Mercurial > repos > iuc > data_manager_hisat2_index_builder
diff tool-data/hisat2_indexes.loc.sample @ 0:d3eb4d51b285 draft
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_hisat2_index_builder commit 1e8d3feeb391aabcfff2338b57913138deea51ec-dirty
| author | iuc |
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| date | Sat, 10 Oct 2015 14:53:43 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool-data/hisat2_indexes.loc.sample Sat Oct 10 14:53:43 2015 -0400 @@ -0,0 +1,39 @@ +# hisat2_indexes.loc.sample +# This is a *.loc.sample file distributed with Galaxy that enables tools +# to use a directory of indexed data files. This one is for HISAT2. +# See the wiki: http://wiki.galaxyproject.org/Admin/NGS%20Local%20Setup +# First create these data files and save them in your own data directory structure. +# Then, create a hisat2_indexes.loc file to use those indexes with tools. +# Copy this file, save it with the same name (minus the .sample), +# follow the format examples, and store the result in this directory. +# The file should include an one line entry for each index set. +# The path points to the "basename" for the set, not a specific file. +# It has four text columns seperated by TABS. +# +# <unique_build_id> <dbkey> <display_name> <file_base_path> +# +# So, for example, if you had sacCer3 indexes stored in: +# +# /depot/data2/galaxy/sacCer3/hisat2_indexes/ +# +# containing sacCer3 genome and sacCer3.*.ht2 files, such as: +# +# -rw-rw-r-- 1 dave dave 12M Sep 23 13:57 sacCer3.1.ht2 +# -rw-rw-r-- 1 dave dave 2.9M Sep 23 13:57 sacCer3.2.ht2 +# -rw-rw-r-- 1 dave dave 161 Sep 23 13:57 sacCer3.3.ht2 +# -rw-rw-r-- 1 dave dave 2.9M Sep 23 13:57 sacCer3.4.ht2 +# -rw-rw-r-- 1 dave dave 7.3M Sep 23 13:57 sacCer3.5.ht2 +# -rw-rw-r-- 1 dave dave 3.0M Sep 23 13:57 sacCer3.6.ht2 +# -rw-rw-r-- 1 dave dave 128K Sep 23 13:57 sacCer3.7.ht2 +# -rw-rw-r-- 1 dave dave 32K Sep 23 13:57 sacCer3.8.ht2 +# +# then the hisat2_indexes.loc entry could look like this: +# +#sacCer3 sacCer3 S. cerevisiae Apr. 2011 (SacCer_Apr2011/sacCer3) (sacCer3) /depot/data2/galaxy/hisat2_indexes/sacCer3 +# +#More examples: +# +#mm10 mm10 Mouse (mm10) /depot/data2/galaxy/hisat2_indexes/mm10 +#dm3 dm3 D. melanogaster (dm3) /depot/data2/galaxy/hisat2_indexes/dm3 +# +#