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Commit 8bec794b authored by Maxence Larrieu's avatar Maxence Larrieu
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improve datacite.py

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0-collect-data/datacite-dois.txt
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0-collect-data/datacite.py
+ 56
− 33
View file @ 8bec794b
# récupérer les DOIs de l'UGA depuis Datacite # récupérer les DOIs de l'UGA depuis Datacite
## 2023-12-01, Elias Chetouane ## 2023-12-01, Elias Chetouane, Maxence Larrieu
""" """
## todo
- v2 : périmètre UGA : ajouter les ROR des unités, des établissements/laboratoires associés (eg Grenoble INP, sciencepo grenoble)
## Documentation ## Documentation
* Doc générale API Datacite : https://support.datacite.org/docs/api * Doc générale API : https://support.datacite.org/docs/api
* Recherche d'un DOI : https://support.datacite.org/docs/api-sampling * Recherche d'un DOI : https://support.datacite.org/docs/api-sampling
* Pagination : https://support.datacite.org/docs/pagination * Pagination : https://support.datacite.org/docs/pagination
> "DataCite added support for affiliation identifiers in Metadata Schema 4.3, released August 2019"
https://support.datacite.org/docs/can-i-see-more-detailed-affiliation-information-in-the-rest-api
## memo sur les requêtes * pour descendre au niveau des auteurs
client_id=inist.OSUG datasets de l'OSUG https://doi.osug.fr/ le filtre `?person-id=orcid-nb`
client_id=JBRU.AAU le laboratoire AAU (architecture)
client_id=inist.persyval données issues du Labex Persyval-lab (PIA)
""" """
import requests query_mode = [
'creators.affiliation.affiliationIdentifier:"https://ror.org/02rx3b187"',
urls = [ 'contributors.affiliation.affiliationIdentifier:"https://ror.org/02rx3b187"',
'https://api.datacite.org/dois?affiliation=true&query=creators.affiliation.affiliationIdentifier:"https://ror.org/02rx3b187"&page[size]=100', "publisher:(grenoble AND alpes)", # /!\ apporte du text
'https://api.datacite.org/dois?affiliation=true&query=contributors.affiliation.affiliationIdentifier:"https://ror.org/02rx3b187"&page[size]=100', "client_id:inist.osug", # OSUG https://doi.osug.fr/
"https://api.datacite.org/dois?client_id=inist.OSUG&page[size]=100", "client_id:jbru.aau", # le laboratoire AAU (architecture) /!\ apporte du text
"https://api.datacite.org/dois?client_id=JBRU.AAU&page[size]=100", "client_id:inist.persyval" # Labex Persyval-lab (PIA)
"https://api.datacite.org/dois?client_id=inist.persyval&page[size]=100"
# possibilité d'ajouter d'autres requêtes # possibilité d'ajouter d'autres requêtes
] ]
# on définit une fonction pour la lancer la requete avec chaque url pour les différentes affiliations et clients def get_results(query_from_list):
def get_results(url): """
req = requests.get(url) lance les requêtes dans l'API
"""
query_root = "https://api.datacite.org/dois?query="
# les type de datasets à exclure (à voir si on retire text)
# nb : en 2023-12-15 ça retire seulement 15 DOIs
query_filter_type = " AND resource_type_id:(-book -bookChapter -conferencePaper -conferenceProceeding -dissertation -event -journal -journalArticle -peerReview -preprint -report -service)"
query_page = "&page[size]=100"
req = requests.get(query_root + query_from_list + query_filter_type + query_page)
results = [req.json()] results = [req.json()]
# print total dataset per query
print(f"\n\t{req.url}\n\t{results[0]['meta']['total']}")
# obtenir les résultats de chaque page dans la liste results # obtenir les résultats de chaque page dans la liste results
nb_pages = results[0]["meta"]["totalPages"] nb_pages = results[0]["meta"]["totalPages"]
page = 1 page = 1
...@@ -42,8 +53,12 @@ def get_results(url): ...@@ -42,8 +53,12 @@ def get_results(url):
page += 1 page += 1
return results return results
# on crée une fonction pour ajouter les DOIs dans une liste, sans ajouter les résultats qui ne sont pas des DOIs
def get_dois(results): def get_dois(results):
"""
Ajouter les datasets avec DOI dans une liste et identifier ceux sans DOI
"""
dois = [] dois = []
not_dois = [] not_dois = []
...@@ -52,31 +67,39 @@ def get_dois(results): ...@@ -52,31 +67,39 @@ def get_dois(results):
num_dois = res["data"] num_dois = res["data"]
for item in num_dois : for item in num_dois :
doi = item["id"] item_id = item["id"]
# si le dataset a autre chose qu'un DOI
if item.get("type") != "dois": if item.get("type") != "dois":
print("Le résultat " + str(item) + " est de type " + item.get("type") + " : " + doi) not_dois.append(item_id)
not_dois.append(doi)
else: else:
dois.append(doi) dois.append(item_id)
return dois, not_dois return dois, not_dois
# récupérer les dois
dois = []
not_dois = []
for url in urls: # _____0____ récupérer les dois
doi, not_doi = get_dois(get_results(url)) import requests
dois, not_dois = [], []
for query in query_mode:
doi, not_doi = get_dois(get_results(query))
dois += doi dois += doi
not_dois += not_doi not_dois += not_doi
# supprimer les doublons if not_doi :
unique_dois = list(set(dois)) print("Des données avec un autre identifiant que le DOI ont été trouvées")
[print(f"\t\t{item_id}") for item_id in not_doi]
print(f"Nombre de dois différents trouvés\t{len(unique_dois)}")
# _____n____ remove duplicates in DOI list
unique_dois = list(set(dois))
print(f"Nb unique DOI\t{len(unique_dois)}")
# exporter la liste de DOI au format txt # _____z____ exporter liste DOI format txt
with open("datacite-dois.txt", 'w') as f : with open("datacite-dois.txt", 'w') as f :
[f.write(f"{line}\n") for line in unique_dois] [f.write(f"{line}\n") for line in unique_dois]
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2-produce-graph/hist-quantity-by-year.py
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...@@ -31,7 +31,7 @@ ax.spines['top'].set_visible(False) ...@@ -31,7 +31,7 @@ ax.spines['top'].set_visible(False)
ax.spines['right'].set_visible(False) ax.spines['right'].set_visible(False)
ax.set_ylabel("number of datasets", labelpad = 10) ax.set_ylabel("number of datasets", labelpad = 10)
plt.title(f"Number of datasets by year", fontsize = 22, x = 0.5, y = 1.03, alpha = 0.6) plt.title(f"Number of datasets with a DataCite DOI by year", fontsize = 18, x = 0.5, y = 1.05, alpha = 0.6)
plt.suptitle(f"n = {len(df)}", fontsize = 12, x = 0.5, y = 0.9, alpha = 0.6) plt.suptitle(f"n = {len(df)}", fontsize = 12, x = 0.5, y = 0.9, alpha = 0.6)
plt.savefig("hist--datasets-by-year.png") plt.savefig("hist--datasets-by-year.png")
......
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README.md
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...@@ -18,7 +18,7 @@ _in process_ ...@@ -18,7 +18,7 @@ _in process_
| |Dataset numbers| UGA perimeter | | |Dataset numbers| UGA perimeter |
|-----------|---------------|---------------| |-----------|---------------|---------------|
|RDG |51 |contact, auteurs, producteur et contributeurs avec "UGA" OR "Grenoble" | |RDG |51 |contact, auteurs, producteur et contributeurs avec "UGA" OR "Grenoble" |
|DataCite |294| creator et contributor avec ROR + clients | |DataCite |730| creator et contributor avec ROR + clients |
|Zenodo |1027|creator et contributor avec "grenoble" | |Zenodo |1027|creator et contributor avec "grenoble" |
|Nakala |26 |UGA user identifiers | |Nakala |26 |UGA user identifiers |
|BSO via HAL|32 |NA | |BSO via HAL|32 |NA |
......
dois-uga.csv
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