details: http://www.bx.psu.edu/hg/galaxy/rev/55d479c8d592 changeset: 2893:55d479c8d592 user: Ross Lazarus <ross.lazarus@gmail.com> date: Mon Oct 19 12:05:19 2009 -0400 description: removed bogus unit tests from new gg/gff 1 file(s) affected in this change: lib/galaxy/datatypes/genetics.py diffs (55 lines): diff -r 2f249afc66ea -r 55d479c8d592 lib/galaxy/datatypes/genetics.py --- a/lib/galaxy/datatypes/genetics.py Mon Oct 19 09:53:04 2009 -0400 +++ b/lib/galaxy/datatypes/genetics.py Mon Oct 19 12:05:19 2009 -0400 @@ -28,26 +28,6 @@ gal_Log = logging.getLogger(__name__) verbose = False - - -""" -Want to make some wig tracks from each analysis -Best n -log10(p). Make top hit the window. - - -from ucsc wig docs -ll options are placed in a single line separated by spaces: - - track type=wiggle_0 name=track_label description=center_label \ - visibility=display_mode color=r,g,b altColor=r,g,b \ - priority=priority autoScale=on|off \ - gridDefault=on|off maxHeightPixels=max:default:min \ - graphType=bar|points viewLimits=lower:upper \ - yLineMark=real-value yLineOnOff=on|off \ - windowingFunction=maximum|mean|minimum smoothingWindow=off|2-16 - -The track type with version is REQUIRED, and it currently must be wiggle_0: -""" class GenomeGraphs(Interval): @@ -131,7 +111,7 @@ else: # We've spanned a chromosome break - if i > 10: + if i > 10: # span 10 features break except: seqid, start, stop = ( '', '', '' ) @@ -189,15 +169,6 @@ Determines whether the file is in gff format GFF lines have nine required fields that must be tab-separated. - - For complete details see http://genome.ucsc.edu/FAQ/FAQformat#format3 - - >>> fname = get_test_fname( 'gff_version_3.gff' ) - >>> Gff().sniff( fname ) - False - >>> fname = get_test_fname( 'test.gff' ) - >>> Gff().sniff( fname ) - True """ f = open(filename,'r') headers = f.readline().split