Merge pull request #69 from manikandan-thangavelu-rl/topic-release

Fix: Nextflow Tower auth token update failure

Author: RLIndia

products/Nextflow-Advanced/machine-images/config/infra/files/nextflow/set-token

@@ -1,12 +1,14 @@
 #!/usr/bin/env bash
 # Generate auth token
 AUTH_TOKEN=$(uuidgen)
+# Copy update user sql script to a temp file
+sudo cp /usr/local/bin/update-user.sql /usr/local/bin/update-user-temp.sql
 # Replace the generated token in the sql file
-sudo sed -i "s/<<AUTH_TOKEN>>/${AUTH_TOKEN}/g" /usr/local/bin/update-user.sql
+sudo sed -i "s/<<AUTH_TOKEN>>/${AUTH_TOKEN}/g" /usr/local/bin/update-user-temp.sql
 echo "Update auth token to user table"
-sudo java -cp /usr/local/bin/h2/bin/h2-*.jar org.h2.tools.RunScript -url "jdbc:h2:file:/usr/local/bin/nf-tower/.db/h2/tower" -driver "org.h2.Driver" -user "sa" -password "testpass" -script /usr/local/bin/update-user.sql -showResults
-# Replace <<AUTH_TOKEN>> back for it to work on next boot
-sudo sed -i "s/${AUTH_TOKEN}/<<AUTH_TOKEN>>/g" /usr/local/bin/update-user.sql
+sudo java -cp /usr/local/bin/h2/bin/h2-*.jar org.h2.tools.RunScript -url "jdbc:h2:file:/usr/local/bin/nf-tower/.db/h2/tower" -driver "org.h2.Driver" -user "sa" -password "testpass" -script /usr/local/bin/update-user-temp.sql -showResults
+# Remove the temp update user sql script
+sudo rm /usr/local/bin/update-user-temp.sql
 echo "Auth token updated in db"
 
 #Update SSM parameter with the auth token