Software versioning

Common software versioning patterns

Versions have multiple fields, usually separated by dots ., sometimes hypens -, underscores _ or the plus sign +, though it is less common and their support is not universal. Fields usually takes on a number, but can also contain other alphanumeric characters.

A semantic version follows the pattern MAJOR.MINOR.PATCH. Fields are hierarchically mandatory :

• MINOR field cannot be defined without a MAJOR.
• PATCH field needs both others.

Additionally, a LABEL can be suffixed to the version :

• MAJOR.MINOR.PATCH-PRERELEASE : a pre-release version, where PRERELEASE is an alphanumeric string.
• MAJOR.MINOR.PATCH+BUILD : a build version, where BUILD is an alphanumeric string.
• MAJOR.MINOR.PATCH-PRERELEASE+BUILD : a PRERELEASE version based on a specific BUILD, with both alphanumeric strings.

Software version extraction

Below is a list of useful commands to extract valid semantic versions from common neuroimaging software :

ANTs

antsRegistration --version \| grep "Version" \| sed -E 's/.*: v?([0-9.a-zA-Z-]+).*/\\1/'

Fastsurfer

$FASTSURFER_HOME/run_fastsurfer.sh --version

Freesurfer

mri_convert -version | grep "freesurfer" | sed -E 's/.* ([0-9.]+).*/\\1/'

FSL

flirt -version 2>&1 | sed -E 's/.*version ([0-9.]+).*/\\1/'

ImageMagick

convert -version | grep "Version:" | sed -E 's/.*ImageMagick ([0-9.-]+).*/\\1/'

Mrtrix3

mrinfo -version 2>&1 | grep "== mrinfo" | sed -E 's/== mrinfo ([0-9.]+).*/\\1/'

nii2dcm

convert_nii2dcm.py -v

Scilpy

scilpy < 2.2.0

pip list --disable-pip-version-check --no-python-version-warning | grep scilpy | tr -s ' ' | cut -d' ' -f2

scilpy >= 2.2.0

uv pip -q -n list | grep scilpy | tr -s ' ' | cut -d' ' -f2