Mercurial > repos > bebatut > sortmerna
diff tool-data/rRNA_databases.loc.sample @ 16:1a4662c2d6db draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/sortmerna commit 044a991b45c9135339daf138929887cd8e93a1bf-dirty
| author | bebatut |
|---|---|
| date | Mon, 12 Jun 2017 06:20:50 -0400 |
| parents | baab049d3aff |
| children |
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--- a/tool-data/rRNA_databases.loc.sample Wed Feb 10 04:02:18 2016 -0500 +++ b/tool-data/rRNA_databases.loc.sample Mon Jun 12 06:20:50 2017 -0400 @@ -1,30 +1,1 @@ -#This is a sample file distributed with Galaxy that is used to define a -#list of public ribosomal databases for SortMeRNA, using the following format -#(white space characters are TAB characters): -# -#<unique_id> <database_caption> <fasta_file_path> -# -#So, for example, if your database is rfam-5.8s-id98 and the path to your FASTA -#file is /data/rRNA_databases/rfam-5.8s-id98.fasta, then the rRNA_databases.loc -#entry would look like this: -# -#rfam-5.8s-id98 Rfam 5.8S eukarya /data/rRNA_databases/rfam-5.8s-id98.fasta -# -#For each rRNA database, you need to create the index files using the -#indexdb_rna program provided by SortMeRNA. You need to specify as index -#basename the path of the FASTA file without extension. For example, for the -#previous database the command is: -# -# indexdb_rna --ref /data/rRNA_databases/rfam-5.8s-id98.fasta,/data/rRNA_databases/rfam-5.8s-id98 -# -#Since SortMeRNA comes bundled with eight ribosomal databases, you can use them -#by creating the actual index files as explained above and uncommenting the -#following lines. -#rfam-5.8s-id98 Rfam 5.8S eukarya $SORTMERNADIR/rRNA_databases/rfam-5.8s-database-id98.fasta -#rfam-5s-id98 Rfam 5S archaea/bacteria $SORTMERNADIR/rRNA_databases/rfam-5s-database-id98.fasta -#silva-arc-16s-id95 SILVA v.119 16S archaea $SORTMERNADIR/rRNA_databases/silva-arc-16s-id95.fasta -#silva-arc-23s-id98 SILVA v.119 23S archaea $SORTMERNADIR/rRNA_databases/silva-arc-23s-id98.fasta -#silva-bac-16s-id90 SILVA v.119 16S bacteria $SORTMERNADIR/rRNA_databases/silva-bac-16s-id90.fasta -#silva-bac-23s-id98 SILVA v.119 23S bacteria $SORTMERNADIR/rRNA_databases/silva-bac-23s-id98.fasta -#silva-euk-18s-id95 SILVA v.119 18S eukarya $SORTMERNADIR/rRNA_databases/silva-euk-18s-id95.fasta -#silva-euk-28s-id98 SILVA v.119 28S eukarya $SORTMERNADIR/rRNA_databases/silva-euk-28s-id98.fasta +#<unique_id> <database_caption> <fasta_file_path>