Mercurial > repos > ucsb-phylogenetics > osiris_phylogenetics

view phylogenies/beast.sh @ 0:5b9a38ec4a39 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
First commit of old repositories
author osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
date Tue, 11 Mar 2014 12:19:13 -0700
parents
children
line wrap: on
line source

#!/bin/bash

# Helper script to change output file names then run BEAST.

# Usage: ./beast.sh STDOUT_LOG XMLCONFIG BEAGLESSE

newxml=$(python26 /home/galaxy/galaxy-dist/tools/osiris/phylogenies/beast.py ${2} $(pwd))
java -jar -Xms4096m -Xmx8192m /home/galaxy/pkgs/BEAST172/lib/beast.jar -overwrite ${3} -threads 8 ${newxml} > ${1} 2>&1