diff --git a/agave/Phenotypes_Condor_submit.htc b/agave/Phenotypes_Condor_submit.htc index 8b4d5e1..56b7be5 100644 --- a/agave/Phenotypes_Condor_submit.htc +++ b/agave/Phenotypes_Condor_submit.htc @@ -1,5 +1,5 @@ universe = docker -docker_image = teatree/retrieve_bip_phenotypes:v0.0.4 +docker_image = teatree/retrieve_bip_phenotypes:v0.0.6 output = BIP-phenotypes.out error = BIP-phenotypes.err diff --git a/retrieve_trial.sh b/retrieve_trial.sh index bbdf7eb..557146b 100755 --- a/retrieve_trial.sh +++ b/retrieve_trial.sh @@ -13,6 +13,7 @@ echo "Start running ruby client" ruby /usr/src/app/retrieve_phenotypes_and_ID.rb $trial_name $api_key echo "Extract sequence identifiers" -cat Phenotypes_BIP_${trial_name}.csv| tr ',' '\t'|awk '{print $1 "," $2}' >> Seq_names.txt +./ExtractSeqIds.sh + echo "all done"