Mercurial > repos > chrisw > data_manager_monorail_index_fetcher
changeset 14:e29807729c44 draft
Uploaded
author | chrisw |
---|---|
date | Wed, 13 Nov 2019 22:41:03 +0000 |
parents | 32f5ba11ad99 |
children | 52637de3528a |
files | data_manager_monorail_index/tool-data/monorail_index.loc.sample data_manager_monorail_index/tool_data_table_conf.xml.sample |
diffstat | 2 files changed, 0 insertions(+), 27 deletions(-) [+] |
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--- a/data_manager_monorail_index/tool-data/monorail_index.loc.sample Wed Nov 13 22:29:29 2019 +0000 +++ b/data_manager_monorail_index/tool-data/monorail_index.loc.sample Wed Nov 13 22:41:03 2019 +0000 @@ -1,26 +0,0 @@ -#This is a sample file distributed with Galaxy that enables tools -#to use a directory of rna-star indexed sequences data files. You will -#need to create these data files and then create a rnastar_index2.loc -#file similar to this one (store it in this directory) that points to -#the directories in which those files are stored. The rnastar_index2.loc -#file has this format (longer white space characters are TAB characters): -# -#<unique_build_id> <dbkey> <display_name> <file_base_path> <with_gene_model> <version> -# -#The <with_gene_model> column should be 1 or 0, indicating whether the index -#was built with annotations (i.e., --sjdbGTFfile and --sjdbOverhang were used) -#or not. -# -#The <version> column indicates the STAR version that introduced the format of -#the index, i.e., the oldest STAR version that could make use of the index. -# -#Note that STAR indices can become quite large. Consequently, it is only -#advisable to create indices with annotations if it's known ahead of time that -#(A) the annotations won't be frequently updated and (B) the read lengths used -#will also rarely vary. If either of these is not the case, it's advisable to -#create indices without annotations and then specify an annotation file and -#maximum read length (minus 1) when running STAR. -# -#hg19 hg19 hg19 full /mnt/galaxyIndices/genomes/hg19/rnastar 0 2.7.1a -#hg19Ensembl hg19Ensembl hg19 full with Ensembl annotation /mnt/galaxyIndices/genomes/hg19Ensembl/rnastar 1 2.7.1a -
--- a/data_manager_monorail_index/tool_data_table_conf.xml.sample Wed Nov 13 22:29:29 2019 +0000 +++ b/data_manager_monorail_index/tool_data_table_conf.xml.sample Wed Nov 13 22:41:03 2019 +0000 @@ -1,6 +1,5 @@ <?xml version="1.0"?> <tables> - <!-- Locations of gene annotation data --> <table name="monorail_index" comment_char="#"> <columns>value, dbkey, name, path</columns> <file path="tool-data/monorail_index.loc" />