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9d54b72 | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 | import os
import re
from pathlib import Path
from typing import Optional
import requests
from pydantic import BaseModel
from vcutils.common.api_utils import download_file
from vcutils.vcell_pipeline.citation import getCitation, CitationInfo, getSuggestedProjectName
from vcutils.vcell_pipeline.datamodels import Publication
def prune_already_published_models(target_dir: Path):
response = requests.get("https://api.biosimulations.org/projects", headers={'accept': 'application/json'})
publications: list[dict] = response.json()
ids = [publication["id"] for publication in publications]
vcdb_pubs: set[str] = set([elem for elem in ids if "VCDB" in elem])
vcdb_ids = set([re.split("[\-_]+", parts)[1] for parts in vcdb_pubs])
files = {re.split("[\-_]+", file)[1] : file for file in os.listdir(target_dir)}
for potential_id in vcdb_ids:
if potential_id in files:
os.remove(os.path.join(target_dir, files[potential_id]))
print(f"Removed file: {files[potential_id]}")
if __name__ == "__main__":
prune_already_published_models("/home/ldrescher/Development/BioSim/publication_candidates/input")
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