Mercurial > repos > dongjun > csem
changeset 2:7796cbc040c4
Deleted selected files
| author | dongjun |
|---|---|
| date | Mon, 12 Sep 2011 10:00:53 -0400 |
| parents | 3b583c9d06d4 |
| children | 3ce7ee6f43a7 |
| files | bowtie_indices.loc.sample |
| diffstat | 1 files changed, 0 insertions(+), 44 deletions(-) [+] |
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--- a/bowtie_indices.loc.sample Mon Sep 12 10:00:36 2011 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,44 +0,0 @@ -hg18 hg18 Human (Homo sapiens): hg18 /scratch/dongjun/galaxy/bowtie_indexes/ -mm9 mm9 Mouse (Mus musculus): mm9 /p/keles/SOFTWARE/bowtie-0.12.5/indexes/ -e_coli eschColi_536 Escherichia coli (str. 536) /p/keles/SOFTWARE/bowtie-0.12.5/indexes/ -e_coli_K12 eschColi_K12 Escherichia coli K12 (eschColi_K12) /scratch/dongjun/galaxy/bowtie_indexes/ -c_elegans_ws200 ce7 Caenorhabditis elegans (Feb 2009): WS200/ce7 /p/keles/SOFTWARE/bowtie-0.12.5/indexes/ -a_thaliana a_thaliana Arabidopsis thaliana /p/keles/SOFTWARE/bowtie-0.12.5/indexes/ - -#This is a sample file distributed with Galaxy that enables tools -#to use a directory of Bowtie indexed sequences data files. You will -#need to create these data files and then create a bowtie_indices.loc -#file similar to this one (store it in this directory) that points to -#the directories in which those files are stored. The bowtie_indices.loc -#file has this format (longer white space characters are TAB characters): -# -#<unique_build_id> <dbkey> <display_name> <file_base_path> -# -#So, for example, if you had hg18 indexed stored in -#/depot/data2/galaxy/bowtie/hg18/, -#then the bowtie_indices.loc entry would look like this: -# -#hg18 hg18 hg18 /depot/data2/galaxy/bowtie/hg18/hg18 -# -#and your /depot/data2/galaxy/bowtie/hg18/ directory -#would contain hg18.*.ebwt files: -# -#-rw-r--r-- 1 james universe 830134 2005-09-13 10:12 hg18.1.ebwt -#-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 hg18.2.ebwt -#-rw-r--r-- 1 james universe 269808 2005-09-13 10:12 hg18.3.ebwt -#...etc... -# -#Your bowtie_indices.loc file should include an entry per line for each -#index set you have stored. The "file" in the path does not actually -#exist, but it is the prefix for the actual index files. For example: -# -#hg18canon hg18 hg18 Canonical /depot/data2/galaxy/bowtie/hg18/hg18canon -#hg18full hg18 hg18 Full /depot/data2/galaxy/bowtie/hg18/hg18full -#/orig/path/hg19 hg19 hg19 /depot/data2/galaxy/bowtie/hg19/hg19 -#...etc... -# -#Note that for backwards compatibility with workflows, the unique ID of -#an entry must be the path that was in the original loc file, because that -#is the value stored in the workflow for that parameter. That is why the -#hg19 entry above looks odd. New genomes can be better-looking. -#