/**
* Returns a List of paths, being the given path and all its parents.
*
* @param pathString a path String
* @param pathQuery a PathQuery object to use to create a Path object
* @return a List of path Strings
* @throws PathException if something goes wrong
*/
protected static List<String> findParentPaths(String pathString, PathQuery pathQuery)
throws PathException {
Path path = pathQuery.makePath(pathString);
List<String> retval = new ArrayList<String>();
retval.add(path.getNoConstraintsString());
while (!path.isRootPath()) {
path = path.getPrefix();
retval.add(path.getNoConstraintsString());
}
return retval;
}
/**
* Return a list of string paths that are defined as WebConfig to be shown in results. This will
* include attributes of the given class and follow references.
*
* @param type the class name to create a view for
* @param model the model
* @param webConfig we configuration
* @return the configured view paths for the class
*/
public static List<String> getDefaultViewForClass(String type, Model model, WebConfig webConfig) {
List<String> view = new ArrayList<String>();
ClassDescriptor cld = model.getClassDescriptorByName(type);
List<FieldConfig> fieldConfigs = FieldConfigHelper.getClassFieldConfigs(webConfig, cld);
for (FieldConfig fieldConfig : fieldConfigs) {
String relPath = fieldConfig.getFieldExpr();
// only add attributes, don't follow references, following references can be problematic
// when subclasses get involved.
if (fieldConfig.getShowInResults()) {
try {
Path path = new Path(model, type + "." + relPath);
// add references
if (path.isRootPath() || path.endIsReference()) {
for (FieldConfig fc :
FieldConfigHelper.getClassFieldConfigs(webConfig, path.getEndClassDescriptor())) {
Path pathToAdd =
new Path(model, path.toStringNoConstraints() + "." + fc.getFieldExpr());
if (pathToAdd.endIsAttribute()
&& (!view.contains(pathToAdd.getNoConstraintsString()))
&& (fc.getDisplayer() == null && fc.getShowInSummary())) {
view.add(pathToAdd.getNoConstraintsString());
}
}
// add collections
} else if (!path.endIsCollection()) {
view.add(path.getNoConstraintsString());
}
} catch (PathException e) {
LOG.error("Invalid path configured in webconfig for class: " + type);
}
}
}
if (view.size() == 0) {
for (AttributeDescriptor att : cld.getAllAttributeDescriptors()) {
if (!"id".equals(att.getName())) {
view.add(type + "." + att.getName());
}
}
}
return view;
}
/**
* Return a list of string paths that are defined as WebConfig to be shown in results. This will
* include only attributes of the given class and not follow references. Optionally provide a
* prefix to for creating a view for references/collections.
*
* @param type the class name to create a view for
* @param model the model
* @param webConfig we configuration
* @param startingPath a path to prefix the class, can be null
* @return the configured view paths for the class
*/
public static List<String> getDefaultViewForClass(
String type, Model model, WebConfig webConfig, String startingPath) {
String prefix = startingPath;
List<String> view = new ArrayList<String>();
ClassDescriptor cld = model.getClassDescriptorByName(type);
List<FieldConfig> fieldConfigs = getClassFieldConfigs(webConfig, cld);
if (!StringUtils.isEmpty(prefix)) {
try {
// we can't add a subclass constraint, type must be same as the end of the prefix
Path prefixPath = new Path(model, prefix);
String prefixEndType = TypeUtil.unqualifiedName(prefixPath.getEndType().getName());
if (!prefixEndType.equals(type)) {
throw new IllegalArgumentException(
"Mismatch between end type of prefix: "
+ prefixEndType
+ " and type parameter: "
+ type);
}
} catch (PathException e) {
LOG.error("Invalid path configured in webconfig for class: " + type);
}
} else {
prefix = type;
}
for (FieldConfig fieldConfig : fieldConfigs) {
String relPath = fieldConfig.getFieldExpr();
// only add attributes, don't follow references, following references can be problematic
// when subclasses get involved.
if (fieldConfig.getShowInResults()) {
try {
Path path = new Path(model, prefix + "." + relPath);
// use type (e.g. Protein) not prefix (e.g. Gene.proteins) to do
// attribute check
Path checkIsOnlyAttribute = new Path(model, type + "." + relPath);
if (checkIsOnlyAttribute.isOnlyAttribute()) {
view.add(path.getNoConstraintsString());
}
} catch (PathException e) {
LOG.error("Invalid path configured in webconfig for class: " + type);
}
}
}
if (view.size() == 0) {
for (AttributeDescriptor att : cld.getAllAttributeDescriptors()) {
if (!"id".equals(att.getName())) {
view.add(prefix + "." + att.getName());
}
}
}
return view;
}
private static List<String> getSubview(WebConfig webConfig, Model m, Path path)
throws PathException {
List<String> subview = new ArrayList<String>();
String basePath = path.toStringNoConstraints() + ".";
List<FieldConfig> subconfs = getClassFieldConfigs(webConfig, path.getEndClassDescriptor());
for (FieldConfig fc : subconfs) {
String pathString = basePath + fc.getFieldExpr();
Path pathToAdd = new Path(m, pathString);
if (pathToAdd.endIsAttribute() && (fc.getDisplayer() == null && fc.getShowInSummary())) {
subview.add(pathToAdd.getNoConstraintsString());
}
}
return subview;
}
private Map<String, Object> getObjectDetails(InterMineObject imo) {
WebConfig webConfig = InterMineContext.getWebConfig();
Model m = im.getModel();
Map<String, Object> objectDetails = new HashMap<String, Object>();
String className = DynamicUtil.getSimpleClassName(imo.getClass());
ClassDescriptor cd = m.getClassDescriptorByName(className);
for (FieldConfig fc : FieldConfigHelper.getClassFieldConfigs(webConfig, cd)) {
try {
Path p = new Path(m, cd.getUnqualifiedName() + "." + fc.getFieldExpr());
if (p.endIsAttribute() && fc.getShowInSummary()) {
objectDetails.put(
p.getNoConstraintsString().replaceAll("^[^.]*\\.", ""), PathUtil.resolvePath(p, imo));
}
} catch (PathException e) {
LOG.error(e);
}
}
return objectDetails;
}
/**
* Get the view as configured in the webconfig. Guarantees to return a non-empty non-null list.
*
* @param type The type we are trying to get a view for.
* @param model The data model
* @param webConfig The web-configuration.
* @param fieldConfigs
* @return The list of paths that we can use to construct a query.
* @throws UnconfiguredException if the class has not configured view.
*/
private static List<String> getConfiguredView(ClassDescriptor cld, WebConfig webConfig)
throws UnconfiguredException {
Collection<String> view = new LinkedHashSet<String>(); // Preserve order and uniqueness.
Model m = cld.getModel();
for (FieldConfig fieldConfig : resultConfigs(webConfig, cld)) {
try {
Path p = new Path(m, cld.getUnqualifiedName() + "." + fieldConfig.getFieldExpr());
// add subpaths of references and roots, attrs themselves, ignore collections.
if (p.isRootPath() || p.endIsReference()) {
view.addAll(getSubview(webConfig, m, p));
} else if (p.endIsAttribute()) {
view.add(p.getNoConstraintsString());
}
} catch (PathException e) {
LOG.error("Invalid path configured in webconfig for class: " + cld);
}
}
if (view.isEmpty()) {
throw new UnconfiguredException();
}
return new ArrayList<String>(view);
}