[CIG-SHORT] trouble installing v1.8.0 from source

Thu Oct 25 16:25:58 PDT 2012

Romain,

Did you wipe your build directory clean before building the new version?

My general suggestion when updating from one version to another is to 
wipe clean the $PREFIX, build, and source directories before installing. 
Additionally, having multiple versions on your machine can be a problem 
unless you are very careful with environment variables.

Brad

On 10/25/2012 01:11 PM, Romain Jolivet wrote:
> Hi Brad,
>
> Thanks for the new release.
> I am trying to compile it from source. There is a little bug in the configure file, I think: When spatialdata/configure checks the following command:
> python sysconfig.py
> it creates a sysconfig.pyc, that is not removed by the configure, so it crashes when python is called next.
> There is a command `rm -rf sysconfig.py` and I added sysconfig.pyc to it. Is that correct?
>
> Cheers,
>
> Romain
>
> Romain Jolivet
> Postdoctoral Scholar
> Geological and Planetary Sciences
> California Institute of Technology, Pasadena, CA
> rjolivet at caltech.edu
> +1 (626) 560 6356
>
> On Oct 25, 2012, at 12:00 PM, cig-short-request at geodynamics.org wrote:
>
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>> Today's Topics:
>>
>>    1. PyLith 1.8.0 released (Brad Aagaard)
>>
>>
>> ----------------------------------------------------------------------
>>
>> Message: 1
>> Date: Thu, 25 Oct 2012 10:26:26 -0700
>> From: Brad Aagaard <baagaard at usgs.gov>
>> Subject: [CIG-SHORT] PyLith 1.8.0 released
>> To: cig-short at geodynamics.org,	cig-all at geodynamics.org
>> Message-ID: <50897642.8010906 at usgs.gov>
>> Content-Type: text/plain; charset=ISO-8859-1; format=flowed
>>
>> Greetings,
>>
>> I am pleased to announce the release of PyLith 1.8.0, a finite-element
>> code designed to solve dynamic elastic problems and quasi-static
>> viscoelastic problems in tectonic deformation.
>>
>> This release adds estimating the stable time step for explicit time
>> stepping, adds a post-processing utility for computing the moment
>> magnitude and average slip for any fault output snapshot, includes a
>> couple of additional examples of CUBIT meshing techniques, fixes
>> several bugs in PyLith v1.7.1 and corrects some typos in the
>> manual. We strongly recommend all users of previous PyLith releases
>> switch to this latest release.
>>
>> You can download the source code and binaries from
>>
>>      http://geodynamics.org/cig/software/packages/short/pylith
>>
>> Detailed installation instructions for the binary packages are in the
>> User Manual with detailed building instructions for a few platforms in
>> the INSTALL file bundled with the PyLith Installer utility.
>>
>>
>> RELEASE NOTES - PyLith v1.8.0
>>
>> ****************************************************************
>> See the README file for changes required to switch to the v1.8.0 release
>> series from previous versions.
>> ****************************************************************
>>
>> * New features
>>
>>    * Additional flexibility in PETSc nonlinear solver parameters
>>
>>      The default line search type for the PETSc nonlinear (SNES) solver
>>      is a customized backtrace method included in PyLith. The user may
>>      now select alternative line search types (basic, bt, l2, cp)
>>      available in PETSc.
>>
>>    * Post-processing utility pylith_eqinfo to compute slip information.
>>
>>      This post-processing utility computes the moment magnitude,
>>      seismic moment, seismic potency, and average slip at
>>      user-specified snapshots in time from PyLith HDF5 output.
>>      Information is given for each fault and across all faults. See
>>      the Post-processing section of the manual in the Running PyLith
>>      chapter for more information.
>>
>>    * Computation of the stable time step for explicit time-stepping.
>>
>>      The stable time step for explicit time-stepping is computed based
>>      on the CFL condition and minimum edge lengths. For triangular and
>>      tetrahedral cells we also account for a reduction in the stable
>>      time step due to distorted cells (e.g., slivers and needles). See
>>      the Stable time step section in the Materials chapter of the
>>      manual for more information.
>>
>>    * Output the stable time step for each cell in a material.
>>
>>      Output cell_info_fields "stable_dt_implicit" and
>>      "stable_dt_explicit" can be included in material output.
>>
>>    * Added netCDF Python module to binary distribution to provide
>>      Python interface to NetCDF files, including Exodus-II files. This
>>      is used in a new meshing example for setting the discretization
>>      size using an Exodus-II vertex field. Note that this required
>>      updating the NetCDF library.
>>
>>    * New CUBIT meshing examples demonstrating how to merge surfaces and
>>      use and an Exodus-II vertex field to specify the discretization
>>      size.
>>      + examples/meshing/surface_nurbs/merge_surfs
>>      + examples/meshing/cubit_cellsize
>>
>>
>> * Bug fixes
>>
>>    - Fixed omission of synchronization of stable time step computation
>>      among processors. Minimum time step among all processors rather
>>      than local value should be used.
>>
>>    - Fixed density scale not being set in NondimElasticQuasistatic.
>>      Density scale should be set based on shear modulus, length scale,
>>      and relaxation time.
>>
>>    - Added warning when initial state for a fault constitutive model is
>>      not set. If an initial state value is not given, for rate-state
>>      friction using a default value of L / reference slip rate. Other
>>      fault constitutive models use a default value of 0.0 for initial
>>      state variables.
>>
>>    - Separated tensor components in Xdmf files to avoid confusion. The
>>      corresponding HDF5 files remain unchanged.
>>
>>    - Removed explicit time-stepping formulation with non-lumped
>>      Jacobian. This formulation was not setup properly for spontaneous
>>      rupture models and is too computationally expensive for practical
>>      problems. The ExplicitLumped* formulations are now simply Explicit*.
>>
>>    - Fixed parallel bug that resulting in inconsistent orientation of
>>      fault slip directions. Flipping the fault orientation was not
>>      synchronized across processors. This bug would only appear when
>>      running in parallel with faults that change from dipping in one
>>      direction to dipping in the opposite direction.
>>
>>    - Fixed bug in setting name of field in OutputSolnPoints when output
>>      multiple fields. This bug caused the name of the first output
>>      field to be used and output data to overwrite each other.
>>
>>
>>
>> ------------------------------
>>
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>>
>> End of CIG-SHORT Digest, Vol 74, Issue 10
>> *****************************************
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