Mercurial > repos > jvolkening > centrifuge

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planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
author jvolkening
date Fri, 01 Nov 2019 13:53:15 -0400
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be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
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1 # centrifuge_indices.loc.sample
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
jvolkening
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2 # This is a *.loc.sample file distributed with Galaxy that enables tools
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
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3 # to use a directory of indexed data files. This one is for GOTTCHA.
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
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4 # See the wiki: http://wiki.galaxyproject.org/Admin/NGS%20Local%20Setup
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
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5 # First create these data files and save them in your own data directory structure.
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
jvolkening
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6 # Then, create a bowtie_indices.loc file to use those indexes with tools.
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
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7 # Copy this file, save it with the same name (minus the .sample),
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
jvolkening
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8 # follow the format examples, and store the result in this directory.
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
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9 # The file should include an one line entry for each index set.
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
jvolkening
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10 # The path points to the "basename" for the set, not a specific file.
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
jvolkening
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11 # It has three text columns seperated by TABS.
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
jvolkening
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12 #
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
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13 # <unique_id> <display_name> <file_base_path>
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
jvolkening
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14 #
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
jvolkening
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15 #bacteria_v20150825 Bacteria /depot/data2/galaxy/gottcha/GOTTCHA_BACTERIA_c4937_k24_u30_xHUMAN3x.species
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
jvolkening
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16 #viruses_v20150825 Viruses /depot/data2/galaxy/gottcha/GOTTCHA_VIRUSES_c5900_k24_u30_xHUMAN3x.species
be7bba8229c6 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 5d9e0a6e2ad278547892c86f0acded93814a1356-dirty
jvolkening
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17 test test foo/bar/baz