如何在目录中的所有文件类型中搜索正则表达式

Question

因此，我想在我的整个目录中搜索包含正则表达式列表的文件。这包括：目录、pdf 和 csv 文件。仅搜索文本文件时我可以成功完成此任务，但搜索所有文件类型却很困难。以下是我目前的工作：

import glob
import re
import PyPDF2
#-------------------------------------------------Input----------------------------------------------------------------------------------------------
folder_path = "/home/"
file_pattern = "/*"
folder_contents = glob.glob(folder_path + file_pattern)


#Search for Emails
regex1= re.compile(r'\S+@\S+')
#Search for Phone Numbers
regex2 = re.compile(r'\d\d\d[-]\d\d\d[-]\d\d\d\d')
#Search for Locations
regex3 =re.compile("([A-Z]\w+), ([A-Z]{2})")


for file in folder_contents:
    read_file = open(file, 'rt').read()
if readile_file == pdf:

    pdfFileObj = open('pdf.pdf', 'rb') 

    pdfReader = PyPDF2.PdfFileReader(pdfFileObj) 

    pageObj = pdfReader.getPage(0)  

    content= pageObj.extractText()) 

    if regex1.findall(read_file) or regex2.findall(read_file) or regex3.findall(read_file):
        print ("YES, This file containts PHI")
        print(file)
    else:
        print("No, This file DOES NOT contain PHI")
        print(file)

当我运行这个时，我得到这个错误：

YES, This file containts PHI
/home/e136320/sample.txt
No, This file DOES NOT contain PHI
/home/e136320/medicalSample.txt

---------------------------------------------------------------------------
UnicodeDecodeError                        Traceback (most recent call last)
<ipython-input-129-be0b68229c20> in <module>()
     19 
     20 for file in folder_contents:
---> 21     read_file = open(file, 'rt').read()
     22 if readile_file == pdf:
     23     # creating a pdf file object
---------------------------------------------------------------------------
UnicodeDecodeError                        Traceback (most recent call last)
<ipython-input-128-1537605cf636> in <module>()
     18 
     19 for file in folder_contents:
---> 20     read_file = open(file, 'rt').read()
     21     if regex1.findall(read_file) or regex2.findall(read_file) or regex3.findall(read_file):
     22         print ("YES, This file containts PHI")

/jupyterhub_env/lib/python3.5/codecs.py in decode(self, input, final)
    319         # decode input (taking the buffer into account)
    320         data = self.buffer + input
--> 321         (result, consumed) = self._buffer_decode(data, self.errors, final)
    322         # keep undecoded input until the next call
    323         self.buffer = data[consumed:]

UnicodeDecodeError: 'utf-8' codec can't decode byte 0xc7 in position 10: invalid continuation byte

有什么建议吗？

Answer 1

您不能像这样打开 pdf 文件，它需要一个纯文本文件。你可以使用这样的东西：

fn, ext = os.path.splitext(file)

if ext == '.pdf':
    open_function = PyPDF2.PdfFileReader
else:  # plain text
    open_function = open

with open_function(file, 'rt') as open_file:
    # Do something with open file...

此代码段检查文件扩展名，然后根据它找到的内容分配一个打开函数，这有点天真，可以用与显示的方法类似的方法做得更好 in this answer。

Answer 2

您的问题发生在您以相同方式打开不同类型的文件时。你必须把它们整理出来。 csv可以直接读取，pdf不行。我使用 re.search(r".*(?=pdf$)",file) 来防止 2.pdf.csv 被认为是一个 pdf 文件

import glob
import re
import PyPDF2
#-------------------------------------------------Input----------------------------------------------------------------------------------------------
folder_path = "/home/e136320/"
file_pattern = "/*"
folder_contents = glob.glob(folder_path + file_pattern)

#Search for Emails
regex1= re.compile(r'\S+@\S+')
#Search for Phone Numbers
regex2 = re.compile(r'\d\d\d[-]\d\d\d[-]\d\d\d\d')
#Search for Locations
regex3 =re.compile("([A-Z]\w+), ([A-Z]{2})")


for file in folder_contents:

    if re.search(r".*(?=pdf$)",file):
        #this is pdf
        with open(file, 'rb') as pdfFileObj:
            pdfReader = PyPDF2.PdfFileReader(pdfFileObj) 
            pageObj = pdfReader.getPage(0)  
            content = pageObj.extractText()
            read_file = #

    elif re.search(r".*(?=csv$)",file):
        #this is csv
        with open(file,"r+",encoding="utf-8") as csv:
            read_file = csv.read()

    else:
        #print("{}".format(file))
        continue

    if regex1.findall(read_file) or regex2.findall(read_file) or regex3.findall(read_file):
        print ("YES, This file containts PHI")
        print(file)
    else:
        print("No, This file DOES NOT contain PHI")
        print(file)

如何在目录中的所有文件类型中搜索正则表达式

How to search all file types in directory for regular expression

python

regex

pypdf2

os.path