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fix: correct metadata var
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boasvdp committed Sep 18, 2024
1 parent d79c277 commit 0cc6f3d
Showing 1 changed file with 1 addition and 5 deletions.
6 changes: 1 addition & 5 deletions run_pipeline.sh
Original file line number Diff line number Diff line change
Expand Up @@ -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}
Expand All @@ -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}
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