From b6ec09464bef57c0628be1acd5518a7b75b30236 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Sun, 21 Mar 2021 00:23:39 -0500
Subject: [PATCH] Fix staging error rep count
---
workflow/scripts/get_updated_rep_count.sh | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/workflow/scripts/get_updated_rep_count.sh b/workflow/scripts/get_updated_rep_count.sh
index 8c49587..4805a9c 100644
--- a/workflow/scripts/get_updated_rep_count.sh
+++ b/workflow/scripts/get_updated_rep_count.sh
@@ -34,7 +34,7 @@ do
staging_total=$(expr ${staging_total} + ${temp_total})
temp_success=$(curl -s https://staging.gudmap.org/ermrest/catalog/2/entity/Q:=RNASeq:mRNA_QC/E:=\(Execution_Run\)=\(RNASeq:Execution_Run:RID\)/Workflow=${rid}/Execution_Status=Success/\$Q | grep -o \"Replicate\".*,\"Paired_End | grep -oP "(?<=\"Replicate\":\").*(?=\",\"Paired_End)" | sort | uniq | wc -l)
staging_success=$(expr ${staging_success} + ${temp_success})
- temp_error=$(curl -s https://dstagingev.gudmap.org/ermrest/catalog/2/entity/Q:=RNASeq:mRNA_QC/E:=\(Execution_Run\)=\(RNASeq:Execution_Run:RID\)/Workflow=${rid}/Execution_Status=Error/\$Q | grep -o \"Replicate\".*,\"Paired_End | grep -oP "(?<=\"Replicate\":\").*(?=\",\"Paired_End)" | sort | uniq | wc -l)
+ temp_error=$(curl -s https://staging.gudmap.org/ermrest/catalog/2/entity/Q:=RNASeq:mRNA_QC/E:=\(Execution_Run\)=\(RNASeq:Execution_Run:RID\)/Workflow=${rid}/Execution_Status=Error/\$Q | grep -o \"Replicate\".*,\"Paired_End | grep -oP "(?<=\"Replicate\":\").*(?=\",\"Paired_End)" | sort | uniq | wc -l)
staging_error=$(expr ${staging_error} + ${temp_error})
done
prod_total=0
--
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