update_inventory.yml

# Environments
project_env: './env'

# Directories

## Querying
query_out_dir: 'out/new_query'
last_date_dir: 'out/last_query_date'

## Classification
classif_train_outdir: 'out/classif_train_out'
classif_out_dir: 'out/new_query/classification'

## NER
ner_train_outdir: 'out/ner_train_out'
ner_out_dir: 'out/new_query/ner'

## URL Extraction
extract_url_dir: 'out/new_query/url_extraction'

## Name processing
processed_names_dir: 'out/new_query/processed_names'

## Initial deduplication
initial_dedupe_dir: 'out/new_query/initial_deduplication'

## For manual review
for_manual_review_dir: 'out/new_query/for_manual_review'

## Manually reviewed
manually_reviewed_dir: 'out/new_query/manually_reviewed'

## Processed manual review
processed_manual_review: 'out/new_query/processed_manual_review'

## URL Checking
check_url_dir: 'out/new_query/url_checking'

## Additional metadata from EuropePMC
epmc_meta_dir: 'out/new_query/epmc_meta'

## Processed country codes
processed_countries: 'out/new_query/processed_countries'

# Parameters

## Europe PMC query
query_from_date: 2022
query_to_date: 2022
query_string: 'config/query.txt'

# Previous inventory to be merged
previous_inventory: 'data/final_inventory_2022.csv'

## Filtering and marking for manual review
max_urls: 2
min_best_name_prob: 0.978

## URL checking
chunk_size: 200
num_tries: 3
backoff: 0.5

## Getting metadata from EuropePMC
epmc_chunk_size: 20

## Processng country names
country_format: 'full'