def list_articles(target_directory, supplementary_materials=False, skip=[]):
listing = listdir(target_directory)
for filename in listing:
result_tree = ElementTree()
result_tree.parse(path.join(target_directory, filename))
for tree in result_tree.iterfind('article'):
pmcid = _get_pmcid(tree)
if pmcid in skip:
continue
result = {}
result['name'] = pmcid
result['doi'] = _get_article_doi(tree)
result['article-categories'] = _get_article_categories(tree)
result['article-contrib-authors'] = _get_article_contrib_authors(
tree)
result['article-title'] = _get_article_title(tree)
result['article-abstract'] = _get_article_abstract(tree)
result['journal-title'] = _get_journal_title(tree)
result['article-year'], \
result['article-month'], \
result['article-day'] = _get_article_date(tree)
result['article-url'] = _get_article_url(tree)
result['article-license-url'], \
result['article-license-text'], \
result['article-copyright-statement'] = _get_article_licensing(tree)
result['article-copyright-holder'] = _get_article_copyright_holder(
tree)
if supplementary_materials:
result[
'supplementary-materials'] = _get_supplementary_materials(
tree)
yield result
def list_articles(target_directory, supplementary_materials=False, skip=[]):
listing = listdir(target_directory)
for filename in listing:
result_tree = ElementTree()
result_tree.parse(path.join(target_directory, filename))
for tree in result_tree.iterfind('article'):
pmcid = _get_pmcid(tree)
if pmcid in skip:
continue
result = {}
result['name'] = pmcid
result['doi'] = _get_article_doi(tree)
result['article-categories'] = _get_article_categories(tree)
result['article-contrib-authors'] = _get_article_contrib_authors(tree)
result['article-title'] = _get_article_title(tree)
result['article-abstract'] = _get_article_abstract(tree)
result['journal-title'] = _get_journal_title(tree)
result['article-year'], \
result['article-month'], \
result['article-day'] = _get_article_date(tree)
result['article-url'] = _get_article_url(tree)
result['article-license-url'], \
result['article-license-text'], \
result['article-copyright-statement'] = _get_article_licensing(tree)
result['article-copyright-holder'] = _get_article_copyright_holder(tree)
if supplementary_materials:
result['supplementary-materials'] = _get_supplementary_materials(tree)
yield result
def list_articles(target_directory, supplementary_materials=False, skip=[]):
result_tree = ElementTree()
result_tree.parse(path.join(target_directory, 'file.xml'))
for tree in [result_tree]:
result = {}
result['name'] = _get_article_doi(tree)
result['doi'] = _get_article_doi(tree)
result['article-contrib-authors'] = _get_article_contrib_authors(tree)
result['article-title'] = _get_article_title(tree)
result['article-abstract'] = _get_article_abstract(tree)
result['journal-title'] = _get_journal_title(tree)
result['article-year'], \
result['article-month'], \
result['article-day'] = _get_article_date(tree)
result['article-url'] = _get_article_url(tree)
result['article-license-url'] = _get_article_license_url(tree)
result['article-copyright-holder'] = _get_article_copyright_holder(tree)
if supplementary_materials:
result['supplementary-materials'] = _get_supplementary_materials(tree)
yield result
def list_articles(target_directory, supplementary_materials=False, skip=[]):
result_tree = ElementTree()
result_tree.parse(path.join(target_directory, 'file.xml'))
for tree in [result_tree]:
result = {}
result['name'] = _get_article_doi(tree)
result['doi'] = _get_article_doi(tree)
result['article-contrib-authors'] = _get_article_contrib_authors(tree)
result['article-title'] = _get_article_title(tree)
result['article-abstract'] = _get_article_abstract(tree)
result['journal-title'] = _get_journal_title(tree)
result['article-year'], \
result['article-month'], \
result['article-day'] = _get_article_date(tree)
result['article-url'] = _get_article_url(tree)
result['article-license-url'] = _get_article_license_url(tree)
result['article-copyright-holder'] = _get_article_copyright_holder(
tree)
if supplementary_materials:
result['supplementary-materials'] = _get_supplementary_materials(
tree)
yield result
