Merge pull request #93 from oesteban/enh/GenReportWithFullSample

[ENH] Automatically generate report when mriqc is run with the full sample

build/circle_tests.sh

@@ -20,7 +20,6 @@ set -e
 
 if [[ $CIRCLE_NODE_INDEX -eq 0 ]]; then
 	docker run -i -v /etc/localtime:/etc/localtime:ro -v ~/scratch:/scratch -w /scratch oesteban/mriqc -B /scratch/data/ds003_downsampled -d func -o outputs/ms-func/out -w outputs/ms-func/work
-	docker run -i -v /etc/localtime:/etc/localtime:ro -v ~/scratch:/scratch -w /scratch --entrypoint="/usr/bin/run_mriqc_plot" oesteban/mriqc -d func -o outputs/ms-func/out -w outputs/ms-func/work
 	docker run -i -v /etc/localtime:/etc/localtime:ro -v ~/scratch:/scratch -w /scratch oesteban/mriqc -B /scratch/data/ds003_downsampled -S $(seq -f '%02g' 01 05) -d anat -o outputs/ms-anat/out -w outputs/ms-anat/work
 	docker run -i -v /etc/localtime:/etc/localtime:ro -v ~/scratch:/scratch -w /scratch --entrypoint="/usr/bin/run_mriqc_plot" oesteban/mriqc -d anat -o outputs/ms-anat/out -w outputs/ms-anat/work
 fi

mriqc/utils/mriqc_run.py

@@ -3,7 +3,7 @@
 # @Author: oesteban
 # @Date:   2015-11-19 16:44:27
 # @Last Modified by:   oesteban
-# @Last Modified time: 2016-05-04 14:43:55
+# @Last Modified time: 2016-05-06 11:14:22
 
 """
 =====
@@ -19,6 +19,7 @@
 from argparse import RawTextHelpFormatter
 from nipype import config as ncfg
 
+from mriqc.reports.generators import workflow_report
 from mriqc.workflows import core as mwc
 from mriqc import __version__
 
@@ -117,6 +118,9 @@ def main():
 
         workflow.run(**plugin_settings)
 
+        if opts.subject_id is None:
+            workflow_report(dtype, settings)
+
 
 if __name__ == '__main__':
     main()