Mercurial > repos > oinizan > frogs_2_0_0
changeset 1:e12bc43dcb47 draft
planemo upload commit 2a1abf7382135fbd7c30204f1bd184154db8276d-dirty
| author | oinizan |
|---|---|
| date | Thu, 05 Apr 2018 09:14:09 -0400 |
| parents | 05ea887dcb4c |
| children | a9c746142152 |
| files | tool-data/frogs_db.loc tool-data/frogs_db.loc.sample |
| diffstat | 2 files changed, 51 insertions(+), 51 deletions(-) [+] |
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--- a/tool-data/frogs_db.loc Thu Apr 05 09:09:46 2018 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,51 +0,0 @@ -# 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 -# -#db.fasta db.fasta db.fasta ${__HERE__}/test-data/db.fasta -#db.fasta db.fasta db.fasta /root/mydisk/FROGS-wrappers/test-data/db.fasta -db.fasta A sample databank /root/mydisk/FROGS-wrappers/test-data/db.fasta
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool-data/frogs_db.loc.sample Thu Apr 05 09:14:09 2018 -0400 @@ -0,0 +1,51 @@ +# 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 +# +#db.fasta db.fasta db.fasta ${__HERE__}/test-data/db.fasta +#db.fasta db.fasta db.fasta /root/mydisk/FROGS-wrappers/test-data/db.fasta +db.fasta A sample databank /root/mydisk/FROGS-wrappers/test-data/db.fasta