# Step 6: Error 4 ## Error Message ```{code-block} pyrejournal --- caption: Error message 4 when running Step 6. linenos: True emphasize-lines: 68-69 --- $ pylith step06_twofaults.cfg # Output >> software/pylith-debug/lib/python3.12/site-packages/pylith/apps/PyLithApp.py:76:main -- info (application-flow) -- Running on 1 process(es). >> src/cig/pylith/libsrc/pylith/utils/PetscOptions.cc:251:static void pylith::utils::_PetscOptions::write(pythia::journal::info_t &, const char *, const PetscOptions &) -- info (application-flow) -- Setting PETSc options: dm_reorder_section = true dm_reorder_section_type = cohesive ksp_atol = 1.0e-7 ksp_converged_reason = true ksp_error_if_not_converged = true ksp_gmres_restart = 100 ksp_guess_pod_size = 8 ksp_guess_type = pod ksp_rtol = 1.0e-14 mg_fine_ksp_max_it = 5 mg_fine_pc_type = vpbjacobi pc_type = gamg snes_atol = 5.0e-7 snes_converged_reason = true snes_error_if_not_converged = true snes_monitor = true snes_rtol = 1.0e-14 ts_error_if_step_fails = true ts_exact_final_time = matchstep ts_monitor = true ts_type = beuler viewer_hdf5_collective = true >> src/cig/pylith/libsrc/pylith/meshio/MeshIOPetsc.cc:205:virtual void pylith::meshio::MeshIOPetsc::_read() -- info (application-flow) -- Component 'meshiopetsc.reader': Reading finite-element mesh from 'mesh_tri.msh'. >> src/cig/pylith/libsrc/pylith/meshio/MeshIO.cc:76:void pylith::meshio::MeshIO::read(pylith::topology::Mesh *, const bool) -- info (application-flow) -- Component 'meshiopetsc.reader': Domain bounding box: (-100000, 100000) (-100000, 0) >> src/cig/pylith/libsrc/pylith/initializers/MeshInsertInterfaces.cc:51:virtual pylith::topology::Mesh *pylith::initializers::MeshInsertInterfaces::run(pylith::topology::Mesh *, const pylith::problems::Problem &) -- info (application-flow) -- Inserting cohesive cells. >> src/cig/pylith/libsrc/pylith/problems/TimeDependent.cc:316:virtual void pylith::problems::TimeDependent::verifyConfiguration() const -- info (application-flow) -- Component 'timedependent.problem': Verifying problem configuration. >> software/pylith-debug/lib/python3.12/site-packages/pylith/problems/Problem.py:238:_printInfo -- info (application-flow) -- Scales for nondimensionalization: Length scale: 2500*m Displacement scale: 1*m Time scale: 3.15576e+09*s Rigidity scale: 1e+10*m**-1*kg*s**-2 Temperature scale: 1*K >> src/cig/pylith/libsrc/pylith/problems/TimeDependent.cc:342:virtual void pylith::problems::TimeDependent::initialize() -- info (application-flow) -- Component 'timedependent.problem': Initializing problem. Fatal error. Calling MPI_Abort() to abort PyLith application. Traceback (most recent call last): File "software/pylith-debug/lib/python3.12/site-packages/pylith/apps/PetscApplication.py", line 55, in onComputeNodes self.main(*args, **kwds) File "software/pylith-debug/lib/python3.12/site-packages/pylith/apps/PyLithApp.py", line 85, in main self.problem.initialize() File "software/pylith-debug/lib/python3.12/site-packages/pylith/problems/Problem.py", line 212, in initialize ModuleProblem.initialize(self) File "software/pylith-debug/lib/python3.12/site-packages/pylith/problems/problems.py", line 165, in initialize return _problems.Problem_initialize(self) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ RuntimeError: Error occurred while reading spatial database file 'fault_slip.spatialdb'. Read data for 3 out of 4 points. Error reading coordinates from buffer ''. Abort(-1) on node 0 (rank 0 in comm 0): application called MPI_Abort(MPI_COMM_WORLD, -1) - process 0 software/pylith-debug/bin/nemesis: mpiexec: exit 255 software/pylith-debug/bin/pylith: software/pylith-debug/bin/nemesis: exit 1 ``` ## Troubleshooting Strategy The error message on lines 97-98 indicates there is an error reading the `fault_slip.spatialdb` spatial database for the fault slip. PyLith was able to read data for 3 of 4 points. The file `fault_slip.spatialdb` contains only 3 points but `num-locs` is 4. ## Resolution ```{code-block} cfg --- caption: Correct error in `fault_slip.spatialdb`. --- # Error num-locs = 4 # Correct num-locs = 3 ```