details: http://www.bx.psu.edu/hg/galaxy/rev/6e88248dcc84 changeset: 1723:6e88248dcc84 user: Dan Blankenberg dan@bx.psu.edu date: Mon Jan 26 14:48:45 2009 -0500 description: Fix For MAF Filter tool.
Looks like when grouping parameter types were updated to be recursively wrapped properly, this tool was not updated.
1 file(s) affected in this change:
tools/maf/maf_filter.xml
diffs (32 lines):
diff -r 2a81c4b95e20 -r 6e88248dcc84 tools/maf/maf_filter.xml --- a/tools/maf/maf_filter.xml Mon Jan 26 14:41:00 2009 -0500 +++ b/tools/maf/maf_filter.xml Mon Jan 26 14:48:45 2009 -0500 @@ -104,22 +104,22 @@ #if $len( $maf_filter['species1_attributes']['filter_condition'] ) == 0: #continue #end if - primary_component = maf_block.get_component_by_src_start( """$maf_filter['species1'].encode( 'string_escape' )""".decode( 'string_escape' ) ) + primary_component = maf_block.get_component_by_src_start( """$maf_filter['species1'].value.encode( 'string_escape' )""".decode( 'string_escape' ) ) if primary_component is not None: #if $maf_filter['species1_attributes']['species1_attribute_type'] == 'attribute_chr': - if primary_component.src.split( "." )[-1] $is_isnot_valid.get( $maf_filter['species1_attributes']['species1_is_isnot'].strip(), 'is in' ) """$maf_filter['species1_attributes']['species1_attribute'].encode( 'string_escape' )""".decode( 'string_escape' ).split( "," ): + if primary_component.src.split( "." )[-1] $is_isnot_valid.get( $maf_filter['species1_attributes']['species1_is_isnot'].value.strip(), 'is in' ) """$maf_filter['species1_attributes']['species1_attribute'].value.encode( 'string_escape' )""".decode( 'string_escape' ).split( "," ): #else - if primary_component.strand $is_isnot_valid.get( $maf_filter['species1_attributes']['species1_is_isnot'].strip(), '==' ) """$maf_filter['species1_attributes']['species1_attribute'].encode( 'string_escape' )""".decode( 'string_escape' ): + if primary_component.strand $is_isnot_valid.get( $maf_filter['species1_attributes']['species1_is_isnot'].value.strip(), '==' ) """$maf_filter['species1_attributes']['species1_attribute'].value.encode( 'string_escape' )""".decode( 'string_escape' ): #end if #for $filter_condition in $maf_filter['species1_attributes']['filter_condition']: - secondary_component = maf_block.get_component_by_src_start( """$filter_condition['species2'].encode( 'string_escape' )""".decode( 'string_escape' ) ) + secondary_component = maf_block.get_component_by_src_start( """$filter_condition['species2'].value.encode( 'string_escape' )""".decode( 'string_escape' ) ) #if $filter_condition['species2_attributes']['species2_attribute_type'] == 'attribute_chr': if secondary_component is not None: - if not ( secondary_component.src.split( "." )[-1] $is_isnot_valid.get( $filter_condition['species2_attributes']['species2_is_isnot'].strip(), 'is in' ) """$filter_condition['species2_attributes']['species2_attribute'].encode( 'string_escape' )""".decode( 'string_escape' ).split( "," ) ): + if not ( secondary_component.src.split( "." )[-1] $is_isnot_valid.get( $filter_condition['species2_attributes']['species2_is_isnot'].value.strip(), 'is in' ) """$filter_condition['species2_attributes']['species2_attribute'].value.encode( 'string_escape' )""".decode( 'string_escape' ).split( "," ) ): return False #else: if secondary_component is not None: - if not ( secondary_component.strand $is_isnot_valid.get( $filter_condition['species2_attributes']['species2_is_isnot'].strip(), '==' ) """$filter_condition['species2_attributes']['species2_attribute'].encode( 'string_escape' )""".decode( 'string_escape' ) ): + if not ( secondary_component.strand $is_isnot_valid.get( $filter_condition['species2_attributes']['species2_is_isnot'].value.strip(), '==' ) """$filter_condition['species2_attributes']['species2_attribute'].value.encode( 'string_escape' )""".decode( 'string_escape' ) ): return False #end if #end for