Mercurial > repos > devteam > table_recalibration
comparison tool-data/gatk_sorted_picard_index.loc.sample @ 0:53dd1bfced54 draft
Imported from capsule None
author | devteam |
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date | Tue, 01 Apr 2014 10:49:41 -0400 |
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1 #This is a sample file distributed with Galaxy that enables tools | |
2 #to use a directory of Picard dict and associated files. You will need | |
3 #to create these data files and then create a picard_index.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 picard_index.loc | |
6 #file has this format (longer white space is the TAB character): | |
7 # | |
8 #<unique_build_id> <dbkey> <display_name> <fasta_file_path> | |
9 # | |
10 #So, for example, if you had hg18 indexed and stored in | |
11 #/depot/data2/galaxy/srma/hg18/, | |
12 #then the srma_index.loc entry would look like this: | |
13 # | |
14 #hg18 hg18 hg18 Pretty /depot/data2/galaxy/picard/hg18/hg18.fa | |
15 # | |
16 #and your /depot/data2/galaxy/srma/hg18/ directory | |
17 #would contain the following three files: | |
18 #hg18.fa | |
19 #hg18.dict | |
20 #hg18.fa.fai | |
21 # | |
22 #The dictionary file for each reference (ex. hg18.dict) must be | |
23 #created via Picard (http://picard.sourceforge.net). Note that | |
24 #the dict file does not have the .fa extension although the | |
25 #path list in the loc file does include it. | |
26 # |