From dcb430e3a6d071015e07f82042e2cafe9ad032c9 Mon Sep 17 00:00:00 2001
From: Venkat Malladi <venkat.malladi@utsouthwestern.edu>
Date: Thu, 16 Nov 2017 13:01:56 -0600
Subject: [PATCH] Fix channels.
---
workflow/main.nf | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/workflow/main.nf b/workflow/main.nf
index a33cc85..25f1b2d 100644
--- a/workflow/main.nf
+++ b/workflow/main.nf
@@ -330,7 +330,7 @@ process callPeaksMACS {
output:
- set sampleId, file('*.narrowPeak'), file('*.fc_signal.bw'), file('*.pvalue_signal.bw'), experimentId, biosample, factor, treatment, replicate, controlId from experimentRows
+ set sampleId, file('*.narrowPeak'), file('*.fc_signal.bw'), file('*.pvalue_signal.bw'), experimentId, biosample, factor, treatment, replicate, controlId into experimentPeaks
script:
@@ -348,7 +348,7 @@ process callPeaksMACS {
}
// Define channel collecting peaks into design file
-peaksDesign = experimentRows
+peaksDesign = experimentPeaks
.map{ sampleId, peak, fcSignal, pvalueSignal, experimentId, biosample, factor, treatment, replicate, controlId ->
"$sampleId\t$peak\t$fcSignal\t$pvalueSignal\t$experimentId\t$biosample\t$factor\t$treatment\t$replicate\t$controlId\n"}
.collectFile(name:'design_peak.tsv', seed:"sample_id\tpeak\txcor\tfcSignal\tpvalueSignal\texperiment_id\tbiosample\tfactor\ttreatment\treplicate\tcontrol_id\n", storeDir:"$baseDir/output/design")
--
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