annotate tool-data/gmap_indices.loc.sample @ 8:a89fec682254

gmap/gsnap updated to version 2011-11-30
author Jim Johnson <jj@umn.edu>
date Thu, 08 Dec 2011 11:00:46 -0600
parents 30d42bb409b8
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
1
30d42bb409b8 GMAP - add tool-data/gmap_indices.loc.sample
Jim Johnson <jj@umn.edu>
parents:
diff changeset
1 #This is a sample file distributed with Galaxy that enables tools
30d42bb409b8 GMAP - add tool-data/gmap_indices.loc.sample
Jim Johnson <jj@umn.edu>
parents:
diff changeset
2 #to use a directory of GMAPDB indexed sequences data files. You will need
30d42bb409b8 GMAP - add tool-data/gmap_indices.loc.sample
Jim Johnson <jj@umn.edu>
parents:
diff changeset
3 #to create these data files using gmap_build and then create a gmap_indices.loc file
30d42bb409b8 GMAP - add tool-data/gmap_indices.loc.sample
Jim Johnson <jj@umn.edu>
parents:
diff changeset
4 #similar to this one (store it in this directory) that points to
30d42bb409b8 GMAP - add tool-data/gmap_indices.loc.sample
Jim Johnson <jj@umn.edu>
parents:
diff changeset
5 #the directories in which those files are stored. The gmap_indices.loc
30d42bb409b8 GMAP - add tool-data/gmap_indices.loc.sample
Jim Johnson <jj@umn.edu>
parents:
diff changeset
6 #file has this format (white space characters are TAB characters):
30d42bb409b8 GMAP - add tool-data/gmap_indices.loc.sample
Jim Johnson <jj@umn.edu>
parents:
diff changeset
7 #
30d42bb409b8 GMAP - add tool-data/gmap_indices.loc.sample
Jim Johnson <jj@umn.edu>
parents:
diff changeset
8 #<unique_build_id> <dbkey> <display_name> <kmers> <map,map> <snp,snp> <file_base_path>
30d42bb409b8 GMAP - add tool-data/gmap_indices.loc.sample
Jim Johnson <jj@umn.edu>
parents:
diff changeset
9 #hg18 hg18 hg18 (cmet atoi) 12,13,14,15 splicesites,introns snps /depot/data2/galaxy/gmap/hg18
30d42bb409b8 GMAP - add tool-data/gmap_indices.loc.sample
Jim Johnson <jj@umn.edu>
parents:
diff changeset
10 #hg19 hg19 hg19 (cmet atoi) 12,13,14,15 splicesites,introns,snps snps,dbsnp /depot/data2/galaxy/gmap/hg19