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

Example 1 with MPersistent

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

the class MPart method inherit.

/**
 *        Injects inherited equations as children of this node.
 *        Handles recursion up the hierarchy of parents.
 *        @param visited Used to guard against a document loading itself.
 *        @param root The node in the collated tree (named "$inherit") which triggered the current
 *        round of inheritance. May be a child of a higher node, or a child of this node, but never a child
 *        of a lower node.
 *        @param from The $inherit node to be processed. We parse this into a set of part names
 *        which we retrieve from the database.
 */
public synchronized void inherit(LinkedList<MPersistent> visited, MPart root, MNode from) {
    boolean maintainable = from == root && root.isFromTopDocument();
    // Indicates that at least one name changed due to ID resolution. This lets us delay updating the field until all names are processed.
    boolean changedName = false;
    String[] parentNames = from.get().split(",");
    for (int i = 0; i < parentNames.length; i++) {
        String parentName = parentNames[i];
        String id = from.get(i);
        parentName = parentName.trim().replace("\"", "");
        MPersistent parentSource = (MPersistent) AppData.models.child(parentName);
        String parentID = "";
        if (parentSource != null) {
            parentID = parentSource.get("$metadata", "id");
            // Even though the name matches, parentSource is not really the same model that was originally linked.
            if (!id.isEmpty() && !parentID.equals(id))
                parentSource = null;
        }
        if (parentSource == null) {
            if (!id.isEmpty()) {
                parentSource = AppData.getModel(id);
                if (// relink
                parentSource != null && maintainable) {
                    parentNames[i] = "\"" + parentSource.key() + "\"";
                    changedName = true;
                }
            }
        } else {
            if (id.isEmpty() && !parentID.isEmpty() && maintainable)
                root.set(i, parentID);
        }
        if (parentSource != null && !visited.contains(parentSource)) {
            underrideChildren(root, parentSource);
            MPersistent parentFrom = (MPersistent) parentSource.child("$inherit");
            if (parentFrom != null) {
                visited.push(parentSource);
                // yes, we continue to treat the root as the initiator for all the inherited equations
                inherit(visited, root, parentFrom);
                visited.pop();
            }
        }
    }
    if (changedName) {
        StringBuilder value = new StringBuilder();
        value.append(parentNames[0]);
        for (int i = 1; i < parentNames.length; i++) value.append("," + parentNames[i]);
        root.source.set(value.toString());
    }
}

Example 2 with MPersistent

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

the class MPart method set.

public synchronized MNode set(String index, String value) {
    MPart result = null;
    if (children != null)
        result = (MPart) children.get(index);
    if (result != null) {
        result.set(value);
        return result;
    }
    // We don't have the child, so by construction it is not in any source document.
    // ensures that source is a member of the top-level document tree
    override();
    MPersistent s = (MPersistent) source.set(index, value);
    result = new MPart(this, null, s);
    if (children == null)
        children = new TreeMap<String, MNode>(comparator);
    children.put(index, result);
    if (// We've created an $inherit line, so load the inherited equations.
    index.equals("$inherit")) {
        result.getIDs();
        // Purge is unnecessary because "result" is a new entry. There is no previous $inherit line.
        expand();
    }
    return result;
}

Example 3 with MPersistent

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

the class MPart method move.

public synchronized void move(String fromIndex, String toIndex) {
    if (toIndex.equals(fromIndex))
        return;
    // By definition, no top-level document nodes are allowed to remain at the destination. However, underrides may exist.
    clear(toIndex);
    MPart fromPart = (MPart) child(fromIndex);
    if (fromPart == null)
        return;
    // We only move top-document nodes.
    if (!fromPart.isFromTopDocument())
        return;
    MNode fromDoc = source.child(fromIndex);
    MNode toPart = child(toIndex);
    if (// No node at the destination, so merge at level of top-document.
    toPart == null) {
        MPersistent toDoc = (MPersistent) source.set(toIndex, "");
        toDoc.merge(fromDoc);
        MPart c = new MPart(this, null, toDoc);
        children.put(toIndex, c);
        // The sub-tree is empty, so all injected nodes are new. They don't really underride anything.
        c.underrideChildren(null, toDoc);
        c.expand();
    } else // Some existing underrides, so merge in collated tree. This is more expensive because it involves multiple calls to set().
    {
        toPart.merge(fromDoc);
    }
    clear(fromIndex);
}

Example 4 with MPersistent

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

the class MPart method underrideChildren.

/**
 *        Injects inherited equations as children of this node.
 *        Handles recursion down our containment hierarchy.
 *        See note on underride(MPart,MPersistent). This is safe to run more than once for a given $inherit statement.
 *        @param newSource The current node in the source document which matches this node in the MPart tree.
 */
public synchronized void underrideChildren(MPart from, MPersistent newSource) {
    if (newSource.size() == 0)
        return;
    if (children == null)
        children = new TreeMap<String, MNode>(comparator);
    for (MNode n : newSource) {
        String key = n.key();
        MPersistent p = (MPersistent) n;
        MPart c = (MPart) children.get(key);
        if (c == null) {
            c = new MPart(this, from, p);
            children.put(key, c);
            c.underrideChildren(from, p);
        } else {
            c.underride(from, p);
        }
    }
}

Example 5 with MPersistent

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

the class PartMap method build.

/**
 *        Scans model database and collects parts which are tagged for neuroml.
 *        This mapping really ought to be updated every time a tagged part is edited.
 *        However, in normal use (not during library development) the parts will be read-only,
 *        so one-time initialization should be sufficient.
 */
public void build() {
    for (MNode c : AppData.models) {
        // Must directly declare a NeuroML part to be included.
        if (c.child("$metadata", "backend.lems.part") == null)
            continue;
        // Create map using fully-collated part, not just the immediate one.
        NameMap map = new NameMap(new MPart((MPersistent) c));
        outward.put(map.internal, map);
        for (String n : map.neuroml) inward.put(n, map);
    }
    // Determine which parts can be contained by other parts.
    for (NameMap map : outward.values()) {
        for (String childName : map.children) {
            NameMap childMap = outward.get(childName);
            if (childMap != null)
                childMap.containers.add(map);
        }
    }
    // Child parts add name mappings for variables visible from their containers.
    for (NameMap map : outward.values()) map.inheritContainers(this);
    for (NameMap map : outward.values()) map.buildContainerMappings();
}