使用 python 比较 xml 个文件

Question

我想比较这两个 xml 文件：

File1.xml:

<ngs_sample id="40332">
  <workflow value="salmonella" version="101_provisional" />
  <results>
  <gastro_prelim_st reason="not novel" success="false">
      <type st="1364" />
      <type st="9999" />
  </gastro_prelim_st>
 </results>
</ngs_sample>

File2.xml:

<ngs_sample id="40332">
  <workflow value="salmonella" version="101_provisional" />
  <results>
  <gastro_prelim_st reason="not novel" success="false">
      <type st="1364" />
   </gastro_prelim_st>
 </results>
</ngs_sample>

我用 xmldiff 来比较 a.xml 和 b.xml:

def compare_xmls(observed,expected):

    from xmldiff import main, formatting
    formatter = formatting.DiffFormatter()
    diff = main.diff_files(observed,expected,formatter=formatter)
    return diff

out = compare_xmls(a.xml, b.xml)
print(out)

输出：

[delete, /ngs_sample/results/gastro_prelim_st/type[2]]

任何人都知道如何识别两个 xml 文件之间的区别，即与文件 b.xml 相比删除了什么。有人推荐任何其他比较 python 中的 xml 文件的方法吗？

Answer 1

使用 xmldiff 执行此任务。

main.py

from xmldiff import main
diff = main.diff_files("file1.xml", "file2.xml")
print(diff)

输出

[DeleteNode(node='/ngs_sample/results/gastro_prelim_st/type[2]')]

Answer 2

您可以切换到 XMLFormatter 并手动过滤出结果：

...
# Change formatter:
formatter = formatting.XMLFormatter(normalize=formatting.WS_BOTH)

...

# after `out` has been retrieved:
import re
for i in out.splitlines():
  if re.search(r'\bdiff:\w+', i):
    print(i)

# Result:
#       <type st="9999" diff:delete=""/>

Answer 3

另一种选择是使用 xml2 https://github.com/clone/xml2（以及类似 bash 进程替换）

$ diff --color <(xml2 < File1.xml) <(xml2 < File2.xml)

7,8d6
< /ngs_sample/results/gastro_prelim_st/type
< /ngs_sample/results/gastro_prelim_st/type/@st=9999

使用 python 比较 xml 个文件

compare xml files using python

python

xml

xmldiff

main.py

输出