From 73a4988167c17c1d564de491f450046501e83a18 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Sun, 10 Mar 2019 15:50:26 -0500
Subject: [PATCH] Change params.genomeLocation to concatenate with
params.genome
---
workflow/main.nf | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/workflow/main.nf b/workflow/main.nf
index c9146f6..6a186ff 100755
--- a/workflow/main.nf
+++ b/workflow/main.nf
@@ -8,7 +8,7 @@ params.fastq = "$baseDir/../test_data/*.fastq.gz"
params.designFile = "$baseDir/../test_data/design.csv"
params.genome = 'GRCh38-3.0.0'
params.genomes = []
-params.genomeLocation = params.genome ? params.genomes[ params.genome ].loc ?: false : false
+params.genomeLocation = params.genome ? params.genomes[ params.genome ].loc ?: false : false + params.genome
params.expectCells = 10000
params.forceCells = 0
params.kitVersion = 'three'
@@ -27,7 +27,7 @@ fastqList = Channel
.map { file -> [ file.getFileName().toString(), file.toString() ].join("\t") }
.collectFile(name: 'fileList.tsv', newLine: true)
refLocation = Channel
- .fromPath(params.genomeLocation+params.genome)
+ .fromPath(params.genomeLocation)
.ifEmpty { exit 1, "referene not found: ${params.genome}" }
expectCells = params.expectCells
forceCells = params.forceCells
--
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