@Override
protected void onReset() {
super.onReset();
PlaceRequest currentPlace = placeManager.getCurrentPlaceRequest();
if (phenotype != null) {
getView().showPhenotypeInfo(phenotype);
if (currentPlace.getParameterNames().size() == 1) {
phenotypeOverviewPresenter.setData(phenotype, mRNAHistogramDataTable, bsHistogramDataTable);
setInSlot(TYPE_SetMainContent, phenotypeOverviewPresenter);
getView().setActiveLink(NAV_ITEMS.Overview, SUB_NAV_ITEMS.mRNA);
} else {
Dataset dataset =
phenotype.getDatasetFromName(
Dataset.TYPE.valueOf(currentPlace.getParameter("dataset", "")));
String env = currentPlace.getParameter("env", "");
if (env.equals("GxE")) {
gxeDetailPresenter.setData(phenotype, dataset);
setInSlot(TYPE_SetMainContent, gxeDetailPresenter);
} else {
phenotypeDetailPresenter.setData(
phenotype,
dataset.getEnvironmentFromName(env),
getSingleHistogramDataTable(env, dataset.getType()));
setInSlot(TYPE_SetMainContent, phenotypeDetailPresenter);
}
getView().setActiveLink(NAV_ITEMS.valueOf(env), SUB_NAV_ITEMS.mRNA);
}
}
}
@Override
public void prepareFromRequest(PlaceRequest request) {
super.prepareFromRequest(request);
PlaceRequest currentPlace = placeManager.getCurrentPlaceRequest();
String phenotype_id = currentPlace.getParameter("id", "");
if (phenotype_id.equals("")) getProxy().manualReveal(PhenotypePresenter.this);
else {
dispatch.execute(
new GetPhenotypeDataAction(phenotype_id, phenotypeReader),
new CustomCallback<GetPhenotypeDataActionResult>(getEventBus()) {
@Override
public void onSuccess(GetPhenotypeDataActionResult result) {
PhenotypePresenter.this.phenotype = result.getPhenotype();
PhenotypePresenter.this.mRNAHistogramDataTable = result.getmRNAHistogramDataTable();
PhenotypePresenter.this.bsHistogramDataTable = result.getBsHistogramDataTable();
getProxy().manualReveal(PhenotypePresenter.this);
}
@Override
public void onFailure(Throwable caught) {
getProxy().manualReveal(PhenotypePresenter.this);
super.onFailure(caught);
// getProxy().manualRevealFailed();
}
});
}
}
@Override
public void prepareFromRequest(PlaceRequest request) {
String dpl = request.getParameter("dpl", null);
if (dpl != null) {
this.selectedUnit = new String[] {dpl, request.getParameter("unit", null)};
} else {
this.selectedUnit = null;
}
}
@Override
public void prepareFromRequest(PlaceRequest request) {
super.prepareFromRequest(request);
chart.setParent(this);
chartType = request.getParameter("chartType", "");
storeId = request.getParameter("storeId", "");
storeName = request.getParameter("storeName", "");
timePeriod = request.getParameter("timePeriod", "");
year = request.getParameter("year", "");
month = request.getParameter("month", "");
day = request.getParameter("day", "");
category = request.getParameter("category", "");
cdDvdName = request.getParameter("cdDvdName", "");
setLabels();
HashMap<String, String> options = new HashMap<String, String>();
options.put("branchId", storeId);
options.put("year", year);
options.put("month", month);
options.put("day", day);
options.put("category", category);
options.put("cdDvdName", cdDvdName);
setData(options);
}
/**
* @function onhideBtnClicked
* @created_date : 11-Dec-2013
* @description
* @parm(s) : @param clickEvent
* @return : void
* @throws : <Mentioned if any exceptions>
*/
@UiHandler("hideButton")
public void onhideBtnClicked(ClickEvent clickEvent) {
PlaceRequest collectionRequest = AppClientFactory.getPlaceManager().getCurrentPlaceRequest();
String collectionId = collectionRequest.getParameter("id", null);
String collectionItemId = collectionRequest.getParameter("rid", null);
String chkViewParam = collectionRequest.getParameter("view", null);
if (AppClientFactory.getCurrentPlaceToken().contains(PlaceTokens.RESOURCE_PLAY)) {
PlaceRequest request = new PlaceRequest(PlaceTokens.RESOURCE_PLAY).with("id", collectionId);
AppClientFactory.getPlaceManager().revealPlace(false, request, true);
} else if (AppClientFactory.getCurrentPlaceToken().contains(PlaceTokens.COLLECTION_PLAY)
&& chkViewParam == null
&& collectionItemId != null) {
PlaceRequest request =
new PlaceRequest(PlaceTokens.COLLECTION_PLAY)
.with("id", collectionId)
.with("rid", collectionItemId);
AppClientFactory.getPlaceManager().revealPlace(false, request, true);
} else if (AppClientFactory.getCurrentPlaceToken().contains(PlaceTokens.PREVIEW_PLAY)
&& chkViewParam == null
&& collectionItemId != null) {
PlaceRequest request =
new PlaceRequest(PlaceTokens.PREVIEW_PLAY)
.with("id", collectionId)
.with("rid", collectionItemId);
AppClientFactory.getPlaceManager().revealPlace(false, request, true);
} else if (AppClientFactory.getCurrentPlaceToken().contains(PlaceTokens.COLLECTION_PLAY)
&& chkViewParam == null
&& collectionItemId == null) {
PlaceRequest request = new PlaceRequest(PlaceTokens.COLLECTION_PLAY).with("id", collectionId);
AppClientFactory.getPlaceManager().revealPlace(false, request, true);
} else if (AppClientFactory.getCurrentPlaceToken().contains(PlaceTokens.PREVIEW_PLAY)
&& chkViewParam == null
&& collectionItemId == null) {
PlaceRequest request = new PlaceRequest(PlaceTokens.PREVIEW_PLAY).with("id", collectionId);
AppClientFactory.getPlaceManager().revealPlace(false, request, true);
} else if (AppClientFactory.getCurrentPlaceToken().contains(PlaceTokens.COLLECTION_PLAY)
&& chkViewParam.equalsIgnoreCase("end")) {
PlaceRequest request =
new PlaceRequest(PlaceTokens.COLLECTION_PLAY)
.with("id", collectionId)
.with("view", "end");
AppClientFactory.getPlaceManager().revealPlace(false, request, true);
} else if (AppClientFactory.getCurrentPlaceToken().contains(PlaceTokens.PREVIEW_PLAY)
&& chkViewParam.equalsIgnoreCase("end")) {
PlaceRequest request =
new PlaceRequest(PlaceTokens.PREVIEW_PLAY).with("id", collectionId).with("view", "end");
AppClientFactory.getPlaceManager().revealPlace(false, request, true);
}
}
@Override
public void prepareFromRequest(PlaceRequest request) {
String action = request.getParameter("action", null);
if ("new".equals(action)) {
launchNewConfigDialoge();
}
}
@Override
public void execute() {
String initialToken = History.getToken();
if (!initialToken.isEmpty() && !isBlackListed(initialToken)) {
List<PlaceRequest> hierarchy = formatter.toPlaceRequestHierarchy(initialToken);
final PlaceRequest placeRequest = hierarchy.get(hierarchy.size() - 1);
Scheduler.get()
.scheduleDeferred(
new Scheduler.ScheduledCommand() {
@Override
public void execute() {
placeManager.revealPlace(placeRequest, true);
}
});
bootstrapContext.setInitialPlace(placeRequest.getNameToken());
} else {
placeManager.revealDefaultPlace();
}
}
@Override
protected void onReveal() {
super.onReveal();
PlaceRequest currentPlaceRequest = placeManager.getCurrentPlaceRequest();
if (!hasBeenRevealed
&& NameTokens.ServerGroupMgmtPresenter.equals(currentPlaceRequest.getNameToken())) {
hasBeenRevealed = true;
// update LHS
serverGroupStore.loadServerGroups(
new SimpleCallback<List<ServerGroupRecord>>() {
@Override
public void onSuccess(List<ServerGroupRecord> result) {
getView().updateServerGroups(result);
}
});
// forward default to ServerGroupPresenter, this presenter doesn't have a default view
placeManager.revealRelativePlace(new PlaceRequest(NameTokens.ServerGroupPresenter));
}
}
@Override
public void prepareFromRequest(PlaceRequest request) {
String taskIdStr = request.getParameter("taskId", "0l");
// long taskId = new Long(taskIdStr);
// dispatcher.execute(new GetTask(AppContext.getUserId(), taskId), new
// TaskServiceCallback<GetTaskResult>() {
// @Override
// public void processResult(GetTaskResult result) {
// setTask(result.getTask());
// }
// });
}
/** @param previousRequestUrl the previousRequestUrl to set */
public void setPreviousRequestUrl(PlaceRequest previousRequestUrl) {
String viewToken = previousRequestUrl.getNameToken();
if (viewToken.equals(PlaceTokens.PREVIEW_PLAY)
|| viewToken.equals(PlaceTokens.COLLECTION_PLAY)
|| viewToken.equals(PlaceTokens.RESOURCE_PLAY)
|| viewToken.equals(PlaceTokens.COLLECTION)) {
String previousViewToken =
this.previousRequestUrl != null ? this.previousRequestUrl.getNameToken() : "";
if (!previousViewToken.equals(PlaceTokens.PREVIEW_PLAY)
&& !previousViewToken.equals(PlaceTokens.COLLECTION_PLAY)
&& !previousViewToken.equals(PlaceTokens.RESOURCE_PLAY)) {
setPreviousPlayerRequestUrl(getPreviousRequestUrl());
}
this.previousRequestUrl = previousRequestUrl;
} else {
this.previousRequestUrl = previousRequestUrl;
}
}
@Override
public void updateHistory(PlaceRequest request, boolean updateBrowserUrl) {
try {
// Make sure the request match
assert request.hasSameNameToken(getCurrentPlaceRequest())
: "Internal error, PlaceRequest passed to updateHistory doesn't match the tail of the place hierarchy.";
placeHierarchy.set(placeHierarchy.size() - 1, request);
if (updateBrowserUrl) {
String historyToken = tokenFormatter.toHistoryToken(placeHierarchy);
String browserHistoryToken = getBrowserHistoryToken();
if (browserHistoryToken == null || !browserHistoryToken.equals(historyToken)) {
setBrowserHistoryToken(historyToken, false);
}
saveHistoryToken(historyToken);
}
} catch (TokenFormatException e) {
// Do nothing.
}
}
*/ @Override
public void setBackToSearch() {
boolean visible = false;
searchRequest = AppClientFactory.getPlaceManager().getPreviousRequest();
if (searchRequest != null) {
String query = searchRequest.getParameter("query", null);
visible = searchRequest != null && query != null;
backToSearchFloPanel.getElement().getStyle().setDisplay(Display.BLOCK);
if (visible) {
if (query.length() > 50) {
query = query.substring(0, 50) + "...";
backToSearchHtml.setHTML(PRE_SEARCH_LINK + query + "\"");
} else {
backToSearchHtml.setHTML(PRE_SEARCH_LINK + query + "\"");
}
}
}
backToSearchPreHtml.setVisible(visible);
backToSearchHtml.setVisible(visible);
}
private void initTree() {
String section_key = "section";
String subsection_key = "subsection";
TreeItem root = new TreeItem("Help");
PlaceRequest rootPlace = new PlaceRequest(NameTokens.helpPage);
tree.addItem(
new Hyperlink(
"Introduction",
placeManager.buildHistoryToken(rootPlace.with(section_key, "introduction"))))
.setUserObject("introduction");
// Phenotypes
TreeItem phenotypes_item =
new TreeItem(
new Hyperlink(
"Phenotypes",
placeManager.buildHistoryToken(rootPlace.with(section_key, "phenotypes"))));
phenotypes_item.setUserObject("phenotypes");
phenotypes_item
.addItem(
new Hyperlink(
"Uploading Phenotypes",
placeManager.buildHistoryToken(
rootPlace.with(section_key, "phenotypes").with(subsection_key, "upload"))))
.setUserObject("phenotypes_upload");
phenotypes_item
.addItem(
new Hyperlink(
"Phenotype Format",
placeManager.buildHistoryToken(
rootPlace.with(section_key, "phenotypes").with(subsection_key, "format"))))
.setUserObject("phenotypes_format");
tree.addItem(phenotypes_item);
// Accessions
TreeItem accession_item =
new TreeItem(
new Hyperlink(
"Accessions",
placeManager.buildHistoryToken(rootPlace.with(section_key, "accessions"))));
accession_item.setUserObject("accessions");
tree.addItem(accession_item);
// Analysis
TreeItem analysis_item =
new TreeItem(
new Hyperlink(
"Analysis",
placeManager.buildHistoryToken(rootPlace.with(section_key, "analysis"))));
analysis_item.setUserObject("analysis");
analysis_item
.addItem(
new Hyperlink(
"Navigation",
placeManager.buildHistoryToken(
rootPlace.with(section_key, "analysis").with(subsection_key, "navigation"))))
.setUserObject("analysis_navigation");
analysis_item
.addItem(
new Hyperlink(
"Phenotypes",
placeManager.buildHistoryToken(
rootPlace.with(section_key, "analysis").with(subsection_key, "phenotypes"))))
.setUserObject("analysis_phenotypes");
analysis_item
.addItem(
new Hyperlink(
"Datasets",
placeManager.buildHistoryToken(
rootPlace.with(section_key, "analysis").with(subsection_key, "datasets"))))
.setUserObject("analysis_datasets");
analysis_item
.addItem(
new Hyperlink(
"Transformations",
placeManager.buildHistoryToken(
rootPlace
.with(section_key, "analysis")
.with(subsection_key, "transformations"))))
.setUserObject("analysis_transformations");
analysis_item
.addItem(
new Hyperlink(
"Results",
placeManager.buildHistoryToken(
rootPlace.with(section_key, "analysis").with(subsection_key, "results"))))
.setUserObject("analysis_results");
tree.addItem(analysis_item);
// Tutorial
/*TreeItem tutorial_item = new TreeItem(new Hyperlink("Tutorial",placeManager.buildHistoryToken(rootPlace.with(section_key, "tutorial"))));
tutorial_item.setUserObject("tutorial");
tutorial_item.addItem(new Hyperlink("1.) Uploading Phenotypes",placeManager.buildHistoryToken(rootPlace.with(section_key, "tutorial").with(subsection_key, "uploading")))).setUserObject("tutorial_uploading");
tutorial_item.addItem(new Hyperlink("2.) Creating subset",placeManager.buildHistoryToken(rootPlace.with(section_key, "tutorial").with(subsection_key, "subset")))).setUserObject("tutorial_subset");
tutorial_item.addItem(new Hyperlink("3.) Changing transformation",placeManager.buildHistoryToken(rootPlace.with(section_key, "tutorial").with(subsection_key, "transformation")))).setUserObject("tutorial_transformation");
tutorial_item.addItem(new Hyperlink("4.) Running GWAS",placeManager.buildHistoryToken(rootPlace.with(section_key, "tutorial").with(subsection_key, "gwas")))).setUserObject("tutorial_gwas");
tutorial_item.addItem(new Hyperlink("5.) Viewing Results",placeManager.buildHistoryToken(rootPlace.with(section_key, "tutorial").with(subsection_key, "results")))).setUserObject("tutorial_results");
tutorial_item.addItem(new Hyperlink("6.) Running Step-Wise GWAS",placeManager.buildHistoryToken(rootPlace.with(section_key, "tutorial").with(subsection_key, "gwas_step")))).setUserObject("tutorial_gwas_step");
tree.addItem(tutorial_item);*/
Iterator<TreeItem> iterator = tree.treeItemIterator();
while (iterator.hasNext()) {
iterator.next().setState(true, false);
}
}
@Override
public void prepareFromRequest(final PlaceRequest request) {
super.prepareFromRequest(request);
fake = Boolean.valueOf(request.getParameter("fake", "false"));
hostIndex = Integer.parseInt(request.getParameter("hostIndex", "0"));
}