comparison blast2html.py @ 110:e17aae23cc1c

report query parameters for each query

109:ea3bc0b9a3d9

    # sort hits by longest hotspot first
    return sorted(result.Iteration_hits.findall('Hit'),
                  key=lambda h: max(blastxml_len(hsp) for hsp in h.Hit_hsps.Hsp),
                  reverse=True)



class BlastVisualize:

    colors = ('black', 'blue', 'green', 'magenta', 'red')

                    environment.filters[filtername] = getattr(builtins, funcname)

    def render(self, output):
        template = self.environment.get_template(self.templatename)

        params = (('Query ID', self.blast["BlastOutput_query-ID"]),
                  ('Query definition', self.blast["BlastOutput_query-def"]),
                  ('Query length', self.blast["BlastOutput_query-len"]),
                  ('Program', self.blast.BlastOutput_version),
                  ('Database', self.blast.BlastOutput_db),
        )

        result = template.stream(blast=self.blast,
                                 iterations=self.blast.BlastOutput_iterations.Iteration,

110:e17aae23cc1c

    # sort hits by longest hotspot first
    return sorted(result.Iteration_hits.findall('Hit'),
                  key=lambda h: max(blastxml_len(hsp) for hsp in h.Hit_hsps.Hsp),
                  reverse=True)

@filter('params')
def result_params(iteration):
    return (('Query number', iteration['Iteration_iter-num']),
            ('Query ID', iteration['Iteration_query-ID']),
            ('Definition line', iteration['Iteration_query-def']),
            ('Length', blastxml_len(iteration)))


class BlastVisualize:

    colors = ('black', 'blue', 'green', 'magenta', 'red')

                    environment.filters[filtername] = getattr(builtins, funcname)

    def render(self, output):
        template = self.environment.get_template(self.templatename)

        params = (('Program', self.blast.BlastOutput_version),
                  ('Database', self.blast.BlastOutput_db),
        )

        result = template.stream(blast=self.blast,
                                 iterations=self.blast.BlastOutput_iterations.Iteration,