1 new commit in galaxy-central:

https://bitbucket.org/galaxy/galaxy-central/changeset/69602a4fb17b/ changeset: 69602a4fb17b user: richard_burhans date: 2011-10-31 22:05:24 summary: refactored Tabular.make_html_table() affected #: 1 file

diff -r 5800e807ba4e56209e785950d7197bc979d5f244 -r 69602a4fb17b3aa775c970580de8979c428b9b68 lib/galaxy/datatypes/tabular.py --- a/lib/galaxy/datatypes/tabular.py +++ b/lib/galaxy/datatypes/tabular.py @@ -164,64 +164,47 @@ dataset.metadata.comment_lines = comment_lines dataset.metadata.column_types = column_types dataset.metadata.columns = len( column_types ) - def make_html_table( self, dataset, skipchars=[] ): + def make_html_table( self, dataset, **kwargs ): """Create HTML table, used for displaying peek""" out = ['<table cellspacing="0" cellpadding="3">'] try: - out.append( '<tr>' ) - # Generate column header - for i in range( 1, dataset.metadata.columns+1 ): - out.append( '<th>%s</th>' % str( i ) ) - out.append( '</tr>' ) - out.append( self.make_html_peek_rows( dataset, skipchars=skipchars ) ) + out.append( self.make_html_peek_header( dataset, kwargs ) ) + out.append( self.make_html_peek_rows( dataset, kwargs ) ) out.append( '</table>' ) out = "".join( out ) except Exception, exc: out = "Can't create peek %s" % str( exc ) return out + def make_html_peek_header( self, dataset, skipchars=[] ): + out = [] + try: + out.append( '<tr>' ) + for i in range( 1, dataset.metadata.columns+1 ): + out.append( '<th>%s</th>' % str( i ) ) + out.append( '</tr>' ) + except Exception, exc: + raise Exception, "Can't create peek header %s" % str( exc ) + return "".join( out ) def make_html_peek_rows( self, dataset, skipchars=[] ): - out = [""] - comments = [] - if not dataset.peek: - dataset.set_peek() - data = dataset.peek - lines = data.splitlines() - for line in lines: - line = line.rstrip( '\r\n' ) - if not line: - continue - comment = False - for skipchar in skipchars: - if line.startswith( skipchar ): - comments.append( line ) - comment = True - break - if comment: - continue - elems = line.split( '\t' ) - if len( elems ) != dataset.metadata.columns: - # We may have an invalid comment line or invalid data - comments.append( line ) - comment = True - continue - while len( comments ) > 0: # Keep comments - try: - out.append( '<tr><td colspan="100%">' ) - except: - out.append( '<tr><td>' ) - out.append( '%s</td></tr>' % escape( comments.pop(0) ) ) - out.append( '<tr>' ) - for elem in elems: # valid data - elem = escape( elem ) - out.append( '<td>%s</td>' % elem ) - out.append( '</tr>' ) - # Peek may consist only of comments - while len( comments ) > 0: - try: - out.append( '<tr><td colspan="100%">' ) - except: - out.append( '<tr><td>' ) - out.append( '%s</td></tr>' % escape( comments.pop(0) ) ) + out = [] + try: + if not dataset.peek: + dataset.set_peek() + for line in dataset.peek.splitlines(): + if line.startswith( tuple( skipchars ) ): + out.append( '<tr><td colspan="100%%">%s</td></tr>' % escape( line ) ) + elif line: + elems = line.split( '\t' ) + # we may have an invalid comment line or invalid data + if len( elems ) != dataset.metadata.columns: + out.append( '<tr><td colspan="100%%">%s</td></tr>' % escape( line ) ) + else: + out.append( '<tr>' ) + for elem in elems: + out.append( '<td>%s</td>' % escape( elem ) ) + out.append( '</tr>' ) + except Exception, exc: + raise Exception, "Can't create peek rows %s" % str( exc ) return "".join( out ) def set_peek( self, dataset, line_count=None, is_multi_byte=False): super(Tabular, self).set_peek( dataset, line_count=line_count, is_multi_byte=is_multi_byte) @@ -498,4 +481,4 @@ return out

def get_track_type( self ): - return "VcfTrack", {"data": "tabix", "index": "summary_tree"} + return "FeatureTrack", {"data": "tabix", "index": "summary_tree"}

Repository URL: https://bitbucket.org/galaxy/galaxy-central/

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