/**
* Method for load tree
* Status: OK
* Note: if you add a new treeLoader, update the switch...
*/
public void LoadTree(string path, TreeType treeType = TreeType.StockTechTree)
{
ResetTree();
if (_treeData == null)
{
return;
}
var parser = new Parser();
_config = parser.ParseConfig(path);
switch (treeType)
{
case TreeType.StockTechTree:
_treeLoader = new StockTechTreeLoader();
break;
case TreeType.YongeTech:
_treeLoader = new YongeTechTreeLoader();
break;
default:
throw new Exception("The techtree's file format is not reconized !");
}
_treeLoader.LoadTree(_config, _treeData);
_treeData.LinkNodes();
_treeData.WorkspaceViewModel.StatusBarText = "Tree Loaded";
}
private void RoleForm_Load(object sender, EventArgs e)
{
this.tvRole.Nodes.Clear();
TreeNode node = new TreeNode("角色");
this.tvRole.Nodes.Add(node);
this.tvRolePerm.Nodes.Clear();
this.InitRoleTree();
if (node.Nodes.Count > 0)
{
TreeLoader.Load(this.tvRolePerm, this, "/Aisino/Menu", true);
if (UserInfo.IsAdmin)
{
this.hasNewPermit = true;
this.hasUpdPermit = true;
this.hasDelPermint = true;
}
else
{
if (UserInfo.Gnqx != null)
{
this.funcIdList = UserInfo.Gnqx;
}
foreach (TreeNode node2 in this.tvRolePerm.Nodes)
{
this.RemoveUnPermNodes(node2);
}
this.ChangeRoleBtnState();
}
this.tvRole.SelectedNode = node.Nodes[0];
}
}
private void NewRoleForm_Load(object sender, EventArgs e)
{
this.tvFunc.Nodes.Clear();
TreeLoader.Load(this.tvFunc, this, "/Aisino/Menu", true);
foreach (TreeNode node in this.tvFunc.Nodes)
{
if (node.Text == "系统维护")
{
foreach (TreeNode node2 in node.Nodes)
{
if (node2.Text == "用户权限设置")
{
this.tvFunc.Nodes.Remove(node2);
break;
}
}
}
}
if (!UserInfo.IsAdmin)
{
if (UserInfo.Gnqx != null)
{
this.funcIdList = UserInfo.Gnqx;
}
foreach (TreeNode node3 in this.tvFunc.Nodes)
{
this.RemoveUnPermNodes(node3);
}
}
this.tvFunc.ExpandAll();
}
/**
* Parse file and render buildings when scene starts
*/
private void Start()
{
Caching.ClearCache();
//hide and lock cursor into center
UiUtils.HideCursor();
TutorialUtils.InitTutorial(TutorialCanvas, Settings);
BuildingPickerCanvas.SetActive(false);
ExitCanvasDialog.SetActive(false);
//load XML file tags
var xmlFile = new XmlDocument();
//load file
xmlFile.Load(FileUtils.GetFullMapPath(Map.MapName));
//get node and way tags
var nodeTags = xmlFile.SelectNodes(".//node");
var wayTags = xmlFile.SelectNodes(".//way");
//cache IDs in node tag for coordinate pairing
var nodeTagIds = CacheNodeTagIds(nodeTags);
//parse building and roads
var buildings = BuildingLoader.Get().LoadFile(nodeTags, nodeTagIds, wayTags);
var roads = RoadLoader.Get().LoadFile(nodeTags, nodeTagIds, wayTags);
var trees = TreeLoader.Get().LoadFile();
var mapMiddlePoint = GetMiddlePoint(buildings, roads);
//download elevation data
AltitudeLoader.Get().SetAltitude(TerrainUtils.GetLatLngGrid(mapMiddlePoint));
//render terrain, buildings, roads etc.
StartCoroutine(RenderObjects(mapMiddlePoint, buildings, roads, trees));
}
private void method_8()
{
FormSplashHelper.MsgWait("正在准备系统主界面...");
base.WindowState = FormWindowState.Maximized;
Rectangle rectangle = PropertyUtil.GetRectangle("Site", new Rectangle(10, 10, base.Width, base.Height));
rectangle.X = (rectangle.X < 100) ? 0 : rectangle.X;
rectangle.Y = (rectangle.Y < 100) ? 0 : rectangle.Y;
base.StartPosition = FormStartPosition.Manual;
base.Bounds = rectangle;
base.FormClosing += new FormClosingEventHandler(this.NormalMainForm_FormClosing);
this.navigatePage_0 = new NavigatePage();
this.navigatePage_0.Dock = DockStyle.Left;
base.Controls.Add(this.navigatePage_0);
TreeLoader.Load(this.navigatePage_0, this.dockPanel1, "/Aisino/Tree", false);
this.navigateToolScrip_0 = new NavigateToolScrip();
this.navigateToolScrip_0.Dock = DockStyle.Top;
base.Controls.Add(this.navigateToolScrip_0);
this.navigateToolScrip_0.Load(this.method_9("1"), this.navigatePage_0.Nodes);
this.navigateToolScrip_0.ItemAdd += new EventHandler(this.navigateToolScrip_0_ItemAdd);
this.contextMenuStrip_0 = new ContextMenuStrip();
MenuLoader.Load(this.contextMenuStrip_0.Items, this.dockPanel1, "/Aisino/Menu");
if (this.contextMenuStrip_0.Items.Count > 0)
{
base._menu = this.contextMenuStrip_0;
}
base.Controls.Add(base.statusStrip1);
FormSplashHelper.MsgWait();
}
public DockOutLookBar(object object_0)
{
this.InitializeComponent_1();
this.BackColor = Color.FromArgb(0xf3, 0xf3, 0xf3);
TreeLoader.Load(this.outlookBar1, object_0, "/Aisino/Tree", false);
this.bool_0 = this.outlookBar1.Nodes.Count > 0;
}
public JsonResult GetChildrenCount(string typeName, int?id, bool plus)
{
if (typeName == "root")
{
return(Json((plus ? 1 : -1) * TreeLoader.CalculateDescendants(BSUIR), JsonRequestBehavior.AllowGet));
}
return(Json((plus ? 1 : -1) * TreeLoader.GetNumberOfDescendants(typeName, (int)id, rep), JsonRequestBehavior.AllowGet));
}
public void TreeLoad()
{
this.lastTree1.Nodes.Clear();
TreeLoader.Load(this.lastTree1, this, "/Aisino/Tree", false);
for (int i = this.lastTree1.Nodes.Count; i > 0; i--)
{
this.NodeEx(this.lastTree1.Nodes[i - 1]);
}
}
public JsonResult GetChildren(string typeName, int?id)
{
if (typeName == "root")
{
return(Json(TreeLoader.GetNodeInfo(BSUIR), JsonRequestBehavior.AllowGet));
}
object wanted = TreeLoader.GetNodeInfo(typeName, (int)id, rep);
return(Json(wanted, JsonRequestBehavior.AllowGet));
}
public static MvcHtmlString DisciplinesTreeFor <TModel>(
this HtmlHelper <TModel> html,
string collectionName,
IEnumerable <DisciplineViewModel> all,
IEnumerable <DisciplineViewModel> selected = null)
{
var treeLoader = new TreeLoader <int, DisciplineViewModel>(
x => x.Id,
x => x.ParentId);
var treeBuilder = new DisciplinesCheckboxesTreeBuilder(
collectionName,
selected);
return(treeBuilder.BuildHtmlTree(treeLoader.Load(all)));
}
public void LoadTree(int index)
{
DisableWorldError();
TreeLoader.LoadTree(index);
if (TreeLoader.CurrentTree != null)
{
TreeBuilder.Instance.BuildTree(TreeLoader.CurrentTree);
}
else //it's all gone horribly wrong - the newick parser has failed to parse the tree
{
GameManager.DebugLog("Tree loading failed");
TreeBuilder.Instance.ResetTreeContainer();
ShowWorldError(NewickParser.ErrorMessage);
}
}
void Start()
{
worldErrorText = worldErrorPanel.GetComponentInChildren <Text>();
DisableWorldError();
TreeLoader._init();
if (TreeLoader.CurrentTree != null)
{
TreeBuilder.Instance.BuildTree(TreeLoader.CurrentTree);
}
else //it's all gone horribly wrong - the newick parser has failed to parse the tree
{
GameManager.DebugLog("Tree loading failed");
ShowWorldError(NewickParser.ErrorMessage);
}
}
private void tvRole_AfterSelect(object sender, TreeViewEventArgs e)
{
TreeNode selectedNode = this.tvRole.SelectedNode;
if (selectedNode.Tag is Role)
{
Role tag = (Role)selectedNode.Tag;
if (tag.Name != "管理员")
{
this.tsbtnUpdRole.Enabled = true;
this.tsbtnDelRole.Enabled = true;
foreach (TreeNode node2 in this.tvRolePerm.Nodes)
{
if (node2.Text == "系统维护")
{
foreach (TreeNode node3 in node2.Nodes)
{
if (node3.Text == "用户权限设置")
{
this.tvRolePerm.Nodes.Remove(node3);
break;
}
}
}
}
}
else
{
this.tsbtnUpdRole.Enabled = false;
this.tsbtnDelRole.Enabled = false;
this.tvRolePerm.Nodes.Clear();
TreeLoader.Load(this.tvRolePerm, this, "/Aisino/Menu", true);
}
this.FillRoleInfo((Role)selectedNode.Tag);
this.CollapseUncheckedNodes();
}
}
public static void RunTests()
{
Dictionary <string, Sequence> loadedGenomes = new Dictionary <string, Sequence>();
System.IO.StreamWriter sw = new System.IO.StreamWriter("FailedTests.txt");
sw.WriteLine("Haplogroup\tAccession\tReasonFailed\tInGenbankNotHaplogrep\tInHaplogrepNotGenbank");
//First to load up the accession numbers
string fileName = "PhyloTreeSequences.fasta.gz";
FastAZippedParser fap = new FastAZippedParser(fileName);
foreach (var seq in fap.Parse())
{
var accession = seq.ID.Split('|')[3];
loadedGenomes[accession] = seq as Sequence;
if (accession.Contains('.'))
{
loadedGenomes[accession.Split('.')[0]] = seq as Sequence;
}
}
//now to grab all the trees
//var tree = TreeLoader.LoadTree(CONSTANTS.TREE_XML_FILE);
var tree = TreeLoader.LoadTree();
int FailedTests = 0;
int PassedTests = 0;
int AmbiguousFail = 0;
int SharedPolys = 0;
int UnSharedPolys = 0;
HashSet <int> BadPositions = new HashSet <int>();
foreach (var node in tree.GetAllChildren())
{
//if (node.haplogroup.id != "J1c3g")
//{ continue; }
try
{
//ignore empty and thousand genomes
if (!String.IsNullOrEmpty(node.haplogroup.AccessionId) &&
!node.haplogroup.AccessionId.StartsWith("NA") &&
!node.haplogroup.AccessionId.StartsWith("HG"))
{
var id = node.haplogroup.AccessionId;
if (id == "NC_012920")
{
continue;
}
var seq = loadedGenomes[id];
if (seq.Alphabet.HasAmbiguity)
{
//sw.WriteLine(node.haplogroup.id + "\t" + node.haplogroup.AccessionId + "\tAmbiguousSequence");
AmbiguousFail++;
continue;
}
//now check for differences
var origfoundPolys = NewSearchMethods.GenomeToHaploGrepConverter.FindPolymorphisms(seq).Where(x => !CONSTANTS.EXCLUDED_POSITIONS.Contains(x.position)).ToList();
var currentPolys = node.Mutations.ToList();//copy
List <Polymorphism> removeLater = new List <Polymorphism>();
var foundPolys = origfoundPolys.ToList();
foreach (var poly in origfoundPolys)
{
if (currentPolys.Contains(poly))
{
SharedPolys++; currentPolys.Remove(poly); foundPolys.Remove(poly);
}
}
currentPolys.Sort((x, y) => x.position.CompareTo(y.position));
currentPolys = CONSTANTS.CommonPolymorphismFilter(currentPolys).ToList();
foundPolys = CONSTANTS.CommonPolymorphismFilter(foundPolys).ToList();
if (currentPolys.Count > 0)// || foundPolys.Count > 0)
{
UnSharedPolys += currentPolys.Count + foundPolys.Count;
sw.WriteLine(node.haplogroup.id
+ "\t" + node.haplogroup.AccessionId
+ "\tMismatchedPolymorphisms"
+ "\t" + String.Join("-", foundPolys.Select(x => (object)x).ToArray())
+ "\t" + String.Join("-", currentPolys.Select(x => (object)x).ToArray())
);
FailedTests++;
foreach (var v in foundPolys)
{
BadPositions.Add(v.position);
}
foreach (var v in currentPolys)
{
BadPositions.Add(v.position);
}
}
else
{
PassedTests++;
}
}
}
catch (Exception thrown)
{
sw.WriteLine(node.haplogroup.id
+ "\t" + node.haplogroup.AccessionId
+ "\t" + thrown.Message);
}
}
sw.Close();
sw = new System.IO.StreamWriter("TestReport.txt");
sw.WriteLine("Failed Tests\t" + FailedTests.ToString());
sw.WriteLine("Passed Tests\t" + PassedTests.ToString());
sw.WriteLine("Ambiguous Sequences\t" + AmbiguousFail.ToString());
sw.WriteLine("Polymorphisms overlapping between genbank and haplogrep\t" + SharedPolys.ToString());
sw.WriteLine("Not Overlapping\t" + UnSharedPolys.ToString());
sw.WriteLine("Total Discordant Positions\t" + BadPositions.Count.ToString());
sw.WriteLine("Bad Position Listing");
var bps = BadPositions.ToList();
bps.Sort();
foreach (var bp in bps)
{
sw.WriteLine(bp.ToString());
}
sw.Close();
}
public void TreeLoad()
{
this.lastTree1.Nodes.Clear();
TreeLoader.Load(this.lastTree1, this, "/Aisino/Tree", false);
}
public DockToolForm(object object_0)
{
this.InitializeComponent_1();
TreeLoader.Load(this.TreeView1, object_0, "/Aisino/Tree", false);
this.bool_0 = this.TreeView1.Nodes.Count > 0;
}
public HaplotypeSearcher()
{
treeRoot = TreeLoader.LoadTree(); //CONSTANTS.TREE_XML_FILE);
var skipped = HaploSearchManager.SetPhylogeneticWeights(); //CONSTANTS.WEIGHT_FILE);
}
internal void method_3(object object_0)
{
this.TreeView1.Nodes.Clear();
TreeLoader.Load(this.TreeView1, object_0, "/Aisino/Tree", false);
this.bool_0 = this.TreeView1.Nodes.Count > 0;
}
