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fix(code): Load data script from anywhere

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Allow loading the script both through quarto using full absolute path and through
the command line using (I believe) a relative path.
This commit is contained in:
Marty Oehme 2023-12-14 18:08:13 +01:00
parent 38099c3358
commit 7241b62efe
Signed by: Marty
GPG key ID: EDBF2ED917B2EF6A
1 changed files with 5 additions and 2 deletions
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7
src/data.py
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@ -1,7 +1,10 @@
import io import io
from pathlib import Path from pathlib import Path
import sys import sys
from src import load_yaml try:
import src.load_yaml as yaml # for quarto document scripts
except ModuleNotFoundError:
import load_yaml as yaml # for directly running the package
from pandas import DataFrame, read_csv from pandas import DataFrame, read_csv
DEFAULT_YAML_PATH = Path("02-data/processed/relevant") DEFAULT_YAML_PATH = Path("02-data/processed/relevant")
@ -26,7 +29,7 @@ def to_tsv(studies: list[dict]) -> str:
def from_yml(yml_path: Path | str = DEFAULT_YAML_PATH) -> DataFrame: def from_yml(yml_path: Path | str = DEFAULT_YAML_PATH) -> DataFrame:
yml_path = Path(yml_path).resolve() yml_path = Path(yml_path).resolve()
studies = load_yaml.load(yml_path) studies = yaml.load(yml_path)
if not studies: if not studies:
raise ValueError(f"No studies found in directory {yml_path.resolve()}") raise ValueError(f"No studies found in directory {yml_path.resolve()}")
tsv = to_tsv(studies) tsv = to_tsv(studies)