def mis_rec_to_string(self, mis_rec):
lvl = mis_rec['orig_level']
output = mis_rec['name'] + "\t"
output += "%s\t%s\t%s\t%.3f\t" % (mis_rec['level_name'],
mis_rec['orig_ranks'][lvl], mis_rec['ranks'][lvl], mis_rec['lws'][lvl])
output += Taxonomy.lineage_str(mis_rec['orig_ranks']) + "\t"
output += Taxonomy.lineage_str(mis_rec['ranks']) + "\t"
output += ";".join(["%.3f" % conf for conf in mis_rec['lws']])
if 'rank_conf' in mis_rec:
output += "\t%.3f" % mis_rec['rank_conf']
return output
def mis_rec_to_string(self, mis_rec):
lvl = mis_rec['orig_level']
uncorr_name = EpacConfig.strip_ref_prefix(self.refjson.get_uncorr_seqid(mis_rec['name']))
uncorr_orig_ranks = self.refjson.get_uncorr_ranks(mis_rec['orig_ranks'])
uncorr_ranks = self.refjson.get_uncorr_ranks(mis_rec['ranks'])
output = uncorr_name + "\t"
if lvl >= 0:
output += "%s\t%s\t%s\t%.3f\t" % (mis_rec['level_name'],
uncorr_orig_ranks[lvl], uncorr_ranks[lvl], mis_rec['lws'][lvl])
else:
output += "%s\t%s\t%s\t%.3f\t" % (mis_rec['level_name'],
"NA", "NA", mis_rec['lws'][0])
output += Taxonomy.lineage_str(uncorr_orig_ranks) + "\t"
output += Taxonomy.lineage_str(uncorr_ranks) + "\t"
output += ";".join(["%.3f" % conf for conf in mis_rec['lws']])
if 'rank_conf' in mis_rec:
output += "\t%.3f" % mis_rec['rank_conf']
return output
def mis_rec_to_string(self, mis_rec):
lvl = mis_rec['orig_level']
uncorr_name = EpacConfig.strip_ref_prefix(
self.refjson.get_uncorr_seqid(mis_rec['name']))
uncorr_orig_ranks = self.refjson.get_uncorr_ranks(
mis_rec['orig_ranks'])
uncorr_ranks = self.refjson.get_uncorr_ranks(mis_rec['ranks'])
output = uncorr_name + "\t"
if lvl >= 0:
output += "%s\t%s\t%s\t%.3f\t" % (
mis_rec['level_name'], uncorr_orig_ranks[lvl],
uncorr_ranks[lvl], mis_rec['lws'][lvl])
else:
output += "%s\t%s\t%s\t%.3f\t" % (mis_rec['level_name'], "NA",
"NA", mis_rec['lws'][0])
output += Taxonomy.lineage_str(uncorr_orig_ranks) + "\t"
output += Taxonomy.lineage_str(uncorr_ranks) + "\t"
output += ";".join(["%.3f" % conf for conf in mis_rec['lws']])
if 'rank_conf' in mis_rec:
output += "\t%.3f" % mis_rec['rank_conf']
return output
