diff --git a/workflow/rna-seq.nf b/workflow/rna-seq.nf index 1056f77e512ec6c21973e155363e4ad4b4101be6..788a910c49fbf6b842795d2c661b7fac200cfa2e 100644 --- a/workflow/rna-seq.nf +++ b/workflow/rna-seq.nf @@ -18,6 +18,7 @@ params.refMoVersion = "38.p6.vM22" params.refHuVersion = "38.p12.v31" params.refERCCVersion = "92" params.outDir = "${baseDir}/../output" +params.upload = true params.email = "" @@ -51,6 +52,7 @@ refHuVersion = params.refHuVersion refERCCVersion = params.refERCCVersion outDir = params.outDir logsDir = "${outDir}/Logs" +upload = params.upload inputBagForce = params.inputBagForce fastqsForce = params.fastqsForce speciesForce = params.speciesForce @@ -1284,6 +1286,9 @@ process uploadInputBag { output: path ("inputBagRID.csv") into inputBagRID_fl + when: + upload + script: """ hostname > ${repRID}.uploadInputBag.log @@ -1350,6 +1355,9 @@ process uploadExecutionRun { output: path ("executionRunRID.csv") into executionRunRID_fl + when: + upload + script: """ hostname > ${repRID}.uploadExecutionRun.log @@ -1431,6 +1439,9 @@ process uploadQC { output: path ("qcRID.csv") into qcRID_fl + when: + upload + script: """ hostname > ${repRID}.uploadQC.log @@ -1572,6 +1583,9 @@ process uploadOutputBag { output: path ("outputBagRID.csv") into outputBagRID_fl + when: + upload + script: """ hostname > ${repRID}.uploadOutputBag.log