Skip to content
Snippets Groups Projects
Commit 1cf16a8f authored by Gervaise Henry's avatar Gervaise Henry :cowboy:
Browse files

Add double excape to new line in fail

parent 49be4123
Branches
Tags
2 merge requests!58Develop,!56Resolve "Detect error in inferMetadata for tracking"
Pipeline #8794 passed with stages
in 3 minutes and 22 seconds
......@@ -2002,22 +2002,22 @@ process failExecutionRun {
endInfer="unknown"
fi
pipelineError_details=\$(echo \${pipelineError_details}"Paired_End: submitted value = \""\${endMeta}"\" while inferred value = \""\${endsInfer}"\". ")
#pipelineError_details=\$(echo \${pipelineError_details}"|*Paired_End*|"\${endMeta}"|"\${endsInfer}"|\n ")
#pipelineError_details=\$(echo \${pipelineError_details}"|*Paired_End*|"\${endMeta}"|"\${endsInfer}"|\\n ")
fi
if ${pipelineError_stranded}
then
pipelineError_details=\$(echo \${pipelineError_details}"Strandedness: submitted value = \"${strandedMeta}\" while inferred value = \"${strandedInfer}\". ")
#pipelineError_details=\$(echo \${pipelineError_details}"|*Strandedness*|${strandedMeta}|"${strandedInfer}|\n ")
#pipelineError_details=\$(echo \${pipelineError_details}"|*Strandedness*|${strandedMeta}|"${strandedInfer}|\\n ")
fi
if ${pipelineError_spike}
then
pipelineError_details=\$(echo \${pipelineError_details}"Used_Spike_Ins: submitted value = \"${spikeMeta}\" while inferred value = \"${spikeInfer}\". ")
#pipelineError_details=\$(echo \${pipelineError_details}"|*Used_Spike_Ins*|${spikeMeta}|${spikeInfer}|\n ")
#pipelineError_details=\$(echo \${pipelineError_details}"|*Used_Spike_Ins*|${spikeMeta}|${spikeInfer}|\\n ")
fi
if ${pipelineError_species}
then
pipelineError_details=\$(echo \${pipelineError_details}"Species: submitted value = \"${speciesMeta}\" while inferred value = \"${speciesInfer}\". ")
#pipelineError_details=\$(echo \${pipelineError_details}"|*Species*|${speciesMeta}|"${speciesInfer}|\n ")
#pipelineError_details=\$(echo \${pipelineError_details}"|*Species*|${speciesMeta}|"${speciesInfer}|\\n ")
fi
pipelineError_details=\$(echo "\${pipelineError_details::-1}")
rid=\$(python3 ${script_uploadExecutionRun_failExecutionRun} -r ${repRID} -w \${workflow} -g \${genome} -i ${inputBagRID} -s Error -d "\${pipelineError_details}" -o ${source} -c \${cookie} -u ${executionRunRID})
......
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment