def illumina_chimera_after_cluster(runobj): mychimera = Chimera(runobj) mychimera.illumina_rm_size_files() start = time.time() mychimera.illumina_size_to_freq_in_chimer() elapsed = (time.time() - start) print "illumina_size_to_freq_in_chimer time: %s" % elapsed # start = time.time() # print "Check chimeric statistics. If ref > 15% and ratio ref to de-novo > 2 use only de-novo" # mychimera.check_chimeric_stats() # elapsed = (time.time() - start) # print "check_chimeric_stats time: %s" % elapsed start = time.time() print "Creating nonchimeric files in %s" % mychimera.indir mychimera.move_out_chimeric() elapsed = (time.time() - start) print "move_out_chimeric time: %s" % elapsed print "illumina_chimera_after_cluster time = %s" % str(elapsed)
def illumina_chimera_after_cluster(runobj): mychimera = Chimera(runobj) mychimera.illumina_rm_size_files() start = time.time() mychimera.illumina_size_to_freq_in_chimer() elapsed = (time.time() - start) logger.debug("illumina_size_to_freq_in_chimer time: %s" % elapsed) # start = time.time() # logger.debug("Check chimeric statistics. If ref > 15% and ratio ref to de-novo > 2 use only de-novo") # mychimera.check_chimeric_stats() # elapsed = (time.time() - start) # logger.debug("check_chimeric_stats time: %s" % elapsed) start = time.time() logger.debug("Creating nonchimeric files in %s" % mychimera.indir) mychimera.move_out_chimeric() elapsed = (time.time() - start) logger.debug("move_out_chimeric time: %s" % elapsed) logger.debug("illumina_chimera_after_cluster time = %s" % str(elapsed))