Mercurial > repos > bgruening > salmon
view tool-data/salmon_indexes_versioned.loc.sample @ 16:49121db48873 draft
"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 26e9f1627e91a4be6bdc7e71cd44f1ea1701ee6f"
author | bgruening |
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date | Thu, 22 Jul 2021 14:05:28 +0000 |
parents | 2c0ca397d302 |
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# salmon_indexes_versioned.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 Salmon. # 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 salmon_indexes_versioned.loc.sample 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> <version> # # The <version> column can be retrieved from the header.json file in the index folder. e.g "IndexVersion": "q5" # So, for example, if you had sacCer3 indexes stored in: # # /depot/data2/galaxy/sacCer3/salmon_indexes/ # # then the salmon_indexes.loc entry could look like this: # #sacCer3 sacCer3 S. cerevisiae Apr. 2011 (SacCer_Apr2011/sacCer3) (sacCer3) /depot/data2/galaxy/sacCer3/salmon_indexes/version_3/ q6 # #More examples: # #mm10 mm10 Mouse (mm10) /depot/data2/galaxy/salmon_indexes/mm10/version_2 q4 #dm3 dm3 D. melanogaster (dm3) /depot/data2/galaxy/salmon_indexes/dm3/version_1 q5 # #