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annotate tool-data/centrifuge_indices.loc @ 1:b4f88058af70 draft default tip

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planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit 1f5ee099770986654ed885cf5a0c6914fe510612
author jdv
date Wed, 17 Jan 2018 13:56:23 -0500
parents b28440b27ac8
children
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b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
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1 # centrifuge_indices.loc.sample
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
parents:
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2 # This is a *.loc.sample file distributed with Galaxy that enables tools
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
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3 # to use a directory of indexed data files. This one is for GOTTCHA.
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
parents:
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4 # See the wiki: http://wiki.galaxyproject.org/Admin/NGS%20Local%20Setup
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
parents:
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5 # First create these data files and save them in your own data directory structure.
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
parents:
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6 # Then, create a bowtie_indices.loc file to use those indexes with tools.
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
parents:
diff changeset
7 # Copy this file, save it with the same name (minus the .sample),
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
parents:
diff changeset
8 # follow the format examples, and store the result in this directory.
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
parents:
diff changeset
9 # The file should include an one line entry for each index set.
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
parents:
diff changeset
10 # The path points to the "basename" for the set, not a specific file.
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
parents:
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11 # It has three text columns seperated by TABS.
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
parents:
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12 #
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
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13 # <unique_id> <display_name> <file_base_path>
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
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14 #
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
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15 #bacteria_v20150825 Bacteria /depot/data2/galaxy/gottcha/GOTTCHA_BACTERIA_c4937_k24_u30_xHUMAN3x.species
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
parents:
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16 #viruses_v20150825 Viruses /depot/data2/galaxy/gottcha/GOTTCHA_VIRUSES_c5900_k24_u30_xHUMAN3x.species
b28440b27ac8 planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/centrifuge commit c7b48f8bcd1966a47a4405f0fc22262072110b3c
jdv
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17 test test foo/bar/baz