Mercurial > repos > artbio > manta
diff tool-data/fasta_indexes.loc.sample @ 2:6a69e5d7c21f draft
"planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/manta commit 0c076cce96ddede06511d9fb8ebc707b9f083a1d"
| author | artbio |
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| date | Sun, 07 Jun 2020 09:08:06 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool-data/fasta_indexes.loc.sample Sun Jun 07 09:08:06 2020 -0400 @@ -0,0 +1,29 @@ +#This is a sample file distributed with Galaxy that enables tools +#to use a directory of Samtools indexed sequences data files. You will need +#to create these data files and then create a fasta_indexes.loc file +#similar to this one (store it in this directory) that points to +#the directories in which those files are stored. The fasta_indexes.loc +#file has this format (white space characters are TAB characters): +# +# <unique_build_id> <dbkey> <display_name> <file_base_path> +# +#So, for example, if you had hg19 Canonical indexed stored in +# +# /depot/data2/galaxy/hg19/sam/, +# +#then the fasta_indexes.loc entry would look like this: +# +#hg19canon hg19 Human (Homo sapiens): hg19 Canonical /path/to/genome/hg19/sam_indexes/hg19canon.fa +# +#and your /depot/data2/galaxy/hg19/sam/ directory +#would contain hg19canon.fa and hg19canon.fa.fai files. +# +#Your fasta_indexes.loc file should include an entry per line for +#each index set you have stored. The file in the path does actually +#exist, but it should never be directly used. Instead, the name serves +#as a prefix for the index file. For example: +# +#hg18canon hg18 Human (Homo sapiens): hg18 Canonical /path/to/genome/hg18/sam_indexes/hg18canon.fa +#hg18full hg18 Human (Homo sapiens): hg18 Full /path/to/genome/sam_indexes/hg18full.fa +#hg19canon hg19 Human (Homo sapiens): hg19 Canonical /path/to/genome/hg19/sam_indexes/hg19canon.fa +#hg19full hg19 Human (Homo sapiens): hg19 Full /path/to/genome/hg19/sam_indexes/hg19full.fa \ No newline at end of file