[CIG-SHORT] Save pylith results only to H5 files

[Brad Aagaard]

Francisco,

If you are still getting VTK files, then I suspect that they are for 
another part of the domain (e.g., the fault). You may want to use the 
pylithinfo utility to see what other output managers exist with your 
parameters.

pylithinfo [--verbose] [-o pylith parameters.txt] [PyLith args]

example: pylithinfo --verbose step01.cfg
Output will be in pylith_parameters.txt


Regards,
Brad

On 10/25/2016 11:04 AM, Francisco Delgado wrote:
> Hi Brad, thanks for your help. Right now my code to save the h5 file is
> [pylithapp.problem.formulation]
> output = [subdomain]
> output.subdomain = pylith.meshio.OutputSolnSubset
>
> [pylithapp.problem.formulation.output.subdomain]
> writer = pylith.meshio.DataWriterHDF5
> label = face_pos #surface
> vertex_data_fields = [displacement]
> writer.filename = surface.h5
>
> but it still save the vtk files. Is there something else I'm missing??
>
> Thanks
>
> On Tue, Oct 25, 2016 at 12:39 PM, Brad Aagaard <baagaard at usgs.gov
> <mailto:baagaard at usgs.gov>> wrote:
>
>     Francisco,
>
>     I don't know what you mean by "the following do not turn off the vtk
>     writer for the rest of the faces". Both sets of parameters yout
>     listed refer to the same component:
>     pylithapp.problem.formulation.output.subdomain. As a result, the
>     second set will override the first set of parameters.
>
>     The error message you are getting suggests there is something wrong
>     with line 109 in the file visco_shell.cfg. The error message seems
>     to indicate that line 109 is missing a leading square bracket [. The
>     parameters you listed do have the square bracket but I don't know
>     which line corresponds to line 109.
>
>     If you are trying to turn off output for the entire domain while
>     keeping output over the ground surface, then use:
>
>     [pylithapp.problem.formulation]
>     output = [subdomain]
>     output.subdomain = pylith.meshio.OutputSolnSubset
>
>     [pylithapp.problem.formulation.output.subdomain]
>     writer = pylith.meshio.DataWriterHDF5
>     label = face_zpos
>     vertex_data_fields = [displacement]
>     writer.filename = surface.h5
>
>
>     This sets the array of output managers for the solution to an array
>     with one item: subdomain. We then set the output manager called
>     'subdomain' to the output manager corresponding to a subset of the
>     solution (pylith.meshio.OutputSolnSubset). As a result, there will
>     not be output over the domain.
>
>     Regards,
>     Brad
>
>
>
>
>     On 10/25/2016 09:15 AM, Francisco Delgado wrote:
>
>         Dear Pylith developers
>
>         Some months ago I asked about how can I turn off the VTK writer
>         and use
>         only the H5 one. The following lines work to save the ground
>         displacements in a h5 file
>
>         # Surface
>         [pylithapp.problem.formulation.output.subdomain]
>         writer = pylith.meshio.DataWriterHDF5
>         label = face_zpos
>         vertex_data_fields = [displacement]
>         writer.filename = surface.h5
>
>         but the following do not turn off the vtk writer for the rest of
>         the faces
>
>         [pylithapp.problem.formulation.output.subdomain]
>         writer = pylith.meshio.DataWriterVTK
>         label = face_res
>         vertex_info_fields = []
>         vertex_data_fields = []
>         cell_info_fields = []
>         cell_data_fields = []
>
>         as they output the following error
>
>         * >> {command line}::*
>
>         * >> pyre.inventory(error)*
>
>         * -- File contains parsing errors: visco_shell.cfg*
>
>         *[line 109]: 'pylithapp.problem.formulation.output.subdomain]\n'*
>
>         *pylithapp: configuration error(s)*
>
>
>
>         How can I solve this issue??
>
>         Thanks
>
>         --
>         --------------------------------------------------------
>         Francisco Delgado
>         PhD student in Geological Sciences
>         Cornell University
>
>
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>
>
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>
>
>
> --
> --------------------------------------------------------
> Francisco Delgado
> PhD student in Geological Sciences
> Cornell University
>
>
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