Mercurial > repos > cjav > smalt
diff tool-data/smalt_index.loc.sample @ 1:54855bd8d107 draft default tip
First attempt to get tool_dependencies.xml right.
| author | cjav |
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| date | Wed, 20 Mar 2013 17:07:14 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool-data/smalt_index.loc.sample Wed Mar 20 17:07:14 2013 -0400 @@ -0,0 +1,29 @@ +#This is a sample file distributed with Galaxy that enables tools +#to use a directory of Smalt indexed sequences data files. You will need +#to create these data files and then create a smalt_index.loc file +#similar to this one (store it in this directory) that points to +#the directories in which those files are stored. The smalt_index.loc +#file has this format (longer white space characters are TAB characters): +# +#<unique_build_id> <dbkey> <display_name> <file_path> +# +#So, for example, if you had phiX indexed stored in +#/depot/data2/galaxy/phiX/base/, +#then the smalt_index.loc entry would look like this: +# +#phiX174 phiX phiX Pretty /depot/data2/galaxy/phiX/base/phiX.fa +# +#and your /depot/data2/galaxy/phiX/base/ directory +#would contain hg19.fa.* files: +# +#-rw-r--r-- 1 cborroto universe 527388 2005-09-13 10:12 phix.fa.sma +#-rw-r--r-- 1 cborroto universe 269808 2005-09-13 10:12 phiX.fa.smi +# +#Your smalt_index.loc file should include an entry per line for each +#index set you have stored. The "file" in the path does not actually +#exist, but it is the prefix for the actual index files. For example: +# +#phiX174 phiX phiX174 /depot/data2/galaxy/phiX/base/phiX.fa +#hg18canon hg18 hg18 Canonical /depot/data2/galaxy/hg18/base/hg18canon.fa +#hg18full hg18 hg18 Full /depot/data2/galaxy/hg18/base/hg18full.fa +