Mercurial > repos > devteam > gffread
comparison tool-data/fasta_indexes.loc.sample @ 0:baeea9c2ff0f draft
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/cufflinks/gffread commit 5a4e0ca9992af3a6e5ed2b533f04bb82ce761e0b
author | devteam |
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date | Mon, 09 Nov 2015 12:06:36 -0500 |
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1 #This is a sample file distributed with Galaxy that enables tools | |
2 #to use a directory of Samtools indexed sequences data files. You will need | |
3 #to create these data files and then create a fasta_indexes.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 fasta_indexes.loc | |
6 #file has this format (white space characters are TAB characters): | |
7 # | |
8 # <unique_build_id> <dbkey> <display_name> <file_base_path> | |
9 # | |
10 #So, for example, if you had hg19 Canonical indexed stored in | |
11 # | |
12 # /depot/data2/galaxy/hg19/sam/, | |
13 # | |
14 #then the fasta_indexes.loc entry would look like this: | |
15 # | |
16 #hg19canon hg19 Human (Homo sapiens): hg19 Canonical /depot/data2/galaxy/hg19/sam/hg19canon.fa | |
17 # | |
18 #and your /depot/data2/galaxy/hg19/sam/ directory | |
19 #would contain hg19canon.fa and hg19canon.fa.fai files. | |
20 # | |
21 #Your fasta_indexes.loc file should include an entry per line for | |
22 #each index set you have stored. The file in the path does actually | |
23 #exist, but it should never be directly used. Instead, the name serves | |
24 #as a prefix for the index file. For example: | |
25 # | |
26 #hg18canon hg18 Human (Homo sapiens): hg18 Canonical /depot/data2/galaxy/hg18/sam/hg18canon.fa | |
27 #hg18full hg18 Human (Homo sapiens): hg18 Full /depot/data2/galaxy/hg18/sam/hg18full.fa | |
28 #hg19canon hg19 Human (Homo sapiens): hg19 Canonical /depot/data2/galaxy/hg19/sam/hg19canon.fa | |
29 #hg19full hg19 Human (Homo sapiens): hg19 Full /depot/data2/galaxy/hg19/sam/hg19full.fa |