private void Update2DGrid()
{
/// Retrieve mesh names from archive
string meshName2D = VrnReader.Retrieve2DMeshName(VisualInflation, RefinementLevel);
/// Empty 2D grid which stores geometry + mapping data
Grid2D = new Grid(new Mesh(), meshName2D);
Grid2D.Attach(new MappingAttachment());
VrnReader.ReadUGX(meshName2D, ref grid2D);
}
private void UpdateGrid1D()
{
string meshName1D = VrnReader.Retrieve1DMeshName(RefinementLevel);
/// Create empty grid with name of grid in archive
Grid1D = new Grid(new Mesh(), meshName1D);
Grid1D.Attach(new DiameterAttachment());
VrnReader.ReadUGX(meshName1D, ref grid1D);
Neuron = new Neuron(grid1D);
}
static void Main(string[] args)
{
string fileName = "testNew.vrn";
try
{
/// Instantiate the VRN reader with the desired file name
VrnReader reader = new VrnReader(fileName);
/// Get the name of the 1d mesh (0-th refinement aka coarse grid)
Console.WriteLine(reader.Retrieve1DMeshName());
/// Get the name of the inflated 2d mesh by a factor of 2.5
Console.WriteLine(reader.Retrieve2DMeshName(2.5));
}
catch (Exception ex) when(ex is System.IO.FileNotFoundException || ex is System.ArgumentNullException)
{
Console.Error.WriteLine($"Archive not found or unable to open the .vrn archive: {fileName}.");
Console.Error.WriteLine(ex);
}
catch (Exception ex) when(ex is CouldNotReadMeshFromVRNArchive)
{
Console.Error.WriteLine($"Requested mesh not contained in MetaInfo.json or given .vrn archive {fileName}.");
Console.Error.WriteLine(ex);
}
}
public void PreviewCell(string vrnFileName, Color32 color)
{
if (vrnFileName == "null")
{
Debug.LogError("Null cell given to NeuronCellPreview");
if (fileNameDisplay != null)
{
fileNameDisplay.text = "null";
}
return;
}
char sl = Path.DirectorySeparatorChar;
if (!vrnFileName.EndsWith(".vrn"))
{
vrnFileName = vrnFileName + ".vrn";
}
vrnReader = new VrnReader(Application.streamingAssetsPath + sl + "NeuronalDynamics" + sl + "Geometries" + sl + vrnFileName);
refinements = vrnReader.ListRefinements();
string meshName1D = vrnReader.Retrieve1DMeshName(refinement);
/// Create empty grid with name of grid in archive
Grid grid = new Grid(new Mesh(), meshName1D);
grid.Attach(new DiameterAttachment());
// Read the cell
vrnReader.ReadUGX(meshName1D, ref grid);
// Scale the parent object by 1 / max scale to make the cell fit within size (1,1,1)
float scale = 1 / Math.Max(grid.Mesh.bounds.size);
transform.localScale = new Vector3(scale, scale, scale);
// Adjust center so cell mesh is centered at (0,0,0)
transform.localPosition = -scale * grid.Mesh.bounds.center;
if (lines != null)
{
Destroy(lines);
lines = null;
}
// Render cells
lines = gameObject.AddComponent <LinesRenderer>();
// (line width = scale)
//lines.Draw(grid, color, 3*scale);
lines.Draw(grid, color, 0.005f);
// Displays file name without file extension
if (fileNameDisplay != null)
{
fileNameDisplay.text = vrnFileName.Remove(vrnFileName.LastIndexOf('.'));
}
FillLabels();
void FillLabels()
{
// Draw scale labels
Vector3 cellSize = grid.Mesh.bounds.size;
if (sizeLabel != null)
{
sizeLabel.text =
"Size: ("
+ cellSize.x.ToString() + ", "
+ cellSize.y.ToString() + ", "
+ cellSize.z.ToString() + " " + LengthScale + ")";
}
bool shouldWarn = grid.Mesh.vertexCount > 8000;
Color warnColor = new Color(1, 100f / 255f, 0, 1);
if (vertLabel != null)
{
vertLabel.text = "Vertices: " + grid.Mesh.vertexCount;
vertLabel.color = shouldWarn ? warnColor : Color.white;
}
if (cellSizeWarning != null)
{
cellSizeWarning.SetActive(shouldWarn);
}
VrnReader.MetaInfo metaInfo = (VrnReader.MetaInfo)vrnReader.GetMetaInfo();
string species = "Missing";
string strain = "Missing";
string archive = "Missing";
// If the metainfo object exists
if (!metaInfo.Equals(default(VrnReader.MetaInfo)))
{
// If the information given is not empty, retrieve it
if (!metaInfo.SPECIES.Equals(string.Empty))
{
species = metaInfo.SPECIES;
}
if (!metaInfo.STRAIN.Equals(string.Empty))
{
strain = metaInfo.STRAIN;
}
if (!metaInfo.ARCHIVE.Equals(string.Empty))
{
archive = metaInfo.ARCHIVE;
}
}
// Capitalizes the first letter of each label
species = char.ToUpper(species[0]) + species.Substring(1).ToLower();
strain = char.ToUpper(strain[0]) + strain.Substring(1).ToLower();
archive = char.ToUpper(archive[0]) + archive.Substring(1).ToLower();
if (speciesLabel != null)
{
speciesLabel.text = "Species: " + species;
}
if (strainLabel != null)
{
strainLabel.text = "Strain: " + strain;
}
if (archiveLabel != null)
{
archiveLabel.text = "Archive: " + archive;
}
}
}
