details: http://www.bx.psu.edu/hg/galaxy/rev/239fb5cf4e37 changeset: 3665:239fb5cf4e37 user: jeremy goecks jeremy.goecks@emory.edu date: Mon Apr 19 11:14:19 2010 -0400 description: Add GTF file format to Galaxy. GTF format is an extension of GFF format that is used by Tophat and Cufflinks tool suite.
diffstat:
datatypes_conf.xml.sample | 1 + lib/galaxy/datatypes/interval.py | 4 ++++ 2 files changed, 5 insertions(+), 0 deletions(-)
diffs (25 lines):
diff -r d3ff52561d78 -r 239fb5cf4e37 datatypes_conf.xml.sample --- a/datatypes_conf.xml.sample Mon Apr 19 11:08:25 2010 -0400 +++ b/datatypes_conf.xml.sample Mon Apr 19 11:14:19 2010 -0400 @@ -51,6 +51,7 @@ <datatype extension="gff3" type="galaxy.datatypes.interval:Gff3" display_in_upload="true"/> <datatype extension="gif" type="galaxy.datatypes.images:Image" mimetype="image/gif"/> <datatype extension="gmaj.zip" type="galaxy.datatypes.images:Gmaj" mimetype="application/zip"/> + <datatype extension="gtf" type="galaxy.datatypes.interval:Gtf" display_in_upload="true"/> <datatype extension="html" type="galaxy.datatypes.images:Html" mimetype="text/html"/> <datatype extension="interval" type="galaxy.datatypes.interval:Interval" display_in_upload="true"> <converter file="interval_to_bed_converter.xml" target_datatype="bed"/> diff -r d3ff52561d78 -r 239fb5cf4e37 lib/galaxy/datatypes/interval.py --- a/lib/galaxy/datatypes/interval.py Mon Apr 19 11:08:25 2010 -0400 +++ b/lib/galaxy/datatypes/interval.py Mon Apr 19 11:14:19 2010 -0400 @@ -831,6 +831,10 @@ except: return False
+class Gtf( Tabular ): + """Tab delimited data in Gtf format""" + file_ext = "gtf" + class Wiggle( Tabular, _RemoteCallMixin ): """Tab delimited data in wiggle format""" file_ext = "wig"