本文整理匯總了Python中pymodule.PassingData.no_of_total_snps_filtered方法的典型用法代碼示例。如果您正苦於以下問題：Python PassingData.no_of_total_snps_filtered方法的具體用法？Python PassingData.no_of_total_snps_filtered怎麽用？Python PassingData.no_of_total_snps_filtered使用的例子？那麽, 這裏精選的方法代碼示例或許可以為您提供幫助。您也可以進一步了解該方法所在類pymodule.PassingData的用法示例。
在下文中一共展示了PassingData.no_of_total_snps_filtered方法的1個代碼示例，這些例子默認根據受歡迎程度排序。您可以為喜歡或者感覺有用的代碼點讚，您的評價將有助於係統推薦出更棒的Python代碼示例。
示例1: get_qccall_results
# 需要導入模塊: from pymodule import PassingData [as 別名]
# 或者: from pymodule.PassingData import no_of_total_snps_filtered [as 別名]
def get_qccall_results(self, input_dir):
import os,sys,csv
from variation.src.MpiQCCall import MpiQCCall
from pymodule import PassingData
"""
var_name_ls = ['strain or snp', 'after_imputation'] + MpiQCCall.common_var_name_ls
avg_var_name_pair_ls, partial_header_avg = MpiQCCall.generate_avg_variable_names(MpiQCCall.avg_var_name_ls)
var_name_ls += partial_header_avg
"""
files = os.listdir(input_dir)
passingdata_ls = []
no_of_objects = len(files)
var_name_ls = []
for i in range(no_of_objects):
sys.stderr.write("\t%d/%d: from %s ... \n"%(i+1, no_of_objects, files[i]))
filename = os.path.join(input_dir, files[i])
reader = csv.reader(open(filename))
try:
row = reader.next()
if len(var_name_ls)==0:
var_name_ls = row
except:
if self.debug:
import traceback
traceback.print_exc()
sys.stderr.write('%s\n'%sys.exc_info())
sys.stderr.write('\terror in reading this file. ignored.\n')
del reader
continue
for row in reader:
passingdata = PassingData()
for i in range(len(var_name_ls)):
var_name = var_name_ls[i]
if var_name!='strain or snp':
value = float(row[i])
else: #the first column is strain or snp, no float conversion
value = row[i]
setattr(passingdata, var_name, value) #
#two new variables record no of accessions/snps lost
passingdata.no_of_total_accessions_filtered = passingdata.no_of_accessions_filtered_by_mismatch + passingdata.no_of_accessions_filtered_by_na
passingdata.no_of_total_snps_filtered = passingdata.no_of_snps_filtered_by_mismatch +\
passingdata.no_of_snps_filtered_by_na
passingdata.no_of_total_snps_removed = passingdata.no_of_total_snps_filtered +\
passingdata.no_of_monomorphic_snps_removed
passingdata_ls.append(passingdata)
del reader
return passingdata_ls, var_name_ls