use serde::Serialize;
use crate::data::Data;
use crate::error::{Error, Result};
pub fn read(json: &str) -> Result<Data> {
serde_json::from_str(json).map_err(|e| Error::Parse(e.to_string()))
}
pub fn write(data: &Data) -> Result<Vec<u8>> {
let mut sanitized = data.clone();
for contributor in &mut sanitized.contributors {
if contributor.type_ == "Person" {
contributor.name.clear();
}
}
serde_json::to_vec(&sanitized).map_err(|e| Error::Serialize(e.to_string()))
}
#[derive(Debug, Default, Clone, Serialize, parquet_derive::ParquetRecordWriter)]
pub struct CommonmetaRow {
pub id: String,
pub record_type: String,
pub title: String,
pub url: String,
pub doi: String,
pub publisher: String,
pub language: String,
pub version: String,
pub license: String,
pub container_title: String,
pub container_type: String,
pub volume: String,
pub issue: String,
pub first_page: String,
pub last_page: String,
pub date_published: String,
pub date_created: String,
pub date_updated: String,
pub contributor_count: i32,
pub first_author_name: String,
pub first_author_orcid: String,
pub subjects: String,
pub description: String,
pub provider: String,
pub additional_type: String,
}
fn contributor_name(contributor: &crate::data::Contributor) -> String {
if !contributor.name.is_empty() {
return contributor.name.clone();
}
format!("{} {}", contributor.given_name, contributor.family_name)
.trim()
.to_string()
}
fn flatten_row(data: &Data) -> CommonmetaRow {
let title = data.titles.first().map(|t| t.title.clone()).unwrap_or_default();
let doi = data
.identifiers
.iter()
.find(|i| i.identifier_type == "DOI")
.map(|i| i.identifier.clone())
.unwrap_or_else(|| {
if data.id.contains("doi.org") { data.id.clone() } else { String::new() }
});
let (first_author_name, first_author_orcid) = data
.contributors
.first()
.map(|c| (contributor_name(c), c.id.clone()))
.unwrap_or_default();
let subjects = data
.subjects
.iter()
.map(|s| s.subject.as_str())
.collect::<Vec<_>>()
.join("; ");
let description = data.descriptions.first().map(|d| d.description.clone()).unwrap_or_default();
CommonmetaRow {
id: data.id.clone(),
record_type: data.type_.clone(),
title,
url: data.url.clone(),
doi,
publisher: data.publisher.name.clone(),
language: data.language.clone(),
version: data.version.clone(),
license: data.license.id.clone(),
container_title: data.container.title.clone(),
container_type: data.container.type_.clone(),
volume: data.container.volume.clone(),
issue: data.container.issue.clone(),
first_page: data.container.first_page.clone(),
last_page: data.container.last_page.clone(),
date_published: data.date.published.clone(),
date_created: data.date.created.clone(),
date_updated: data.date.updated.clone(),
contributor_count: data.contributors.len() as i32,
first_author_name,
first_author_orcid,
subjects,
description,
provider: data.provider.clone(),
additional_type: data.additional_type.clone(),
}
}
pub fn write_parquet_all(list: &[Data]) -> Result<Vec<u8>> {
use parquet::file::properties::WriterProperties;
use parquet::file::writer::SerializedFileWriter;
use parquet::record::RecordWriter;
let rows: Vec<CommonmetaRow> = list.iter().map(flatten_row).collect();
let schema = rows.as_slice().schema().map_err(|e| Error::Serialize(e.to_string()))?;
let props = std::sync::Arc::new(WriterProperties::builder().build());
let buffer: Vec<u8> = Vec::new();
let mut writer = SerializedFileWriter::new(buffer, schema, props)
.map_err(|e| Error::Serialize(e.to_string()))?;
let mut row_group = writer.next_row_group().map_err(|e| Error::Serialize(e.to_string()))?;
rows.as_slice()
.write_to_row_group(&mut row_group)
.map_err(|e| Error::Serialize(e.to_string()))?;
row_group.close().map_err(|e| Error::Serialize(e.to_string()))?;
writer.into_inner().map_err(|e| Error::Serialize(e.to_string()))
}
#[cfg(test)]
mod tests {
use super::*;
use crate::data::{Contributor, Identifier, Title};
fn sample_data() -> Data {
Data {
id: "https://doi.org/10.1234/abc".to_string(),
type_: "JournalArticle".to_string(),
titles: vec![Title { title: "A Sample Title".to_string(), ..Default::default() }],
identifiers: vec![Identifier {
identifier: "10.1234/abc".to_string(),
identifier_type: "DOI".to_string(),
}],
contributors: vec![Contributor {
given_name: "Jane".to_string(),
family_name: "Doe".to_string(),
id: "https://orcid.org/0000-0002-1825-0097".to_string(),
..Default::default()
}],
..Data::default()
}
}
#[test]
fn test_flatten_row_basic() {
let row = flatten_row(&sample_data());
assert_eq!(row.id, "https://doi.org/10.1234/abc");
assert_eq!(row.record_type, "JournalArticle");
assert_eq!(row.title, "A Sample Title");
assert_eq!(row.doi, "10.1234/abc");
assert_eq!(row.first_author_name, "Jane Doe");
assert_eq!(row.first_author_orcid, "https://orcid.org/0000-0002-1825-0097");
assert_eq!(row.contributor_count, 1);
}
#[test]
fn test_flatten_row_doi_fallback_from_id() {
let mut data = sample_data();
data.identifiers.clear();
let row = flatten_row(&data);
assert_eq!(row.doi, "https://doi.org/10.1234/abc");
}
#[test]
fn test_write_parquet_all_roundtrip() {
let list = vec![sample_data()];
let bytes = write_parquet_all(&list).unwrap();
assert!(!bytes.is_empty());
assert_eq!(&bytes[0..4], b"PAR1");
assert_eq!(&bytes[bytes.len() - 4..], b"PAR1");
}
#[test]
fn test_write_parquet_all_empty() {
let list: Vec<Data> = vec![];
let bytes = write_parquet_all(&list).unwrap();
assert_eq!(&bytes[0..4], b"PAR1");
}
#[test]
fn test_write_parquet_all_readable_schema_and_rows() {
use parquet::file::reader::{FileReader, SerializedFileReader};
let list = vec![sample_data(), sample_data()];
let bytes = write_parquet_all(&list).unwrap();
let reader = SerializedFileReader::new(::bytes::Bytes::from(bytes)).unwrap();
let metadata = reader.metadata();
assert_eq!(metadata.file_metadata().num_rows(), 2);
let schema = metadata.file_metadata().schema_descr();
let column_names: Vec<String> = (0..schema.num_columns())
.map(|i| schema.column(i).name().to_string())
.collect();
assert!(column_names.iter().any(|c| c == "id"));
assert!(column_names.iter().any(|c| c == "record_type"));
assert!(column_names.iter().any(|c| c == "title"));
assert!(column_names.iter().any(|c| c == "doi"));
assert!(column_names.iter().any(|c| c == "first_author_name"));
}
}