Mercurial > repos > devteam > samtools_mpileup
changeset 2:5ace23a993fd draft
Replace sam_fa_indices.loc with fasta_indexes.loc in fasta_indexes.loc.sample.
| author | devteam |
|---|---|
| date | Thu, 09 Jan 2014 14:29:20 -0500 |
| parents | dddde948c3e5 |
| children | 973fea5b4bdf |
| files | tool-data/fasta_indexes.loc.sample |
| diffstat | 1 files changed, 4 insertions(+), 4 deletions(-) [+] |
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--- a/tool-data/fasta_indexes.loc.sample Wed Dec 11 12:54:32 2013 -0500 +++ b/tool-data/fasta_indexes.loc.sample Thu Jan 09 14:29:20 2014 -0500 @@ -1,8 +1,8 @@ #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 sam_fa_new_indices.loc file +#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 sam_fa_new_indices.loc +#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> @@ -11,14 +11,14 @@ # # /depot/data2/galaxy/hg19/sam/, # -#then the sam_fa_new_indices.loc entry would look like this: +#then the fasta_indexes.loc entry would look like this: # #hg19canon hg19 Human (Homo sapiens): hg19 Canonical /depot/data2/galaxy/hg19/sam/hg19canon.fa # #and your /depot/data2/galaxy/hg19/sam/ directory #would contain hg19canon.fa and hg19canon.fa.fai files. # -#Your sam_fa_new_indices.loc file should include an entry per line for +#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: