From b123b09a90a85c6d6ac0ec0024a0f021beb5bf25 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Sun, 13 Sep 2020 22:41:26 -0500
Subject: [PATCH] Combine inputs for getRefInfer
---
workflow/rna-seq.nf | 8 +++++---
1 file changed, 5 insertions(+), 3 deletions(-)
diff --git a/workflow/rna-seq.nf b/workflow/rna-seq.nf
index b7cf322..01920de 100644
--- a/workflow/rna-seq.nf
+++ b/workflow/rna-seq.nf
@@ -376,6 +376,9 @@ fastqsTrim.into {
fastqsTrim_downsampleData
}
+// Combine inputs of getRefInfer
+getRefInferInput = referenceInfer.combine(deriva_getRefInfer.combine(script_refDataInfer))
+
/*
* getRefInfer: dowloads appropriate reference for metadata inference
*/
@@ -383,9 +386,7 @@ process getRefInfer {
tag "${refName}"
input:
- path credential, stageAs: "credential.json" from deriva_getRefInfer
- path script_refDataInfer
- val refName from referenceInfer
+ tuple val (refName), path (credential, stageAs: "credential.json"), path (script_refDataInfer) from getRefInferInput
output:
tuple val (refName), path ("hisat2", type: 'dir'), path ("*.fna"), path ("*.gtf") into refInfer
@@ -684,6 +685,7 @@ inferMetadata.splitCsv(sep: ",", header: false).separate(
percentRInfer,
failInfer
)
+
// Replicate metadata for multiple process inputs
endsInfer.into {
endsInfer_alignData
--
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