Mercurial > repos > jjohnson > crest
comparison tool-data/crest.loc.sample @ 1:4f6952e0af48 default tip
CREST - add crest.loc.sample
| author | Jim Johnson <jj@umn.edu> |
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| date | Wed, 08 Feb 2012 16:08:01 -0600 |
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| 0:acc8d8bfeb9a | 1:4f6952e0af48 |
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| 1 #This is a sample file distributed with Galaxy that enables tools | |
| 2 #to use a directory of fasta and 2bit genome files for use with CREST. You will | |
| 3 #need to supply these files and then create a crest.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 crest.loc | |
| 6 #file has this format (white space characters are TAB characters): | |
| 7 # | |
| 8 #<unique_build_id> <display_name> <fasta_path> <2bit_path> | |
| 9 # | |
| 10 #So, for example, if your crest.loc began like this: | |
| 11 # | |
| 12 #hg19 Human (Homo sapiens): hg19 /depot/data2/galaxy/twobit/hg19.fa /depot/data2/galaxy/twobit/hg19.2bit | |
| 13 #mm9 Mouse (Mus musculus): mm9 /depot/data2/galaxy/twobit/mm9.fa /depot/data2/galaxy/twobit/mm9.2bit | |
| 14 # | |
| 15 #then your /depot/data2/galaxy/twobit/ directory | |
| 16 #would need to contain the following fasta and 2bit files: | |
| 17 # | |
| 18 #-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 hg19.2bit | |
| 19 #-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 hg19.fa | |
| 20 #-rw-r--r-- 1 james universe 269808 2005-09-13 10:12 mm9.2bit | |
| 21 #-rw-r--r-- 1 james universe 269808 2005-09-13 10:12 mm9.fa | |
| 22 # | |
| 23 #Your crest.loc file should include an entry per line for | |
| 24 #each file you have stored that you want to be available. Note that | |
| 25 #your files should all have the extension '2bit'. | |
| 26 # | |
| 27 #Note that for backwards compatibility with workflows, the unique ID of | |
| 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 # | |
| 31 #hg18 Human (Homo sapiens): hg18 /depot/data2/galaxy/twobit/hg19.fa /depot/data2/galaxy/twobit/hg19.2bit |