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src/q/i/qiime-1.8.0/qiime/map_reads_to_reference.py   qiime(Download)
 
from os.path import join, splitext, exists
from cogent.parse.blast import MinimalBlatParser9
from pycogent_backports.blat import (
  assign_dna_reads_to_protein_database as blat_assign_dna_reads_to_protein_database,
        output_observation_map_f = open(output_observation_map_fp,'w')
        log_f = open(log_fp,'w')
        for summary, blat_results in MinimalBlatParser9(open(raw_output_fp,'U'),
                                     include_column_names=False):
            for e in blat_results: