Minor Release v9.1.0

Minor Release R2025a-v9.1.0

Curated Changelog

https://github.com/ComputationalPsychiatry/PhysIO/blob/master/CHANGELOG.md

Added

• Provided separate repositories for
  PhysIO Example Data
  and Test Reference Results
• Created corresponding Zenodo DOIs for PhysIO Example Data
  and Test Reference Results

Changed

• Moved SPM Batch Editor configuration into repository main folder
  • PhysIO folder itself can just be moved/cloned as subfolder of spm/toolbox
  • no more manual copying of code subfolder
• Updated Documentation to new Zenodo/GitHub locations

What's Changed

• Update README.md; Added badge for Zenodo Code and Paper DOI by @mrikasper in #15
• Update README.md; added DOI for examples by @mrikasper in #16
• 17 create tapas physio download example data by @mrikasper in #21
• fail gracefully if no logfiles provided for write_to_bids by @mrikasper in #24
• 25 move batch editor cfg and main code files from code folder to main folder by @mrikasper in #26
• 25 move batch editor cfg and main code files from code folder to main folder by @mrikasper in #27
• 22 sample points must be unique error by @mrikasper in #29
• 30 update all tests for new zenodo locations of example and reference data by @mrikasper in #31
• 32 prepare release v91 by @mrikasper in #36

Full Changelog: v9.0.3...v9.1.0

First PhysIO Software Release for Zenodo

Added

• Added new release to publish PhysIO Code on Zenodo (with its own DOI)

CLA and Mathworks File Exchange Integration

Added

• Contributor License Agreement from TAPAS now also repository-specific in PhysIO

Fixed

• Integration with Mathworks GitHub App

What's Changed

• Fix physio paths and Linux/Windows cpulse mismatch by @mrikasper in #2

New Contributors

• @mrikasper made their first contribution in #2

Full Changelog: v7.2.6...v9.0.2

Bugfix Release v9.0.1

Bugfix Release Notes (v9.0.1)

Fixed

• Discrepancy Linux/Windows in detected cardiac pulses (ons_secs.raw.cpulse) for near-constant traces (e.g., in tapas_physio_example_siemens_vb_ppu3t_sync_first_spm_job)
  due to tapas_physio_corrcoef2 for
• Inconsistent Handling of bids_dir; now consistent with save_dir etc.: as cell in SPM job, but char in physio struct

PhysIO Toolbox Release R2024a, v9.0.0

Major Release Notes (v9.0.0)

Added

• BIDS writer: write out BIDS-compatbile physiological logfiles (.tsv.gz and .json)
  from any vendor format
• Greatly expanded Review visualization (tapas_physio_review): Allow more detailed re-creation of figures from online execution, control visual verbosity retrospectively (e.g., for debugging)
• Read-In of field AcquisitionTime from BIDS .json side-car file for converted Siemens DICOMs after dcm2niix conversion for synchronization (Gitlab issue 109)

Changed

• Expanded usage of scan trigger trace (continuous, binary, on/off vs alternating levels)

Fixed

• Bugfix processing of short Siemens IdeaCmdTool logfiles (stop before scan ending)
• DICOM Read-in for files without extension