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comparison tool-data/eggnog_mapper_hmm_dbs.loc.sample @ 5:a5a3bdd0954b draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/eggnog_mapper/eggnog_mapper commit ba81f4bfe31157aa6b986e81d5e4405ae1372b3b"
author galaxyp
date Mon, 11 Nov 2019 11:50:36 -0500
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4:2667d24b58a0 5:a5a3bdd0954b
1 #This is a sample file distributed with Galaxy that enables tools
2 #to use a directory of eggnog_mapper data files.
3 #
4 # eggnog-mapper requires the following files to be installed in the data directory:
5 # https://github.com/jhcepas/eggnog-mapper/blob/master/data/og2level.tsv.gz
6 # http://eggnogdb.embl.de/download/eggnog_4.5/eggnog-mapper-data/eggnog.db.gz
7 # http://eggnogdb.embl.de/download/eggnog_4.5/eggnog-mapper-data/OG_fasta.tar.gz
8 # In addition individual HMM DBs can be installed from:
9 # http://eggnogdb.embl.de/download/eggnog_4.5/eggnog-mapper-data/hmmdb_levels/
10 # A complete diamond database is available from:
11 # http://eggnogdb.embl.de/download/eggnog_4.5/eggnog-mapper-data/eggnog_proteins.dmnd.gz
12 #
13 # The python script download_eggnog_data.py,
14 # included with eggnog_mapper, can be used to download the files to the correct directory
15 #
16 # The near-equivalence of columns "value" and "db" is needed for the tests to work,
17 # and for the setting of --data_dir to the parent directory of eggnog.db
18 # The complicated eggNOG database structure makes passing custom HMM databases somewhat tricky.
19 # See test-data/cached_locally/eggnog_mapper.loc for how this was done with the included test databases
20 # In all other cases, when the appropriate HMM database (for example, "thaNOG") was downloaded from eggnogdb.embl.de,
21 # value and db should be the same (in the example, both should be "thaNOG")
22 #
23 #
24 #key db_version value name path
25 #4.5.1_NOG 4.5.1 NOG Full eggNOG database (NOG)
26 #4.5.1_euk 4.5.1 euk Eukaryotes (euk)
27 #4.5.1_aproNOG 4.5.1 aproNOG Proteobacteria_alpha (aproNOG)
28 #4.5.1_aproNOG 4.5.1 ENOG411CB2I ENOG411CB2I (custom) /path/to/custom/hmmdb/ENOG411CB2I