From e0944ce7ba895265608c924462b7bce01871f921 Mon Sep 17 00:00:00 2001
From: nservant <nservant@curie.fr>
Date: Thu, 4 Apr 2019 13:01:14 +0200
Subject: [PATCH] test until contact maps
---
main.nf | 8 ++------
1 file changed, 2 insertions(+), 6 deletions(-)
diff --git a/main.nf b/main.nf
index ba99843..f29a49c 100644
--- a/main.nf
+++ b/main.nf
@@ -362,7 +362,7 @@ if(!params.chromosome_size && params.fasta){
if(!params.restriction_fragments && params.fasta){
process makeRestrictionFragments {
- tag "$fasta"
+ tag "$fasta - ${params.restriction_site}"
//publishDir path: { params.saveReference ? "${params.outdir}/reference_genome" : params.outdir },
// saveAs: { params.saveReference ? it : null }, mode: 'copy'
@@ -521,12 +521,10 @@ process get_valid_interaction{
"""
}
-
/*
* STEP3 - BUILD MATRIX
*/
-/*
process build_contact_maps{
tag "$sample - $mres"
input:
@@ -541,13 +539,11 @@ process build_contact_maps{
build_matrix --matrix-format upper --binsize ${mres} --chrsizes ${chrsize} --ifile ${vpairs} --oprefix ${sample}_${mres}
"""
}
-*/
/*
* STEP 4 - NORMALIZE MATRIX
*/
-/*
process run_iced{
tag "$rmaps"
input:
@@ -565,7 +561,7 @@ process run_iced{
--max_iter ${params.ice_max_iter} --eps ${params.ice_eps} --remove-all-zeros-loci --output-bias 1 --verbose 1 ${rmaps}
"""
}
-*/
+
/*
* STEP 5 - COOLER FILE
--
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