问题描述
import pandas as pd
from pathlib import Path
Drugs = ['ARTHROTEC','CAMBIA','CATAFLAM','DICLOFENAC-POTASSIUM','DICLOFENAC-sodium','FLECTOR','LIPITOR','PENNSAID','SOLaraZE','VOLTAREN','VOLTAREN-XR','ZIPSOR']
def extract_Tags(drug):
Files = Path('E:/TM/Final/CADEC/original').glob(drug+'*.ann')
for file in Files:
try:
data = pd.read_csv(file,sep='\t',header=None)
except:
print('Cannot open ',file)
print(drug,'\n')
我在一个目录下有很多 .ann 文件，每个标题都以药物名称开头。我试图通过 pandas.read_csv() 从他们那里读入数据。但是，有些文件可以打开，有些则不能。我得到了我得到的，我不知道如何检查那些无法打开的文件出了什么问题。我应该使用其他命令打开它们吗？
for drug in Drugs:
extract_Tags(drug)
ARTHROTEC
Cannot open E:\TM\Final\CADEC\original\CAMBIA.1.ann
CAMBIA
CATAFLAM
DICLOFENAC-POTASSIUM
DICLOFENAC-sodium
FLECTOR
Cannot open E:\TM\Final\CADEC\original\LIPITOR.197.ann
Cannot open E:\TM\Final\CADEC\original\LIPITOR.243.ann
Cannot open E:\TM\Final\CADEC\original\LIPITOR.28.ann
...
Cannot open E:\TM\Final\CADEC\original\LIPITOR.964.ann
LIPITOR
Cannot open E:\TM\Final\CADEC\original\PENNSAID.2.ann
PENNSAID
Cannot open E:\TM\Final\CADEC\original\SOLaraZE.1.ann
Cannot open E:\TM\Final\CADEC\original\SOLaraZE.3.ann
SOLaraZE
Cannot open E:\TM\Final\CADEC\original\VOLTAREN-XR.11.ann
Cannot open E:\TM\Final\CADEC\original\VOLTAREN-XR.13.ann
Cannot open E:\TM\Final\CADEC\original\VOLTAREN-XR.4.ann
...
VOLTAREN
Cannot open E:\TM\Final\CADEC\original\VOLTAREN-XR.11.ann
Cannot open E:\TM\Final\CADEC\original\VOLTAREN-XR.13.ann
Cannot open E:\TM\Final\CADEC\original\VOLTAREN-XR.4.ann
...
VOLTAREN-XR
ZIPSOR
如果我尝试打开其中一个特定文件，它会返回“没有要从文件解析的列”，我不太明白。如何确定数据文件是否损坏或我应该以其他方式处理？顺便说一句，因为这是一个基准数据集，我发现文件构建不当很奇怪。
pd.read_csv("E:\TM\Final\CADEC\original\LIPITOR.197.ann",header=None)
---------------------------------------------------------------------------
EmptyDataError Traceback (most recent call last)
<ipython-input-4-8f6a7735c992> in <module>
1 # check one of the unopenable files
----> 2 pd.read_csv("E:\TM\Final\CADEC\original\LIPITOR.197.ann",header=None)
d:\python\lib\site-packages\pandas\io\parsers.py in parser_f(filepath_or_buffer,sep,delimiter,header,names,index_col,usecols,squeeze,prefix,mangle_dupe_cols,dtype,engine,converters,true_values,false_values,skipinitialspace,skiprows,skipfooter,nrows,na_values,keep_default_na,na_filter,verbose,skip_blank_lines,parse_dates,infer_datetime_format,keep_date_col,date_parser,dayfirst,cache_dates,iterator,chunksize,compression,thousands,decimal,lineterminator,quotechar,quoting,doublequote,escapechar,comment,encoding,dialect,error_bad_lines,warn_bad_lines,delim_whitespace,low_memory,memory_map,float_precision)
674 )
675
--> 676 return _read(filepath_or_buffer,kwds)
677
678 parser_f.__name__ = name
d:\python\lib\site-packages\pandas\io\parsers.py in _read(filepath_or_buffer,kwds)
446
447 # Create the parser.
--> 448 parser = TextFileReader(fp_or_buf,**kwds)
449
450 if chunksize or iterator:
d:\python\lib\site-packages\pandas\io\parsers.py in __init__(self,f,**kwds)
878 self.options["has_index_names"] = kwds["has_index_names"]
879
--> 880 self._make_engine(self.engine)
881
882 def close(self):
d:\python\lib\site-packages\pandas\io\parsers.py in _make_engine(self,engine)
1112 def _make_engine(self,engine="c"):
1113 if engine == "c":
-> 1114 self._engine = CParserWrapper(self.f,**self.options)
1115 else:
1116 if engine == "python":
d:\python\lib\site-packages\pandas\io\parsers.py in __init__(self,src,**kwds)
1889 kwds["usecols"] = self.usecols
1890
-> 1891 self._reader = parsers.TextReader(src,**kwds)
1892 self.unnamed_cols = self._reader.unnamed_cols
1893
pandas\_libs\parsers.pyx in pandas._libs.parsers.TextReader.__cinit__()
EmptyDataError: No columns to parse from file
解决方法
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