Examples with MNode gov.sandia.n2a.db.MNode used on opensource projects

Example 16 with MNode

use of gov.sandia.n2a.db.MNode in project n2a by frothga.

the class PanelRun method viewJob.

public void viewJob() {
    if (displayThread != null) {
        synchronized (displayText) {
            displayThread.stop = true;
            displayThread = null;
        }
    }
    NodeJob job = (NodeJob) displayNode;
    MNode doc = job.source;
    StringBuilder contents = new StringBuilder();
    contents.append("Status:");
    if (job.complete < 0)
        contents.append(" Waiting");
    else if (job.complete == 0)
        contents.append(" Started");
    else if (job.complete > 0 && job.complete < 1)
        contents.append(" " + Math.round(job.complete * 100) + "%");
    else if (job.complete == 1)
        contents.append(" Success");
    else if (job.complete == 3)
        contents.append(" Killed");
    else
        // complete==2, or any value not specified above
        contents.append(" Failed");
    contents.append("\n");
    if (job.dateStarted != null)
        contents.append("  started:  " + job.dateStarted + "\n");
    if (job.dateFinished != null)
        contents.append("  finished: " + job.dateFinished + "\n");
    MNode metadata = doc.child("$metadata");
    // TODO: filter out irrelevant items, like "gui.order"
    if (metadata != null)
        contents.append("\n" + metadata);
    synchronized (displayText) {
        displayText.setText(contents.toString());
        displayText.setCaretPosition(0);
    }
    if (displayPane.getViewport().getView() != displayText)
        displayPane.setViewportView(displayText);
    displayPane.paintImmediately(displayPane.getBounds());
}

Example 17 with MNode

use of gov.sandia.n2a.db.MNode in project n2a by frothga.

the class ParserBibtex method parseTags.

public MNode parseTags(BufferedReader reader) throws IOException {
    MNode result = new MVolatile();
    // read to first ,
    String id = "";
    while (true) {
        int c = reader.read();
        if (c < 0 || c == '}') {
            result.set(id.trim());
            return result;
        }
        if (c == ',')
            break;
        id += (char) c;
    }
    // TODO: should this be lower-case as well?
    result.set(id.trim());
    while (parseTag(reader, result)) ;
    return result;
}

Example 18 with MNode

use of gov.sandia.n2a.db.MNode in project n2a by frothga.

the class AddEntry method destroy.

public static int destroy(String id, boolean fromSearchPanel) {
    MNode doc = AppData.references.child(id);
    PanelReference mep = PanelReference.instance;
    mep.panelEntry.recordDeleted(doc);
    mep.panelMRU.removeDoc(doc);
    int result = mep.panelSearch.removeDoc(doc);
    ((MDoc) doc).delete();
    mep.panelSearch.lastSelection = Math.min(mep.panelSearch.model.size() - 1, result);
    if (fromSearchPanel) {
        mep.panelSearch.list.setSelectedIndex(mep.panelSearch.lastSelection);
        mep.panelSearch.list.requestFocusInWindow();
    } else {
        mep.panelEntry.table.requestFocusInWindow();
    }
    return result;
}

Example 19 with MNode

use of gov.sandia.n2a.db.MNode in project n2a by frothga.

the class ExportJob method standalone.

/**
 *        Process child elements common to all Standalone elements.
 */
public void standalone(MPart source, Element node, List<Element> elements) {
    MNode metadata = source.child("$metadata");
    if (metadata != null) {
        for (MNode m : metadata) {
            if (!((MPart) m).isFromTopDocument())
                continue;
            String key = m.key();
            if (key.startsWith("backend"))
                continue;
            if (key.startsWith("gui"))
                continue;
            // our internal id, not NeuroML id
            if (key.equals("id"))
                continue;
            switch(key) {
                case "description":
                    node.setAttribute("description", m.get());
                    break;
                case "note":
                case "notes":
                    Element notes = addElement("notes", elements);
                    notes.setTextContent(m.get());
                    break;
                default:
                    Element property = addElement("property", elements);
                    property.setAttribute("tag", key);
                    property.setAttribute("value", m.get());
            }
        }
    }
    MNode reference = source.child("$reference");
    if (reference != null) {
    // TODO: emit annotation elements
    }
}

Example 20 with MNode

use of gov.sandia.n2a.db.MNode in project n2a by frothga.

the class ImportJob method concentrationModel.

public void concentrationModel(Node node) {
    MNode part = genericPart(node, models.child(modelName));
    // According to comment in NeuroML.xsd, this field should be the same as id.
    part.clear("ion");
    String inherit = node.getNodeName();
    if (// Gets mapped into base concentration model. Here, we fix up the parameters so it will work.
    inherit.endsWith("Traub")) {
        String beta = part.get("beta");
        String phi = part.get("phi");
        part.clear("beta");
        part.clear("phi");
        part.set("tau", "1/" + beta);
        part.set("rho", phi + "*1e-9");
    }
}