Releases · carpentries-incubator/SDC-BIDS-dMRI

SDC-BIDS-dMRI v11.0.0: Carpentries Workbench infrastructure

Summary of changes:

Transition to Carpentries Workbench infrastructure.
Post-transition fixes.
Add back notebook run workflow file.
Fix episode links in README.
Fix the website status badge target.

First release after transitioning to the new Carpentries Workbench
infrastructure.

What's Changed

BUG: Post Workbench transition fixes by @jhlegarreta in #248
BUG: Remove spare backslash in LaTeX inequality sign by @jhlegarreta in #250
ENH: Fix website build deployment status badge workflow target by @jhlegarreta in #252
ENH: Add notebook run GitHub Actions workflow file by @jhlegarreta in #251
DOC: Fix episode links in README content table by @jhlegarreta in #253

Full Changelog: v10.0.0...v11.0.0

SDC-BIDS-dMRI v10.0.0: release all recent enhancements.

Summary of changes:

Fixes and improvements to episode contents.
Fixes to show the figures, and how they are sorted.
Turn on KaTeX to render LaTeX maths.
Upstream improvements to infrastructure files (e.g. theme, etc.).

Last release prior to transitioning to the new Carpentries Workbench
infrastructure.

What's Changed

Ostanle2 edits - notebook 2 by @kaitj in #3
Update organization and pull changes by @kaitj in #7
Bump bleach from 3.1.0 to 3.1.4 by @dependabot in #9
use remote themeUse remote theme by @fmichonneau in #13
DOC: Add content to the lesson's overview page by @jhlegarreta in #15
DOC: Fix spelling and capitalize acronyms in lesson 03 by @jhlegarreta in #16
BUG: Rename eigenvalues and eigenvector images by @jhlegarreta in #17
DOC: Add additional explanations to DTI scalar measures by @jhlegarreta in #18
DOC: Fix typo in index.md by @jhlegarreta in #19
BUG: Remove conflict-derived git traces in 03-DTI lesson by @jhlegarreta in #20
DOC: Add instructor notes by @jhlegarreta in #22
ENH: Add GitHub Actions CI builds for notebooks by @jhlegarreta in #23
ENH: Add .idea folder to .gitignore by @jhlegarreta in #26
ENH: Fix README GitHub Actions badge by @jhlegarreta in #32
Bump notebook from 5.7.8 to 6.1.5 by @dependabot in #33
update author and maintainer list by @kaitj in #25
FIX: Trim Python package requirements by @josephmje in #35
ENH: Add additional local reconstruction model lesson by @jhlegarreta in #27
MAINT: Refactoring of notebook 2 & convert to carpentries format by @kaitj in #21
DOC: Add reference for QSIPrep by @kaitj in #38
ENH: Add osfclient to the requirements list by @jhlegarreta in #40
FIX: Update .ipynb path and test on multiple Python versions by @josephmje in #39
ENH: Make the FURY screenshots be displayed inline by @jhlegarreta in #42
FIX: Update file paths for website build by @josephmje in #43
STY: Rename files and folders to increase consistency with markdown files by @jhlegarreta in #45
ENH: Add probabilistic tractography lesson by @jhlegarreta in #36
ENH: Re-organize lessons by @jhlegarreta in #47
DOC: Add lesson information to config file by @jhlegarreta in #49
DOC: Add missing HTML code closing tag by @jhlegarreta in #53
DOC: Add terms to glossary by @jhlegarreta in #54
DOC: Improve lesson information in README by @jhlegarreta in #51
BUG: Remove duplicate probabilistic tractography episode by @jhlegarreta in #52
BUG: Remove the unnecessary code environment for the glossary terms by @jhlegarreta in #55
DOC: Add setup instructions by @jhlegarreta in #50
DOC: Remove redundant instructor notes title by @jhlegarreta in #58
BUG: Fix setup instructions file syntax by @jhlegarreta in #57
BUG: Fix links.md file comment tag syntax by @jhlegarreta in #56
ENH: Remove unnecessary content from the CSD episode by @jhlegarreta in #60
ENH: Refactor tractography episodes by @jhlegarreta in #59
DOC: Improve syntax in prob tracking episode callout by @jhlegarreta in #62
MAINT: Update dti episode image and dataset by @kaitj in #64
MAINT: Update exercise solution by @kaitj in #65
Manual episode order for Figures by @tobyhodges in #68
STYLE: Use the episode order feature by @jhlegarreta in #67
ENH: Add different orientations to CSD Episode by @kaitj in #69
DOC: Add meaningful figure captions by @jhlegarreta in #72
DOC: Fix typo in citation author name by @jhlegarreta in #70
STY: Sync template and update Makefile/Gemfile by @josephmje in #73
BUG: Mark output cell as Markdown in CSD episode by @jhlegarreta in #75
DOC: Declare no reported problems in instructor notes by @jhlegarreta in #74
STYLE: Prefer {{ relative_root_path }} to resolve figure paths by @jhlegarreta in #71
ENH: Put the fury camera setup into a function by @jhlegarreta in #76
DOC: Add discussion section about camera setup by @jhlegarreta in #77
DOC: Improve the completeness of tractography method list by @jhlegarreta in #80
DOC: Add further aspects of dMRI to discussion by @jhlegarreta in #79
FIX: Update image display in DTI lesson by @josephmje in #84
include base_path.html for relative_root_path by @tobyhodges in #86
ENH: Add orientation concepts figure by @kaitj in #82
BUG: Add missing base path include by @jhlegarreta in #87
STYLE: Change tabs to whitespaces by @jhlegarreta in #89
BUG: Use the right bvec file in prob tractography episode by @jhlegarreta in #91
BUG: Fix probabilistic tractography notebook by @jhlegarreta in #90
BUG: Fix deterministic tractography notebook by @jhlegarreta in #94
STYLE: Comply with PEP 8 by @jhlegarreta in #95
ENH: Add coronal and sagittal views to GFA plot by @jhlegarreta in #97
ENH: Fix GitHub actions notebook test workflow by @jhlegarreta in #96
FIX: Fix broken paths in intro notebook by @josephmje in #99
BUG: Update probabilistic tractography episode by @kaitj in #103
ENH: Update deterministic tractography episode by @kaitj in #104
ENH: Constrain the slices to be shown to three dimensions by @jhlegarreta in #98
ENH: Add SH order theory by @kaitj in #106
FIX: Clear deterministic tractography jupyter outputs by @kaitj in #109
ENH: Define the SH order at a single location by @jhlegarreta in #107
FIX: Update Binder link by @josephmje in #108
ENH: Change SH order in probabilistic tractography notebook by @jhlegarreta in #113
ENH: Sa...