Merge pull request #67 from aws-samples/master

fix nextflow s3 project regex
aws-samples · Sep 27, 2019 · b590c3a · b590c3a
2 parents 94e74a7 + 71ab931
commit b590c3a
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diff --git a/docs/orchestration/nextflow/nextflow-overview.md b/docs/orchestration/nextflow/nextflow-overview.md
@@ -108,7 +108,7 @@ cd /opt/work/$GUID
 aws s3 sync --only-show-errors $NF_LOGSDIR/.nextflow .nextflow
 
 # stage workflow definition
-if [[ "$NEXTFLOW_PROJECT" =~ "^s3://.*" ]]; then
+if [[ "$NEXTFLOW_PROJECT" =~ ^s3://.* ]]; then
     aws s3 sync --only-show-errors --exclude 'runs/*' --exclude '.*' $NEXTFLOW_PROJECT ./project
     NEXTFLOW_PROJECT=./project
 fi

diff --git a/src/containers/nextflow/nextflow.aws.sh b/src/containers/nextflow/nextflow.aws.sh
@@ -51,7 +51,7 @@ cd /opt/work/$GUID
 aws s3 sync --only-show-errors $NF_LOGSDIR/.nextflow .nextflow
 
 # stage workflow definition
-if [[ "$NEXTFLOW_PROJECT" =~ "^s3://.*" ]]; then
+if [[ "$NEXTFLOW_PROJECT" =~ ^s3://.* ]]; then
     aws s3 sync --only-show-errors --exclude 'runs/*' --exclude '.*' $NEXTFLOW_PROJECT ./project
     NEXTFLOW_PROJECT=./project
 fi