def update(self, thresh=1, from_resources=None, save=True):
"""Given an existing .zenodo.json file, update it with contributors
from an allcontributors file.
"""
self.thresh = thresh
self.load_data()
bot.info("Updating %s" % self.filename)
# Read in contributors, and update cache (also runs update_lookup)
self.lookup = self.data.get("contributor", [])
self.update_cache()
# Get fields from repo
self.update_metadata()
self.update_from_logins(from_resources.get("login", []))
self.update_from_orcids(from_resources.get("orcid", []))
self.update_from_names(from_resources.get("name", []))
self.update_from_emails(from_resources.get("email", []))
self.data["contributor"] = self.lookup
if save:
write_json(self.data, self.filename)
return self.data
def init(self, force=False, from_resources=None, save=True):
"""Given an allcontributors file (we default to the one expected) and
a preference to force, write the empty file to the repository.
If the file exists and force is false, exit on error. If the user
has not provided a full repository name and it's not in the environment,
also exit on error
Arguments:
- repo (str) : the full name of the repository on GitHub
- force (bool) : if the contributors file exists, overwrite
- filename (str) : default filename to write to.
"""
filename = self.params.get("--allcontrib-file", self.filename)
if os.path.exists(filename) and not force:
sys.exit("%s exists, set --force to overwrite." % filename)
bot.info(f"Generating {filename} for {self.repo.uid}")
owner, repo = self.repo.uid.split("/")[:2]
# Write metadata to empty all contributors file.
metadata = {
"projectName": repo,
"projectOwner": owner,
"repoType": "github",
"repoHost": "https://github.com",
"files": ["README.md"],
"imageSize": 100,
"commit": True,
"commitConvention": "none",
"contributors": [],
"contributorsPerLine": 7,
}
if save:
write_json(metadata, filename)
return metadata
def update(self, params=None, repo=None, contributors=None, thresh=1):
"""Given an existing contributors file, use the GitHub API to retrieve
all contributors, and then use subprocess to update the file
"""
params = params or {}
self.thresh = thresh
filename = params.get("--allcontrib-file", self.filename)
if not os.path.exists(filename):
sys.exit(
"%s does not exist, set --allcontrib-filename or run init to create"
% self.filename)
bot.info(f"Updating {filename}")
# Get optional (or default) contributor type
ctype = params.get("--allcontrib-type", "code")
if ctype not in self.contribution_types:
sys.exit(
f"Invalid contribution type {ctype}. See https://allcontributors.org/docs/en/emoji-key for types."
)
# Load the previous contributors, create a lookup
data = read_json(filename)
self.lookup = {x["login"]: x for x in data.get("contributors", [])}
self._repo = "%s/%s" % (data["projectOwner"], data["projectName"])
self.update_cache()
# Update the lookup
for login, metadata in self.cache.items():
if login in self.lookup:
entry = self.lookup[login]
else:
entry = {
"login":
login,
"name":
metadata.get("name") or login,
"avatar_url":
self.contributors.get(login, {}).get("avatar_url"),
"profile":
metadata.get("blog")
or self.contributors.get(login, {}).get("html_url"),
"contributions": [ctype],
}
if ctype not in entry["contributions"]:
entry["contributions"].append(ctype)
self.lookup[login] = entry
# Update the contributors
data["contributors"] = list(self.lookup.values())
write_json(data, filename)
return data
def update(self, thresh=1, from_resources=None, save=True):
"""Given an existing contributors file, use the GitHub API to retrieve
all contributors, and then use subprocess to update the file
"""
self.thresh = thresh
self.load_data()
from_resources = from_resources or {}
bot.info(f"Updating {self.filename}")
# Get optional (or default) contributor type
ctype = self.params.get("--allcontrib-type", "code")
if ctype not in self.contribution_types:
sys.exit(
f"Invalid contribution type {ctype}. See https://allcontributors.org/docs/en/emoji-key for types."
)
# Sanity check that we have the correct repository
repo = "%s/%s" % (self.data["projectOwner"], self.data["projectName"])
if repo != self.repo.uid:
bot.warning(
f"Found different repository {repo} in {self.filename}, updating from {self.repo.uid}"
)
self._repo = GitHubRepository(repo)
# Update the cache from GitHub, and .tributors lookup
self.update_cache()
# Parse over logins, start with existing values
self.lookup = {
x["login"]: x
for x in self.data.get("contributors", []) if "login" in x
}
self.extras = [
x for x in self.data.get("contributors", []) if "login" not in x
]
# This client only supports update from names and logins
self.update_from_logins(from_resources.get("login", []), ctype)
self.update_from_names(from_resources.get("names", []), ctype)
self.update_from_orcids(from_resources.get("orcid", []))
self.update_from_emails(from_resources.get("email", []))
# Update the contributors
self.data["contributors"] = list(self.lookup.values()) + self.extras
if save:
write_json(self.data, self.filename)
return self.data
def init(self, repo, params=None, force=False, contributors=None):
"""Generate an empty .zenodo.json if it doesn't exist
"""
params = params or {}
# A doi is required
doi = params.get("--doi")
if not doi:
sys.exit("Please provide the zenodo doi with --doi")
# Zenodo file defaults to expected .zenodo.json
zenodo_file = params.get("--zenodo-file", self.filename)
if os.path.exists(zenodo_file) and not force:
sys.exit("%s exists, set --force to overwrite." % zenodo_file)
bot.info("Generating %s" % zenodo_file)
self._repo = get_github_repository(repo)
record = get_zenodo_record(doi)
# Assume we want to add known contributors
creators = record["metadata"].get("creators", [])
self.update_cache()
for login, metadata in self.cache.items():
entry = {"name": metadata.get("name") or login}
if "orcid" in metadata:
entry["orcid"] = metadata["orcid"]
if "bio" in metadata or "affiliation" in metadata:
entry["affilitation"] = metadata.get("affiliation",
metadata.get("bio"))
creators.append(entry)
# Get keywords from GitHub topis
keywords = get_topics(self.repo)
keywords = list(set(record["metadata"]["keywords"] + keywords))
# Update final metadata
metadata = {
"creators": creators,
"upload_type": record["metadata"]["resource_type"]["type"],
"keywords": keywords,
"access_right": record["metadata"]["access_right"],
"license": record["metadata"]["license"]["id"],
}
write_json(metadata, zenodo_file)
return metadata
def init(self, force=False, from_resources=None, save=True):
"""Generate an empty .zenodo.json if it doesn't exist
"""
from_resources = from_resources or {}
doi = self.params.get("--doi")
# Zenodo file defaults to expected .zenodo.json
zenodo_file = self.params.get("--zenodo-file", self.filename)
if os.path.exists(zenodo_file) and not force:
sys.exit("%s exists, set --force to overwrite." % zenodo_file)
bot.info("Generating %s" % zenodo_file)
# If a doi is provided, generate
record = None
self.data["creators"] = []
if doi:
record = get_zenodo_record(doi)
self.data["creators"] = record["metadata"].get("creators", [])
self.update_cache(update_lookup=False)
# Update zenodo file from GitHub logins (default) or other
self.update_from_logins(from_resources.get("login", []))
self.update_from_orcids(from_resources.get("orcid", []))
self.update_from_names(from_resources.get("name", []))
self.update_from_emails(from_resources.get("email", []))
# Update final metadata
metadata = {
"creators": self.data["creators"],
"upload_type": "software",
"keywords": self.repo.topics(),
}
# If we have a zenodo record, update it
if record:
metadata["upload_type"] = record["metadata"]["resource_type"][
"type"]
metadata["keywords"] = self.repo.topics(
record["metadata"]["keywords"])
metadata["access_right"] = record["metadata"]["access_right"]
metadata["license"] = record["metadata"]["license"]["id"]
if save:
write_json(metadata, zenodo_file)
return metadata
def update(self, thresh=1, from_resources=None, save=True):
"""Given an existing .zenodo.json file, update it with contributors
from an allcontributors file.
"""
from_resources = from_resources or {}
self.thresh = thresh
self.load_data()
bot.info("Updating %s" % self.filename)
self.update_cache()
# Here we can only reasonable update from orcids (not logins)
self.update_orcids()
self.update_from_emails(from_resources.get("email", []))
self.update_from_orcids(from_resources.get("orcid", []))
self.update_from_names(from_resources.get("names", []))
if save:
write_json(self.data, self.filename)
return self.data
def update(self, repo=None, params=None, contributors=None, thresh=1):
"""Given an existing .zenodo.json file, update it with contributors
from an allcontributors file.
"""
params = params or {}
self.thresh = thresh
zenodo_file = params.get("--zenodo-file", self.filename)
# Ensure contributors file and zenodo.json exist
if not os.path.exists(zenodo_file):
sys.exit("%s does not exist" % zenodo_file)
bot.info("Updating %s" % zenodo_file)
# We don't currently have a reliable identifier for zenodo, so we recreate each time
data = read_json(zenodo_file)
self.lookup = data.get("creators", [])
creators = []
self._repo = get_github_repository(repo)
self.update_cache()
for login, metadata in self.cache.items():
entry = {"name": metadata.get("name") or login}
if login in self.cache:
for field in ["name", "affiliation", "orcid"]:
if field in self.cache[login]:
entry[field] = self.cache[login][field]
if "orcid" in metadata and "orcid" not in entry:
entry["orcid"] = metadata["orcid"]
if "affiliation" in metadata and "affiliation" not in entry:
entry["affilitation"] = metadata["affiliation"]
creators.append(entry)
data["creators"] = creators
write_json(data, zenodo_file)
return data
def save_cache(self):
"""Save the current self.cache to the cache file .tributors in the PWD
"""
if not self.skip_cache:
bot.debug("Saving cache to .tributors")
write_json(self.cache, ".tributors")