Mercurial > repos > iuc > coverm_genome

comparison test-data/all_fasta.loc @ 0:134e4e78e754 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tools/coverm commit 5a4ee5e5f8eee3a08a1cd2dfd9edf15aacea0a94"
author iuc
date Tue, 26 Apr 2022 15:27:01 +0000
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children 847f274a60da
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-1:000000000000 0:134e4e78e754
1 #This is a sample file distributed with Galaxy that enables tools
2 #to use a directory of sequence 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/,
13 #
14 #then the all_fasta.loc entry would look like this:
15 #
16 #hg19canon hg19 Human (Homo sapiens): hg19 Canonical /depot/data2/galaxy/hg19/hg19canon.fasta
17 #
18 #and your /depot/data2/galaxy/hg19/ directory
19 #would contain hg19canon.fasta 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/hg18canon.fasta
27 #hg18full hg18 Human (Homo sapiens): hg18 Full /depot/data2/galaxy/hg18/hg18full.fasta
28 #hg19canon hg19 Human (Homo sapiens): hg19 Canonical /depot/data2/galaxy/hg19/hg19canon.fasta
29 #hg19full hg19 Human (Homo sapiens): hg19 Full /depot/data2/galaxy/hg19/hg19full.fasta
30 test1tg01 "TestGenome" ${__HERE__}/reference.fasta