Change-Id: I16387bcb7a1f5198f5394a203a0345332740a147

Combine PhyloXML reader & writer tests into a single test,
and make it more thorough.

Change-Id: Ibb32ece7de203269a8508cb06eee91d94706f197

This class allows us to read a PhyloXML file to generate a
vtkTree.  This commit also contains corresponding change to
vtkPhyloXMLTreeWriter.

Change-Id: Idd7a7a997e24f0c751ee51ee8e2e9eb4c9c05c7a

Extend this class so that it can read from either a file or a
string.

Change-Id: Ida093f0c4c44896ed59da96b8950e7ffa2b6351b

The STL format only supports triangles and previously, it just truncated
polygons silently. Cause an error to occur when this happens so that
users know.

Change-Id: I9c2f96d887074943130a8442d6796cb0c2ce1bbf

The PhyloXML specification indicates that references should
match the following regular expression pattern:

[a-zA-Z0-9_]+:[a-zA-Z0-9_\.\-\s]+

In order to do so, we now prepend "VTK:" to the beginning of the
array name.

Change-Id: Ie898e19dc10ec6edd2b67a5b493f55521e15c63d

A test failure was introduced by the commit "BUG: fix some xdmf writer crashes".
This new patch reverts the change which caused the failure.

Change-Id: Ifbb3a68b14f0c5a5cd390fc68d9a50668ca60ac8

subclasses of vtkXMLWriter should now call OpenStream & CloseStream
as opposed to OpenFile & CloseFile.

Change-Id: I39ccdc711d07e96763fc941b5fcd80b1da6b38c5

This commit enables vtkXMLWriter and its subclasses to write
their output to a string instead of a file.

Change-Id: Idff93039f9536379e3ef9abad6ea4ce18b4f2a60

The point and cell arrays were being enabled/disabled after they
were supposed to which resulted in potentially having the wrong
arrays read in.

Change-Id: Ic0435bcf6447260fe76ddc32b47719d7262fca44

This is an improvement over our previous approach of constructing
the path to the baseilne file from the testing directory.

Change-Id: I2dc0e1354c381ff770475ff2ab7f561b0122e582

Forgot to add the new Baseline directory for IO/Infovis tests.
Hopefully this fixes my failing TestPhyloXMLTreeWriter test.

Change-Id: I153e3b280b27888122d2c09d4eddc18362e6382d

This test now compares its output against a baseline .xml file.

Change-Id: I1e612a1375fc933947228cfa03f16a27aab3bca4

If the number of points, cells or blocks change from one time step to the next,
report an error. We modified the writer to suport temporal files with
changing topology, however the reader does not yet supports it.

Change-Id: Icf7528cf3507094658dbfa8076c670f396aa6989

Thanks to Michael Stephens for the report and fix.

Change-Id: Ibe68819a81b011d3e3b0d8fefc2bc122834e8602

Also added associated data.

Change-Id: I29de59dabf130855aff68c73ff50bf6f35048b56

Was not skipping bar3 elements properly. Also removed
warnings that were no longer necessary. This reader now
supports higher order elements.

Change-Id: I9f89100d2a67fb704cdc59900d2fce16e7349c0f

The piece writers should have the same options as was
specified for the parallel writers. SetDebug was also
added though it doesn't affect the file output to behave
the same as the vtkXMLMultiBlockDataWriter.

Change-Id: Icaafd4b5f9811a6b9058eeb4e1c0e2e8fc4a5e38

Change-Id: I9661715be9fee31060c1959d4044c953d3d88185

Change-Id: Icbbe361e127a0cd62cdcd2f5321412fb230981f9

Change-Id: I4b481b2882a781fa4707805798baedee90961732

Removed a number of unused functions in Exodus metadata to
improve coverage.

Change-Id: I943d33799e9cbf45ad8a2e60826afde090b05308

- Sets the number of output ports to 0, which avoid an error message in
  Paraview because the writer is used in a pipeline.
- Manages a potential null pointer, avoiding a crash which occurs when the
  user unchecks some blocks in Paraview for instance.

Change-Id: I09c69bc6ac715bcb4297df4e2a012514a7817c57

Change-Id: I7d5f3a67cacf4f846efaac3f9782b97bf6294a1b

This new class allows us to output vtkTrees in the PhyloXML format.

Change-Id: I9d4f0baaea6c0eba4ebb92730777473cf7b67ecf

Tests that do not have baseline images for regression testing must use
the NO_VALID modifier to avoid cmake warnings.

Change-Id: I083e48e4f5cceecc0a26146513b4581360dc76f0

Change-Id: I5e24031296162087ff20f34c0152d3c0949939ea

Modularized TestDataObjectIO to reduce test dependencies.

Change-Id: I86bab1c09847a7adc100a2d2429c5f455e70cda1

As part of this topic, refactored TestDataObjectIO to remove
dependencies outside of IO/Geometry.

Change-Id: Icb94df4c3d4c330c36fcfb7c3f8cf6a479ec3a59

This allow user to dump an Image dataset into a JSON format.

Change-Id: I96d41f37c5bad8a8c3ff3f815ad6a39cb6c6490f

Also made some const correctness improvements,
which cascaded to clients of this class.

Other misc cleanup too.

Change-Id: Ic7688a12949a9b8cc752afb957e13317e50ba085

Thanks Vadim Roytershtey and Homa Karimabadi for the test data set.
Test only enabled with VTK_USE_LARGE_DATA = ON

Change-Id: Ic04681dbffcc57ed27377ca5f3cae015249a7308

Change-Id: Ia8fb1aeddb10ddf4106549d5f01fbdd79eecf764

Exodus readers and writers no longer support packing and unpacking
of model meta data so I removed all of the unnecessary code.

Change-Id: Iae190a9d5ca7b10ab128728a60918602bf809ed1

The arrays added to the EdgeData and VertexData of the newly
created tree were one tuple larger than they should have been.

Change-Id: I4a33585a98f274ecfeb69c66ced5244a895f6fad

Removed priority based streaming and fast path codes in
preparation for future refactoring. These were polluting core
classes despite having a small user base. In the future, they
may be refactored into the appropriate subclasses and "plugins".

Change-Id: I54562546688c6de468b0068e9b6c65e49c5ec269

Change-Id: I3ec6343e8a510be8bb6dd1bf204ec9c6d678d038

Change-Id: Ie12cce088a6ed29f8c73a39587610db2cdf2e3ee

Change-Id: Ib5f0adc17054a3a4c490bd45c980b7c8d2de932a

Change-Id: I080c1c230f9ded9e4eff76c4dd292cf8fb49682a