Changes

v1.0.1

• [ENH] Switch to using ANSI supported logging instead of println utility in bids.nf
• [ENH] Filter subjects based on existing output directories to bids.nf
• [ENH] Add –rewrite option to bids.nf allowing for override of subject filtering
• [ENH] Invalid subjects list are now pushed to pipeline-specific logging directory
• [ENH] FeenICS pipeline (feenics.nf) implement gzip to mitigate issues with FSL auto-zipping
• [ENH] Implement orientation fix via scraping mri_info of freesurfer on each sprl scan prior to FeenICS
• [ENH] FeenICS now outputs logs in a consistent manner to bids.nf
• [ENH] FeenICS will filter already existing output directories
• [ENH] FeenICS can run on SCC/Kimel/Local
• [ENH] FeenICS now has profile configurations set up to submit on Kimel/Local/SCC
• [FIX] FeenICS will combine spiral scans after artifact removal
• [ENH] FeenICS strategy switched to ignore after failures to allow ICArus processing
• [ENH] Fieldmap pipeline added for computing fieldmaps on CAMH GE scans (TIGRLAB internal)
• [ENH] Fieldmap pipeline outputs JSON sidecar into output folder containing units (CAMH GE specific!)
• [DOC] Updated TIGR-PURR documentation for non-BIDS internal pipelines
• [FIX] FeenICS had bug associated with uncontrolled file naming, issue is resolved