Added report option to run_track

run_track.sh

@@ -14,6 +14,9 @@ profile=$3
 out_directory=$4
 workdir=${5:-$USERWORK/bifrost_work}
 
+#to add to report name
+now=$(date +"%Y%m%d_%H%M")
+
 mkdir -p ${out_directory}/config_files
 git --git-dir ${script_directory}/.git branch -v |grep "\*" | awk '{print $2, $3}' > ${out_directory}/config_files/pipeline_version.log
 bash ${script_directory}/bin/printversions.sh ${profile} ${out_directory}/config_files/software_versions.txt
@@ -22,4 +25,5 @@ cp ${template} ${out_directory}/config_files
 
 
 echo "TEMPORARY WORKING DIRECTORY IS ${workdir}"
-nextflow -c ${template} run -resume ${script_directory}/${track_script} -profile ${profile} --out_dir=${out_directory} -work-dir ${workdir}
+nextflow -c ${template} run -resume ${script_directory}/${track_script} \
+-profile ${profile} --out_dir=${out_directory} -work-dir ${workdir} -with-report ${now}_run_report.html