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comparison tool-data/hisat2_indexes.loc.sample @ 0:d3eb4d51b285 draft

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_hisat2_index_builder commit 1e8d3feeb391aabcfff2338b57913138deea51ec-dirty
author iuc
date Sat, 10 Oct 2015 14:53:43 -0400
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1 # hisat2_indexes.loc.sample
2 # This is a *.loc.sample file distributed with Galaxy that enables tools
3 # to use a directory of indexed data files. This one is for HISAT2.
4 # See the wiki: http://wiki.galaxyproject.org/Admin/NGS%20Local%20Setup
5 # First create these data files and save them in your own data directory structure.
6 # Then, create a hisat2_indexes.loc file to use those indexes with tools.
7 # Copy this file, save it with the same name (minus the .sample),
8 # follow the format examples, and store the result in this directory.
9 # The file should include an one line entry for each index set.
10 # The path points to the "basename" for the set, not a specific file.
11 # It has four text columns seperated by TABS.
12 #
13 # <unique_build_id> <dbkey> <display_name> <file_base_path>
14 #
15 # So, for example, if you had sacCer3 indexes stored in:
16 #
17 # /depot/data2/galaxy/sacCer3/hisat2_indexes/
18 #
19 # containing sacCer3 genome and sacCer3.*.ht2 files, such as:
20 #
21 # -rw-rw-r-- 1 dave dave 12M Sep 23 13:57 sacCer3.1.ht2
22 # -rw-rw-r-- 1 dave dave 2.9M Sep 23 13:57 sacCer3.2.ht2
23 # -rw-rw-r-- 1 dave dave 161 Sep 23 13:57 sacCer3.3.ht2
24 # -rw-rw-r-- 1 dave dave 2.9M Sep 23 13:57 sacCer3.4.ht2
25 # -rw-rw-r-- 1 dave dave 7.3M Sep 23 13:57 sacCer3.5.ht2
26 # -rw-rw-r-- 1 dave dave 3.0M Sep 23 13:57 sacCer3.6.ht2
27 # -rw-rw-r-- 1 dave dave 128K Sep 23 13:57 sacCer3.7.ht2
28 # -rw-rw-r-- 1 dave dave 32K Sep 23 13:57 sacCer3.8.ht2
29 #
30 # then the hisat2_indexes.loc entry could look like this:
31 #
32 #sacCer3 sacCer3 S. cerevisiae Apr. 2011 (SacCer_Apr2011/sacCer3) (sacCer3) /depot/data2/galaxy/hisat2_indexes/sacCer3
33 #
34 #More examples:
35 #
36 #mm10 mm10 Mouse (mm10) /depot/data2/galaxy/hisat2_indexes/mm10
37 #dm3 dm3 D. melanogaster (dm3) /depot/data2/galaxy/hisat2_indexes/dm3
38 #
39 #