v0.26.0

package.json

@@ -137,5 +137,5 @@
   "engines": {
     "node": ">=16.19.0"
   },
-  "version": "0.25.0"
+  "version": "0.26.0"
 }

src/client/components/document-management-components.js

@@ -320,9 +320,9 @@ class DocumentManagementDocumentComponent extends React.Component {
             h( 'i.material-icons.hide-by-default.invalid', {
               className: makeClassList({ 'show': hasIssues( doc ) })
             }, 'warning' ),
-            h( 'i.material-icons.hide-by-default.complete', {
-              className: makeClassList({ 'show': doc.submitted() || doc.isPublic() })
-            }, 'check_circle' ),
+            // h( 'i.material-icons.hide-by-default.complete', {
+            //   className: makeClassList({ 'show': doc.submitted() || doc.isPublic() })
+            // }, 'check_circle' ),
             h( 'i.material-icons.hide-by-default.mute', {
               className: makeClassList({ 'show': doc.trashed() })
             }, 'delete' )

src/model/document/document.js

@@ -567,15 +567,38 @@ class Document {
   }
 
   toBiopaxTemplate( omitDbXref ){
+    const toPublication = citation => {
+      let { pmid, doi, title, reference: source, authors: { authorList }, ISODate } = citation;
+      let db, id;
+      if ( pmid ){
+        db = 'pmid';
+        id = pmid;
+      } else if( doi ) {
+        db = 'crossref';
+        id = doi;
+      }
+      const publication = { db, id, title, source };
+      if( ISODate ) {
+        const date = new Date( ISODate );
+        const year = date.getFullYear();
+        publication.year = year;
+      }
+      if( !_.isEmpty( authorList ) ) {
+        const author = authorList.map( ({ name }) => name );
+        publication.author = author;
+      }
+      return publication;
+    };
     let interactions = this.toBiopaxIntnTemplates( omitDbXref );
     let citation = this.citation();
-    let pathwayName = citation.title;
-    let pmid = citation.pmid;
+    let { pmid, doi, title } = citation;
+    const hasArticleId = pmid != null || doi != null;
     let pathwayId = this.id();
 
-    let template = { interactions, pathwayName, pathwayId };
-    if ( pmid ) {
-      template.publication = { id: pmid, db: 'pubmed' };
+    let template = { interactions, pathwayName: title, pathwayId };
+    if ( hasArticleId ) {
+      const publication = toPublication( citation );
+      template.publication = publication;
     }
 
     return template;

src/server/routes/api/document/crossref/map.js

@@ -89,13 +89,15 @@ const getPostedContent = record => {
     const JournalIssue = { PubDate };
     return JournalIssue;
   };
-  const { institution, 'group-title': groupTitle } = record;
+  const { institution, 'group-title': groupTitle, publisher } = record;
   let Title;
   if ( institution ) { // preprint (e.g. bioRxiv, medRxiv)
     const { name } = _.head( institution );
     Title = name;
   } else if ( groupTitle ) { // preprint (e.g. eLife)
     Title = groupTitle;
+  } else {
+    Title = publisher;
   }
   const JournalIssue = getJournalIssue( record );
   const Journal = { Title, JournalIssue };