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launch2.ts
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import * as fs from 'fs'
import {glob} from 'glob'
import {SliceConstants} from "./slice_constants";
import {SliceData} from "./slice_data";
const _ = require('underscore');
let csvToJson = require('convert-csv-to-json');
//sync to s3
(async () => {
const csvColumnFilesGlob = [];
const csvRowFilesGlob = [];
const csvPlateFilesGlob = [];
const csvCopyFilesGlob = [];
const csvRowInstFilesGlob = [];
const qcRowInstFilesGlob = [];
//TODO Make configurable
const _ = require("underscore")
const fileInfos = await SliceConstants.fetchDataByScreen("MTS024");
for(let fileInfo of fileInfos) {
//const fileInfo = _.findWhere(fileInfos, {"PARENT_DEST_PROJECT_DIR": "mts024_dmc_repare"});
const pertPlates = [];
for (let pp of fileInfo.PERT_PLATES) {
pertPlates.push(pp.replace("-1", ""))
}
fileInfo.PERT_PLATES = pertPlates;
//fileInfo.PERT_IDS.push("ctl_vehicle")
const p = new SliceData(fileInfo);
const projectConfigs = p.getProjectConfigs();
for (let f of projectConfigs.COLUMN_FILES_POST_FIX) {
csvColumnFilesGlob.push(projectConfigs.SOURCE_DATA_DIR + "/*" + f)
}
for (let f of projectConfigs.ROW_FILES_POST_FIX) {
csvRowFilesGlob.push(projectConfigs.SOURCE_DATA_DIR + "/*" + f)
}
for (let f of projectConfigs.PLATE_FILES_POST_FIX) {
csvPlateFilesGlob.push(projectConfigs.SOURCE_DATA_DIR + "/*" + f)
}
for (let f of projectConfigs.COPY_FILES_POST_FIX) {
csvCopyFilesGlob.push(projectConfigs.SOURCE_DATA_DIR + "/*" + f)
}
for (let f of projectConfigs.INST_INFO_FILES_POST_FIX) {
csvRowInstFilesGlob.push(projectConfigs.SOURCE_DATA_DIR + "/*" + f)
}
for (let f of projectConfigs.QC_PLATE_FILES_POST_FIX) {
qcRowInstFilesGlob.push(projectConfigs.SOURCE_DATA_DIR + "/*" + f)
}
//create the destination directory if it does not already exists
if (!fs.existsSync(projectConfigs.DESTINATION_DATA_DIR)) {
fs.mkdirSync(projectConfigs.DESTINATION_DATA_DIR, {recursive: true});
}
let promises = [
glob(csvRowFilesGlob),
glob(csvColumnFilesGlob),
glob(csvPlateFilesGlob),
glob(csvCopyFilesGlob),
glob(csvRowInstFilesGlob),
glob(qcRowInstFilesGlob)
];
const ps = await Promise.all(promises);
// x_project_id -- inst info, level3, level4, level5
const rowFiles = ps[0];
const columnFiles = ps[1];
const plateFiles = ps[2];
const copyFiles = ps[3];
const instInfoFiles: string[] = ps[4];
const qcFiles: string[] = ps[5];
//await SliceData.renameFileAndAddProject(projectConfigs,"mts024_dmc_repare/MTS024_DMC_REPARE/data/MTS024_DMC_REPARE_LEVEL3_LMFI_n6757x932.csv",",");
console.log("csvColumnFilesGlob", csvColumnFilesGlob);
console.log("qcFiles", qcFiles);
console.log("columnFiles", columnFiles);
console.log("plateFiles", plateFiles);
console.log("copyFiles", copyFiles);
console.log("instInfoFile", instInfoFiles);
await SliceData.processAllByRows(projectConfigs, instInfoFiles, projectConfigs.PERT_IDS);
const outputFileName = SliceConstants.getOutputFileName(instInfoFiles[0], projectConfigs);
let json = csvToJson.fieldDelimiter('\t').getJsonFromCsv(outputFileName);
const profiles = _.uniq(_.pluck(json, "profile_id"))
let profiles_no_well_positions = [];
for (let profile of profiles) {
profiles_no_well_positions.push(profile.split(":")[0])
}
profiles_no_well_positions = _.uniq(profiles_no_well_positions);
const promises2 = [
SliceData.processAllByRows(projectConfigs, plateFiles, profiles), //level2
SliceData.processAllByRows(projectConfigs, qcFiles, profiles_no_well_positions), //qc table
SliceData.processAllByRows(projectConfigs, rowFiles, projectConfigs.PERT_IDS),
SliceData.processAllByColumn(projectConfigs, columnFiles),
//SliceData.copyAllFiles(projectConfigs, projectConfigs.SOURCE_DATA_DIR, projectConfigs.DESTINATION_DATA_DIR, copyFiles),
//SliceData.copyPertDirectory(projectConfigs)
//SliceData.processAllByRows(projectConfigs, plateFiles, projectConfigs.PERT_PLATES),
];
await Promise.all(promises2);
}
//await SliceData.zipFiles(projectConfigs);
//await SliceData.cleanUp(projectConfigs);
console.log("Done");
// for(let fileInfo of fileInfos){
// const p = new SliceData(fileInfo);
// const projectConfigs = p.getProjectConfigs();
// for (let f of projectConfigs.COLUMN_FILES_POST_FIX) {
// csvColumnFilesGlob.push(projectConfigs.SOURCE_DATA_DIR + "/*" + f)
// }
// for (let f of projectConfigs.ROW_FILES_POST_FIX) {
// csvRowFilesGlob.push(projectConfigs.SOURCE_DATA_DIR + "/*" + f)
// }
// for (let f of projectConfigs.PLATE_FILES_POST_FIX) {
// csvPlateFilesGlob.push(projectConfigs.SOURCE_DATA_DIR + "/*" + f)
// }
// for (let f of projectConfigs.COPY_FILES_POST_FIX) {
// csvCopyFilesGlob.push(projectConfigs.SOURCE_DATA_DIR + "/*" + f)
// }
// //create the destination directory if it does not already exists
// if (!fs.existsSync(projectConfigs.DESTINATION_DATA_DIR)) {
// fs.mkdirSync(projectConfigs.DESTINATION_DATA_DIR, {recursive: true});
// }
//
// let promises = [
// glob(csvRowFilesGlob),
// glob(csvColumnFilesGlob),
// glob(csvPlateFilesGlob),
// glob(csvCopyFilesGlob)
// ];
// const ps = await Promise.all(promises);
//
// const rowFiles = ps[0];
// const columnFiles = ps[1];
// const plateFiles = ps[2];
// const copyFiles = ps[3];
//
// console.log("rowFiles",rowFiles);
// console.log("columnFiles",columnFiles);
// console.log("plateFiles",plateFiles);
// console.log("copyFiles",copyFiles);
//
// const promises2 = [
// SliceData.processAllByRows(projectConfigs,rowFiles, projectConfigs.PERT_IDS),
// SliceData.processAllByRows(projectConfigs,plateFiles, projectConfigs.PERT_PLATES),
// SliceData.processAllByColumn(projectConfigs,columnFiles),
// SliceData.copyAllFiles(projectConfigs,projectConfigs.SOURCE_DATA_DIR, projectConfigs.DESTINATION_DATA_DIR, copyFiles),
// SliceData.copyPertDirectory(projectConfigs)
// ];
// await Promise.all(promises2);
// await SliceData.zipFiles(projectConfigs);
// await SliceData.cleanUp(projectConfigs);
// console.log("Done");
// }
})();