Mercurial > repos > iuc > data_manager_gtdbtk_database_installer

annotate tool-data/gtdbtk_database.loc.sample @ 1:f54abc2f5707 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 196c4976945b02d23227836ae9cf70a9f44eed59
author iuc
date Tue, 03 Jan 2023 09:04:59 +0000
parents 3221e031d107
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3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
iuc
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1 # This is a sample file distributed with Galaxy that enables tools
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
iuc
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2 # to use a directory of GTDB-Tk databases. The gtdbtk_databases.loc
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
iuc
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3 # file has this format (longer white space characters are TAB characters):
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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4 #
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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5 # <unique_build_id> <display_name> <directory_path>
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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6 #
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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7 # So, for example, if you have the gtdbtk 202 stored in
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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8 # /depot/data2/galaxy/gtdbtk/202/,
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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9 # then the gtdbtk_databases.loc entry would look like this:
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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10 #
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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11 # release202 gtdbtk database release 202 /depot/data2/galaxy/gtdbtk/release202
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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12 #
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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13 # and your /depot/data2/galaxy/gtdbtk/release202 directory
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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14 # would contain GTDB-Tk database files for release 202, sommething like this:
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
iuc
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15 #
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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16 #drwxr-sr-x 3 gvk G-824019 4096 Apr 20 2021 fastani/
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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17 #-rw-r--r-- 1 gvk G-824019 4810764 Apr 22 2021 manifest.tsv
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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18 #drwxr-sr-x 4 gvk G-824019 4096 Apr 21 2021 markers/
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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19 #drwxr-sr-x 2 gvk G-824019 4096 Apr 20 2021 masks/
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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20 #drwxr-sr-x 2 gvk G-824019 4096 Apr 20 2021 metadata/
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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21 #drwxr-sr-x 2 gvk G-824019 4096 Apr 21 2021 mrca_red/
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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22 #drwxr-sr-x 2 gvk G-824019 4096 Apr 20 2021 msa/
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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23 #drwxr-sr-x 4 gvk G-824019 4096 Apr 21 2021 pplacer/
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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24 #drwxr-sr-x 2 gvk G-824019 4096 Apr 20 2021 radii/
3221e031d107 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 69da0d34ea6e72c0427ec2d3e882c86cbb90833f
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25 #drwxr-sr-x 2 gvk G-824019 4096 Apr 20 2021 taxonomy/