diff --git a/docs/Software_installation.md b/docs/Software_installation.md index cdfef0a3b1a092d95b34c120cbf39f074811d635..984718cdb44cb2464810b5eac69048e3b9be9b73 100644 --- a/docs/Software_installation.md +++ b/docs/Software_installation.md @@ -6,7 +6,7 @@ Downloaded Aspera Connect version 3.7.4.147727 from https://downloads.asperasoft ## bcbio -Version 1.2.3 with some bugfixes from the dev branch. +Version 1.2.3 with some bugfixes from the dev branch as of 26 August 2020. Start with installing the base software, and add datatargets. @@ -50,4 +50,17 @@ Increase JVM memory for GATK in galaxy/bcbio_system.yaml ## VASE -VASE was installed following the instructions at https://github.com/david-a-parry/vase. +VASE was installed following the instructions at https://github.com/david-a-parry/vase, downloaded 27 August 2020. + +``` +cd /home/u035/project/software/install +git clone https://github.com/david-a-parry/vase.git +cd vase +/home/u035/project/software/bcbio/anaconda/bin/python3 setup.py install --prefix /home/u035/project/software +``` + +Users should include this line in any shell scripts calling VASE: + +``` +export PYTHONPATH=/home/u035/project/software/lib/python3.6/site-packages +``` \ No newline at end of file