From 17b6ab4733c0c440a8f5f5bebf7864c39dbc7acf Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Tue, 4 Sep 2018 22:12:40 -0500
Subject: [PATCH] Try changing ref variable name
---
workflow/main.nf | 8 ++++----
1 file changed, 4 insertions(+), 4 deletions(-)
diff --git a/workflow/main.nf b/workflow/main.nf
index a0bcf3f..a899d82 100755
--- a/workflow/main.nf
+++ b/workflow/main.nf
@@ -8,15 +8,15 @@ params.fastq = "$baseDir/../test_data/*.fastq.gz"
params.designFile = "$baseDir/../test_data/design.csv"
params.genome = 'GRCh38'
params.genomes = []
-params.ref = params.genome ? params.genomes[ params.genome ].ref ?: false : false
+params.refIndex = params.genome ? params.genomes[ params.genome ].ref ?: false : false
params.expectCells = 10000
params.forceCells = 0
// Check inputs
-if( params.ref ){
+if( params.refIndex ){
refLocation = Channel
- .fromPath(params.ref)
- .ifEmpty { exit 1, "referene not found: ${params.ref}" }
+ .fromPath(params.refIndex)
+ .ifEmpty { exit 1, "referene not found: ${params.refIndex}" }
} else {
exit 1, "No reference genome specified."
}
--
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