def adate_extractor(article, year_info_only=False):
"""Extract PubDate information from an Article in the Medline dataset.
Parameters
----------
journal: Element
The 'Journal' field in the Medline dataset
year_info_only: bool
if True, this tool will only attempt to extract year information from PubDate.
if False, an attempt will be made to harvest all available PubDate information.
If only year and month information is available, this will yield a date of
the form 'YYYY-MM'. If year, month and day information is available,
a date of the form 'YYYY-MM-DD' will be returned.
Returns
-------
PubDate: str
PubDate extracted from an article.
Note: If year_info_only is False and a month could not be
extracted this falls back to year automatically.
"""
day = None
month = None
issue_date = article.find("ArticleDate")
if not issue_date:
return None
if issue_date.find("Year") is not None:
year = issue_date.find("Year").text
if not year_info_only:
if issue_date.find("Month") is not None:
month = month_or_day_formater(issue_date.find("Month").text)
if issue_date.find("Day") is not None:
day = month_or_day_formater(issue_date.find("Day").text)
elif issue_date.find("MedlineDate") is not None:
year_text = issue_date.find("MedlineDate").text
year = re.findall(r"\d{4}", year_text)
if len(year) >= 1:
year = year[0]
else:
year = ""
else:
year = ""
if year_info_only or month is None:
return year
else:
return "-".join(str(x) for x in filter(None, [year, month, day]))
def date_extractor(journal, year_info_only):
"""Extract PubDate information from an Article in the Medline dataset.
Parameters
----------
journal: Element
The 'Journal' field in the Medline dataset
year_info_only: bool
if True, this tool will only attempt to extract year information from PubDate.
if False, an attempt will be made to harvest all available PubDate information.
If only year and month information is available, this will yield a date of
the form 'YYYY-MM'. If year, month and day information is available,
a date of the form 'YYYY-MM-DD' will be returned.
Returns
-------
PubDate: str
PubDate extracted from an article.
Note: If year_info_only is False and a month could not be
extracted this falls back to year automatically.
"""
day = None
month = None
issue = journal.xpath('JournalIssue')[0]
issue_date = issue.find('PubDate')
if issue_date.find('Year') is not None:
year = issue_date.find('Year').text
if not year_info_only:
if issue_date.find('Month') is not None:
month = month_or_day_formater(issue_date.find('Month').text)
if issue_date.find('Day') is not None:
day = month_or_day_formater(issue_date.find('Day').text)
elif issue_date.find('MedlineDate') is not None:
year_text = issue_date.find('MedlineDate').text
year = year_text.split(' ')[0]
else:
year = ""
if year_info_only or month is None:
return year
else:
return "-".join(str(x) for x in filter(None, [year, month, day]))
def date_extractor(journal, year_info_only):
"""Extract PubDate information from an Article in the Medline dataset.
Parameters
----------
journal: Element
The 'Journal' field in the Medline dataset
year_info_only: bool
if True, this tool will only attempt to extract year information from PubDate.
if False, an attempt will be made to harvest all available PubDate information.
If only year and month information is available, this will yield a date of
the form 'YYYY-MM'. If year, month and day information is available,
a date of the form 'YYYY-MM-DD' will be returned.
Returns
-------
PubDate: str
PubDate extracted from an article.
Note: If year_info_only is False and a month could not be
extracted this falls back to year automatically.
"""
day = None
month = None
issue = journal.xpath('JournalIssue')[0]
issue_date = issue.find('PubDate')
if issue_date.find('Year') is not None:
year = issue_date.find('Year').text
if not year_info_only:
if issue_date.find('Month') is not None:
month = month_or_day_formater(issue_date.find('Month').text)
if issue_date.find('Day') is not None:
day = month_or_day_formater(issue_date.find('Day').text)
elif issue_date.find('MedlineDate') is not None:
year_text = issue_date.find('MedlineDate').text
year = year_text.split(' ')[0]
else:
year = ""
if year_info_only or month is None:
return year
else:
return "-".join(str(x) for x in filter(None, [year, month, day]))
def parse_daterevised(medline):
"""Parse chemical list from article
Parameters
----------
medline: Element
The lxml node pointing to a medline document
Returns
-------
DateRevised: str
PubDate extracted from an article.
"""
year = ""
month = ""
day = ""
DateRevised = medline.find("DateRevised")
if DateRevised is not None:
year = DateRevised.findtext("Year")
month = month_or_day_formater(DateRevised.find("Month").text)
day = month_or_day_formater(DateRevised.find("Day").text)
return "-".join(str(x) for x in filter(None, [year, month, day]))
else:
return ""
