Mercurial > repos > jjohnson > arriba
diff test-data/arriba_indexes.loc @ 9:8c4c97fd0555 draft
"planemo upload for repository https://github.com/jj-umn/tools-iuc/tree/arriba/tools/arriba commit bd2c6bea7cb7dc30ca57f9d69ad49460ddf7f14b"
| author | jjohnson |
|---|---|
| date | Wed, 13 Oct 2021 18:45:16 +0000 |
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| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/arriba_indexes.loc Wed Oct 13 18:45:16 2021 +0000 @@ -0,0 +1,18 @@ +#This is a sample file distributed with Galaxy that enables tools +#to use a directory of Ariba data files. +#The Arriba script download_references.sh retrieves a genome assembly fasta +#and a related GTF annotation file, then builds a STAR index. +#You will need to create these data files and then create a +#arriba_indexes.loc similar to this one (store it in this +#directory) that points to the directories in which those files are stored. +#The arriba_indexes.loc file has this format (longer white space +#characters are TAB characters): +# +#<unique_build_id> <display_name> <genome_fasta_path> <genome_gtf_path> <STAR_index_path> +# +#Note that STAR indices can become quite large. +# +#<unique_build_id> <display_name> <genome_fasta_path> <genome_gtf_path> <STAR_index_path> +#GRCh38+ENSEMBL93 GRCh38+ENSEMBL93 /depot/GRCh38+ENSEMBL93/genome.fa /depot/GRCh38+ENSEMBL93/genome.gtf /depot/GRCh38+ENSEMBL93/STAR_index/ +GRCh38+ENSEMBL93 GRCh38+ENSEMBL93 ${__HERE__}/test-cache/genome.fasta ${__HERE__}/test-cache/genome.gtf ${__HERE__}/test-cache/STAR_index/ +