Mercurial > repos > rhpvorderman > data_manager_select_index_by_path
comparison tool-data/kallisto_indexes.loc.sample @ 0:5f8d9309058b draft
planemo upload for repository https://github.com/LUMC/lumc-galaxy-tools/tree/master/data_manager_select_index_by_path commit b3f86a0c89c2956f40ee0d462cb31a60eb91724a
| author | rhpvorderman |
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| date | Mon, 25 Sep 2017 03:35:26 -0400 |
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| -1:000000000000 | 0:5f8d9309058b |
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| 1 # kallisto_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 kallisto. | |
| 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 kallisto_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/kallisto_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.fa | |
| 22 # -rw-rw-r-- 1 dave dave 2.9M Sep 23 13:57 sacCer3.kallisto | |
| 23 # | |
| 24 # then the kallisto_indexes.loc entry could look like this: | |
| 25 # | |
| 26 #sacCer3 sacCer3 S. cerevisiae Apr. 2011 (SacCer_Apr2011/sacCer3) (sacCer3) /depot/data2/galaxy/sacCer3/kallisto_indexes/sacCer3.kallisto | |
| 27 # | |
| 28 #More examples: | |
| 29 # | |
| 30 #mm10 mm10 Mouse (mm10) /depot/data2/galaxy/kallisto_indexes/mm10 | |
| 31 #dm3 dm3 D. melanogaster (dm3) /depot/data2/galaxy/kallisto_indexes/dm3 | |
| 32 # | |
| 33 # |