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update buildbot_setup.sh for new data location

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This commit is contained in:
Nate Coraor
2010-02-23 16:12:20 -05:00
parent 5e34e82e5c
commit ea7f5879e1
1 changed files with 26 additions and 21 deletions
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buildbot_setup.sh
+26 -21
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@@ -19,31 +19,34 @@ case "$OSTYPE" in
done
[ ! -d "$HYPHY" ] && unset HYPHY
;;
solaris2.10)
HYPHY="/galaxy/software/linux2.6-x86_64/hyphy"
;;
esac
LINKS="
/depot/data2/galaxy/alignseq.loc
/depot/data2/galaxy/annotation_profiler/annotation_profiler.loc
/depot/data2/galaxy/annotation_profiler/annotation_profiler_options.xml
/depot/data2/galaxy/annotation_profiler/annotation_profiler_valid_builds.txt
/depot/data2/galaxy/binned_scores.loc
/depot/data2/galaxy/blastdb.loc
/depot/data2/galaxy/bowtie_indices.loc
/depot/data2/galaxy/bowtie_indices_color.loc
/depot/data2/galaxy/bwa_index.loc
/depot/data2/galaxy/encode_datasets.loc
/galaxy/data/location/alignseq.loc
/galaxy/data/annotation_profiler/annotation_profiler.loc
/galaxy/data/annotation_profiler/annotation_profiler_options.xml
/galaxy/data/annotation_profiler/annotation_profiler_valid_builds.txt
/galaxy/data/location/binned_scores.loc
/galaxy/data/location/blastdb.loc
/galaxy/data/location/bowtie_indices.loc
/galaxy/data/location/bowtie_indices_color.loc
/galaxy/data/location/bwa_index.loc
/galaxy/data/location/encode_datasets.loc
/galaxy/home/universe/encode_feature_partitions
/depot/data2/galaxy/lastz_seqs.loc
/depot/data2/galaxy/liftOver.loc
/depot/data2/galaxy/maf_index.loc
/depot/data2/galaxy/maf_pairwise.loc
/depot/data2/galaxy/microbes/microbial_data.loc
/depot/data2/galaxy/phastOdds.loc
/depot/data2/galaxy/quality_scores.loc
/depot/data2/galaxy/regions.loc
/depot/data2/galaxy/sam_fa_indices.loc
/depot/data2/galaxy/taxonomy
/depot/data2/galaxy/twobit.loc
/galaxy/data/location/lastz_seqs.loc
/galaxy/data/location/liftOver.loc
/galaxy/data/location/maf_index.loc
/galaxy/data/location/maf_pairwise.loc
/galaxy/data/location/microbes/microbial_data.loc
/galaxy/data/location/phastOdds.loc
/galaxy/data/location/quality_scores.loc
/galaxy/data/location/regions.loc
/galaxy/data/location/sam_fa_indices.loc
/galaxy/data/location/taxonomy
/galaxy/data/location/twobit.loc
"
SAMPLES="
@@ -63,11 +66,13 @@ database/pbs
for link in $LINKS; do
echo "Linking $link"
rm -f tool-data/`basename $link`
ln -sf $link tool-data
done
if [ -d "$HYPHY" ]; then
echo "Linking $HYPHY"
rm -f tool-data/HYPHY
ln -sf $HYPHY tool-data/HYPHY
fi