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develop parser cob #846

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Aug 19, 2024
Merged

develop parser cob #846

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14 changes: 14 additions & 0 deletions cob/manifest.json
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{
"longname": "Company of Biologists",
"name": "cob",
"describe": "Recognizes the accesses to the platform Company of Biologists",
"contact": "Violita Kovchegov",
"pkb": false,
"docurl": "https://analyses.ezpaarse.org/platforms/66ba68ae318b257026852114",
"domains": [
"journals.biologists.com",
"journals-biologists-com.manchester.idm.oclc.org"
],
"version": "2024-08-15",
"status": "beta"
}
83 changes: 83 additions & 0 deletions cob/parser.js
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#!/usr/bin/env node

'use strict';
const Parser = require('../.lib/parser.js');

/**
* Recognizes the accesses to the platform Company of Biologists
* @param {Object} parsedUrl an object representing the URL to analyze
* main attributes: pathname, query, hostname
* @param {Object} ec an object representing the EC whose URL is being analyzed
* @return {Object} the result
*/
module.exports = new Parser(function analyseEC(parsedUrl, ec) {
let result = {};
let path = parsedUrl.pathname;
// uncomment this line if you need parameters
let param = parsedUrl.query || {};

// use console.error for debuging
// console.error(parsedUrl);

let match;

if (/^\/[a-zA-Z0-9]+\/search-results$/i.test(path)) {
// https://journals.biologists.com/jcs/search-results?page=1&q=Pathogens&fl_SiteID=1000007
// https://journals.biologists.com/jeb/search-results?page=1&q=Mapping&fl_SiteID=1000009
// https://journals.biologists.com/dmm/search-results?page=1&q=Macrophages&fl_SiteID=1000003
// https://journals.biologists.com/bio/search-results?page=1&q=stimuli&fl_SiteID=1000001
// https://journals.biologists.com/journals/search-results?page=1&q=Mapping&fl_SiteID=3&allJournals=1
result.rtype = 'SEARCH';
result.mime = 'HTML';

} else if ((match = /^\/Toolbox\/DownloadCombinedArticleAndSupplmentPdf$/i.exec(path)) !== null && param.resourceId !== undefined && param.pdfUrl !== undefined) {
// https://journals.biologists.com/Toolbox/DownloadCombinedArticleAndSupplmentPdf?resourceId=361490&multimediaId=3558762&pdfUrl=/cob/content_public/journal/bio/13/8/10.1242_bio.060205/2/bio060205.pdf
// https://journals.biologists.com/Toolbox/DownloadCombinedArticleAndSupplmentPdf?resourceId=361492&multimediaId=3558644&pdfUrl=/cob/content_public/journal/dmm/17/8/10.1242_dmm.050693/2/dmm050693.pdf
// https://journals.biologists.com/Toolbox/DownloadCombinedArticleAndSupplmentPdf?resourceId=224739&multimediaId=3511707&pdfUrl=/cob/content_public/journal/jcs/133/1/10.1242_jcs.236489/5/jcs236489.pdf
// https://journals.biologists.com/Toolbox/DownloadCombinedArticleAndSupplmentPdf?resourceId=361243&multimediaId=3555465&pdfUrl=/cob/content_public/journal/jeb/227/14/10.1242_jeb.247419/1/jeb247419.pdf
// https://journals.biologists.com/Toolbox/DownloadCombinedArticleAndSupplmentPdf?resourceId=361248&multimediaId=3555541&pdfUrl=/cob/content_public/journal/jeb/227/14/10.1242_jeb.247043/1/jeb247043.pdf
result.rtype = 'SUPPL';
result.mime = 'PDF';
let temp = param.pdfUrl.split('/');
result.db_id = temp[4];
result.issue = temp[6];
result.vol = temp[5];
result.unitid = param.resourceId;

} else if ((match = /^\/[a-zA-Z]+\/article-pdf\/([0-9]+)\/([0-9]+)\/([a-zA-Z0-9]+)\/([0-9]+)\/([a-zA-Z0-9]+).pdf$/i.exec(path)) !== null) {
// https://journals.biologists.com/bio/article-pdf/13/8/bio060543/3560201/bio060543.pdf
// https://journals.biologists.com/dmm/article-pdf/17/8/dmm050693/3558644/dmm050693.pdf
// https://journals.biologists.com/jeb/article-pdf/227/14/jeb247043/3555541/jeb247043.pdf
// https://journals.biologists.com/jcs/article-pdf/137/14/jcs262042/3555318/jcs262042.pdf
// https://journals.biologists.com/jcs/article-pdf/137/14/jcs261532/3555571/jcs261532.pdf
result.rtype = 'ARTICLE';
result.mime = 'PDF';
result.issue = match[2];
result.vol = match[1];
result.unitid = `${match[1]}/${match[2]}/${match[3]}/${match[4]}/${match[5]}.pdf`;

} else if ((match = /^\/[a-zA-Z]+\/article\/([0-9]+)\/([0-9]+)\/([a-zA-Z0-9]+)\/([0-9]+)\/([a-zA-Z0-9-]+)$/i.exec(path)) !== null) {
// https://journals.biologists.com/bio/article/13/8/bio060543/361624/A-fast-fish-swimming-protocol-that-provides
// https://journals.biologists.com/dmm/article/17/8/dmm050693/361492/Macrophages-directly-kill-bladder-cancer-cells
// https://journals.biologists.com/jeb/article/227/14/jeb247043/361248/Ice-in-the-intertidal-patterns-and-processes-of
// https://journals.biologists.com/jcs/article/137/14/jcs262042/361233/Simple-prerequisite-of-presequence-for
// https://journals.biologists.com/jcs/article/137/14/jcs261532/361251/Tetraspanin-proteins-in-membrane-remodeling
result.rtype = 'ARTICLE';
result.mime = 'HTML';
result.title_id = match[5];
result.issue = match[2];
result.vol = match[1];
result.unitid = `${match[1]}/${match[2]}/${match[3]}/${match[4]}/${match[5]}`;

} else if ((match = /^\/[a-zA-Z]+\/issue\/([0-9]+)\/([0-9]+)$/i.exec(path)) !== null) {
// https://journals.biologists.com/jcs/issue/137/14
result.rtype = 'ISSUE';
result.mime = 'HTML';
result.issue = match[2];
result.vol = match[1];
result.unitid = `${match[1]}/${match[2]}`;

}

return result;
});
22 changes: 22 additions & 0 deletions cob/test/cob.2024-08-15.csv
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out-db_id;out-title_id;out-issue;out-vol;out-unitid;out-rtype;out-mime;in-url
;;14;137;137/14;ISSUE;HTML;https://journals.biologists.com/jcs/issue/137/14
;Tetraspanin-proteins-in-membrane-remodeling;14;137;137/14/jcs261532/361251/Tetraspanin-proteins-in-membrane-remodeling;ARTICLE;HTML;https://journals.biologists.com/jcs/article/137/14/jcs261532/361251/Tetraspanin-proteins-in-membrane-remodeling
;;14;137;137/14/jcs261532/3555571/jcs261532.pdf;ARTICLE;PDF;https://journals.biologists.com/jcs/article-pdf/137/14/jcs261532/3555571/jcs261532.pdf
;Simple-prerequisite-of-presequence-for;14;137;137/14/jcs262042/361233/Simple-prerequisite-of-presequence-for;ARTICLE;HTML;https://journals.biologists.com/jcs/article/137/14/jcs262042/361233/Simple-prerequisite-of-presequence-for
;;14;137;137/14/jcs262042/3555318/jcs262042.pdf;ARTICLE;PDF;https://journals.biologists.com/jcs/article-pdf/137/14/jcs262042/3555318/jcs262042.pdf
;Ice-in-the-intertidal-patterns-and-processes-of;14;227;227/14/jeb247043/361248/Ice-in-the-intertidal-patterns-and-processes-of;ARTICLE;HTML;https://journals.biologists.com/jeb/article/227/14/jeb247043/361248/Ice-in-the-intertidal-patterns-and-processes-of
;;14;227;227/14/jeb247043/3555541/jeb247043.pdf;ARTICLE;PDF;https://journals.biologists.com/jeb/article-pdf/227/14/jeb247043/3555541/jeb247043.pdf
jeb;;14;227;361248;SUPPL;PDF;https://journals.biologists.com/Toolbox/DownloadCombinedArticleAndSupplmentPdf?resourceId=361248&multimediaId=3555541&pdfUrl=/cob/content_public/journal/jeb/227/14/10.1242_jeb.247043/1/jeb247043.pdf
jeb;;14;227;361243;SUPPL;PDF;https://journals.biologists.com/Toolbox/DownloadCombinedArticleAndSupplmentPdf?resourceId=361243&multimediaId=3555465&pdfUrl=/cob/content_public/journal/jeb/227/14/10.1242_jeb.247419/1/jeb247419.pdf
jcs;;1;133;224739;SUPPL;PDF;https://journals-biologists-com.manchester.idm.oclc.org/Toolbox/DownloadCombinedArticleAndSupplmentPdf?resourceId=224739&multimediaId=3511707&pdfUrl=/cob/content_public/journal/jcs/133/1/10.1242_jcs.236489/5/jcs236489.pdf
;Macrophages-directly-kill-bladder-cancer-cells;8;17;17/8/dmm050693/361492/Macrophages-directly-kill-bladder-cancer-cells;ARTICLE;HTML;https://journals.biologists.com/dmm/article/17/8/dmm050693/361492/Macrophages-directly-kill-bladder-cancer-cells
;;8;17;17/8/dmm050693/3558644/dmm050693.pdf;ARTICLE;PDF;https://journals.biologists.com/dmm/article-pdf/17/8/dmm050693/3558644/dmm050693.pdf
dmm;;8;17;361492;SUPPL;PDF;https://journals.biologists.com/Toolbox/DownloadCombinedArticleAndSupplmentPdf?resourceId=361492&multimediaId=3558644&pdfUrl=/cob/content_public/journal/dmm/17/8/10.1242_dmm.050693/2/dmm050693.pdf
;A-fast-fish-swimming-protocol-that-provides;8;13;13/8/bio060543/361624/A-fast-fish-swimming-protocol-that-provides;ARTICLE;HTML;https://journals.biologists.com/bio/article/13/8/bio060543/361624/A-fast-fish-swimming-protocol-that-provides
;;8;13;13/8/bio060543/3560201/bio060543.pdf;ARTICLE;PDF;https://journals.biologists.com/bio/article-pdf/13/8/bio060543/3560201/bio060543.pdf
bio;;8;13;361490;SUPPL;PDF;https://journals.biologists.com/Toolbox/DownloadCombinedArticleAndSupplmentPdf?resourceId=361490&multimediaId=3558762&pdfUrl=/cob/content_public/journal/bio/13/8/10.1242_bio.060205/2/bio060205.pdf
;;;;;SEARCH;HTML;https://journals.biologists.com/jcs/search-results?page=1&q=Pathogens&fl_SiteID=1000007
;;;;;SEARCH;HTML;https://journals.biologists.com/jeb/search-results?page=1&q=Mapping&fl_SiteID=1000009
;;;;;SEARCH;HTML;https://journals.biologists.com/dmm/search-results?page=1&q=Macrophages&fl_SiteID=1000003
;;;;;SEARCH;HTML;https://journals.biologists.com/bio/search-results?page=1&q=stimuli&fl_SiteID=1000001
;;;;;SEARCH;HTML;https://journals.biologists.com/journals/search-results?page=1&q=Mapping&fl_SiteID=3&allJournals=1
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