From f8c2c2907840e97b16052601e1a4c964db82f32e Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Mon, 11 Jan 2021 16:35:43 -0600
Subject: [PATCH] Pass whole json file to curl for lamda into AWS qc table
---
workflow/rna-seq.nf | 3 +--
1 file changed, 1 insertion(+), 2 deletions(-)
diff --git a/workflow/rna-seq.nf b/workflow/rna-seq.nf
index 93ff65c..1ed7d14 100644
--- a/workflow/rna-seq.nf
+++ b/workflow/rna-seq.nf
@@ -1876,9 +1876,8 @@ process aggrQC {
multiqc -c ${multiqcConfig} . -n ${repRID}.multiqc.html
cp ${repRID}.multiqc_data/multiqc_data.json ${repRID}.multiqc_data.json
- rpt=`cat ${repRID}.multiqc_data.json`
curl -H 'Content-Type: application/json' -X PUT -d \
- \${rpt} \
+ @./${repRID}.multiqc_data.json \
"https://9ouc12dkwb.execute-api.us-east-2.amazonaws.com/prod/db/qc"
"""
}
--
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