From a04bb103a5a33e1e7ef3ff95c55026916b2e9c2e Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Fri, 8 Oct 2021 15:20:48 +0200
Subject: [PATCH] ucsc: fix fasta missing variable
---
src/nf_modules/ucsc/main.nf | 10 +++++-----
1 file changed, 5 insertions(+), 5 deletions(-)
diff --git a/src/nf_modules/ucsc/main.nf b/src/nf_modules/ucsc/main.nf
index 37fed303..fbb166ef 100644
--- a/src/nf_modules/ucsc/main.nf
+++ b/src/nf_modules/ucsc/main.nf
@@ -117,8 +117,8 @@ process wig_to_bigwig_sub {
script:
"""
-cut -f 1,2 ${fasta_idx} > ${fasta}.sizes
-wigToBigWig -clip ${w} ${fasta}.sizes ${w.simpleName}.bw
+cut -f 1,2 ${fasta_idx} > ${fasta_idx.simpleName}.sizes
+wigToBigWig -clip ${w} ${fasta_idx.simpleName}.sizes ${w.simpleName}.bw
"""
}
@@ -156,8 +156,8 @@ process wig2_to_bigwig2_sub {
script:
"""
-cut -f 1,2 ${fasta_idx} > ${fasta}.sizes
-wigToBigWig -clip ${w_a} ${fasta}.sizes ${w_a.simpleName}.bw
-wigToBigWig -clip ${w_b} ${fasta}.sizes ${w_b.simpleName}.bw
+cut -f 1,2 ${fasta_idx} > ${fasta_idx.simpleName}.sizes
+wigToBigWig -clip ${w_a} ${fasta_idx.simpleName}.sizes ${w_a.simpleName}.bw
+wigToBigWig -clip ${w_b} ${fasta_idx.simpleName}.sizes ${w_b.simpleName}.bw
"""
}
\ No newline at end of file
--
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