Fix an issue and starting to read information from .vtu initial files

For some reason the connectivity for collision meshes was not being
properly assigned.

Also, the first subroutine to read information from .vtu files as
initial states has been added.
It is currently giving wrong results.

src/modules/mesh/inout/vtu/moduleMeshInputVTU.f90

@@ -508,6 +508,44 @@ MODULE moduleMeshInputVTU
       REAL(8), ALLOCATABLE, INTENT(out), DIMENSION(:):: density
       REAL(8), ALLOCATABLE, INTENT(out), DIMENSION(:,:):: velocity
       REAL(8), ALLOCATABLE, INTENT(out), DIMENSION(:):: temperature
+      INTEGER:: fileID
+      CHARACTER(:), ALLOCATABLE:: line
+      INTEGER:: numNodes
+      REAL(8), ALLOCATABLE:: velocityBlock(:)
+      INTEGER:: n
+
+      fileID = 10
+
+      OPEN(fileID, file = TRIM(filename))
+
+      line = findLine(fileID, '<Piece')
+      CALL getValueFromLine(line, 'NumberOfPoints', numNodes)
+
+      !Read the species density
+      line = findLine(fileID, 'Name="Density')
+      ALLOCATE(density(1:numNodes))
+      CALL readDataBlock(fileID, numNodes, density)
+      REWIND(fileID)
+
+      !Read the species velocity
+      line = findLine(fileID, 'Name="Velocity')
+      ALLOCATE(velocityBlock(1:3*numNodes))
+      CALL readDataBlock(fileID, numNodes, velocityBlock)
+      ALLOCATE(velocity(1:numNodes, 1:3))
+      DO n = 1, numNodes
+        velocity(n, 1) = velocityBlock(3*(n-1)+1)
+        velocity(n, 2) = velocityBlock(3*(n-1)+2)
+        velocity(n, 3) = velocityBlock(3*(n-1)+3)
+
+      END DO
+      DEALLOCATE(velocityBlock)
+      REWIND(fileID)
+
+      !Read the species temperature
+      line = findLine(fileID, 'Name="Temperature')
+      ALLOCATE(temperature(1:numNodes))
+      CALL readDataBlock(fileID, numNodes, temperature)
+      REWIND(fileID)
 
     END SUBROUTINE readInitialVTU