Source

BioStudio-dev / biostudio_cron

Full commit
#!/bin/bash -l
# running on genepool02 as gpinterp user
module load perl
module load blast+

cd /usr/common/jgi/synthbio/biostudio-dev
git pull

./Build clean
#--tmp_path $TMPDIR
perl Build.PL --conf_path /usr/common/jgi/synthbio/BioStudio/etc/BioStudio --script_path /usr/common/jgi/synthbio/BioStudio/bin --tmp_path /global/projectb/scratch/richards/bstmp --gbrowse_support 0 --cairo_support 1 --blast_support 1 --use_db_engine 1 --mysql_support 1 --mysql_user richards --mysql_pass 4_\$b\!0DtL --mysql_host gpdb09.nersc.gov --SGE_support 1
./Build
./Build test
./Build install

fix_perms -g genome ../BioStudio
fix_perms -g genome /usr/common/usg/languages/perl/5.16.0/lib/site_perl/5.16.0/Bio/BioStudio/