From 2bf3bc67d8ce1ee1ba9da565ce2e8c5bf83fe952 Mon Sep 17 00:00:00 2001
From: Marina Gourtovaia <mg8@sanger.ac.uk>
Date: Tue, 19 Jun 2018 21:36:44 +0100
Subject: [PATCH] use default bcftools executable

---
 lib/npg_qc/autoqc/checks/genotype.pm | 2 +-
 lib/npg_qc/utils/bam_genotype.pm     | 2 +-
 t/60-autoqc-checks-genotype.t        | 2 +-
 3 files changed, 3 insertions(+), 3 deletions(-)

diff --git a/lib/npg_qc/autoqc/checks/genotype.pm b/lib/npg_qc/autoqc/checks/genotype.pm
index 6b13f4b24..e5575b486 100644
--- a/lib/npg_qc/autoqc/checks/genotype.pm
+++ b/lib/npg_qc/autoqc/checks/genotype.pm
@@ -29,7 +29,7 @@ Readonly::Scalar my $SAMTOOLS_NAME => q[samtools];
 Readonly::Scalar my $SAMTOOLS_EXTRACT_REGIONS_NAME => q[samtools];
 Readonly::Scalar my $SAMTOOLS_MERGE_NAME => q[samtools];
 Readonly::Scalar my $SAMTOOLS_MPILEUP_NAME => q[samtools];
-Readonly::Scalar my $BCFTOOLS_NAME => q[bcftools1];
+Readonly::Scalar my $BCFTOOLS_NAME => q[bcftools];
 Readonly::Scalar our $EXT => q[bam];
 Readonly::Scalar my $SEQUENOM_QC_PLEX => q[W30467];
 Readonly::Scalar my $DEFAULT_QC_PLEX => q[sequenom_fluidigm_combo];
diff --git a/lib/npg_qc/utils/bam_genotype.pm b/lib/npg_qc/utils/bam_genotype.pm
index 14a9d2925..32c25189d 100755
--- a/lib/npg_qc/utils/bam_genotype.pm
+++ b/lib/npg_qc/utils/bam_genotype.pm
@@ -23,7 +23,7 @@ our $VERSION = '0';
 
 ##no critic
 Readonly::Scalar my $SAMTOOLS_NAME => 'samtools';
-Readonly::Scalar my $BCFTOOLS_NAME => 'bcftools1';
+Readonly::Scalar my $BCFTOOLS_NAME => 'bcftools';
 
 subtype '_bamgt_ReadableFile'
       => as Str
diff --git a/t/60-autoqc-checks-genotype.t b/t/60-autoqc-checks-genotype.t
index 6d790c41f..61b53001d 100644
--- a/t/60-autoqc-checks-genotype.t
+++ b/t/60-autoqc-checks-genotype.t
@@ -15,7 +15,7 @@ my $dir = tempdir(CLEANUP => 1);
 my $st = join q[/], $dir, q[samtools];
 `touch $st`;
 `chmod +x $st`;
-my $bt = join q[/], $dir, q[bcftools1];
+my $bt = join q[/], $dir, q[bcftools];
 `touch $bt`;
 `chmod +x $bt`;
 local $ENV{PATH} = join q[:], $dir, $ENV{PATH};