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Eliminated hard-codes paths to locally cached data from tools, requires developers to add softlinks to development environments.

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Galaxy developers should execute the following commands in their $UNIVERSE_HOME/tool-data directories:

ln -s /depot/data2/galaxy/alignseq.loc alignseq.loc
ln -s /depot/data2/galaxy/binned_scores.loc binned_scores.loc
ln -s /depot/data2/galaxy/blastdb.loc blastdb.loc
ln -s /depot/data2/galaxy/encode_datasets.loc encode_datasets.loc
ln -s /depot/data2/galaxy/liftOver.loc liftOver.loc
ln -s /depot/data2/galaxy/maf_index.loc maf_index.loc
ln -s /depot/data2/galaxy/maf_pairwise.loc maf_pairwise.loc
ln -s /depot/data2/galaxy/microbes/microbial_data.loc microbial_data.loc
ln -s /depot/data2/galaxy/phastOdds.loc phastOdds.loc
ln -s /depot/data2/galaxy/quality_scores.loc quality_scores.loc
ln -s /depot/data2/galaxy/regions.loc regions.loc
ln -s /depot/data2/galaxy/twobit.loc twobit.loc
This commit is contained in:
Greg Von Kuster
2008-03-21 18:31:39 +00:00
parent a57d78cd9b
commit cd52cabd48
38 changed files with 127 additions and 105 deletions
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tools/data_source/encode_import_gencode.xml
+2 -2
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@@ -6,13 +6,13 @@
<p><div class="toolFormTitle">hg16 (most recent datasets in bold)</div>$hg16</p>
</display>
<param name="hg17" type="select" display="checkboxes" multiple="true">
<options from_file="/depot/data2/galaxy/encode_datasets.loc">
<options from_file="encode_datasets.loc">
<filter type="param" name="encode_group" value="GENCODE" />
<filter type="param" name="dbkey" value="hg17" />
</options>
</param>
<param name="hg16" type="select" display="checkboxes" multiple="true">
<options from_file="/depot/data2/galaxy/encode_datasets.loc">
<options from_file="encode_datasets.loc">
<filter type="param" name="encode_group" value="GENCODE" />
<filter type="param" name="dbkey" value="hg16" />
</options>