From bc6758c12c461c240b5d22ea1ff4798494681c65 Mon Sep 17 00:00:00 2001
From: Blaise Li <blaise.li__git@nsup.org>
Date: Wed, 17 Jul 2019 10:53:34 +0200
Subject: [PATCH] More robust bam2bigwig.sh, increment version.

---
 libhts/__init__.py    | 2 +-
 scripts/bam2bigwig.sh | 6 ++++++
 2 files changed, 7 insertions(+), 1 deletion(-)

diff --git a/libhts/__init__.py b/libhts/__init__.py
index 9afa4cf..4f43948 100644
--- a/libhts/__init__.py
+++ b/libhts/__init__.py
@@ -1,4 +1,4 @@
-__version__ = 0.1
+__version__ = 0.2
 from .libhts import (
     aligner2min_mapq,
     gtf_2_genes_exon_lengths,
diff --git a/scripts/bam2bigwig.sh b/scripts/bam2bigwig.sh
index 8a96ad5..45a339c 100755
--- a/scripts/bam2bigwig.sh
+++ b/scripts/bam2bigwig.sh
@@ -50,6 +50,12 @@ bin_file=${2}
 #        | sed 's/SN://g' | sed 's/LN://' \
 #        | bedops --chop 10 - \
 #        > Caenorhabditis_elegans/Ensembl/WBcel235/Sequence/genome_binned_10.bed
+
+# Ensure we use a 3 columns minimal bed for bin_file:
+
+awk '{print $1"\t"$2"\t"$3}' ${bin_file} > "${workdir}/genome_binned.bed"
+bin_file="${workdir}/genome_binned.bed"
+
 lib_name=${3}
 orient=${4}
 # "F" is library type is normally stranded, "R" if it is reverse-stranded
-- 
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