Mercurial > repos > iuc > gtdbtk_classify_wf

annotate test-data/gtdbtk_database_versioned.loc.test @ 13:b6ecf14b391f draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/gtdbtk commit a894d6d6e571d256b526384886e325f7add0552f
author iuc
date Wed, 14 Jan 2026 09:38:28 +0000
parents 272a67da0113
children
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a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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1 # This is a sample file distributed with Galaxy that enables tools
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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2 # to use a directory of GTDB-Tk databases. The gtdbtk_databases.loc
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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3 # file has this format (longer white space characters are TAB characters):
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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4 #
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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5 # <unique_build_id> <display_name> <version> <directory_path>
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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6 #
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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7 # So, for example, if you have the gtdbtk 202 stored in
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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8 # /depot/data2/galaxy/gtdbtk/202/,
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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9 # then the gtdbtk_databases.loc entry would look like this:
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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10 #
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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11 # release202 gtdbtk database release 202 /depot/data2/galaxy/gtdbtk/release202
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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12 #
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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13 # and your /depot/data2/galaxy/gtdbtk/release202 directory
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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14 # would contain GTDB-Tk database files for release 202, sommething like this:
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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15 #
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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16 #drwxr-sr-x 3 gvk G-824019 4096 Apr 20 2021 fastani/
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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17 #-rw-r--r-- 1 gvk G-824019 4810764 Apr 22 2021 manifest.tsv
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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18 #drwxr-sr-x 4 gvk G-824019 4096 Apr 21 2021 markers/
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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19 #drwxr-sr-x 2 gvk G-824019 4096 Apr 20 2021 masks/
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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20 #drwxr-sr-x 2 gvk G-824019 4096 Apr 20 2021 metadata/
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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21 #drwxr-sr-x 2 gvk G-824019 4096 Apr 21 2021 mrca_red/
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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22 #drwxr-sr-x 2 gvk G-824019 4096 Apr 20 2021 msa/
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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23 #drwxr-sr-x 4 gvk G-824019 4096 Apr 21 2021 pplacer/
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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24 #drwxr-sr-x 2 gvk G-824019 4096 Apr 20 2021 radii/
a1900b0fd855 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gtdbtk commit 0f5d58e0011fcfc9c772ba9392deaed186e045eb
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25 #drwxr-sr-x 2 gvk G-824019 4096 Apr 20 2021 taxonomy/
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272a67da0113 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/gtdbtk commit 1fb19cc0b5b0db43fcb899afc97cba727a3d6a8b
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26 gtdbtk214 GTDB-Tk database 214 214 ${__HERE__}/gtdbtk214/
272a67da0113 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/gtdbtk commit 1fb19cc0b5b0db43fcb899afc97cba727a3d6a8b
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27 gtdbtk226 GTDB-Tk database 226 226 ${__HERE__}/226.0-data/