[Wrf-users] Update Lateral Boundary Error
Dimitrakakis Georgios
giwrgis at chemistry.uoc.gr
Wed Oct 22 08:21:07 MDT 2014
When I try to update the lateral boundary conditions I am getting this:
*** glibc detected *** ./da_update_bc.exe: double free or corruption
(out): 0x0000000001748cc0 ***
======= Backtrace: =========
/lib64/libc.so.6(+0x760e6)[0x2b3ac0f530e6]
/lib64/libc.so.6(+0x78c13)[0x2b3ac0f55c13]
/lib64/libc.so.6(fclose+0x14d)[0x2b3ac0f4374d]
./da_update_bc.exe[0x4abe49]
./da_update_bc.exe[0x4ab5eb]
./da_update_bc.exe[0x4ac965]
./da_update_bc.exe[0x4ab3b6]
./da_update_bc.exe[0x464a22]
./da_update_bc.exe[0x42526b]
./da_update_bc.exe[0x428a05]
/lib64/libpthread.so.0(+0xf500)[0x2b3ac0cce500]
./da_update_bc.exe[0x444b8f]
./da_update_bc.exe[0x441266]
./da_update_bc.exe[0x4394eb]
./da_update_bc.exe[0x4036bf]
./da_update_bc.exe[0x4031cc]
/lib64/libc.so.6(__libc_start_main+0xfd)[0x2b3ac0efbcdd]
./da_update_bc.exe[0x4030c9]
======= Memory map: ========
00400000-004de000 r-xp 00000000 fd:02 66067759
WRF/WRFDA_3dVAR_Parallel_dmpar_INTEL_Compilers_OK_3.6/var/build/da_update_bc.exe
006dd000-006e5000 rw-p 000dd000 fd:02 66067759
WRF/WRFDA_3dVAR_Parallel_dmpar_INTEL_Compilers_OK_3.6/var/build/da_update_bc.exe
006e5000-006ed000 rw-p 00000000 00:00 0
01741000-01762000 rw-p 00000000 00:00 0
[heap]
2b3ac024c000-2b3ac026c000 r-xp 00000000 08:02 7602183
/lib64/ld-2.12.so
2b3ac026c000-2b3ac026e000 rw-p 00000000 00:00 0
2b3ac046b000-2b3ac046c000 r--p 0001f000 08:02 7602183
/lib64/ld-2.12.so
2b3ac046c000-2b3ac046d000 rw-p 00020000 08:02 7602183
/lib64/ld-2.12.so
2b3ac046d000-2b3ac046e000 rw-p 00000000 00:00 0
2b3ac046e000-2b3ac04eb000 r-xp 00000000 08:02 1060973
/usr/local/netcdf-4.2/lib/libnetcdff.so.5.3.1
2b3ac04eb000-2b3ac06ea000 ---p 0007d000 08:02 1060973
/usr/local/netcdf-4.2/lib/libnetcdff.so.5.3.1
2b3ac06ea000-2b3ac06ec000 rw-p 0007c000 08:02 1060973
/usr/local/netcdf-4.2/lib/libnetcdff.so.5.3.1
2b3ac06ec000-2b3ac07d6000 r-xp 00000000 08:02 1060952
/usr/local/netcdf-4.2/lib/libnetcdf.so.7.2.0
2b3ac07d6000-2b3ac09d5000 ---p 000ea000 08:02 1060952
/usr/local/netcdf-4.2/lib/libnetcdf.so.7.2.0
2b3ac09d5000-2b3ac0a27000 rw-p 000e9000 08:02 1060952
/usr/local/netcdf-4.2/lib/libnetcdf.so.7.2.0
2b3ac0a27000-2b3ac0a2e000 rw-p 00000000 00:00 0
2b3ac0a2e000-2b3ac0a37000 r--p 00000000 08:02 1327589
/opt/intel/composer_xe_2013.3.163/compiler/lib/intel64/locale/en_US/ifcore_msg.cat
2b3ac0a37000-2b3ac0a38000 r--p 00000000 08:02 1327481
/opt/intel/composer_xe_2013.3.163/compiler/lib/intel64/locale/en_US/irc_msg.cat
2b3ac0a38000-2b3ac0a39000 rw-p 00000000 00:00 0
2b3ac0a3b000-2b3ac0abe000 r-xp 00000000 08:02 7602198
/lib64/libm-2.12.so
2b3ac0abe000-2b3ac0cbd000 ---p 00083000 08:02 7602198
/lib64/libm-2.12.so
2b3ac0cbd000-2b3ac0cbe000 r--p 00082000 08:02 7602198
/lib64/libm-2.12.so
2b3ac0cbe000-2b3ac0cbf000 rw-p 00083000 08:02 7602198
/lib64/libm-2.12.so
2b3ac0cbf000-2b3ac0cd6000 r-xp 00000000 08:02 7602214
/lib64/libpthread-2.12.so
2b3ac0cd6000-2b3ac0ed6000 ---p 00017000 08:02 7602214
/lib64/libpthread-2.12.so
2b3ac0ed6000-2b3ac0ed7000 r--p 00017000 08:02 7602214
/lib64/libpthread-2.12.so
2b3ac0ed7000-2b3ac0ed8000 rw-p 00018000 08:02 7602214
/lib64/libpthread-2.12.so
2b3ac0ed8000-2b3ac0edd000 rw-p 00000000 00:00 0
2b3ac0edd000-2b3ac1067000 r-xp 00000000 08:02 7602190
/lib64/libc-2.12.so
2b3ac1067000-2b3ac1266000 ---p 0018a000 08:02 7602190
/lib64/libc-2.12.so
2b3ac1266000-2b3ac126a000 r--p 00189000 08:02 7602190
/lib64/libc-2.12.so
2b3ac126a000-2b3ac126b000 rw-p 0018d000 08:02 7602190
/lib64/libc-2.12.so
2b3ac126b000-2b3ac1270000 rw-p 00000000 00:00 0
2b3ac1270000-2b3ac1286000 r-xp 00000000 08:02 7602178
/lib64/libgcc_s-4.4.7-20120601.so.1
2b3ac1286000-2b3ac1485000 ---p 00016000 08:02 7602178
/lib64/libgcc_s-4.4.7-20120601.so.1
2b3ac1485000-2b3ac1486000 rw-p 00015000 08:02 7602178
/lib64/libgcc_s-4.4.7-20120601.so.1
2b3ac1486000-2b3ac1488000 r-xp 00000000 08:02 7602196
/lib64/libdl-2.12.so
2b3ac1488000-2b3ac1688000 ---p 00002000 08:02 7602196
/lib64/libdl-2.12.so
2b3ac1688000-2b3ac1689000 r--p 00002000 08:02 7602196
/lib64/libdl-2.12.so
2b3ac1689000-2b3ac168a000 rw-p 00003000 08:02 7602196
/lib64/libdl-2.12.so
2b3ac168a000-2b3ac168b000 rw-p 00000000 00:00 0
2b3ac168b000-2b3ac16a8000 r-xp 00000000 08:02 6300425
/usr/local/hdf5-1.8.12/lib/libhdf5_hl.so.8.0.1
2b3ac16a8000-2b3ac18a8000 ---p 0001d000 08:02 6300425
/usr/local/hdf5-1.8.12/lib/libhdf5_hl.so.8.0.1
2b3ac18a8000-2b3ac18a9000 rw-p 0001d000 08:02 6300425
/usr/local/hdf5-1.8.12/lib/libhdf5_hl.so.8.0.1
2b3ac18a9000-2b3ac18ba000 rw-p 00000000 00:00 0
2b3ac18ba000-2b3ac1b7d000 r-xp 00000000 08:02 6300294
/usr/local/hdf5-1.8.12/lib/libhdf5.so.8.0.1
2b3ac1b7d000-2b3ac1d7c000 ---p 002c3000 08:02 6300294
/usr/local/hdf5-1.8.12/lib/libhdf5.so.8.0.1
2b3ac1d7c000-2b3ac1d87000 rw-p 002c2000 08:02 6300294
/usr/local/hdf5-1.8.12/lib/libhdf5.so.8.0.1
2b3ac1d87000-2b3ac1d89000 rw-p 00000000 00:00 0
2b3ac1d89000-2b3ac1d9f000 r-xp 00000000 08:02 6166332
/usr/local/zlib-1.2.8/lib/libz.so.1.2.8
2b3ac1d9f000-2b3ac1f9e000 ---p 00016000 08:02 6166332
/usr/local/zlib-1.2.8/lib/libz.so.1.2.8
2b3ac1f9e000-2b3ac1f9f000 rw-p 00015000 08:02 6166332
/usr/local/zlib-1.2.8/lib/libz.so.1.2.8
2b3ac1f9f000-2b3ac1fa0000 rw-p 00000000 00:00 0
2b3ac1fa0000-2b3ac1fa7000 r-xp 00000000 08:02 7602218
/lib64/librt-2.12.so
2b3ac1fa7000-2b3ac21a6000 ---p 00007000 08:02 7602218
/lib64/librt-2.12.so
2b3ac21a6000-2b3ac21a7000 r--p 00006000 08:02 7602218
/lib64/librt-2.12.so
2b3ac21a7000-2b3ac21a8000 rw-p 00007000 08:02 7602218
/lib64/librt-2.12.so
2b3ac21a8000-2b3ac2298000 r-xp 00000000 08:02 6032519
/usr/lib64/libgfortran.so.3.0.0forrtl: severe (174): SIGSEGV, segmentation
fault occurred
Image PC Routine Line Source
Stack trace terminated abnormally.
*** glibc detected *** ./da_update_bc.exe: double free or corruption
(out): 0x0000000001744c70 ***
======= Backtrace: =========
/lib64/libc.so.6(+0x760e6)[0x2b3ac0f530e6]
/lib64/libc.so.6(+0x78c13)[0x2b3ac0f55c13]
./da_update_bc.exe[0x447e5b]
./da_update_bc.exe[0x424f0a]
./da_update_bc.exe[0x428a05]
/lib64/libpthread.so.0(+0xf500)[0x2b3ac0cce500]
./da_update_bc.exe[0x444b8f]
./da_update_bc.exe[0x441266]
./da_update_bc.exe[0x4394eb]
./da_update_bc.exe[0x4036bf]
./da_update_bc.exe[0x4031cc]
/lib64/libc.so.6(__libc_start_main+0xfd)[0x2b3ac0efbcdd]
./da_update_bc.exe[0x4030c9]
======= Memory map: ========
00400000-004de000 r-xp 00000000 fd:02 66067759
/WRFDA_3dVAR_Parallel_dmpar_INTEL_Compilers_OK_3.6/var/build/da_update_bc.exe
006dd000-006e5000 rw-p 000dd000 fd:02 66067759
WRF/WRFDA_3dVAR_Parallel_dmpar_INTEL_Compilers_OK_3.6/var/build/da_update_bc.exe
006e5000-006ed000 rw-p 00000000 00:00 0
01741000-01762000 rw-p 00000000 00:00 0
[heap]
2b3ac024c000-2b3ac026c000 r-xp 00000000 08:02 7602183
/lib64/ld-2.12.so
2b3ac026c000-2b3ac026e000 rw-p 00000000 00:00 0
2b3ac046b000-2b3ac046c000 r--p 0001f000 08:02 7602183
/lib64/ld-2.12.so
2b3ac046c000-2b3ac046d000 rw-p 00020000 08:02 7602183
/lib64/ld-2.12.so
2b3ac046d000-2b3ac046e000 rw-p 00000000 00:00 0
2b3ac046e000-2b3ac04eb000 r-xp 00000000 08:02 1060973
/usr/local/netcdf-4.2/lib/libnetcdff.so.5.3.1
2b3ac04eb000-2b3ac06ea000 ---p 0007d000 08:02 1060973
/usr/local/netcdf-4.2/lib/libnetcdff.so.5.3.1
2b3ac06ea000-2b3ac06ec000 rw-p 0007c000 08:02 1060973
/usr/local/netcdf-4.2/lib/libnetcdff.so.5.3.1
2b3ac06ec000-2b3ac07d6000 r-xp 00000000 08:02 1060952
/usr/local/netcdf-4.2/lib/libnetcdf.so.7.2.0
2b3ac07d6000-2b3ac09d5000 ---p 000ea000 08:02 1060952
/usr/local/netcdf-4.2/lib/libnetcdf.so.7.2.0
2b3ac09d5000-2b3ac0a27000 rw-p 000e9000 08:02 1060952
/usr/local/netcdf-4.2/lib/libnetcdf.so.7.2.0
2b3ac0a27000-2b3ac0a2e000 rw-p 00000000 00:00 0
2b3ac0a2e000-2b3ac0a37000 r--p 00000000 08:02 1327589
/opt/intel/composer_xe_2013.3.163/compiler/lib/intel64/locale/en_US/ifcore_msg.cat
2b3ac0a37000-2b3ac0a38000 r--p 00000000 08:02 1327481
/opt/intel/composer_xe_2013.3.163/compiler/lib/intel64/locale/en_US/irc_msg.cat
2b3ac0a39000-2b3ac0a3a000 rw-p 00000000 00:00 0
2b3ac0a3b000-2b3ac0abe000 r-xp 00000000 08:02 7602198
/lib64/libm-2.12.so
2b3ac0abe000-2b3ac0cbd000 ---p 00083000 08:02 7602198
/lib64/libm-2.12.so
2b3ac0cbd000-2b3ac0cbe000 r--p 00082000 08:02 7602198
/lib64/libm-2.12.so
2b3ac0cbe000-2b3ac0cbf000 rw-p 00083000 08:02 7602198
/lib64/libm-2.12.so
2b3ac0cbf000-2b3ac0cd6000 r-xp 00000000 08:02 7602214
/lib64/libpthread-2.12.so
2b3ac0cd6000-2b3ac0ed6000 ---p 00017000 08:02 7602214
/lib64/libpthread-2.12.so
2b3ac0ed6000-2b3ac0ed7000 r--p 00017000 08:02 7602214
/lib64/libpthread-2.12.so
2b3ac0ed7000-2b3ac0ed8000 rw-p 00018000 08:02 7602214
/lib64/libpthread-2.12.so
2b3ac0ed8000-2b3ac0edd000 rw-p 00000000 00:00 0
2b3ac0edd000-2b3ac1067000 r-xp 00000000 08:02 7602190
/lib64/libc-2.12.so
2b3ac1067000-2b3ac1266000 ---p 0018a000 08:02 7602190
/lib64/libc-2.12.so
2b3ac1266000-2b3ac126a000 r--p 00189000 08:02 7602190
/lib64/libc-2.12.so
2b3ac126a000-2b3ac126b000 rw-p 0018d000 08:02 7602190
/lib64/libc-2.12.so
2b3ac126b000-2b3ac1270000 rw-p 00000000 00:00 0
2b3ac1270000-2b3ac1286000 r-xp 00000000 08:02 7602178
/lib64/libgcc_s-4.4.7-20120601.so.1
2b3ac1286000-2b3ac1485000 ---p 00016000 08:02 7602178
/lib64/libgcc_s-4.4.7-20120601.so.1
2b3ac1485000-2b3ac1486000 rw-p 00015000 08:02 7602178
/lib64/libgcc_s-4.4.7-20120601.so.1
2b3ac1486000-2b3ac1488000 r-xp 00000000 08:02 7602196
/lib64/libdl-2.12.so
2b3ac1488000-2b3ac1688000 ---p 00002000 08:02 7602196
/lib64/libdl-2.12.so
2b3ac1688000-2b3ac1689000 r--p 00002000 08:02 7602196
/lib64/libdl-2.12.so
2b3ac1689000-2b3ac168a000 rw-p 00003000 08:02 7602196
/lib64/libdl-2.12.so
2b3ac168a000-2b3ac168b000 rw-p 00000000 00:00 0
2b3ac168b000-2b3ac16a8000 r-xp 00000000 08:02 6300425
/usr/local/hdf5-1.8.12/lib/libhdf5_hl.so.8.0.1
2b3ac16a8000-2b3ac18a8000 ---p 0001d000 08:02 6300425
/usr/local/hdf5-1.8.12/lib/libhdf5_hl.so.8.0.1
2b3ac18a8000-2b3ac18a9000 rw-p 0001d000 08:02 6300425
/usr/local/hdf5-1.8.12/lib/libhdf5_hl.so.8.0.1
2b3ac18a9000-2b3ac18ba000 rw-p 00000000 00:00 0
2b3ac18ba000-2b3ac1b7d000 r-xp 00000000 08:02 6300294
/usr/local/hdf5-1.8.12/lib/libhdf5.so.8.0.1
2b3ac1b7d000-2b3ac1d7c000 ---p 002c3000 08:02 6300294
/usr/local/hdf5-1.8.12/lib/libhdf5.so.8.0.1
2b3ac1d7c000-2b3ac1d87000 rw-p 002c2000 08:02 6300294
/usr/local/hdf5-1.8.12/lib/libhdf5.so.8.0.1
2b3ac1d87000-2b3ac1d89000 rw-p 00000000 00:00 0
2b3ac1d89000-2b3ac1d9f000 r-xp 00000000 08:02 6166332
/usr/local/zlib-1.2.8/lib/libz.so.1.2.8
2b3ac1d9f000-2b3ac1f9e000 ---p 00016000 08:02 6166332
/usr/local/zlib-1.2.8/lib/libz.so.1.2.8
2b3ac1f9e000-2b3ac1f9f000 rw-p 00015000 08:02 6166332
/usr/local/zlib-1.2.8/lib/libz.so.1.2.8
2b3ac1f9f000-2b3ac1fa0000 rw-p 00000000 00:00 0
2b3ac1fa0000-2b3ac1fa7000 r-xp 00000000 08:02 7602218
/lib64/librt-2.12.so
2b3ac1fa7000-2b3ac21a6000 ---p 00007000 08:02 7602218
/lib64/librt-2.12.so
2b3ac21a6000-2b3ac21a7000 r--p 00006000 08:02 7602218
/lib64/librt-2.12.so
2b3ac21a7000-2b3ac21a8000 rw-p 00007000 08:02 7602218
/lib64/librt-2.12.so
2b3ac21a8000-2b3ac2298000 r-xp 00000000 08:02 6032519
/usr/lib64/libgfortran.so.3.0.0
2b3ac2298000-2b3ac2497000 ---p 000f0000 08:02 6032519
/usr/lib64/libgfortran.so.3.0.0
2b3ac2497000-2b3ac2499000 rw-p 000ef000 08:02 6032519
/usr/lib64/libgfortran.so.3.0.0
2b3ac2499000-2b3ac249a000 rw-p 00000000 00:00 0
2b3ac249a000-2b3ac24eb000 r-xp 00000000 08:02 6031300
/usr/lib64/libcurl.so.4.1.1
2b3ac24eb000-2b3ac26ea000 ---p 00051000 08:02 6031300
/usr/lib64/libcurl.so.4.1.1
2b3ac26ea000-2b3ac26ed000 rw-p 00050000 08:02 6031300
/usr/lib64/libcurl.so.4.1.1
2b3ac26ed000-2b3ac26ee000 rw-p 00000000 00:00 0
2b3ac26ee000-2b3ac2720000 r-xp 00000000 08:02 7602284
/lib64/libidn.so.11.6.1
2b3ac2720000-2b3ac291f000 ---p 00032000 08:02 7602284
/lib64/libidn.so.11.6.1
2b3ac291f000-2b3ac2920000 rw-p 00031000 08:02 7602284
/lib64/libidn.so.11.6.1
2b3ac2920000-2b3ac2969000 r-xp 00000000 08:02 7602366
/lib64/libldap-2.4.so.2.5.6
2b3ac2969000-2b3ac2b69000 ---p 00049000 08:02 7602366
/lib64/libldap-2.4.so.2.5.6
2b3ac2b69000-2b3ac2b6b000 r--p 00049000 08:02 7602366
/lib64/libldap-2.4.so.2.5.6
2b3ac2b6b000-2b3ac2b6d000 rw-p 0004b000 08:02 7602366
/lib64/libldap-2.4.so.2.5.6
2b3ac2b6d000-2b3ac2b6e000 rw-p 00000000 00:00 0
2b3ac2b6e000-2b3ac2baf000 r-xp 00000000 08:02 7602374
/lib64/libgssapi_krb5.so.2.2
2b3ac2baf000-2b3ac2daf000 ---p 00041000 08:02 7602374
/lib64/libgssapi_krb5.so.2.2
2b3ac2daf000-2b3ac2db0000 r--p 00041000 08:02 7602374
/lib64/libgssapi_krb5.so.2.2
2b3ac2db0000-2b3ac2db2000 rw-p 00042000 08:02 7602374
/lib64/libgssapi_krb5.so.2.2
2b3ac2db2000-2b3ac2e8d000 r-xp 00000000 08:02 7602380
/lib64/libkrb5.so.3.3
2b3ac2e8d000-2b3ac308c000 ---p 000db000 08:02 7602380
/lib64/libkrb5.so.3.3
2b3ac308c000-2b3ac3096000 r--p 000da000 08:02 7602380
/lib64/libkrb5.so.3.3
2b3ac3096000-2b3ac3098000 rw-p 000e4000 08:02 7602380
/lib64/libkrb5.so.3.3
2b3ac3098000-2b3ac30c1000 r-xp 00000000 08:02 7602378
/lib64/libk5crypto.so.3.1
2b3ac30c1000-2b3ac32c1000 ---p 00029000 08:02 7602378
/lib64/libk5crypto.so.3.1
2b3ac32c1000-2b3ac32c2000 r--p 00029000 08:02 7602378
/lib64/libk5crypto.so.3.1
2b3ac32c2000-2b3ac32c3000 rw-p 0002a000 08:02 7602378
/lib64/libk5crypto.so.3.1
2b3ac32c3000-2b3ac32c5000 rw-p 00000000 00:00 0
2b3ac32c5000-2b3ac32c8000 r-xp 00000000 08:02 7602247
/lib64/libcom_err.so.2.1
2b3ac32c8000-2b3ac34c7000 ---p 00003000 08:02 7602247
/lib64/libcom_err.so.2.1
2b3ac34c7000-2b3ac34c8000 r--p 00002000 08:02 7602247
/lib64/libcom_err.so.2.1
2b3ac34c8000-2b3ac34c9000 rw-p 00003000 08:02 7602247
/lib64/libcom_err.so.2.1
2b3ac34c9000-2b3ac34fc000 r-xp 00000000 08:02 6031112
/usr/lib64/libssl3.so
2b3ac34fc000-2b3ac36fc000 ---p 00033000 08:02 6031112
/usr/lib64/libssl3.so
2b3ac36fc000-2b3ac36fe000 r--p 00033000 08:02 6031112
/usr/lib64/libssl3.so
2b3ac36fe000-2b3ac36ff000 rw-p 00035000 08:02 6031112
/usr/lib64/libssl3.so
2b3ac36ff000-2b3ac3727000 r-xp 00000000 08:02 6031111
/usr/lib64/libsmime3.so
2b3ac3727000-2b3ac3927000 ---p 00028000 08:02 6031111
/usr/lib64/libsmime3.so
2b3ac3927000-2b3ac392a000 r--p 00028000 08:02 6031111
/usr/lib64/libsmime3.so
2b3ac392a000-2b3ac392b000 rw-p 0002b000 08:02 6031111
/usr/lib64/libsmime3.so
2b3ac392b000-2b3ac392c000 rw-p 00000000 00:00 0
2b3ac392c000-2b3ac3a5f000 r-xp 00000000 08:02 6031108
/usr/lib64/libnss3.so
2b3ac3a5f000-2b3ac3c5e000 ---p 00133000 08:02 6031108
/usr/lib64/libnss3.so
2b3ac3c5e000-2b3ac3c63000 r--p 00132000 08:02 6031108
/usr/lib64/libnss3.so
2b3ac3c63000-2b3ac3c65000 rw-p 00137000 08:02 6031108
/usr/lib64/libnss3.so
2b3ac3c65000-2b3ac3c67000 rw-p 00000000 00:00 0
2b3ac3c67000-2b3ac3c8c000 r-xp 00000000 08:02 6030271
/usr/lib64/libnssutil3.so
2b3ac3c8c000-2b3ac3e8b000 ---p 00025000 08:02 6030271
/usr/lib64/libnssutil3.so
2b3ac3e8b000-2b3ac3e91000 r--p 00024000 08:02 6030271
/usr/lib64/libnssutil3.so
2b3ac3e91000-2b3ac3e92000 rw-p 0002a000 08:02 6030271
./WRF_3DVar_back_v.2.3.sh: line 143: 15387 Aborted
./da_update_bc.exe
Any ideas?
Best!
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