Extaction of pmid - doi relationship for a given journal using EuropePMC
Activate virtual environment:
python3 -m venv .venv
source .venv/bin/activate
Install dependencies:
pip install -r requirements.txt
Test app:
python -m test.tester
Install app:
python -m setup install
Run the analysis for the journal with title "My Journal" and save the results as tab-delimted text into destination.txt
:
listids "My Journal" destination.txt
Example:
$ listids "Molecular Systems Biology" msb.txt
total: 1086 | page: 1 from 2
total: 1086 | page: 2 from 2
Extracted ids from 1086 articles:
- 0 with no doi
- 19 with no pmid
- 0 with no doi and no pmid
- 1067 with both pmid and doi
Results saved to msb.txt.