def test_authors_in_cache():
create_cache(drop=True, file=test_cache)
# Variables
expected_auth = ["53164702100", "57197093438"]
search_auth = ["55317901900"]
# Test empty cache
df1 = pd.DataFrame(expected_auth, columns=["auth_id"], dtype="int64")
incache, tosearch = authors_in_cache(df1, file=test_cache)
expected_cols = ['auth_id', 'eid', 'surname', 'initials', 'givenname',
'affiliation', 'documents', 'affiliation_id', 'city',
'country', 'areas']
expected_auth = [int(au) for au in expected_auth]
assert_equal(tosearch, expected_auth)
assert_equal(len(incache), 0)
assert_equal(incache.columns.tolist(), expected_cols)
# Test partial retrieval
q = "AU-ID({})".format(') OR AU-ID('.join([str(a) for a in expected_auth]))
res = pd.DataFrame(AuthorSearch(q).authors, dtype="int64")
res["auth_id"] = res["eid"].str.split("-").str[-1]
res = res[expected_cols]
cache_insert(res, table="authors", file=test_cache)
df2 = pd.DataFrame(expected_auth + search_auth, columns=["auth_id"],
dtype="int64")
incache, tosearch = authors_in_cache(df2, file=test_cache)
assert_equal(tosearch, [55317901900])
assert_equal(len(incache), 2)
# Test full retrieval
incache, tosearch = authors_in_cache(df1, file=test_cache)
assert_equal(tosearch, [])
assert_equal(len(incache), 2)
def test_sources_afids_in_sources_cache():
create_cache(drop=True, file=test_cache)
# Variables
expected_sources = [22900]
expected_years = [2010, 2005]
df = pd.DataFrame(list(product(expected_sources, expected_years)),
columns=["source_id", "year"], dtype="int64")
# Populate cache
res = query_year(expected_years[0], expected_sources, False, False, afid=True)
cache_insert(res, table="sources", file=test_cache)
# Retrieve from cache
sources_ys_incache, sources_ys_search = sources_in_cache(df, file=test_cache)
expected_sources = [int(s) for s in expected_sources]
assert_equal(sources_ys_incache.source_id.tolist(), expected_sources)
assert_equal(sources_ys_incache.year.tolist(), [expected_years[0]])
assert_equal(sources_ys_search.source_id.tolist(), expected_sources)
assert_equal(sources_ys_search.year.tolist(), [expected_years[1]])
def test_sources_afids_in_cache_partial():
create_cache(drop=True, file=test_cache)
# Variables
expected_sources = [22900]
expected_years = [2010, 2005]
df = pd.DataFrame(list(product(expected_sources, expected_years)),
columns=["source_id", "year"], dtype="int64")
sa_incache, sa_search = sources_in_cache(df, file=test_cache, afid=True)
# Populate cache
res = query_year(expected_years[0], expected_sources, False, False, afid=True)
cache_insert(res, table="sources_afids", file=test_cache)
# Retrieve from cache
sa_incache, sa_search = sources_in_cache(df, file=test_cache, afid=True)
expected_sources = set([int(s) for s in expected_sources])
assert_equal(set(sa_incache.source_id.tolist()), set(expected_sources))
assert_equal(set(sa_incache.year.tolist()), set([expected_years[0]]))
assert_equal(set(sa_search.source_id.tolist()), set(expected_sources))
assert_equal(set(sa_search.year.tolist()), set([expected_years[1]]))
expected = range(182-5, 182+5)
assert_true(len(sa_incache) in expected)
assert_true(len(sa_incache.afid.drop_duplicates()) in expected)
def query_author_data(authors_list, refresh=False, verbose=False):
"""Wrapper function to search author data for a list of authors, searching
first in cache and then via stacked search.
Parameters
----------
authors_list : list
List of Scopus Author IDs to search.
refresh : bool (optional, default=False)
Whether to refresh scopus cached files if they exist, or not.
verbose : bool (optional)
Whether to print information on the search progress.
Returns
-------
authors_data : DataFrame
A dataframe with authors data from AuthorSearch for the list provided.
"""
authors = pd.DataFrame(authors_list, columns=["auth_id"], dtype="int64")
# merge existing data in cache and separate missing records
auth_done, auth_missing = authors_in_cache(authors)
if auth_missing:
params = {
"group": auth_missing,
"res": [],
"refresh": refresh,
"joiner": ") OR AU-ID(",
"q_type": "author",
"template": Template("AU-ID($fill)")
}
if verbose:
print("Pre-filtering...")
params.update({"total": len(auth_missing)})
res, _ = stacked_query(**params)
res = pd.DataFrame(res)
cache_insert(res, table="authors")
auth_done, _ = authors_in_cache(authors)
return auth_done
def test_author_year_in_cache():
create_cache(drop=True, file=test_cache)
# Variables
expected_auth = ["53164702100", "57197093438"]
search_auth = ["55317901900"]
year = 2016
# Test empty cache
df1 = pd.DataFrame(expected_auth, columns=["auth_id"],
dtype="int64")
df1["year"] = year
auth_y_incache, auth_y_search = author_year_in_cache(df1, file=test_cache)
assert_frame_equal(auth_y_search, df1)
assert_equal(len(auth_y_incache), 0)
# Test partial retrieval
fill = ') OR AU-ID('.join([str(a) for a in expected_auth])
q = "(AU-ID({})) AND PUBYEAR BEF {}".format(fill, year+1)
res = build_dict(ScopusSearch(q).results, expected_auth)
res = pd.DataFrame.from_dict(res, orient="index", dtype="int64")
res["year"] = year
cols = ["year", "first_year", "n_pubs", "n_coauth"]
res = res[cols].reset_index().rename(columns={"index": "auth_id"})
cache_insert(res, table="author_year", file=test_cache)
df2 = pd.DataFrame(expected_auth + search_auth,
columns=["auth_id"], dtype="int64")
df2["year"] = year
auth_y_incache, auth_y_search = author_year_in_cache(df2, file=test_cache)
expected_auth = [int(au) for au in expected_auth]
search_auth = [int(au) for au in search_auth]
assert_equal(sorted(auth_y_incache.auth_id.tolist()), expected_auth)
assert_equal(auth_y_incache.year.tolist(), [year, year])
assert_equal(auth_y_search.auth_id.tolist(), search_auth)
assert_equal(auth_y_search.year.tolist(), [year])
# Test full retrieval
auth_year_incache, auth_year_search = author_year_in_cache(df1, file=test_cache)
assert_equal(sorted(auth_year_incache.auth_id.tolist()), expected_auth)
assert_equal(auth_year_incache.year.tolist(), [year, year])
assert_true(auth_year_search.empty)
def test_author_size_in_cache():
create_cache(drop=True, file=test_cache)
# Variables
expected_auth = 53164702100
expected_years = [2010, 2017]
pubs1 = 0
pubs2 = 6
cols = ["auth_id", "year"]
df = pd.DataFrame(list(product([expected_auth], expected_years)),
columns=cols, dtype="int64")
# Test empty cache
size = author_size_in_cache(df, file=test_cache)
assert_equal(len(size), 0)
assert_true(isinstance(size, pd.DataFrame))
# Test adding to and retrieving from cache
tp1 = (expected_auth, expected_years[0], pubs1)
cache_insert(tp1, table="author_size", file=test_cache)
tp2 = (expected_auth, expected_years[1], pubs2)
cache_insert(tp2, table="author_size", file=test_cache)
size = author_size_in_cache(df, file=test_cache)
assert_equal(len(size), 2)
assert_frame_equal(size[cols], df)
assert_equal(size[size.year == expected_years[0]]["n_pubs"][0], pubs1)
assert_equal(size[size.year == expected_years[1]]["n_pubs"][1], pubs2)
def search_group_from_sources(self, stacked, verbose, refresh=False):
"""Define groups of authors based on publications from a set of sources.
Parameters
----------
self : sosia.Original
The object of the Scientist to search information for.
verbose : bool (optional, default=False)
Whether to report on the progress of the process.
refresh : bool (optional, default=False)
Whether to refresh cached search files.
Returns
-------
today, then, negative : set
Set of authors publishing in three periods: During the year of
treatment, during years to match on, and during years before the
first publication.
"""
# Filtering variables
min_year = self.first_year - self.year_margin
max_year = self.first_year + self.year_margin
if self.period:
_margin_setter = self.publications_period
else:
_margin_setter = self.publications
max_pubs = max(margin_range(len(_margin_setter), self.pub_margin))
years = list(range(min_year, max_year + 1))
search_years = [min_year - 1]
if not self._ignore_first_id:
search_years.extend(range(min_year, max_year + 1))
search_sources, _ = zip(*self.search_sources)
# Verbose variables
n = len(search_sources)
text = "Searching authors for search_group in {} sources...".format(n)
custom_print(text, verbose)
today = set()
then = set()
negative = set()
if stacked: # Make use of SQL cache
# Year provided (select also based on location)
# Get already cached sources from cache
sources_ay = DataFrame(list(product(search_sources,
[self.active_year])),
columns=["source_id", "year"])
_, _search = sources_in_cache(sources_ay, refresh=refresh, afid=True)
res = query_year(self.active_year,
_search.source_id.tolist(),
refresh,
verbose,
afid=True)
cache_insert(res, table="sources_afids")
sources_ay, _ = sources_in_cache(sources_ay,
refresh=refresh,
afid=True)
# Authors publishing in provided year and locations
mask = None
if self.search_affiliations:
mask = sources_ay.afid.isin(self.search_affiliations)
today = flat_set_from_df(sources_ay, "auids", mask)
# Years before active year
# Get already cached sources from cache
sources_ys = DataFrame(list(product(search_sources, search_years)),
columns=["source_id", "year"])
_, sources_ys_search = sources_in_cache(sources_ys, refresh=refresh)
missing_years = set(sources_ys_search.year.tolist())
# Eventually add information for missing years to cache
for y in missing_years:
mask = sources_ys_search.year == y
_sources_search = sources_ys_search[mask].source_id.tolist()
res = query_year(y, _sources_search, refresh, verbose)
cache_insert(res, table="sources")
# Get full cache
sources_ys, _ = sources_in_cache(sources_ys, refresh=False)
# Authors publishing in year(s) of first publication
if not self._ignore_first_id:
mask = sources_ys.year.between(min_year, max_year, inclusive=True)
then = flat_set_from_df(sources_ys, "auids", mask)
# Authors with publications before
mask = sources_ys.year < min_year
negative = flat_set_from_df(sources_ys, "auids", mask)
else:
auth_count = []
print_progress(0, n, verbose)
for i, source_id in enumerate(search_sources):
info = query_journal(source_id, [self.active_year] + years,
refresh)
today.update(info[str(self.active_year)])
if not self._ignore_first_id:
for y in years:
then.update(info[str(y)])
for y in range(int(min(info.keys())), min_year):
negative.update(info[str(y)])
for y in info:
if int(y) <= self.active_year:
auth_count.extend(info[str(y)])
print_progress(i + 1, n, verbose)
c = Counter(auth_count)
negative.update({a for a, npub in c.items() if npub > max_pubs})
return today, then, negative
def filter_pub_counts(group,
ybefore,
yupto,
npapers,
yfrom=None,
verbose=False):
"""Filter authors based on restrictions in the number of
publications in different periods, searched by query_size.
Parameters
----------
group : list of str
Scopus IDs of authors to be filtered.
ybefore : int
Year to be used as first year. Publications on this year and before
need to be 0.
yupto : int
Year up to which to count publications.
npapers : list
List of count of publications, minimum and maximum.
yfrom : int (optional, default=None)
If provided, publications are counted only after this year.
Publications are still set to 0 before ybefore.
Returns
-------
group : list of str
Scopus IDs filtered.
pubs_counts : list of int
List of count of publications within the period provided for authors
in group.
older_authors : list of str
Scopus IDs filtered out because have publications before ybefore.
Notes
-----
It uses cached values first, and searches for more data if needed.
"""
group = [int(x) for x in group]
years_check = [ybefore, yupto]
if yfrom:
years_check.extend([yfrom - 1])
authors = DataFrame(list(product(group, years_check)),
columns=["auth_id", "year"],
dtype="int64")
authors_size = author_size_in_cache(authors)
au_skip = []
group_tocheck = [x for x in group]
older_authors = []
pubs_counts = []
# use information in cache
if not authors_size.empty:
# authors that can be already removed because older
mask = ((authors_size.year <= ybefore) & (authors_size.n_pubs > 0))
remove = (authors_size[mask]["auth_id"].drop_duplicates().tolist())
older_authors.extend(remove)
au_remove = [x for x in remove]
# remove if number of pubs in year is in any case too small
mask = ((authors_size.year >= yupto) &
(authors_size.n_pubs < min(npapers)))
remove = (authors_size[mask]["auth_id"].drop_duplicates().tolist())
au_remove.extend(remove)
# authors with no pubs before min year
mask = (((authors_size.year == ybefore) & (authors_size.n_pubs == 0)))
au_ok_miny = (authors_size[mask]["auth_id"].drop_duplicates().tolist())
# check publications in range
if yfrom:
# adjust count by substracting the count before period; keep
# only authors for which it is possible
mask = (authors_size.year == yfrom - 1)
authors_size_bef = authors_size[mask]
authors_size_bef["year"] = yupto
authors_size_bef.columns = ["auth_id", "year", "n_pubs_bef"]
bef_auth = set(authors_size_bef["auth_id"])
mask = ((authors_size["auth_id"].isin(bef_auth)) &
(authors_size["year"] == yupto))
authors_size = authors_size[mask]
authors_size = authors_size.merge(authors_size_bef,
"left",
on=["auth_id", "year"])
authors_size = authors_size.fillna(0)
authors_size["n_pubs"] -= authors_size["n_pubs_bef"]
# authors that can be already removed because of pubs count
mask = (((authors_size.year >= yupto) &
(authors_size.n_pubs < min(npapers))) |
((authors_size.year <= yupto) &
(authors_size.n_pubs > max(npapers))))
remove = (authors_size[mask]["auth_id"].drop_duplicates().tolist())
au_remove.extend(remove)
# authors with pubs count within the range before the given year
mask = (((authors_size.year == yupto) &
(authors_size.n_pubs >= min(npapers))) &
(authors_size.n_pubs <= max(npapers)))
au_ok_year = authors_size[mask][["auth_id",
"n_pubs"]].drop_duplicates()
# authors ok (match both conditions)
au_ok = list(set(au_ok_miny).intersection(set(au_ok_year["auth_id"])))
mask = au_ok_year["auth_id"].isin(au_ok)
pubs_counts = au_ok_year[mask]["n_pubs"].tolist()
# authors that match only the first condition, but the second is
# not known, can skip the first cindition check.
au_skip = [x for x in au_ok_miny if x not in au_remove + au_ok]
group = [x for x in group if x not in au_remove]
group_tocheck = [x for x in group if x not in au_skip + au_ok]
text = "Left with {} authors based on size information already in "\
"cache.\n{} to check\n".format(len(group), len(group_tocheck))
custom_print(text, verbose)
# Verify that publications before minimum year are 0
if group_tocheck:
text = "Searching through characteristics of {:,} authors...".format(
len(group_tocheck))
custom_print(text, verbose)
print_progress(0, len(group_tocheck), verbose)
to_loop = [x for x in group_tocheck] # Temporary copy
for i, au in enumerate(to_loop):
q = "AU-ID({}) AND PUBYEAR BEF {}".format(au, ybefore + 1)
size = base_query("docs", q, size_only=True)
tp = (au, ybefore, size)
cache_insert(tp, table="author_size")
print_progress(i + 1, len(to_loop), verbose)
if not size == 0:
group.remove(au)
group_tocheck.remove(au)
older_authors.append(au)
text = "Left with {} authors based on size information before "\
"minium year\n Filtering based on size query before "\
"provided year\n".format(len(group))
custom_print(text, verbose)
# Verify that publications before the given year falle in range
group_tocheck.extend(au_skip)
n = len(group_tocheck)
if group_tocheck:
text = "Searching through characteristics of {:,} authors".format(n)
custom_print(text, verbose)
print_progress(0, n, verbose)
for i, au in enumerate(group_tocheck):
q = "AU-ID({}) AND PUBYEAR BEF {}".format(au, yupto + 1)
n_pubs_yupto = base_query("docs", q, size_only=True)
tp = (au, yupto, n_pubs_yupto)
cache_insert(tp, table="author_size")
# Eventually decrease publication count
if yfrom and n_pubs_yupto >= min(npapers):
q = "AU-ID({}) AND PUBYEAR BEF {}".format(au, yfrom)
n_pubs_yfrom = base_query("docs", q, size_only=True)
tp = (au, yfrom - 1, n_pubs_yfrom)
cache_insert(tp, table="author_size")
n_pubs_yupto -= n_pubs_yfrom
if n_pubs_yupto < min(npapers) or n_pubs_yupto > max(npapers):
group.remove(au)
else:
pubs_counts.append(n_pubs_yupto)
print_progress(i + 1, n, verbose)
return group, pubs_counts, older_authors
def find_matches(self,
stacked=False,
verbose=False,
stop_words=STOPWORDS,
information=True,
refresh=False,
**tfidf_kwds):
"""Find matches within search_group based on four criteria:
1. Started publishing in about the same year
2. Has about the same number of publications in the year of treatment
3. Has about the same number of coauthors in the year of treatment
4. Has about the same number of citations in the year of treatment
5. Works in the same field as the scientist's main field
Parameters
----------
stacked : bool (optional, default=False)
Whether to combine searches in few queries or not. Cached
files will most likely not be resuable. Set to True if you
query in distinct fields or you want to minimize API key usage.
verbose : bool (optional, default=False)
Whether to report on the progress of the process.
stop_words : list (optional, default=STOPWORDS)
A list of words that should be filtered in the analysis of
abstracts. Default list is the list of english stopwords
by nltk, augmented with numbers and interpunctuation.
information : bool or iterable (optional, default=True)
Whether to return additional information on the matches that may
help in the selection process. If an iterable of keywords is
provied, only return information for these keywords. Allowed
values are "first_year", "num_coauthors", "num_publications",
"num_citations", "country", "language",
"reference_sim", "abstract_sim".
refresh : bool (optional, default=False)
Whether to refresh cached search files.
tfidf_kwds : keywords
Parameters to pass to TfidfVectorizer from the sklearn package
for abstract vectorization. Not used when `information=False` or
or when "abstract_sim" is not in `information`. See
https://scikit-learn.org/stable/modules/generated/sklearn.feature_extraction.text.TfidfVectorizer.html
for possible values.
Returns
-------
matches : list
A list of Scopus IDs of scientists matching all the criteria (if
information is False) or a list of namedtuples with the Scopus ID
and additional information (if information is True).
Raises
------
ValueError
If information is not bool and contains invalid keywords.
"""
# Checks
info_keys = [
"first_name", "surname", "first_year", "num_coauthors",
"num_publications", "num_citations", "num_coauthors_period",
"num_publications_period", "num_citations_period", "subjects",
"country", "affiliation_id", "affiliation", "language",
"reference_sim", "abstract_sim"
]
if isinstance(information, bool):
if information:
keywords = info_keys
elif self.search_affiliations:
information = True
keywords = ["affiliation_id"]
else:
keywords = None
else:
keywords = information
invalid = [x for x in keywords if x not in info_keys]
if invalid:
text = ("Parameter information contains invalid keywords: ",
", ".join(invalid))
raise ValueError(text)
if self.search_affiliations and "affiliation_id" not in keywords:
keywords.append("affiliation_id")
# Variables
_years = range(self.first_year - self.year_margin,
self.first_year + self.year_margin + 1)
if self.period:
_npapers = margin_range(len(self.publications_period),
self.pub_margin)
_ncits = margin_range(self.citations_period, self.cits_margin)
_ncoauth = margin_range(len(self.coauthors_period),
self.coauth_margin)
_npapers_full = margin_range(len(self.publications),
self.pub_margin)
_ncits_full = margin_range(self.citations, self.cits_margin)
_ncoauth_full = margin_range(len(self.coauthors),
self.coauth_margin)
else:
_npapers = margin_range(len(self.publications), self.pub_margin)
_ncits = margin_range(self.citations, self.cits_margin)
_ncoauth = margin_range(len(self.coauthors), self.coauth_margin)
n = len(self.search_group)
text = "Searching through characteristics of {:,} authors".format(n)
custom_print(text, verbose)
# First round of filtering: minimum publications and main field
# create df of authors
authors = query_author_data(self.search_group, verbose=verbose)
same_field = (authors.areas.str.startswith(self.main_field[1]))
enough_pubs = (authors.documents.astype(int) >= int(min(_npapers)))
group = authors[same_field & enough_pubs]["auth_id"].tolist()
group.sort()
n = len(group)
text = "Left with {} authors\nFiltering based on provided "\
"conditions...".format(n)
custom_print(text, verbose)
# Second round of filtering:
# Check having no publications before minimum year, and if 0, the
# number of publications in the relevant period.
params = {
"group": group,
"ybefore": min(_years) - 1,
"yupto": self.year,
"npapers": _npapers,
"yfrom": self.year_period,
"verbose": verbose
}
group, _, _ = filter_pub_counts(**params)
# Also screen out ids with too many publications over the full period
if self.period:
params.update({
"npapers": [1, max(_npapers_full)],
"yfrom": None,
"group": group
})
group, _, _ = filter_pub_counts(**params)
# Third round of filtering: citations (in the FULL period).
authors = pd.DataFrame({"auth_id": group, "year": self.year})
_, authors_cits_search = author_cits_in_cache(authors)
text = "Search and filter based on count of citations\n{} to search "\
"out of {}\n".format(len(authors_cits_search), len(group))
custom_print(text, verbose)
if not authors_cits_search.empty:
authors_cits_search['n_cits'] = 0
print_progress(0, len(authors_cits_search), verbose)
for i, au in authors_cits_search.iterrows():
q = "REF({}) AND PUBYEAR BEF {} AND NOT AU-ID({})".format(
au['auth_id'], self.year + 1, au['auth_id'])
n = base_query("docs", q, size_only=True)
authors_cits_search.at[i, 'n_cits'] = n
print_progress(i + 1, len(authors_cits_search), verbose)
cache_insert(authors_cits_search, table="author_cits_size")
auth_cits_incache, _ = author_cits_in_cache(
authors[["auth_id", "year"]])
# keep if citations are in range
mask = ((auth_cits_incache.n_cits <= max(_ncits)) &
(auth_cits_incache.n_cits >= min(_ncits)))
if self.period:
mask = ((auth_cits_incache.n_cits >= min(_ncits)) &
(auth_cits_incache.n_cits <= max(_ncits_full)))
group = (auth_cits_incache[mask]['auth_id'].tolist())
# Fourth round of filtering: Download publications, verify coauthors
# (in the FULL period) and first year.
n = len(group)
text = "Left with {} authors\nFiltering based on coauthors "\
"number...".format(n)
custom_print(text, verbose)
authors = pd.DataFrame({
"auth_id": group,
"year": self.year
},
dtype="uint64")
_, author_year_search = author_year_in_cache(authors)
matches = []
if stacked: # Combine searches
if not author_year_search.empty:
q = Template(
"AU-ID($fill) AND PUBYEAR BEF {}".format(self.year + 1))
auth_year_group = author_year_search.auth_id.tolist()
params = {
"group": auth_year_group,
"res": [],
"template": q,
"refresh": refresh,
"joiner": ") OR AU-ID(",
"q_type": "docs"
}
if verbose:
params.update({"total": len(auth_year_group)})
res, _ = stacked_query(**params)
res = build_dict(res, auth_year_group)
if res:
# res can become empty after build_dict if a au_id is old
res = pd.DataFrame.from_dict(res, orient="index")
res["year"] = self.year
res = res[["year", "first_year", "n_pubs", "n_coauth"]]
res.index.name = "auth_id"
res = res.reset_index()
cache_insert(res, table="author_year")
author_year_cache, _ = author_year_in_cache(authors)
if self._ignore_first_id:
# only number of coauthors should be big enough
enough = (author_year_cache.n_coauth >= min(_ncoauth))
notoomany = (author_year_cache.n_coauth <= max(_ncoauth_full))
mask = enough & notoomany
elif self.period:
# number of coauthors should be "big enough" and first year in
# window
same_start = (author_year_cache.first_year.between(
min(_years), max(_years)))
enough = (author_year_cache.n_coauth >= min(_ncoauth))
notoomany = (author_year_cache.n_coauth <= max(_ncoauth_full))
mask = same_start & enough & notoomany
else:
# all restrictions apply
same_start = (author_year_cache.first_year.between(
min(_years), max(_years)))
same_coauths = (author_year_cache.n_coauth.between(
min(_ncoauth), max(_ncoauth)))
mask = same_start & same_coauths
matches = author_year_cache[mask]["auth_id"].tolist()
else: # Query each author individually
for i, au in enumerate(group):
print_progress(i + 1, len(group), verbose)
res = base_query("docs",
"AU-ID({})".format(au),
refresh=refresh)
res = [
p for p in res
if p.coverDate and int(p.coverDate[:4]) <= self.year
]
# Filter
min_year = int(min([p.coverDate[:4] for p in res]))
authids = [p.author_ids for p in res if p.author_ids]
authors = set([a for p in authids for a in p.split(";")])
n_coauth = len(authors) - 1 # Subtract 1 for focal author
if self._ignore_first_id and (n_coauth < max(_ncoauth)):
# only number of coauthors should be big enough
continue
elif (self.period and ((n_coauth < max(_ncoauth)) or
(min_year not in _years))):
# number of coauthors should be "big enough" and first year
# in window
continue
elif ((len(res) not in _npapers) or (min_year not in _years)
or (n_coauth not in _ncoauth)):
continue
matches.append(au)
if self.period:
text = "Left with {} authors\nFiltering based on exact period "\
"citations and coauthors...".format(len(matches))
custom_print(text, verbose)
# Further screen matches based on period cits and coauths
to_loop = [m for m in matches] # temporary copy
for m in to_loop:
q = "AU-ID({})".format(m)
res = base_query("docs",
"AU-ID({})".format(m),
refresh=refresh,
fields=["eid", "author_ids", "coverDate"])
pubs = [
p for p in res if int(p.coverDate[:4]) <= self.year
and int(p.coverDate[:4]) >= self.year_period
]
coauths = set(get_authors(pubs)) - {str(m)}
if not (min(_ncoauth) <= len(coauths) <= max(_ncoauth)):
matches.remove(m)
continue
eids_period = [p.eid for p in pubs]
cits = count_citations(search_ids=eids_period,
pubyear=self.year + 1,
exclusion_key="AU-ID",
exclusion_ids=[str(m)])
if not (min(_ncits) <= cits <= max(_ncits)):
matches.remove(m)
text = "Found {:,} author(s) matching all criteria".format(
len(matches))
custom_print(text, verbose)
# Possibly add information to matches
if keywords and len(matches) > 0:
custom_print("Providing additional information...", verbose)
profiles = [
Scientist([str(a)],
self.year,
period=self.period,
refresh=refresh) for a in matches
]
matches = inform_matches(profiles, self, keywords, stop_words,
verbose, refresh, **tfidf_kwds)
if self.search_affiliations:
matches = [
m for m in matches if len(
set(m.affiliation_id.replace(" ", "").split(";")).
intersection([str(a) for a in self.search_affiliations]))
]
return matches
