使用Python XML.etree.ElementTree遍历XML树时出现问题
我有一个XML文件,其结构如下所示(为解决此问题而简化)。对于每个记录,我想提取文章标题和包含“ArticleId”元素中的DOI编号的属性“IdType”的值(有时该属性可能会丢失),然后将文章标题存储在以DOI为键的字典中使用Python XML.etree.ElementTree遍历XML树时出现问题,python,xml,Python,Xml,我有一个XML文件,其结构如下所示(为解决此问题而简化)。对于每个记录,我想提取文章标题和包含“ArticleId”元素中的DOI编号的属性“IdType”的值(有时该属性可能会丢失),然后将文章标题存储在以DOI为键的字典中 <PubmedArticleSet> <PubmedArticle> <MedlineCitation Status="MEDLINE" Owner="NLM"> <Article PubModel="Pr
<PubmedArticleSet>
<PubmedArticle>
<MedlineCitation Status="MEDLINE" Owner="NLM">
<Article PubModel="Print-Electronic">
<ArticleTitle>Malathion and dithane induce DNA damage in Vicia faba.</ArticleTitle>
</Article>
</MedlineCitation>
<PubmedData>
<ArticleIdList>
<ArticleId IdType="pubmed">28950791</ArticleId>
<ArticleId IdType="doi">10.1177/0748233717726877</ArticleId>
</ArticleIdList>
</PubmedData>
</PubmedArticle>
<PubmedArticle>
<MedlineCitation Status="MEDLINE" Owner="NLM">
<Article PubModel="Print-Electronic">
<ArticleTitle>Impact of dual inoculation with Rhizobium and PGPR on growth and antioxidant status of Vicia faba L. under copper stress.</ArticleTitle>
</Article>
</MedlineCitation>
<PubmedData>
<ArticleIdList>
<ArticleId IdType="pubmed">25747267</ArticleId>
<ArticleId IdType="pii">S1631-0691(15)00050-5</ArticleId>
<ArticleId IdType="doi">10.1016/j.crvi.2015.02.001</ArticleId>
</ArticleIdList>
</PubmedData>
</PubmedArticle>
<PubmedArticle>
<MedlineCitation Status="MEDLINE" IndexingMethod="Curated" Owner="NLM">
<Article PubModel="Print-Electronic">
<ArticleTitle>[Influence of Four Kinds of PPCPs on Micronucleus Rate of the Root-Tip Cells of Vicia-faba and Garlic].</ArticleTitle>
</Article>
</MedlineCitation>
<PubmedData>
<ArticleIdList>
<ArticleId IdType="pubmed">27548984</ArticleId>
<!-- in this record, DOI is missing -->
</ArticleIdList>
</PubmedData>
</PubmedArticle>
</PubmedArticleSet>
但是遍历文档树的循环有一个问题,因为上面的代码导致:
也就是说,我得到了正确的DOI,但只是上一篇文章标题的副本,没有DOI
正确的输出应为:
有谁能给我一些提示来解决这个烦人的问题吗?这根本是错误的:
for elem in xmldoc.iter(tag='ArticleTitle'): # <-- *ALL* <ArticleTitle> elements
...
for subelem in xmldoc.iter(tag='ArticleId'): # <-- *ALL* <ArticleId> elements
...
托马拉克:非常感谢你的回答。它在Python2.7上工作得很有魅力,但后来我偶然发现了另一个问题:“iter”和“iterfind”都只在Python2.7+上可用,我需要在Python2.6.6上运行我的脚本(它在一个远程服务器上,只提供该版本),按照说明从这里()我找到了“iter”的一个简单替代品,但无法使用“findall”(用于xmldoc.findall('./PubmedData//articleId')中的articleId)应用解决方案,该解决方案只返回了零。您正在再次搜索
xmldoc
。不要那样做。使用相对搜索。是的,我只是被类似问题的例子分散了注意力。代码现在在Python2.6上运行良好,行“for articleId in pubmedArticle.findall('.//articleId'):”代替了iterfind;再次感谢您的帮助。
10.1177/0748233717726877 [Influence of Four Kinds of PPCPs on Micronucleus Rate of the Root-Tip Cells of Vicia-faba and Garlic].
10.1016/j.crvi.2015.02.001 [Influence of Four Kinds of PPCPs on Micronucleus Rate of the Root-Tip Cells of Vicia-faba and Garlic].
10.1177/0748233717726877 Malathion and dithane induce DNA damage in Vicia faba.
10.1016/j.crvi.2015.02.001 Impact of dual inoculation with Rhizobium and PGPR on growth and antioxidant status of Vicia faba L. under copper stress.
for elem in xmldoc.iter(tag='ArticleTitle'): # <-- *ALL* <ArticleTitle> elements
...
for subelem in xmldoc.iter(tag='ArticleId'): # <-- *ALL* <ArticleId> elements
...
pubs = []
for pubmedArticle in xmldoc.iter(tag='PubmedArticle'):
# relative search within this <PubmedArticle>
articleTitle = pubmedArticle.find('./MedlineCitation/Article/ArticleTitle')
# always verify that there are actual results for a search
if articleTitle == None:
title = "No article title found"
else:
title = articleTitle.text
for articleId in pubmedArticle.iterfind('./PubmedData//ArticleId'):
if articleId.get("IdType") == "doi":
pubs.append({"doi": articleId.text, "title": title})
[
{'doi': '10.1177/0748233717726877', 'title': 'Malathion and dithane induce DNA damage in Vicia faba.'},
{'doi': '10.1016/j.crvi.2015.02.001', 'title': 'Impact of dual inoculation with Rhizobium and PGPR on growth and antioxidant status of Vicia faba L. under copper stress.'}
]