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comparison tool-data/deepTools_seqs.loc.sample @ 10:a68a771625d2 draft

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author bgruening
date Tue, 29 Oct 2013 17:26:28 -0400
parents 09b65c12a75a
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9:73761f33f198 10:a68a771625d2
1 #This is a sample file distributed with Galaxy that enables tools 1 #This is a sample file distributed with Galaxy that enables tools
2 #to use a directory of 2bit genome files for use with deepTools. You will 2 #to use a directory of 2bit genome files for use with deepTools. You will
3 #need to supply these files and then create a deepTools_seqs.loc file 3 #need to supply these files and then create a deepTools_seqs.loc file
4 #similar to this one (store it in this directory) that points to 4 #similar to this one (store it in this directory) that points to
5 #the directories in which those files are stored. The deepTools_seqs.loc 5 #the directories in which those files are stored. The deepTools_seqs.loc
6 #file has this format (white space characters are TAB characters): 6 #file has this format:
7 # 7 #
8 #<unique_build_id><display_name><file_path> 8 #<unique_build_id> <display_name> <file_path>
9 # 9 #
10 #So, for example, if your deepTools_seqs.loc began like this: 10 #So, for example, if your deepTools_seqs.loc began like this:
11 # 11 #
12 #hg18Human (Homo sapiens): hg18/depot/data2/galaxy/twobit/hg18.2bit 12 #hg18 Human (Homo sapiens): hg18 /depot/data2/galaxy/twobit/hg18.2bit
13 #hg19Human (Homo sapiens): hg19/depot/data2/galaxy/twobit/hg19.2bit 13 #hg19 Human (Homo sapiens): hg19 /depot/data2/galaxy/twobit/hg19.2bit
14 #mm9Mouse (Mus musculus): mm9/depot/data2/galaxy/twobit/mm9.2bit 14 #mm9 Mouse (Mus musculus): mm9 /depot/data2/galaxy/twobit/mm9.2bit
15 # 15 #
16 #then your /depot/data2/galaxy/twobit/ directory 16 #then your /depot/data2/galaxy/twobit/ directory
17 #would need to contain the following 2bit files: 17 #would need to contain the following 2bit files:
18 # 18 #
19 #-rw-r--r-- 1 james universe 830134 2005-09-13 10:12 hg18.2bit 19 #-rw-r--r-- 1 james universe 830134 2005-09-13 10:12 hg18.2bit
22 # 22 #
23 #Your deepTools_seqs.loc file should include an entry per line for 23 #Your deepTools_seqs.loc file should include an entry per line for
24 #each file you have stored that you want to be available. Note that 24 #each file you have stored that you want to be available. Note that
25 #your files should all have the extension '2bit'. 25 #your files should all have the extension '2bit'.
26 # 26 #
27 #Note that for backwards compatibility with workflows, the unique ID of 27 #Please note that the <unique_build_id> is also used as "Species name abbreviation".
28 #an entry must be the path that was in the original loc file, because that
29 #is the value stored in the workflow for that parameter.
30 #