waning: Slice ID NOT given, we use 1 as default.
singularity -s exec /home/meisel/dgr/container/images/ogs-dgr_latest.sif
Results will be saved to Ton_Nord_1_simH_1
======= dos2unix =========
=== GocadTSurfaceReader ===
[2021-04-21 09:56:51.863] [ogs] [info] Parsing surface 00_KB.
[2021-04-21 09:56:51.870] [ogs] [info] Parsing surface 17_z.
[2021-04-21 09:56:51.877] [ogs] [info] Parsing surface 06_krh.
[2021-04-21 09:56:51.884] [ogs] [info] Parsing surface 15_so+m.
[2021-04-21 09:56:51.891] [ogs] [info] Parsing surface 07_krv.
[2021-04-21 09:56:51.898] [ogs] [info] Parsing surface 04_krp.
[2021-04-21 09:56:51.905] [ogs] [info] Parsing surface 13_S1.
[2021-04-21 09:56:51.912] [ogs] [info] Parsing surface 10_jm.
[2021-04-21 09:56:51.919] [ogs] [info] Parsing surface 03_S3.
[2021-04-21 09:56:51.926] [ogs] [info] Parsing surface 11_S2.
[2021-04-21 09:56:51.933] [ogs] [info] Parsing surface 02_krl.
[2021-04-21 09:56:51.940] [ogs] [info] Parsing surface 16_su+sm.
[2021-04-21 09:56:51.947] [ogs] [info] Parsing surface 09_jo.
[2021-04-21 09:56:51.954] [ogs] [info] Parsing surface 14_k.
[2021-04-21 09:56:51.961] [ogs] [info] Parsing surface 12_ju.
[2021-04-21 09:56:51.968] [ogs] [info] Parsing surface 08_wd.
[2021-04-21 09:56:51.975] [ogs] [info] Parsing surface 01_q.
[2021-04-21 09:56:51.982] [ogs] [info] Parsing surface 05_krb.
[2021-04-21 09:56:51.989] [ogs] [info] 18 meshes found.
[2021-04-21 09:56:51.989] [ogs] [info] Writing mesh "00_KB"
[2021-04-21 09:56:52.005] [ogs] [info] Writing mesh "17_z"
[2021-04-21 09:56:52.012] [ogs] [info] Writing mesh "06_krh"
[2021-04-21 09:56:52.024] [ogs] [info] Writing mesh "15_so+m"
[2021-04-21 09:56:52.035] [ogs] [info] Writing mesh "07_krv"
[2021-04-21 09:56:52.045] [ogs] [info] Writing mesh "04_krp"
[2021-04-21 09:56:52.053] [ogs] [info] Writing mesh "13_S1"
[2021-04-21 09:56:52.060] [ogs] [info] Writing mesh "10_jm"
[2021-04-21 09:56:52.069] [ogs] [info] Writing mesh "03_S3"
[2021-04-21 09:56:52.076] [ogs] [info] Writing mesh "11_S2"
[2021-04-21 09:56:52.084] [ogs] [info] Writing mesh "02_krl"
[2021-04-21 09:56:52.092] [ogs] [info] Writing mesh "16_su+sm"
[2021-04-21 09:56:52.103] [ogs] [info] Writing mesh "09_jo"
[2021-04-21 09:56:52.112] [ogs] [info] Writing mesh "14_k"
[2021-04-21 09:56:52.120] [ogs] [info] Writing mesh "12_ju"
[2021-04-21 09:56:52.127] [ogs] [info] Writing mesh "08_wd"
[2021-04-21 09:56:52.136] [ogs] [info] Writing mesh "01_q"
[2021-04-21 09:56:52.145] [ogs] [info] Writing mesh "05_krb"
= VerticalSliceFromLayers =
[2021-04-21 09:56:52.768] [ogs] [info] XmlGmlInterface::write(): Surface vector is empty, no surfaces written to file.
[2021-04-21 09:56:52.780] [ogs] [info] Hashfile does not match data ... checking file ...
[2021-04-21 09:56:52.871] [ogs] [info] File is valid, hashfile written.
Error   : Unknown number option 'General.NativeFileChooser'
Info    : Running 'gmsh -2 -algo meshadapt testslice.geo -o testslice.msh -format msh22' [Gmsh 4.4.1, 1 node, max. 1 thread]
Info    : Started on Wed Apr 21 09:56:53 2021
Info    : Reading 'testslice.geo'...
Info    : Done reading 'testslice.geo'
Info    : Meshing 1D...
Info    : Meshing curve 1/2448 (Line)
Info    : Meshing curve 1001/2448 (Line)
Info    : Meshing curve 2001/2448 (Line)
Info    : Done meshing 1D (0.116051 s)
Info    : Meshing 2D...
Info    : Meshing surface 0 (Plane, MeshAdapt)
Info    : Meshing surface 1 (Plane, MeshAdapt)
Info    : Meshing surface 2 (Plane, MeshAdapt)
Info    : Meshing surface 3 (Plane, MeshAdapt)
Info    : Meshing surface 4 (Plane, MeshAdapt)
Info    : Meshing surface 5 (Plane, MeshAdapt)
Info    : Meshing surface 6 (Plane, MeshAdapt)
Info    : Meshing surface 7 (Plane, MeshAdapt)
Info    : Meshing surface 8 (Plane, MeshAdapt)
Info    : Meshing surface 9 (Plane, MeshAdapt)
Info    : Meshing surface 10 (Plane, MeshAdapt)
Info    : Meshing surface 11 (Plane, MeshAdapt)
Info    : Meshing surface 12 (Plane, MeshAdapt)
Info    : Meshing surface 13 (Plane, MeshAdapt)
Info    : Meshing surface 14 (Plane, MeshAdapt)
Info    : Meshing surface 15 (Plane, MeshAdapt)
Info    : Meshing surface 16 (Plane, MeshAdapt)
Info    : Done meshing 2D (0.427131 s)
Info    : 2400 vertices 8366 elements
Info    : Writing 'testslice.msh'...
Info    : Done writing 'testslice.msh'
Info    : Stopped on Wed Apr 21 09:56:54 2021
[2021-04-21 09:56:54.145] [ogs] [error] Execution of gmsh command returned non-zero status, %d
[2021-04-21 09:56:54.157] [ogs] [info]  ... finished.
[2021-04-21 09:56:54.158] [ogs] [info] Nr. Nodes: 2400.
[2021-04-21 09:56:54.158] [ogs] [info] Nr. Elements: 7070.
[2021-04-21 09:56:54.158] [ogs] [info] Removing total 2553 elements...
[2021-04-21 09:56:54.158] [ogs] [info] 4517 elements remain in mesh.
[2021-04-21 09:56:54.159] [ogs] [info] Removing total 0 nodes...
[2021-04-21 09:56:54.169] [ogs] [info] 1 property vectors copied, 0 vectors skipped.
[2021-04-21 09:56:54.169] [ogs] [info] Removing total 174 elements...
[2021-04-21 09:56:54.169] [ogs] [info] 29 elements remain in mesh.
[2021-04-21 09:56:54.169] [ogs] [info] Removing total 173 nodes...
[2021-04-21 09:56:54.176] [ogs] [info] Removing total 171 elements...
[2021-04-21 09:56:54.176] [ogs] [info] 32 elements remain in mesh.
[2021-04-21 09:56:54.176] [ogs] [info] Removing total 170 nodes...
[2021-04-21 09:56:54.177] [ogs] [info] Removing total 132 elements...
[2021-04-21 09:56:54.177] [ogs] [info] 71 elements remain in mesh.
[2021-04-21 09:56:54.177] [ogs] [info] Removing total 131 nodes...
[2021-04-21 09:56:54.178] [ogs] [info] Removing total 132 elements...
[2021-04-21 09:56:54.178] [ogs] [info] 71 elements remain in mesh.
[2021-04-21 09:56:54.178] [ogs] [info] Removing total 131 nodes...
========== gmsh ==========
Error   : Unknown number option 'General.NativeFileChooser'
Info    : Running '/usr/bin/gmsh -2 testslice.geo' [Gmsh 4.4.1, 1 node, max. 1 thread]
Info    : Started on Wed Apr 21 09:56:54 2021
Info    : Reading 'testslice.geo'...
Info    : Done reading 'testslice.geo'
Info    : Meshing 1D...
Info    : Meshing curve 1/2448 (Line)
Info    : Meshing curve 1001/2448 (Line)
Info    : Meshing curve 2001/2448 (Line)
Info    : Done meshing 1D (0.114518 s)
Info    : Meshing 2D...
Info    : Meshing surface 0 (Plane, Delaunay)
Info    : Meshing surface 1 (Plane, Delaunay)
Info    : Meshing surface 2 (Plane, Delaunay)
Info    : Meshing surface 3 (Plane, Delaunay)
Info    : Meshing surface 4 (Plane, Delaunay)
Info    : Meshing surface 5 (Plane, Delaunay)
Info    : Meshing surface 6 (Plane, Delaunay)
Info    : Meshing surface 7 (Plane, Delaunay)
Info    : Meshing surface 8 (Plane, Delaunay)
Info    : Meshing surface 9 (Plane, Delaunay)
Info    : Meshing surface 10 (Plane, Delaunay)
Info    : Meshing surface 11 (Plane, Delaunay)
Info    : Meshing surface 12 (Plane, Delaunay)
Info    : Meshing surface 13 (Plane, Delaunay)
Info    : Meshing surface 14 (Plane, Delaunay)
Info    : Meshing surface 15 (Plane, Delaunay)
Info    : Meshing surface 16 (Plane, Delaunay)
Info    : Done meshing 2D (0.0749386 s)
Info    : 2928 vertices 9422 elements
Info    : Writing 'testslice.msh'...
Info    : Done writing 'testslice.msh'
Info    : Stopped on Wed Apr 21 09:56:54 2021
======== msh2vtu =========
/home/meisel/.local/lib/python3.8/site-packages/msh2vtu/msh2vtu.py:85: UserWarning: Warning, out-dated Meshio version. In case of errors watch for commented code fragments from previous versions in this script (msh2vtu).
  warnings.warn(
Original mesh (read)
2928 points in 3 dimensions; cells: 2553 line, 5573 triangle; point_data=['gmsh:dim_tags']; cell_data=['gmsh:physical', 'gmsh:geometrical']; cell_sets=['gmsh:bounding_entities']
##
Swapping x- and y-coordinate
Detected mesh dimension: 2
##
Domain mesh (written)
2928 points in 3 dimensions; cells: 5573 triangle; point_data=[]; cell_data=['MaterialIDs']; cell_sets=[]
##
For information, there are cells of boundary dimension not on the boundary (e.g. inside domain).
[('line', array([[  71,   70],
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       [  64,   63],
       [  63,   62],
       [  62,   61],
       [  61,   60],
       [  60,   59],
       [  59,   58],
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       [1227, 1228],
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       [1229, 1230],
       [1230, 1231],
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       [1235, 1236],
       [1236, 1237],
       [1237, 1238],
       [1238, 1239],
       [1239, 1240],
       [1240, 1241],
       [1241, 1242],
       [1242, 1243],
       [1243, 1244],
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       [1245, 1246],
       [1246, 1247],
       [1247, 1248],
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       [1252, 1253],
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       [1269, 1270],
       [1270, 1271],
       [1271, 1272],
       [1272, 1273],
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       [1274, 1275],
       [1275, 1276],
       [1276, 1277],
       [1277, 1278],
       [1278, 1279],
       [1279, 1280],
       [1280, 1281],
       [1281, 1282],
       [1282, 1283],
       [1283, 1284],
       [1284, 1285],
       [1285, 1286],
       [1286, 1287],
       [1287, 1288],
       [1288, 1289],
       [1289, 1290],
       [1290, 1291],
       [1291, 1292],
       [1292, 1293],
       [1293, 1294],
       [1294, 1295],
       [1295, 1223]]))]
Boundary mesh (written)
326 points in 3 dimensions; cells: 359 line; point_data=['bulk_node_ids']; cell_data=['bulk_elem_ids']; cell_sets=[]
##
====== reviseMesh ========
[2021-04-21 09:56:56.451] [ogs] [info] Mesh read: 2928 nodes, 5573 elements.
[2021-04-21 09:56:56.452] [ogs] [info] Simplifying the mesh...
[2021-04-21 09:56:56.458] [ogs] [info] Revised mesh: 2889 nodes, 5573 elements.
= Generate Projectfile =
===== OpenGeoSys ======
info: This is OpenGeoSys-6 version 6.4.0-6-g786068d41.
info: OGS started on 2021-04-21 09:56:57+0200.
info: ConstantParameter: ViscosityWater
info: ConstantParameter: DensityWater
info: ConstantParameter: ReferenceTemperature
info: ConstantParameter: Zero
info: ConstantParameter: p_at
info: No source terms for process variable 'pressure' found.
info: Initialize processes.
info: Solve processes.
info: [time] Output of timestep 0 took 0.0257003 s.
info: === Time stepping at step #1 and time 1 with step size 1
info: Calculate non-equilibrium initial residuum.
info: [time] Assembly took 0.00732278 s.
info: [time] Applying Dirichlet BCs took 0.000163906 s.
info: ------------------------------------------------------------------
info: *** Eigen solver computation
info: -> solve with CG (precon DIAGONAL)
info:    iteration: 694/10000
info:    residual: 9.730901e-21

info: ------------------------------------------------------------------
info: [time] Linear solver took 0.0183675 s.
info: [time] Iteration #1 took 0.0258747 s.
info: [time] Solving process #0 took 0.025908 s in time step #1 
info: [time] Time step #1 took 0.0268778 s.
info: [time] Output of timestep 1 took 0.0246075 s.
info: The whole computation of the time stepping took 1 steps, in which
         the accepted steps are 1, and the rejected steps are 0.

info: [time] Execution took 0.113241 s.
info: OGS terminated on 2021-04-21 09:56:57+0200.
== Paraview statefile ==
==== Workflow done ====
Results saved to Ton_Nord_1_simH_1

