Mercurial > repos > frogs > data_manager_frogs
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"planemo upload for repository https://github.com/geraldinepascal/FROGS-wrappers/ commit 2024a13846ea6f9bd94ae62e3b2a5a3aba8cd304"
author | frogs |
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date | Mon, 23 Aug 2021 10:21:10 +0000 |
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# Copyright (C) 2014 INRA # # This program is free software: you can redistribute it and/or modify # it under the terms of the GNU General Public License as published by # the Free Software Foundation, either version 3 of the License, or # (at your option) any later version. # # This program is distributed in the hope that it will be useful, # but WITHOUT ANY WARRANTY; without even the implied warranty of # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the # GNU General Public License for more details. # # You should have received a copy of the GNU General Public License # along with this program. If not, see <http://www.gnu.org/licenses/>. # # #This is a sample file that enables tools FROGS_affiliations_OTU to use taxonomy database for #taxonomy affiliation. You will need to create or download Blast+ index and train your database #for RDP classifier these data files. #download link : http://genoweb.toulouse.inra.fr/frogs_databanks/assignation #Finally you will need to create frogs_db.loc file similar to this one in your galaxy #tool-data directory.The frogs_db.loc file has this format (longer white space characters are #TAB characters): # #<unique_database_name> <file_path> # #First column will be the visible name in galaxy. #So, for example, if you had 16S silva 128 indexed stored in #/galaxy_databanks/16S/silva_128/ #then the frogs_db.loc entry would look like this: # #silva 128 16S /galaxy_databanks/16S/silva_128/silva_128_16S.fasta # #and your /galaxy_databanks/16S/silva_128/ directory #would contain index files: # #-rw-r--r-- 1 mbernard FROGS 8097966 5 déc. 16:56 bergeyTrainingTree.xml #-rw-r--r-- 1 mbernard FROGS 1572981589 5 déc. 16:56 genus_wordConditionalProbList.txt #-rw-r--r-- 1 mbernard FROGS 1654 5 déc. 16:56 LICENCE.txt #-rw-r--r-- 1 mbernard FROGS 1072228 5 déc. 16:56 logWordPrior.txt #-rw-r--r-- 1 mbernard FROGS 940834335 5 déc. 16:56 silva_128_16S.fasta #-rw-r--r-- 1 mbernard FROGS 152606489 5 déc. 16:56 silva_128_16S.fasta.nhr #-rw-r--r-- 1 mbernard FROGS 6918588 5 déc. 16:56 silva_128_16S.fasta.nin #-rw-r--r-- 1 mbernard FROGS 205320030 5 déc. 16:56 silva_128_16S.fasta.nsq #-rw-r--r-- 1 mbernard FROGS 281 5 déc. 16:56 silva_128_16S.fasta.properties #-rw-r--r-- 1 mbernard FROGS 3420464 5 déc. 16:56 silva_128_16S.tax #-rw-r--r-- 1 mbernard FROGS 964048 5 déc. 16:57 wordConditionalProbIndexArr.txt # # #<name> <name> <file_path> # # EXAMPLE FOR TEST : #ITS1_test ITS1_test ${__HERE__}/frogs_db_data/ITS1.rdp.fasta