I use code_saturne 2.0.3
an error is reported in the error file: error.mmddhhmm as follows
Code: Select all
/work/cgx1_work/yzx/Code_Saturne/2.0/install_file/installer/ncs-2.0.6/src/base/cs_boundary_conditions.c:429: Fatal error.
Some boundary condition definitions are incomplete or incorrect.
For details, read the end of the calculation log,
or visualize the error postprocessing output.
Call stack:
1: 0x2adcd8b24fb4 <cs_boundary_conditions_error+0xd24> (libsaturne.so.0)
2: 0x2adcd8d40f08 <typecl_+0x76d8> (libsaturne.so.0)
3: 0x2adcd8b0dd50 <condli_+0x920> (libsaturne.so.0)
4: 0x2adcd8d0c43a <tridim_+0x34da> (libsaturne.so.0)
5: 0x2adcd8af9dbc <caltri_+0x3ecc> (libsaturne.so.0)
6: 0x2adcd8ad396d <cs_run+0x77d> (libsaturne.so.0)
7: 0x2adcd8ad3d05 <main+0x1f5> (libsaturne.so.0)
8: 0x3af641d994 <__libc_start_main+0xf4> (libc.so.6)
9: 0x400689 <main+0x49> (cs_solver)
End of stack
application called MPI_Abort(MPI_COMM_WORLD, 1) - process 0
Code: Select all
========================================================
Start time : Tue Oct 23 11:43:18 CST 2012
----------------------------------------------------
Kernel : /home/cgx1/WORK/yzx/Code_Saturne/2.0/test_saturne/cs-2.0
Preprocessor : /home/cgx1/WORK/yzx/Code_Saturne/2.0/test_saturne/cs-2.0/bin
------------------------------------------------
CS_MPI_PATH : /apps/intel/impi/4.0.2.003/intel64//bin
PATH : /jobmgr/lsf8.0/8.0/linux2.6-glibc2.3-x86_64/bin:/home/cgx1/WORK/yzx/Code_Saturne/2.0/test_saturne/cs-2.0/bin:/apps/intel/Compiler/11.1/069/f/bin/intel64:/apps/intel/Compiler/11.1/069/f/bin/intel64:/apps/intel/Compiler/11.1/069/c/bin/intel64:/apps/intel/impi/4.0.2.003/intel64/bin:/jobmgr/lsf8.0/8.0/linux2.6-glibc2.3-x86_64/etc:/usr/lib64/qt-3.3/bin:/usr/kerberos/bin:/usr/local/bin:/bin:/usr/bin:/home/cgx1/bin
------------------------------------------------
User : cgx1
========================================================
Machine :
Linux c04b08 2.6.18-194.17.1.0.1.el5_lustre.1.8.5 #1 SMP Thu Aug 4 17:12:58 CST 2011 x86_64 x86_64 x86_64 GNU/Linux
N Procs : 1
Processors : default
========================================================
----------------------------------------------------
Case : CASE1
DATA : /work/cgx1_work/yzx/CHANNEL/CASE1/DATA
SRC : /work/cgx1_work/yzx/CHANNEL/CASE1/SRC
RESU : /work/cgx1_work/yzx/CHANNEL/CASE1/RESU
----------------------------------------------------
Exec. dir. : /home/cgx1/WORK/yzx/tmp_Saturne/CHANNEL.CASE1.10231143
----------------------------------------------------
Executable : cs_solver
----------------------------------------------------
Preprocessing : yes
Partitioning : no
Calculation : failed
----------------------------------------------------
Finish time : Tue Oct 23 11:43:19 CST 2012
========================================================The listpre file reads
Code: Select all
/home/cgx1/WORK/yzx/Code_Saturne/2.0/test_saturne/cs-2.0/bin/cs_preprocess
--mesh channel.cgns --case CASE1 --perio --group streamwise --invsel --fraction
0.1 --plane 0.8 --trans 12.566 0 0 --perio --group spanwise --invsel --fraction
0.1 --plane 0.8 --trans 0 0 6.283
.------------------------------.
| |
| Code_Saturne Preprocessor |
| |
`------------------------------'
ECS version 2.0.3 (Mon 22 Oct 2012 07:19:47 PM CST)
CGNS 3.1.3 file format support
MED 3.0.5 (HDF5 1.8.9) file format support
Reading of compressed files ('.gz') with Zlib 1.2.3
Case configuration
------------------
Date : Tue 23 Oct 2012 11:43:18 AM CST
System : Linux 2.6.18-194.17.1.0.1.el5_lustre.1.8.5
Machine : c04b08
Processor : Intel(R) Xeon(R) CPU X5670 @ 2.93GHz
Memory : 32950608
User : cgx1 ()
Directory : /work/cgx1_work/yzx/tmp_Saturne/CHANNEL.CASE1.10231143
Case name : CASE1
Mesh file : channel.cgns
Reading mesh from file in CGNS format
----------------------
Mesh file: channel.cgns
CGNS version : 2.5
Base name : fluid
Physical dimension : 3
Cell dimension : 3
Number of zones : 1
Zone 1: "A"; type "Unstructured"
65536 vertices; 60543 cells
(cartesian coordinates, "RealDouble" precision, unit "Null")
Section 1: "HexElements";
(indices 1 to 60543, type "HEXA_8")
CGNS boundary condition information:
Zone 1
BC 1: "Unspecified" ("Null" on "Vertex")
BC 2: "Unspecified2" ("Null" on "Vertex")
BC 3: "Unspecified3" ("Null" on "Vertex")
BC 4: "Unspecified4" ("Null" on "Vertex")
BC 5: "Unspecified5" ("Null" on "Vertex")
BC 6: "Unspecified6" ("Null" on "Vertex")
Number of vertices : 65536
Number of faces : 9734
Number of cells : 60543
Group "Unspecified"
Number of faces : 961
Group "Unspecified2"
Number of faces : 1953
Group "Unspecified3"
Number of faces : 1953
Group "Unspecified4"
Number of faces : 961
Group "Unspecified5"
Number of faces : 1953
Group "Unspecified6"
Number of faces : 1953
Wall-clock time: 0.024346 s; CPU time: 0.016998 s
Done reading mesh
-----------------
Theoretical mesh size: 3.534 Mb
Theoretical current memory: 3.534 Mb
Theoretical peak memory: 7.353 Mb
Total memory used: 96.184 Mb
Domain coordinate extents:
[ 0.00000e+00, 0.00000e+00, 0.00000e+00]
[ 1.25660e+01, 2.00000e+00, 6.28300e+00]
Number of elements quad4 : 9734
Number of elements hexa8 : 60543
Element orientation check.
End of conversion to descending connectivity
--------------------------------------------
Theoretical mesh size: 6.481 Mb
Theoretical current memory: 6.480 Mb
Theoretical peak memory: 15.979 Mb
Total memory used: 107.191 Mb
Processing periodicity 1
----------------------------
Periodicity type: pure translation
Translation parameters
- translation vector: 1.25660e+01 0.00000e+00 0.00000e+00
De-selected groups:
Group "streamwise"
There is no de-selectable element belonging to group "streamwise".
(This may be due to the selection's restriction
to interior or boundary faces).
Number of elements before joining
Number of cells : 60543
Number of faces : 186496
Number of vertices : 65536
Number of boundary faces : 9734
Number of selected boundary faces : 9734
Joining parameter values:
- Fraction of the length of the shortest edge
connected to a vertex under which 2 edges
intersect and 2 vertices are merged: 1.0000000000E-01
- Value of the dot product of the unit normals of
2 faces above which these faces are considered
to be coplanar: 8.0000000000E-01
Search for edge intersections:
Checked possibilities : 28740
Intersections found : 32740
Subdivision of edges:
Initial number of vertices : 75272
Initial number of edges : 210956
Number of vertices after division : 75272
Number of edges after division : 210956
Merging vertices:
Initial number of vertices : 75272
Number of vertices after merging : 73224
Number of modified vertices : 2048
Merging of topologically identical edges:
Initial number of edges : 210956
Number of edges after merging : 206956
Removal of degenerate edges if present :
Initial number of edges : 206956
Number of edges after processing : 206956
Removal of degenerate corners if present :
Number of simplified faces : 0
Number of elements after joining
Number of cells : 60543
Number of faces : 186496
Number of vertices : 65536
Wall-clock time: 0.690467 s; CPU time: 0.680897 s
Processing periodicity 2
----------------------------
Periodicity type: pure translation
Translation parameters
- translation vector: 0.00000e+00 0.00000e+00 6.28300e+00
De-selected groups:
Group "spanwise"
There is no de-selectable element belonging to group "spanwise".
(This may be due to the selection's restriction
to interior or boundary faces).
Number of elements before joining
Number of cells : 60543
Number of faces : 186496
Number of vertices : 65536
Number of boundary faces : 5828
Number of selected boundary faces : 5828
Joining parameter values:
- Fraction of the length of the shortest edge
connected to a vertex under which 2 edges
intersect and 2 vertices are merged: 1.0000000000E-01
- Value of the dot product of the unit normals of
2 faces above which these faces are considered
to be coplanar: 8.0000000000E-01
Search for edge intersections:
Checked possibilities : 27872
Intersections found : 31872
Subdivision of edges:
Initial number of vertices : 71552
Initial number of edges : 203332
Number of vertices after division : 71552
Number of edges after division : 203332
Merging vertices:
Initial number of vertices : 71552
Number of vertices after merging : 69504
Number of modified vertices : 2048
Merging of topologically identical edges:
Initial number of edges : 203332
Number of edges after merging : 199332
Removal of degenerate edges if present :
Initial number of edges : 199332
Number of edges after processing : 199332
Removal of degenerate corners if present :
Number of simplified faces : 0
Number of elements after joining
Number of cells : 60543
Number of faces : 186496
Number of vertices : 65536
Wall-clock time: 0.368719 s; CPU time: 0.367944 s
Defining families
-----------------
Main mesh properties
--------------------
Number of cells: 60543
Number of internal faces: 184574
including periodic faces:
periodicity 1: 3906
periodicity 2: 3906
Number of boundary faces: 1922
Number of vertices: 65536
Definition of face and cell families
------------------------------------
176762 faces from a total of 186496 have no color
and belong to no group...
A default family is assigned to those faces.
Warning
=======
60543 cells from a total of 60543 have no color
and belong to no group...
A default family is assigned to those cells.
Family 1
Group "Unspecified4"
Number of boundary faces : 961
Family 2
Group "Unspecified2"
Number of internal faces : 1953
Family 3
Group "Unspecified5"
Number of internal faces : 1953
Family 4
Group "Unspecified3"
Number of internal faces : 1953
Family 5
Group "Unspecified6"
Number of internal faces : 1953
Family 6
Group "Unspecified"
Number of boundary faces : 961
Family 7
Default family
(with no color nor group)
Number of cells : 60543
Number of internal faces : 176762
Definition of colors and groups based on families
-------------------------------------------------
Group "Unspecified4"
Family 1
Group "Unspecified2"
Family 2
Group "Unspecified5"
Family 3
Group "Unspecified3"
Family 4
Group "Unspecified6"
Family 5
Group "Unspecified"
Family 6
Groups numbering
----------------
Group 1 : "Unspecified"
Group 2 : "Unspecified2"
Group 3 : "Unspecified3"
Group 4 : "Unspecified4"
Group 5 : "Unspecified5"
Group 6 : "Unspecified6"
Write output for Kernel
-----------------------
Opening file: preprocessor_output
Wrote: "start_block:dimensions"
Wrote: "n_cells" ; Type: "u8"; Size: 1
Wrote: "n_faces" ; Type: "u8"; Size: 1
Wrote: "n_vertices" ; Type: "u8"; Size: 1
Wrote: "face_vertices_size" ; Type: "u8"; Size: 1
Wrote: "n_group_classes" ; Type: "i4"; Size: 1
Wrote: "n_group_class_props_max" ; Type: "i4"; Size: 1
Wrote: "n_groups" ; Type: "u8"; Size: 1
Wrote: "group_name_index" ; Type: "i4"; Size: 7
Wrote: "group_name" ; Type: "c "; Size: 77
Wrote: "group_class_properties" ; Type: "i4"; Size: 7
Wrote: "n_periodic_directions" ; Type: "i4"; Size: 1
Wrote: "n_periodic_rotations" ; Type: "i4"; Size: 1
Wrote: "n_periodic_faces" ; Type: "i4"; Size: 2
Wrote: "end_block:dimensions"
Wrote: "start_block:data"
Wrote: "face_cells" ; Type: "i4"; Size: 372992
Wrote: "cell_group_class_id" ; Type: "i4"; Size: 60543
Wrote: "face_group_class_id" ; Type: "i4"; Size: 186496
Wrote: "face_vertices_index" ; Type: "u4"; Size: 186497
Wrote: "face_vertices" ; Type: "i4"; Size: 745984
Wrote: "vertex_coords" ; Type: "r8"; Size: 196608
Wrote: "periodicity_type_01" ; Type: "i4"; Size: 1
Wrote: "periodicity_matrix_01" ; Type: "r8"; Size: 12
Wrote: "periodicity_faces_01" ; Type: "i4"; Size: 3906
Wrote: "periodicity_type_02" ; Type: "i4"; Size: 1
Wrote: "periodicity_matrix_02" ; Type: "r8"; Size: 12
Wrote: "periodicity_faces_02" ; Type: "i4"; Size: 3906
Wrote: "end_block:data"
Wrote: "EOF"
Closing file: preprocessor_output
Time and memory summary
-----------------------
User CPU time (sec) : 1.16
System CPU time (sec) : 0.07
Total time (sec) : 1.23
Total CPU time / Total time : 1.00
Memory use summary:
Total memory used: 123.441 Mb
Theoretical instrumented dynamic memory: 26.365 Mb
.-----------------------.
| |
| Preprocessor finish |
| |
`-----------------------'