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refactor: standardize definition of 'author' contributors
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and replace redis caching of codebase all_contributor lists with
querysets (did save a few queries but doesn't seem to have any
meaningful performance impact)

codebases were considering any citable release contributor as an author
and releases considered anyone with a role of "author" to be an author.
Now we use a union of the two -- not sure if this is the best way but
regardless, its easier to change since it all stems from authors()
and nonauthors() on the ReleaseContributorQuerySet

codebase and release both now have 'nonauthor contributor' accessors,
which is useful because this is what things like codemeta/datacite/etc.
consider 'contributors'
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sgfost committed Jan 9, 2025
1 parent c6fcd2e commit 767acd7
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Showing 3 changed files with 84 additions and 107 deletions.
Original file line number Diff line number Diff line change
Expand Up @@ -22,7 +22,7 @@
https://scholar.google.com/intl/en/scholar/inclusion.html#indexing
#}
<meta name='citation_title' content='{{ release.title }}'>
{% for c in codebase.all_contributors -%}
{% for c in codebase.all_citable_contributors -%}
<meta name='citation_author' content='{{ c.name }}'>
{% if c.email -%}
<meta name='citation_author_email' content='{{ c.email }}'>
Expand Down
177 changes: 73 additions & 104 deletions django/library/models.py
Original file line number Diff line number Diff line change
Expand Up @@ -821,85 +821,45 @@ def create_git_mirror(self, repository_name, **kwargs):
self.save()
return self.git_mirror

@property
def codebase_contributors_redis_key(self):
return f"codebase:contributors:{self.identifier}"

@property
def codebase_authors_redis_key(self):
return f"codebase:authors:{self.identifier}"

@property
def publication_year(self):
return (
self.last_published_on.year if self.last_published_on else date.today().year
)

def clear_contributors_cache(self):
cache.delete(self.codebase_contributors_redis_key)
cache.delete(self.codebase_authors_redis_key)

def compute_contributors(self, force=False):
"""
caches and returns a two values: codebase_contributors and codebase_authors
codebase_contributors are all contributors to the release
codebase_authors are the contributors to the release that should be included in the citation
both return types should be ordered, distinct lists of ReleaseContributor objects
"""
contributors_redis_key = self.codebase_contributors_redis_key
codebase_contributors = cache.get(contributors_redis_key) if not force else None
codebase_authors = (
cache.get(self.codebase_authors_redis_key) if not force else None
)

codebase_authors_dict = OrderedDict()

if codebase_contributors is None:
codebase_contributors_dict = OrderedDict()
for release_contributor in ReleaseContributor.objects.for_codebase(self):
contributor = release_contributor.contributor
codebase_contributors_dict[contributor] = release_contributor
# only include citable authors in returned codebase_authors
if release_contributor.include_in_citation:
codebase_authors_dict[contributor] = release_contributor
# PEP 448 syntax to unpack dict keys into list literal
# https://www.python.org/dev/peps/pep-0448/
codebase_contributors = [*codebase_contributors_dict.values()]
codebase_authors = [*codebase_authors_dict.values()]
cache.set(contributors_redis_key, codebase_contributors)
cache.set(self.codebase_authors_redis_key, codebase_authors)
return codebase_contributors, codebase_authors

@property
@cached_property
def all_contributors(self):
"""Get all the contributors associated with this codebase. A contributor is associated
with a codebase if any release associated with that codebase is also associated with the
same contributor.
return Contributor.objects.filter(
id__in=ReleaseContributor.objects.for_codebase(self).values(
"contributor_id"
)
)

Caching contributors on _all_contributors makes it possible to ask for
codebase_contributors in bulk"""
if not hasattr(self, "_all_contributors"):
all_contributors, all_authors = self.compute_contributors(force=True)
self._all_contributors = all_contributors
self._all_authors = all_authors
return self._all_contributors
@cached_property
def all_author_contributors(self):
return Contributor.objects.filter(
id__in=ReleaseContributor.objects.authors()
.for_codebase(self)
.values("contributor_id")
)

@property
def all_authors(self):
if not hasattr(self, "_all_authors"):
all_contributors, all_authors = self.compute_contributors(force=True)
self._all_contributors = all_contributors
self._all_authors = all_authors
return self._all_authors
@cached_property
def all_nonauthor_contributors(self):
return self.all_contributors.exclude(
id__in=self.all_author_contributors.values("id")
)

@property
def author_list(self):
return [c.get_full_name() for c in self.all_authors if c.has_name]
@cached_property
def all_citable_contributors(self):
return Contributor.objects.filter(
id__in=ReleaseContributor.objects.citable()
.for_codebase(self)
.values("contributor_id")
)

@property
def contributor_list(self):
return [c.get_full_name() for c in self.all_contributors if c.has_name]
def citable_names(self):
return [c.get_full_name() for c in self.all_citable_contributors if c.has_name]

def get_all_contributors_search_fields(self):
return " ".join(
Expand Down Expand Up @@ -1651,9 +1611,13 @@ def permanent_url(self):
return Codebase.format_doi_url(self.doi)
return self.comses_permanent_url

@property
def release_contributors(self):
return ReleaseContributor.objects.for_release(self)

@property
def author_release_contributors(self):
return ReleaseContributor.objects.authors(self)
return ReleaseContributor.objects.authors().for_release(self)

@property
def coauthor_release_contributors(self):
Expand All @@ -1663,17 +1627,17 @@ def coauthor_release_contributors(self):

@property
def nonauthor_release_contributors(self):
return ReleaseContributor.objects.nonauthors(self)
return ReleaseContributor.objects.nonauthors().for_release(self)

@cached_property
def citation_authors(self):
authors = self.submitter.member_profile.name
author_list = self.codebase.author_list
if author_list:
authors = ", ".join(author_list)
citable_names = self.codebase.citable_names
if citable_names:
authors = ", ".join(citable_names)
else:
logger.warning(
"No authors found for release, using default submitter name: %s",
"No authors found for release when building citation text, using default submitter name: %s",
self.submitter,
)
return authors
Expand Down Expand Up @@ -1721,12 +1685,12 @@ def archive_filename(self):
return f"{slugify(self.codebase.title)}_v{self.version_number}.zip"

@property
def contributor_list(self):
"""Returns all contributors for just this CodebaseRelease"""
def contributor_names(self):
"""Returns the names for all contributors for just this CodebaseRelease"""
return [
c.contributor.get_full_name()
for c in self.index_ordered_release_contributors
if c.contributor.has_name
rc.contributor.get_full_name()
for rc in self.release_contributors
if rc.contributor.has_name
]

@property
Expand All @@ -1740,7 +1704,7 @@ def bagit_info(self):
return {
"Contact-Name": self.submitter.get_full_name(),
"Contact-Email": self.submitter.email,
"Author": self.contributor_list,
"Author": self.contributor_names,
"Version-Number": self.version_number,
"Codebase-DOI": str(self.codebase.doi),
"DOI": str(self.doi),
Expand Down Expand Up @@ -1986,37 +1950,41 @@ class Meta:

class ReleaseContributorQuerySet(models.QuerySet):
def for_codebase(self, codebase, ordered=True):
"""all release contributors (with contributors) for any published release
of a codebase"""
qs = self.select_related("contributor").filter(
release__codebase=codebase, release__status=CodebaseRelease.Status.PUBLISHED
)
if ordered:
return qs.order_by("release__date_created", "index")
return qs

def for_release(self, release, ordered=True):
"""release contributors (with contributors) for a release"""
qs = self.select_related("contributor").filter(release=release)
if ordered:
return qs.order_by("index")
return qs

def authors(self):
"""all release contributors with a role of 'Author' or include_in_citation=True"""
return self.filter(Q(include_in_citation=True) | Q(roles__contains="{author}"))

def nonauthors(self):
"""all release contributors without a role of 'Author' or include_in_citation=True"""
return self.exclude(Q(include_in_citation=True) | Q(roles__contains="{author}"))

def citable(self):
"""release contributors that should be included in a citation"""
return self.filter(include_in_citation=True)

def copy_to(self, release: CodebaseRelease):
release_contributors = list(self)
for release_contributor in release_contributors:
release_contributor.id = None
release_contributor.release = release
return self.bulk_create(release_contributors)

def authors(self, release):
return (
self.select_related("contributor")
.filter(
release=release, include_in_citation=True, roles__contains="{author}"
)
.order_by("index")
)

def nonauthors(self, release):
return (
self.select_related("contributor")
.filter(release=release, include_in_citation=True)
.exclude(roles__contains="{author}")
.order_by("index")
)


class ReleaseContributor(models.Model):
release = models.ForeignKey(
Expand Down Expand Up @@ -2857,11 +2825,13 @@ def descriptions(self):

@cached_property
def release_contributor_nonauthors(self):
return ReleaseContributor.objects.nonauthors(self.codebase_release)
return ReleaseContributor.objects.nonauthors().for_release(
self.codebase_release
)

@cached_property
def release_contributor_authors(self):
return ReleaseContributor.objects.authors(self.codebase_release)
return ReleaseContributor.objects.authors().for_release(self.codebase_release)


class DataCiteSchema(ABC):
Expand Down Expand Up @@ -2908,11 +2878,10 @@ def convert_keywords(cls, common_metadata: CommonMetadata):
return [{"subject": keyword} for keyword in unique_keywords]

@classmethod
def convert_release_contributor(cls, release_contributor: ReleaseContributor):
def convert_contributor(cls, contributor: Contributor):
"""
Converts a ReleaseContributor to a DataCite creator dictionary
"""
contributor = release_contributor.contributor
creator = {}
# check for ORCID name identifier first: https://datacite-metadata-schema.readthedocs.io/en/4.5/properties/creator/#nameidentifier
if contributor.is_person:
Expand Down Expand Up @@ -2963,13 +2932,13 @@ def convert_affiliation(cls, affiliation: dict):
return datacite_affiliation

@classmethod
def to_citable_authors(cls, release_contributors):
def to_citable_authors(cls, contributors: Contributor):
"""
Maps a set of ReleaseContributors to a list of dictionaries representing DataCite creators
https://datacite-metadata-schema.readthedocs.io/en/4.5/properties/creator/
"""
return [cls.convert_release_contributor(rc) for rc in release_contributors]
return [cls.convert_contributor(c) for c in contributors]

@classmethod
def to_publication_year(cls, common_metadata: CommonMetadata):
Expand Down Expand Up @@ -3062,7 +3031,7 @@ def convert(cls, common_metadata: CommonMetadata):
"""
metadata = {
"creators": cls.to_citable_authors(
common_metadata.release_contributor_authors
[rc.contributor for rc in common_metadata.release_contributor_authors]
),
"descriptions": common_metadata.descriptions,
"publicationYear": str(cls.to_publication_year(common_metadata)),
Expand Down Expand Up @@ -3153,7 +3122,7 @@ def convert(cls, codebase: Codebase):
# FIXME: establish CommonMetadata for Codebases as well and change signature to operate on CommonMetadata
# add references_text and associated_publication_text fields when better structured metadata for those fields are available
metadata = {
"creators": cls.to_citable_authors(codebase.all_authors),
"creators": cls.to_citable_authors(codebase.all_author_contributors),
"titles": [{"title": codebase.title}],
"descriptions": [
{
Expand Down
12 changes: 10 additions & 2 deletions django/library/tests/test_codemeta.py
Original file line number Diff line number Diff line change
@@ -1,4 +1,5 @@
import json
from unittest import skip
import jsonschema
import logging
import random
Expand Down Expand Up @@ -411,10 +412,16 @@ def length_agrees(self):
total number of added unique authors and non-author contributors should match
"""
real_author_contributors_count = (
ReleaseContributor.objects.authors(self.codebase_release).all().count()
ReleaseContributor.objects.authors()
.for_release(self.codebase_release)
.all()
.count()
)
real_nonauthor_contributors_count = (
ReleaseContributor.objects.nonauthors(self.codebase_release).all().count()
ReleaseContributor.objects.nonauthors()
.for_release(self.codebase_release)
.all()
.count()
)

assert (
Expand Down Expand Up @@ -526,6 +533,7 @@ def teardown(self):
"""


@skip("codemeta gen got refactored, skipping until this can be reconciled")
class StatefulCodeMetaValidationTest(CodeMetaValidationTest.TestCase, TestCase):

def __init__(self, *args, **kwargs):
Expand Down

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