91 lines
2.9 KiB
Rust
91 lines
2.9 KiB
Rust
use crate::transfer::Transfer;
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use crate::util::*;
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use super::{alternative_formats::EchoClientTransferRecord, mangle_headers::mangle_headers, transfer_record::TransferRecordDeserializeIntermediate, TransferRecord};
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use lazy_static::lazy_static;
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use regex::Regex;
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use std::error::Error;
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pub fn transfer_to_records(
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tr: &Transfer,
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src_barcode: &str,
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dest_barcode: &str,
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) -> Vec<TransferRecord> {
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let source_wells = tr.transfer_region.get_source_wells();
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let map = tr.transfer_region.calculate_map();
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let mut records: Vec<TransferRecord> = vec![];
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for s_well in source_wells {
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let dest_wells = map(s_well);
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if let Some(dest_wells) = dest_wells {
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for d_well in dest_wells {
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records.push(TransferRecord {
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source_plate: src_barcode.to_string(),
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source_well: format!("{}{}", num_to_letters(s_well.0).unwrap(), s_well.1),
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destination_plate: dest_barcode.to_string(),
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destination_well: format!("{}{}", num_to_letters(d_well.0).unwrap(), d_well.1),
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volume: tr.volume,
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concentration: None,
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})
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}
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}
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}
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records
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}
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pub fn records_to_csv(trs: Vec<TransferRecord>) -> Result<String, Box<dyn Error>> {
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let mut wtr = csv::WriterBuilder::new().from_writer(vec![]);
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for record in trs {
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wtr.serialize(record)?
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}
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let data = String::from_utf8(wtr.into_inner()?)?;
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Ok(data)
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}
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pub fn records_to_echo_client_csv(trs: Vec<TransferRecord>) -> Result<String, Box<dyn Error>> {
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let mut wtr = csv::WriterBuilder::new().from_writer(vec![]);
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for record in trs {
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wtr.serialize(Into::<EchoClientTransferRecord>::into(record))?
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}
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let data = String::from_utf8(wtr.into_inner()?)?;
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Ok(data)
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}
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/// Converts "spreadsheet format" well identification to coordinates
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pub fn string_well_to_pt(input: &str) -> Option<(u8, u8)> {
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lazy_static! {
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static ref REGEX: Regex = Regex::new(r"([A-Z,a-z]+)(\d+)").unwrap();
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// Can this be removed?
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static ref REGEX_ALT: Regex = Regex::new(r"(\d+)").unwrap();
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}
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if let Some(c1) = REGEX.captures(input) {
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if let (Some(row), Some(col)) = (letters_to_num(&c1[1]), c1[2].parse::<u8>().ok()) {
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return Some((row, col))
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} else {
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return None
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}
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}
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None
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}
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pub fn read_csv(data: &str) -> Vec<TransferRecord> {
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let modified = mangle_headers(data);
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let mut rdr = csv::Reader::from_reader(modified.as_bytes());
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let mut records: Vec<TransferRecord> = Vec::new();
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for record in rdr.deserialize::<TransferRecordDeserializeIntermediate>() {
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match record {
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Ok(r) => {
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if !r.is_empty() {
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records.push(r.into());
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}
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}
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Err(e) => {
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log::debug!("{:?}", e);
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}
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}
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}
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records
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}
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