run and acq entities in behavior-only data #556 (tsalo)
  • [FIX] Clarify requirement levels for TSV metadata fields #555 (sappelhoff)
  • [FIX] Reorganize rec, ce entities, _defacemask #550 (emdupre)
  • [FIX] Clarify Upper-casing of Channels.tsv Channel Type #548 (adam2392)
  • [FIX] clarify that <physio|stim>.json is REQUIRED #542 (sappelhoff)
  • [FIX] Replace all non-breaking spaces with vanilla spaces #536 (nicholst)
  • [FIX] Clarify indices are nonnegative integers. #535 (nicholst)
  • [FIX] Clarify use of session entity in filenames #532 (Moo-Marc)
  • [ENH] Add the ability of users to specify an explicit HED.xml schema for validation. #527 (VisLab)
  • [FIX] clarify that scans.json is allowed and recommended #523 (sappelhoff)
  • [INFRA] add copyright holder to license. #521 (sappelhoff)
  • [FIX] clarify XXXCoord* in the coordinate systems appendix #520 (sappelhoff)
  • [ENH] Update beh/ specification to contrast with any neural recordings #515 (effigies)
  • [FIX] restructure and clarify *_physio/*_stim section #513 (sappelhoff)
  • [FIX] clarify file formats in EEG, iEEG #511 (sappelhoff)
  • [FIX] Add links and release dates to pre GH changelog, fix formatting #509 (sappelhoff)
  • [FIX] Clarify that acq_time in scans.json refers to first data point acquired #506 (tsalo)
  • [INFRA] make circle artifact link a GH action, point to pdf #505 (sappelhoff)
  • [FIX] Typos in DECISION-MAKING file #504 (tsalo)
  • [ENH] Add Commenting on a PR to CONTRIBUTING.md #490 (franklin-feingold)
  • [FIX] clarify MEG empty-room recording naming conventions #480 (sappelhoff)
  • [INFRA] Convert entity table to yaml #475 (tsalo)
  • [FIX] Recommend SI units formatting to adhere to CMIXF-12 #411 (sappelhoff)

v1.4.0 (2020-06-11)

  • [ENH] Derived (processed) MR data #109 (chrisgorgo)
  • [FIX] Clarify language on unsetting a key/value pair #495 (nicholst)
  • [ENH] Add RECOMMENDED DatasetType key to dataset description #494 (effigies)
  • [ENH] Clarify mask/dseg/probseg in common derivatives #489 (effigies)
  • [ENH] Reorganize derivatives #488 (effigies)
  • [ENH] optionally allow LICENSE file #483 (sappelhoff)
  • [INFRA] linkchecker - ignore github pull and tree URLs #477 (yarikoptic)
  • [ENH] Allow fractional seconds in scans file datetimes #470 (tsalo)
  • [MISC] Maintainers - Scope responsibility #467 (franklin-feingold)
  • [FIX] Align tables in MRI section #465 (sappelhoff)
  • [FIX] Drop _part- reference from example, introduce _split- entity #460 (sappelhoff)
  • [FIX] clarify participants tsv+json with examples and recommendations #459 (sappelhoff)
  • [FIX] Remove BESA from list of restricted keywords of EEG coordsystems #457 (sappelhoff)
  • [INFRA] add steps for release protocol (PDF upload) #455 (sappelhoff)
  • [FIX] Add reference to PDF on front page of specification #452 (nicholst)
  • [INFRA] Add conditional for link-checking releases #451 (franklin-feingold)
  • [FIX] unordered list formatting in BEP018 #449 (sappelhoff)
  • [INFRA] add zenodo badge to README #447 (sappelhoff)
  • [FIX] fix inconsistencies for task label between sections #446 (Remi-Gau)
  • [FIX] update DECISION-MAKING.md document with new governance #441 (sappelhoff)
  • [FIX] specify the derivatives pipeline following #345 #358 (CPernet)
  • ENH: Clarify the position toward non-compliant derivative datasets and files #334 (effigies)
  • [FIX] Separate out imaging-specific "common derivatives" #310 (effigies)
  • [FIX] Revise template-generated coordinate systems #307 (oesteban)
  • [ENH] Add res and den keywords to indicate resolution of resampled data #301 (oesteban)
  • [ENH] BEP 003: Common Derivatives #265 (effigies)
  • [FIX] use <label> for _desc- - not some <value> + clarify <value> #224 (yarikoptic)
  • [ENH] Various proposed changes to diffusion derivatives #205 (Lestropie)
  • [ENH] Add Glossary of terms/abbreviations used in the specification #152 (yarikoptic)

v1.3.0 (2020-04-14)

  • [MISC] Added contributors from VisLab #444 (VisLab)
  • [FIX] Clarify snake_case+CamelCase in TSV+JSON #442 (sappelhoff)
  • [FIX] Eliminate web/online-specific language #437 (nicholst)
  • [INFRA] ensure build_docs_pdf CircleCI job runs last #436 (sappelhoff)
  • [INFRA] Add issue templates for GitHub #434 (sappelhoff)
  • [INFRA] Get latest PDF build from CircleCI artifacts #433 (sappelhoff)
  • [INFRA] Update release protocol #432 (franklin-feingold)
  • [INFRA] add support for building PDF versions of the spec #431 (Arshitha)
  • [ENH] Explicitly mention bids-validator and update link #428 (sappelhoff)
  • [INFRA] use new bids-maintenance GitHub account to take over automatic work #426 (sappelhoff)
  • [FIX] Unify section titles and table-of-contents entries #422 (nicholst)
  • [INFRA] add # before heading in CHANGES #419 (sappelhoff)
  • [INFRA] fix heading of auto changelog to be a markdown header #417 (sappelhoff)
  • [ENH] Add OPTIONAL EthicsApprovals field to dataset description #412 (effigies)
  • [FIX] improve wording on data dictionaries #410 (sappelhoff)
  • BEP 18 suggestions #398 (effigies)
  • [ENH] BEP 018 - Genetic Information #395 (effigies)
  • [FIX] consistent units description between EEG/MEG/iEEG. Clarify (derived) SI units + prefixes #391 (sappelhoff)

v1.2.2 (2020-02-12)

v1.2.1 (2019-08-14)

v1.2.0 (2019-03-04)

v1.1.2 (2019-01-10)

1.1.1 (2018-06-06)

  • Improved the MEG landmark coordinates description.
  • Replaced ManufacturersCapModelName in meg.json with CapManufacturer and CapManufacturersModelName.
  • Remove EEGSamplingFrequency and ManufacturersAmplifierModelName from the meg.json.
  • Improved the behavioral data description.

1.1.0 (2018-04-19)

1.0.2 (2017-07-18)

1.0.1 (2017-03-13)

1.0.1-rc1

  • Added T1 Rho maps: 4.1 Anatomy imaging data.
  • Added support for phenotypic information split into multiple files: 3.2 Participant key file.
  • Added recommendations for multi site datasets.
  • Added SoftwareVersions.
  • Added run-<run_index> to the phase encoding maps. Improved the description.
  • Added InversionTime metadata key.
  • Clarification on the source vs raw language.
  • Added trial_type column to the event files.
  • Added missing sub-<participant_label> in behavioral data filenames.
  • Added ability to store stimuli files.
  • Clarified the language describing allowed subject labels.
  • Added quantitative proton density maps.

1.0.0 (2016-06-23)

  • Added ability to specify fieldmaps acquired with multiple parameter sets.
  • Added ability to have multiple runs of the same fieldmap.
  • Added FLASH anatomical images.

1.0.0-rc4

  • Replaced links to neurolex with explicit DICOM Tags.
  • Added sourcedata.
  • Added data dictionaries.
  • Be more explicit about contents of JSON files for structural (anatomical) scans.

1.0.0-rc3

  • Renamed PhaseEncodingDirection values from "x", "y", "z" to "i", "j", "k" to avoid confusion with FSL parameters.
  • Renamed SliceEncodingDirection values from "x", "y", "z" to "i", "j", "k".

1.0.0-rc2

  • Removed the requirement that TSV files cannot include more than two consecutive spaces.
  • Refactor of the definitions sections (copied from the manuscript).
  • Make support for uncompressed .nii files more explicit.
  • Added BIDSVersion to dataset.json.
  • Remove the statement that SliceEncodingDirection is necessary for slice time correction.
  • Change dicom converter recommendation from dcmstack to dcm2nii and dicm2nii following interactions with the community (see moloney/dcmstack#39 and https://github.com/neurolabusc/dcm2niix/issues/4).
  • Added section on behavioral experiments with no accompanying MRI acquisition.
  • Add _magnitude.nii[.gz] image for GE type fieldmaps.
  • Replaced EchoTimeDifference with EchoTime1 and EchoTime2 (SPM toolbox requires this input).
  • Added support for single band reference image for DWI.
  • Added DatasetDOI field in the dataset description.
  • Added description of more metadata fields relevant to DWI fieldmap correction.
  • PhaseEncodingDirection is now expressed in "x", "y" etc. instead of "PA" "RL" for DWI scans (so it's the same as BOLD scans).
  • Added rec-<label> flag to BOLD files to distinguish between different reconstruction algorithms (analogous to anatomical scans).
  • Added recommendation to use _physio suffix for continuous recordings of motion parameters obtained by the scanner side reconstruction algorithms.

1.0.0-rc1

  • Initial release