Phys2bids Versions Save

🐛 Bug Fix

• Remove breakpoint from workflow (@smoia)

Authors: 1

• Stefano Moia (@smoia)

:tada: This release contains work from a new contributor! :tada:

Thank you, Stefano Moia (@smoia), for all your work!

🐛 Bug Fix

• Rename "run" into "take" for clearer purposes and fix naming convention in multi-take overlapping #427 (@smoia)
• Fix trigger plots when trigger has different sampling than time #426 (@smoia)
• Prevent slicing from terminating program if end of last slice is above maximum timepoints. #425 (@smoia)
• Update trigger threshold guess estimation to mean of trigger channel #377 (@62442katieb)

📝 Documentation

• Update contributors list #423 ([email protected] @smoia)

⚠️ Tests

• Fix testing enviroment by using apt-get install build-essential rather than apt-get install make #413 (@vinferrer)

🏠 Internal

• Add @drombas as contributor #416 (@smoia)

Authors: 4

• Katie Bottenhorn (@62442katieb)
• smoia ([email protected])
• Stefano Moia (@smoia)
• Vicente Ferrer (@vinferrer)

:tada: This release contains work from a new contributor! :tada:

Thank you, Marcel Zwiers (@marcelzwiers), for all your work!

🚀 Enhancement

• Define previously unspecified Exceptions in the main workflow #406 (@marcelzwiers)

📝 Documentation

• Fix bug that would impede building the docs #399 (@eurunuela)

Authors: 2

• Eneko Uruñuela (@eurunuela)
• Marcel Zwiers (@marcelzwiers)

🚀 Enhancement

• Add additional automatic detection of the trigger based on time-domain analysis #391 (@drombas)

🏠 Internal

• Upgrade to GitHub-native Dependabot #395 (@dependabot-preview[bot])

Authors: 2

• @dependabot-preview[bot]
• David Romero-Bascones (@drombas)

:tada: This release contains work from a new contributor! :tada:

Thank you, David Romero-Bascones (@drombas), for all your work!

🐛 Bug Fix

• correct chtrig check in phys2bids main workflow #390 (@drombas)

📝 Documentation

• Clarify installation instructions and tutorial #382 (@drombas)

🏠 Internal

• Provide the outcome of integration and documentation tests as downloadable artifacts from each Cirrus CI test page #384 (@vinferrer)

Authors: 2

• David Romero-Bascones (@drombas)
• Vicente Ferrer (@vinferrer)

🚀 Enhancement

• Auto-detect the trigger channel based on retrieved channel names #306 (@vinferrer @smoia)

🏠 Internal

• Testing: Use only a Windows miniconda image instead of different images for each python version #381 (@vinferrer)

Authors: 2

• Stefano Moia (@smoia)
• Vicente Ferrer (@vinferrer)

:tada: This release contains work from a new contributor! :tada:

Thank you, Yaroslav Halchenko (@yarikoptic), for all your work!

🐛 Bug Fix

• Stop using powershell as windows interpreter #379 (@vinferrer)
• Update contributions and remove auto all-contribution plugin #372 (@smoia)
• Replace utils.check_input_dir() with os.path.abspath() #368 (@vinferrer)

⚠️ Tests

• Add windows CI testing #366 (@vinferrer)
• Correct BIDS validation test names #365 (@vinferrer)

🏠 Internal

• Add .mailmap to improve git shortlog -sn output #378 (@yarikoptic)
• Migrate testing to Cirrus CI #375 (@vinferrer)
• create coverage folder only in the makeenv #375 (@vinferrer)
• add the coverage folder to the shared folder #375 (@vinferrer)
• have a common folder with subfolders #375 (@vinferrer)
• add the coverage folder #375 (@vinferrer)
• add integration tests #375 (@vinferrer)
• do not pip in unittest_37 #375 (@vinferrer)
• name task properly #375 (@vinferrer)
• use as fingerprint_script #375 (@vinferrer)
• add coverage #375 (@vinferrer)
• don't use makeenv #375 (@vinferrer)
• cache name #375 (@vinferrer)
• cache enviroment folder #375 (@vinferrer)
• use full path in source #375 (@vinferrer)
• remove name option #375 (@vinferrer)
• save enviroment in working dir #375 (@vinferrer)
• add source command #375 (@vinferrer)
• create conda enviroment #375 (@vinferrer)
• add sudo comand #375 (@vinferrer)
• add python 3.7 tests #375 (@vinferrer)
• use default WD #375 (@vinferrer)
• use 3.7 from miniconda #375 (@vinferrer)
• use slim version #375 (@vinferrer)
• retry python version #375 (@vinferrer)
• change to python 3.7 container #375 (@vinferrer)
• change task name and checkout python version #375 (@vinferrer)
• check working dir #375 (@vinferrer)
• get default phys2bids install path #375 (@vinferrer)
• clone done automatically #375 (@vinferrer)
• try witout folder command #375 (@vinferrer)
• add ident #375 (@vinferrer)
• put folder in the end so it's created #375 (@vinferrer)
• set up working dir and save phys2bids folder for cache #375 (@vinferrer)
• delete some identation #375 (@vinferrer)
• rename –/tmp/src/phys2bids folder to phys2bids #375 (@vinferrer)
• eliminate env_script line #375 (@vinferrer)
• use name field #375 (@vinferrer)
• adding cirrus CI with basic enviroment #375 (@vinferrer)
• Merge branch 'master' of https://github.com/physiopy/phys2bids #375 (@vinferrer)
• delete test #375 (@vinferrer)
• add windows docker trial tests #375 (@vinferrer)

Authors: 3

• Stefano Moia (@smoia)
• Vicente Ferrer (@vinferrer)
• Yaroslav Halchenko (@yarikoptic)

🐛 Bug Fix

• Add 0 before run number to multi-run trigger plot file name #369 (@vinferrer)

⚠️ Tests

• Add test to check that phys2bids output is BIDS compatible #362 (@vinferrer)
• Fix call to conda environment reference in the test configuration file #363 (@eurunuela)

Authors: 2

• Eneko Uruñuela (@eurunuela)
• Vicente Ferrer (@vinferrer)

🐛 Bug Fix

• BlueprintInput deepcopies inputs at initialization #358 (@vinferrer)

Authors: 1

• Vicente Ferrer (@vinferrer)

:tada: This release contains work from new contributors! :tada:

Thanks for all your work!

:heart: null@merelvdthiel

:heart: Inés Chavarría (@ineschh)

:heart: Vittorio Iacovella (@viacovella)

:heart: null@victox5

🚀 Enhancement

• Add support for MATLAB files #360 (@vinferrer)

🐛 Bug Fix

• Refactor io functions related to txt file imports. #349 (@vinferrer)
• Refactor phys2bids interfaces into single script io.py #344 (@vinferrer)
• Rename utils.writejson() to utils.write_json() to respect style conventions #346 (@merelvdthiel)
• Replace custom function utils.path_exists_or_make_it() with core function os.makedirs() #345 (@merelvdthiel)
• Rename function utils.writefile to utils.write_file to respect style conventions #343 (@ineschh)
• Remove utils.move_file() function as it is no longer used in the toolbox #342 (@viacovella)
• Updated versions required #7 ([email protected] @victox5)

⚠️ Pushed to master

• Update README.md (@smoia)

📝 Documentation

• Add documentation for reviewers and a checklist for PRs #315 (@smoia @RayStick)
• Add Windows installation to the documentation #329 (@vinferrer @smoia)
• Update tutorial with latest CLI options and new folder organisation (output/code/conversion) #320 (@vinferrer @RayStick)

⚠️ Tests

• Fix typo in artifact_path #331 (@tsalo)

🏠 Internal

• Add more "change type" options #347 (@smoia)

Authors: 9

• @merelvdthiel
• @victox5
• Inés Chavarría (@ineschh)
• Rachael Stickland (@RayStick)
• Stefano Moia (@smoia)
• Taylor Salo (@tsalo)
• Vicente Ferrer (@vinferrer)
• Victor ([email protected])
• Vittorio Iacovella (@viacovella)