diff --git a/run_pipeline.sh b/run_pipeline.sh index 910b668..bf4c664 100755 --- a/run_pipeline.sh +++ b/run_pipeline.sh @@ -121,10 +121,6 @@ fi set +euo pipefail -echo "--start env--" -env -echo "--end--" - SEQ_KEYS= SEQ_ENV=`env | grep irods_input_sequencing` for SEQ_AVU in ${SEQ_ENV} @@ -134,7 +130,7 @@ done for key in $SEQ_KEYS irods_input_illumina__Flowcell irods_input_illumina__Instrument \ irods_input_illumina__Date irods_input_illumina__Run_number irods_input_illumina__Run_Id \ - irods_input__user__include_in_surveillance irods_input__user__validation_set + irods_input_user__include_in_surveillance irods_input_user__validation_set do if [ ! -z ${!key} ] ; then attrname=${key:12}