root/galaxy-central/tool-data/bowtie_indices.loc

リビジョン 3, 1.2 KB (コミッタ: kohda, 14 年 前)

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1#This is a sample file distributed with Galaxy that enables tools
2#to use a directory of Bowtie indexed sequences data files.  You will need
3#to create these data files and then create a bowtie_indices.loc file
4#similar to this one (store it in this directory) that points to
5#the directories in which those files are stored. The bowtie_indices.loc
6#file has this format (white space characters are TAB characters):
7#
8#<build>        <file_base>
9#
10#So, for example, if you had hg18 indexed stored in
11#/depot/data2/galaxy/bowtie/hg18/,
12#then the bowtie_indices.loc entry would look like this:
13#
14#hg18   /depot/data2/galaxy/bowtie/hg18/hg18
15#
16#and your /depot/data2/galaxy/bowtie/hg18/ directory
17#would contain hg18.*.ebwt files:
18#
19#-rw-r--r--  1 james    universe 830134 2005-09-13 10:12 hg18.1.ebwt
20#-rw-r--r--  1 james    universe 527388 2005-09-13 10:12 hg18.2.ebwt
21#-rw-r--r--  1 james    universe 269808 2005-09-13 10:12 gh18.3.ebwt
22#...etc...
23#
24#Your bowtie_indices.loc file should include an entry per line for
25#each index set you have stored.  The "file" in the path does not actually
26#exist, but it is the prefix for the actual index files.  For example:
27#
28#hg18   /depot/data2/galaxy/bowtie/hg18/hg18
29#hg19   /depot/data2/galaxy/bowtie/hg19/hg19
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