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connectomicslab/connectomemapper3: Connectome Mapper v3.0.0-beta-20190815

Tourbier, Sebastien; Aleman-Gomez, Yasser; Griffa, Alessandra; Hagmann, Patric

This is the beta release 3.0.0-beta-20190815 of the Connectome Mapper.

List of changes with respect to previous 3.0.0-beta-20190520:

  • DOC: Update index.rst
  • DOC: fix typo
  • DOC: Update implementation.rst
  • DOC: Update index.rst
  • DOC: Update LICENSE.rst
  • DOC: Update COPYRIGHT
  • FIX: reviewed how to save the (un)corrected aparc+aseg volume
  • FIX: backtrack option. close #15
  • TEMPFIX: make inputs valid even if json_file is missing
  • FIX: save in cff format
  • MAINT: added todo
  • FIX: installation of cfflib inside the conda environments
  • MAINT: revised concatenation of bvecs and bvals
  • FIX: harmonic order of MRtrix CSD
  • Merge branch 'master' of https://github.com/connectomicslab/connectomemapper3
  • ENH: added script to combine single-shell DWI into one multi-shell DWI
  • MAINT: moved create_connectome.py script
  • ENH: load connectivity matrices for group level analysis
  • MAINT: reviewed printouts
  • ENH: Ignore .DStore files at Docker build
  • ENH: integration of changes coming from multiscalebrainparcellator
  • ENH: added script to combine single-shell DWI into one multi-shell DWI
  • MAINT: moved create_connectome.py script
  • ENH: load connectivity matrices for group level analysis
  • MAINT: reviewed printouts
  • ENH: Ignore .DStore files at Docker build
  • ENH: integration of changes coming from multiscalebrainparcellator
  • FIX: syntax of version tag
  • MAINT: discard .DS_Store files in git
  • ENH: add python script for generating a report of connectivity matrices
  • ENH: add notebook to prototype functions to compute group network metrics
  • FIX: images for docs
  • FIX: install pyside2 and pybids 0.9.1
  • MAINT: build main docker image in build_bidsapp.sh script
  • CI: reviewed test run command with latest version tag and generation of the list of outputs
  • CI: removed version tag when building docker images
  • CI: put docker build commands in one line
  • removed = for --cache-from and added version tag CI: reviwed docker image builds
  • CI: reviewed docker image builds
  • CI: removed extra lines
  • CI: updated docker engine version and reviewed call to docker build
  • MAINT: updated version tag
  • CI: updated docker engine version
  • CI: debugging
  • CI: fixed $VERSION -> $THISVERSION
  • CI: fixed build main docker image
  • CI: build main docker image before BIDS App image + updated version tag with prefix "v" (v1.1.0-beta0 for instance)
  • FIX: added installation of pyside2 to conda environment.yml
  • ENH: Changed graphical back-end from PyQt5 to PySide2
  • FIX: call connectomemapper3 without session label
  • MAINT: updated version
  • FIX: cast number of regions to int in cmat and rsfmri_conmat

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