From 815ee217e51a9621b421c365b85a2cf3f10aa722 Mon Sep 17 00:00:00 2001
From: ameyner2 <alison.meynert@igmm.ed.ac.uk>
Date: Tue, 25 Aug 2020 22:05:58 +0100
Subject: [PATCH] Fix bcbio path

---
 docs/Software_installation.md | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/docs/Software_installation.md b/docs/Software_installation.md
index b4b158d..1a8c1e5 100644
--- a/docs/Software_installation.md
+++ b/docs/Software_installation.md
@@ -27,21 +27,21 @@ Fix an issue with bcbio & vt/samtools/htslib. See https://github.com/bcbio/bcbio
 
 ```
 DATE=`date +%Y%m%d%H%M`
-/home/u035/project/software/bcbio/tools/bcbio_nextgen.py upgrade -u development --tools &> bcbio_install_upgrade_tools_${DATE}.log
+/home/u035/project/software/bcbio/tools/bin/bcbio_nextgen.py upgrade -u development --tools &> bcbio_install_upgrade_tools_${DATE}.log
 ```
 
 Install datatarget variation
 
 ```
 DATE=`date +%Y%m%d%H%M`
-/home/u035/project/software/bcbio/tools/bcbio_nextgen.py upgrade -u skip --datatarget variation &> bcbio_install_datatarget_variation_${DATE}.log
+/home/u035/project/software/bcbio/tools/bin/bcbio_nextgen.py upgrade -u skip --datatarget variation &> bcbio_install_datatarget_variation_${DATE}.log
 ```
 
 Install datatarget vep
 
 ```
 DATE=`date +%Y%m%d%H%M`
-/home/u035/project/software/bcbio/tools/bcbio_nextgen.py upgrade -u skip --datatarget vep &> bcbio_install_datatarget_vep_${DATE}.log
+/home/u035/project/software/bcbio/tools/bin/bcbio_nextgen.py upgrade -u skip --datatarget vep &> bcbio_install_datatarget_vep_${DATE}.log
 ```
 
 We already had gnomAD 3.0 compiled and downloaded from another bcbio installation, so this gets copied to /home/u035/project/software/bcbio/genomes/Hsapiens/hg38/variation.
-- 
GitLab