Error messages

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=== Parallel runs of solid block scenario === === Parallel runs of solid block scenario ===
-The following was generated using the debugging suggestion above. This was running on a 8 core modelling computer. I also have trouble with this on turbine. It looks like it might be the topics module that causes this issue.+The following was generated using the debugging suggestion above. This was running on a 8 core modelling computer. Looking at the core dump using gdb I get:
<pre> <pre>
-GNU gdb (GDB) SUSE (7.2-3.3)+#0 0x00007f330388fecd in triBoxOverlap () from /usr/lib64/libgts-0.7.so.5
-Copyright (C) 2010 Free Software Foundation, Inc.+#1 0x00007f3303857452 in gts_bbox_overlaps_triangle () from /usr/lib64/libgts-0.7.so.5
-License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html>+#2 0x00007f3303b305b2 in face_overlaps_box () from /usr/lib64/libgfs3D-1.3.so.2
-This is free software: you are free to change and redistribute it.+#3 0x00007f33035850d3 in g_hash_table_foreach () from /lib64/libglib-2.0.so.0
-There is NO WARRANTY, to the extent permitted by law. Type "show copying"+#4 0x00007f330386e215 in gts_surface_foreach_face () from /usr/lib64/libgts-0.7.so.5
-and "show warranty" for details.+#5 0x00007f3303b3268e in cell_is_cut () from /usr/lib64/libgfs3D-1.3.so.2
-This GDB was configured as "x86_64-suse-linux".+#6 0x00007f3303b319a7 in cell_traverse_cut () from /usr/lib64/libgfs3D-1.3.so.2
-For bug reporting instructions, please see:+#7 0x00007f3303b31c4f in gfs_cell_traverse_cut () from /usr/lib64/libgfs3D-1.3.so.2
-<http://www.gnu.org/software/gdb/bugs/>...+#8 0x00007f3303aefdb3 in domain_foreach () from /usr/lib64/libgfs3D-1.3.so.2
-Reading symbols from /usr/bin/gerris3D...(no debugging symbols found)...done.+#9 0x00007f3303af0728 in gfs_domain_traverse_cut () from /usr/lib64/libgfs3D-1.3.so.2
-[New Thread 8923]+#10 0x00007f3303b3eb5b in simulation_moving_run () from /usr/lib64/libgfs3D-1.3.so.2
-Missing separate debuginfo for /usr/lib64/libgfs3D-1.3.so.2+#11 0x00007f3303b032a8 in gfs_simulation_run () from /usr/lib64/libgfs3D-1.3.so.2
-Try: zypper install -C "debuginfo(build-id)=73a7126c1de17dbebbdedf735fcdf79ba81ff692"+#12 0x0000000000402d3f in main ()
-Missing separate debuginfo for /usr/lib64/libgts-0.7.so.5+
-Try: zypper install -C "debuginfo(build-id)=67137e1a88a14d2341020d1368ec7736117d23dc"+
-Missing separate debuginfo for /lib64/libglib-2.0.so.0+
-Try: zypper install -C "debuginfo(build-id)=67137e1a88a14d2341020d1368ec7736117d23dc"+
-Missing separate debuginfo for /lib64/libm.so.6+
-Try: zypper install -C "debuginfo(build-id)=5ac64cd348d3581ec2a223ee70f42e73cad029cc"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/libmpi.so.0+
-Try: zypper install -C "debuginfo(build-id)=92fde4dc891cdbfd56717d6e7ec36a6f4aa2a31a"+
-Missing separate debuginfo for /lib64/libpthread.so.0+
-Try: zypper install -C "debuginfo(build-id)=92ec8fe859846a62345f74696ab349721415587a"+
-Missing separate debuginfo for /lib64/libc.so.6+
-Try: zypper install -C "debuginfo(build-id)=92ec8fe859846a62345f74696ab349721415587a"+
-Missing separate debuginfo for /lib64/libgmodule-2.0.so.0+
-Try: zypper install -C "debuginfo(build-id)=691c1fb49f55b61d6fb9d852c1e45bf31070c968"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/libopen-pal.so.0+
-Try: zypper install -C "debuginfo(build-id)=29f39043b1c76e1d6969f0b0b175a401a06e502c"+
-Missing separate debuginfo for /lib64/libpcre.so.0+
-Try: zypper install -C "debuginfo(build-id)=7d0cbd7e39faac70a4bcd0d67af1cec8f764a6a8"+
-Missing separate debuginfo for /lib64/librt.so.1+
-Try: zypper install -C "debuginfo(build-id)=e3e6773e84151cf7b70051b1e22f0254ede44f08"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/libopen-rte.so.0+
-Try: zypper install -C "debuginfo(build-id)=1499fff7ece09deb87f0a902261be3576cbde3c2"+
-Missing separate debuginfo for /lib64/ld-linux-x86-64.so.2+
-Try: zypper install -C "debuginfo(build-id)=b1d398a5cb1609e7ac1c51a26588e87fc20f753c"+
-Missing separate debuginfo for /lib64/libdl.so.2+
-Try: zypper install -C "debuginfo(build-id)=9a8d0811525ec7a152dca9e109292adca81857c1"+
-Missing separate debuginfo for /lib64/libutil.so.1+
-Try: zypper install -C "debuginfo(build-id)=5751266e22e9f2cbca821b110e87ecd37e70e7b4"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_paffinity_linux.so+
-Try: zypper install -C "debuginfo(build-id)=25b93b44c7fd7e72c41e420612362a6cb2949985"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ns_proxy.so+
-Try: zypper install -C "debuginfo(build-id)=104134640094fca2fd5426b0701563fd4b28ad4a"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ns_replica.so+
-Try: zypper install -C "debuginfo(build-id)=8c8456fad88d46693aff1255de3a96264ad05aa0"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_errmgr_hnp.so+
-Try: zypper install -C "debuginfo(build-id)=ca47041d00b1b46225eaa1a23131adccfd743ea4"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_errmgr_orted.so+
-Try: zypper install -C "debuginfo(build-id)=2c083e1336ae3b9d74d1933ed9b9531e2e776cf2"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_errmgr_proxy.so+
-Try: zypper install -C "debuginfo(build-id)=ec544d770190052f4b90feb4c55bf8f69a1feb7d"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rml_oob.so+
-Try: zypper install -C "debuginfo(build-id)=260fc9c133e905e57d79b0e3605befe631c1aec7"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_oob_tcp.so+
-Try: zypper install -C "debuginfo(build-id)=5fb1d4dd9f47a3ff043ae76516e62ed091fca612"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_gpr_null.so+
-Try: zypper install -C "debuginfo(build-id)=ad0a31c3ba7fd44f88f80c068d293a9d7c664d0e"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_gpr_proxy.so+
-Try: zypper install -C "debuginfo(build-id)=68263ec466fbd29f4d1efbc008e31301ca324b0f"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_gpr_replica.so+
-Try: zypper install -C "debuginfo(build-id)=acd24af09910454519e83b8e015317ef76fff0bf"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rds_hostfile.so+
-Try: zypper install -C "debuginfo(build-id)=c3ba7c1237f91dbe125fd4bfb480c25a981b845e"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rds_proxy.so+
-Try: zypper install -C "debuginfo(build-id)=316df880c94eb69b9ff62486d3af0fdf99b3a584"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rds_resfile.so+
-Try: zypper install -C "debuginfo(build-id)=26187d03cdd941fed9ea27a8b974fa32c607e278"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_dash_host.so+
-Try: zypper install -C "debuginfo(build-id)=97ad3de1a6593d8a7d491d6a687d4f9e83990abc"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_gridengine.so+
-Try: zypper install -C "debuginfo(build-id)=0faa776e3ac158e25193330e494fa738cde2791f"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_localhost.so+
-Try: zypper install -C "debuginfo(build-id)=ab37174a7c071f220b248b8d047a502fcb8af2d7"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_slurm.so+
-Try: zypper install -C "debuginfo(build-id)=e380eca4000b35a84021c891bc7d5b9e79919566"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rmaps_round_robin.so+
-Try: zypper install -C "debuginfo(build-id)=fc4c8c5e82df290ded5c31b98d04f2e8052a6204"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_gridengine.so+
-Try: zypper install -C "debuginfo(build-id)=bcbf6067e470c4219c688f291ee722764c9d20ee"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_proxy.so+
-Try: zypper install -C "debuginfo(build-id)=bcbf6067e470c4219c688f291ee722764c9d20ee"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_rsh.so+
-Try: zypper install -C "debuginfo(build-id)=e858f53cfd31c5e090ddda5dba145d6aa21317a9"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_slurm.so+
-Try: zypper install -C "debuginfo(build-id)=f1779fa302f3e8f76555e14b90eae9d20a464c64"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_odls_default.so+
-Try: zypper install -C "debuginfo(build-id)=d2b5b9126217a97fed2d1fcdc3fdc56662c76c1e"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rmgr_proxy.so+
-Try: zypper install -C "debuginfo(build-id)=dd9c3fd18ec53ff040186974413fa714e0d14595"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rmgr_urm.so+
-Try: zypper install -C "debuginfo(build-id)=7096d727d63a3e7e4d72481f7dddf323857b93c4"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_iof_proxy.so+
-Try: zypper install -C "debuginfo(build-id)=5686c3b85d9c6f85b38ccac80e04dc1eba981a1d"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_allocator_basic.so+
-Try: zypper install -C "debuginfo(build-id)=8c24fa35a8984354b9381327e2e2dc2da1c5d9a2"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_allocator_bucket.so+
-Try: zypper install -C "debuginfo(build-id)=2773c3c524f8635d70f4ff08855eb6e094274575"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rcache_vma.so+
-Try: zypper install -C "debuginfo(build-id)=2bd824902bb872b55024dad0261d1be23334ad96"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_mpool_rdma.so+
-Try: zypper install -C "debuginfo(build-id)=6397de58e423f648020148746c98dbab9749b9f0"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_mpool_sm.so+
-Try: zypper install -C "debuginfo(build-id)=c4d011e296f92d65ea76471f1901311f33f63dec"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/libmca_common_sm.so.0+
-Try: zypper install -C "debuginfo(build-id)=88373c4dadca1063131f581ee21d8c672671a4ce"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pml_ob1.so+
-Try: zypper install -C "debuginfo(build-id)=8464f81d8f801d9f30a92cd097a5224d2fac9e5b"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_bml_r2.so+
-Try: zypper install -C "debuginfo(build-id)=76728eccfc87527f96d2b1f87ec74095c81ddb0b"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_btl_self.so+
-Try: zypper install -C "debuginfo(build-id)=3d1102b650cf8583aca37593de1d9c18d6099c77"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_btl_sm.so+
-Try: zypper install -C "debuginfo(build-id)=172c9d0fe932827db1e6b07910c3cf2a5288bd9b"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_btl_tcp.so+
-Try: zypper install -C "debuginfo(build-id)=ffdc00b701595119aa282de493e4088c71a0ab53"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_basic.so+
-Try: zypper install -C "debuginfo(build-id)=4fc1a2752f46d7ad70731ae052612aa67d6eb962"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_self.so+
-Try: zypper install -C "debuginfo(build-id)=4fc1a2752f46d7ad70731ae052612aa67d6eb962"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_sm.so+
-Try: zypper install -C "debuginfo(build-id)=6b43dd821c6413a7241cf7df46e03150f441406c"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_tuned.so+
-Try: zypper install -C "debuginfo(build-id)=26402e3410056c24a36ef443501d36d2641cb0eb"+
-Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_osc_pt2pt.so+
-Try: zypper install -C "debuginfo(build-id)=4f559b9379deccfa22ca487e146def8db19b6107"+
-Missing separate debuginfo for /usr/lib64/gerris/libtopics3D.so+
-Try: zypper install -C "debuginfo(build-id)=86bcfb7e07cb6b1dd9fa15cdce5b4f936597a106"+
- +
-warning: Corrupted shared library list+
-Missing separate debuginfo for+
-Try: zypper install -C "debuginfo(build-id)=c7669b037038fb0713eff04aae4a58871f404631"+
- +
-warning: Corrupted shared library list+
-Reading symbols from /usr/lib64/libgfs3D-1.3.so.2...(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/libgfs3D-1.3.so.2+
-Reading symbols from /usr/lib64/libgts-0.7.so.5...(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/libgts-0.7.so.5+
-Reading symbols from /lib64/libglib-2.0.so.0...Missing separate debuginfo for /lib64/libglib-2.0.so.0+
-Try: zypper install -C "debuginfo(build-id)=67137e1a88a14d2341020d1368ec7736117d23dc"+
-(no debugging symbols found)...done.+
-Loaded symbols for /lib64/libglib-2.0.so.0+
-Reading symbols from /lib64/libm.so.6...Missing separate debuginfo for /lib64/libm.so.6+
-Try: zypper install -C "debuginfo(build-id)=5ac64cd348d3581ec2a223ee70f42e73cad029cc"+
-(no debugging symbols found)...done.+
-Loaded symbols for /lib64/libm.so.6+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/libmpi.so.0...Missing separate debuginfo for /usr/lib64/m pi/gcc/openmpi/lib64/libmpi.so.0+
-Try: zypper install -C "debuginfo(build-id)=92fde4dc891cdbfd56717d6e7ec36a6f4aa2a31a"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/libmpi.so.0+
-Reading symbols from /lib64/libpthread.so.0...Missing separate debuginfo for /lib64/libpthread.so.0+
-Try: zypper install -C "debuginfo(build-id)=e23cbc772e670af00bea9874f925e2e61afda713"+
-(no debugging symbols found)...done.+
-Loaded symbols for /lib64/libpthread.so.0+
-Reading symbols from /lib64/libc.so.6...Missing separate debuginfo for /lib64/libc.so.6+
-Try: zypper install -C "debuginfo(build-id)=92ec8fe859846a62345f74696ab349721415587a"+
-(no debugging symbols found)...done.+
-Loaded symbols for /lib64/libc.so.6+
-Reading symbols from /lib64/libgmodule-2.0.so.0...Missing separate debuginfo for /lib64/libgmodule-2.0.so.0+
-Try: zypper install -C "debuginfo(build-id)=691c1fb49f55b61d6fb9d852c1e45bf31070c968"+
-(no debugging symbols found)...done.+
-Loaded symbols for /lib64/libgmodule-2.0.so.0+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/libopen-pal.so.0...Missing separate debuginfo for /usr/li b64/mpi/gcc/openmpi/lib64/libopen-pal.so.0+
-Try: zypper install -C "debuginfo(build-id)=29f39043b1c76e1d6969f0b0b175a401a06e502c"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/libopen-pal.so.0+
-Reading symbols from /lib64/libpcre.so.0...Missing separate debuginfo for /lib64/libpcre.so.0+
-Try: zypper install -C "debuginfo(build-id)=7d0cbd7e39faac70a4bcd0d67af1cec8f764a6a8"+
-(no debugging symbols found)...done.+
-Loaded symbols for /lib64/libpcre.so.0+
-Reading symbols from /lib64/librt.so.1...Missing separate debuginfo for /lib64/librt.so.1+
-Try: zypper install -C "debuginfo(build-id)=e3e6773e84151cf7b70051b1e22f0254ede44f08"+
-(no debugging symbols found)...done.+
-Loaded symbols for /lib64/librt.so.1+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/libopen-rte.so.0...Missing separate debuginfo for /usr/li b64/mpi/gcc/openmpi/lib64/libopen-rte.so.0+
-Try: zypper install -C "debuginfo(build-id)=1499fff7ece09deb87f0a902261be3576cbde3c2"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/libopen-rte.so.0+
-Reading symbols from /lib64/ld-linux-x86-64.so.2...Missing separate debuginfo for /lib64/ld-linux-x86-64.so.2+
-Try: zypper install -C "debuginfo(build-id)=b1d398a5cb1609e7ac1c51a26588e87fc20f753c"+
-(no debugging symbols found)...done.+
-Loaded symbols for /lib64/ld-linux-x86-64.so.2+
-Reading symbols from /lib64/libdl.so.2...Missing separate debuginfo for /lib64/libdl.so.2+
-Try: zypper install -C "debuginfo(build-id)=9a8d0811525ec7a152dca9e109292adca81857c1"+
-(no debugging symbols found)...done.+
-Loaded symbols for /lib64/libdl.so.2+
-Reading symbols from /lib64/libutil.so.1...Missing separate debuginfo for /lib64/libutil.so.1+
-Try: zypper install -C "debuginfo(build-id)=5751266e22e9f2cbca821b110e87ecd37e70e7b4"+
-(no debugging symbols found)...done.+
-Loaded symbols for /lib64/libutil.so.1+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_paffinity_linux.so...Missing separate debugin fo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_paffinity_linux.so+
-Try: zypper install -C "debuginfo(build-id)=25b93b44c7fd7e72c41e420612362a6cb2949985"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_paffinity_linux.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ns_proxy.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ns_proxy.so+
-Try: zypper install -C "debuginfo(build-id)=104134640094fca2fd5426b0701563fd4b28ad4a"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ns_proxy.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ns_replica.so...Missing separate debuginfo fo r /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ns_replica.so+
-Try: zypper install -C "debuginfo(build-id)=8c8456fad88d46693aff1255de3a96264ad05aa0"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ns_replica.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_errmgr_hnp.so...Missing separate debuginfo fo r /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_errmgr_hnp.so+
-Try: zypper install -C "debuginfo(build-id)=ca47041d00b1b46225eaa1a23131adccfd743ea4"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_errmgr_hnp.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_errmgr_orted.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_errmgr_orted.so+
-Try: zypper install -C "debuginfo(build-id)=2c083e1336ae3b9d74d1933ed9b9531e2e776cf2"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_errmgr_orted.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_errmgr_proxy.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_errmgr_proxy.so+
-Try: zypper install -C "debuginfo(build-id)=ec544d770190052f4b90feb4c55bf8f69a1feb7d"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_errmgr_proxy.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rml_oob.so...Missing separate debuginfo for / usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rml_oob.so+
-Try: zypper install -C "debuginfo(build-id)=260fc9c133e905e57d79b0e3605befe631c1aec7"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rml_oob.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_oob_tcp.so...Missing separate debuginfo for / usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_oob_tcp.so+
-Try: zypper install -C "debuginfo(build-id)=5fb1d4dd9f47a3ff043ae76516e62ed091fca612"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_oob_tcp.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_gpr_null.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_gpr_null.so+
-Try: zypper install -C "debuginfo(build-id)=ad0a31c3ba7fd44f88f80c068d293a9d7c664d0e"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_gpr_null.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_gpr_proxy.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_gpr_proxy.so+
-Try: zypper install -C "debuginfo(build-id)=68263ec466fbd29f4d1efbc008e31301ca324b0f"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_gpr_proxy.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_gpr_replica.so...Missing separate debuginfo f or /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_gpr_replica.so+
-Try: zypper install -C "debuginfo(build-id)=acd24af09910454519e83b8e015317ef76fff0bf"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_gpr_replica.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rds_hostfile.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rds_hostfile.so+
-Try: zypper install -C "debuginfo(build-id)=c3ba7c1237f91dbe125fd4bfb480c25a981b845e"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rds_hostfile.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rds_proxy.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rds_proxy.so+
-Try: zypper install -C "debuginfo(build-id)=316df880c94eb69b9ff62486d3af0fdf99b3a584"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rds_proxy.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rds_resfile.so...Missing separate debuginfo f or /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rds_resfile.so+
-Try: zypper install -C "debuginfo(build-id)=26187d03cdd941fed9ea27a8b974fa32c607e278"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rds_resfile.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_dash_host.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_dash_host.so+
-Try: zypper install -C "debuginfo(build-id)=97ad3de1a6593d8a7d491d6a687d4f9e83990abc"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_dash_host.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_gridengine.so...Missing separate debuginf o for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_gridengine.so+
-Try: zypper install -C "debuginfo(build-id)=0faa776e3ac158e25193330e494fa738cde2791f"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_gridengine.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_localhost.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_localhost.so+
-Try: zypper install -C "debuginfo(build-id)=ab37174a7c071f220b248b8d047a502fcb8af2d7"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_localhost.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_slurm.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_slurm.so+
-Try: zypper install -C "debuginfo(build-id)=e380eca4000b35a84021c891bc7d5b9e79919566"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_ras_slurm.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rmaps_round_robin.so...Missing separate debug info for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rmaps_round_robin.so+
-Try: zypper install -C "debuginfo(build-id)=fc4c8c5e82df290ded5c31b98d04f2e8052a6204"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rmaps_round_robin.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_gridengine.so...Missing separate debuginf o for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_gridengine.so+
-Try: zypper install -C "debuginfo(build-id)=78c9b404918f873b0478522d19d1028309865ab5"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_gridengine.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_proxy.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_proxy.so+
-Try: zypper install -C "debuginfo(build-id)=bcbf6067e470c4219c688f291ee722764c9d20ee"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_proxy.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_rsh.so...Missing separate debuginfo for / usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_rsh.so+
-Try: zypper install -C "debuginfo(build-id)=e858f53cfd31c5e090ddda5dba145d6aa21317a9"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_rsh.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_slurm.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_slurm.so+
-Try: zypper install -C "debuginfo(build-id)=f1779fa302f3e8f76555e14b90eae9d20a464c64"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pls_slurm.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_odls_default.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_odls_default.so+
-Try: zypper install -C "debuginfo(build-id)=d2b5b9126217a97fed2d1fcdc3fdc56662c76c1e"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_odls_default.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rmgr_proxy.so...Missing separate debuginfo fo r /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rmgr_proxy.so+
-Try: zypper install -C "debuginfo(build-id)=dd9c3fd18ec53ff040186974413fa714e0d14595"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rmgr_proxy.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rmgr_urm.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rmgr_urm.so+
-Try: zypper install -C "debuginfo(build-id)=7096d727d63a3e7e4d72481f7dddf323857b93c4"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rmgr_urm.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_iof_proxy.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_iof_proxy.so+
-Try: zypper install -C "debuginfo(build-id)=5686c3b85d9c6f85b38ccac80e04dc1eba981a1d"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_iof_proxy.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_allocator_basic.so...Missing separate debugin fo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_allocator_basic.so+
-Try: zypper install -C "debuginfo(build-id)=8c24fa35a8984354b9381327e2e2dc2da1c5d9a2"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_allocator_basic.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_allocator_bucket.so...Missing separate debugi nfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_allocator_bucket.so+
-Try: zypper install -C "debuginfo(build-id)=2773c3c524f8635d70f4ff08855eb6e094274575"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_allocator_bucket.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rcache_vma.so...Missing separate debuginfo fo r /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rcache_vma.so+
-Try: zypper install -C "debuginfo(build-id)=2bd824902bb872b55024dad0261d1be23334ad96"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_rcache_vma.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_mpool_rdma.so...Missing separate debuginfo fo r /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_mpool_rdma.so+
-Try: zypper install -C "debuginfo(build-id)=6397de58e423f648020148746c98dbab9749b9f0"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_mpool_rdma.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_mpool_sm.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_mpool_sm.so+
-Try: zypper install -C "debuginfo(build-id)=c4d011e296f92d65ea76471f1901311f33f63dec"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_mpool_sm.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/libmca_common_sm.so.0...Missing separate debuginfo for /u sr/lib64/mpi/gcc/openmpi/lib64/libmca_common_sm.so.0+
-Try: zypper install -C "debuginfo(build-id)=88373c4dadca1063131f581ee21d8c672671a4ce"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/libmca_common_sm.so.0+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pml_ob1.so...Missing separate debuginfo for / usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pml_ob1.so+
-Try: zypper install -C "debuginfo(build-id)=8464f81d8f801d9f30a92cd097a5224d2fac9e5b"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_pml_ob1.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_bml_r2.so...Missing separate debuginfo for /u sr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_bml_r2.so+
-Try: zypper install -C "debuginfo(build-id)=76728eccfc87527f96d2b1f87ec74095c81ddb0b"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_bml_r2.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_btl_self.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_btl_self.so+
-Try: zypper install -C "debuginfo(build-id)=3d1102b650cf8583aca37593de1d9c18d6099c77"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_btl_self.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_btl_sm.so...Missing separate debuginfo for /u sr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_btl_sm.so+
-Try: zypper install -C "debuginfo(build-id)=172c9d0fe932827db1e6b07910c3cf2a5288bd9b"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_btl_sm.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_btl_tcp.so...Missing separate debuginfo for / usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_btl_tcp.so+
-Try: zypper install -C "debuginfo(build-id)=ffdc00b701595119aa282de493e4088c71a0ab53"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_btl_tcp.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_basic.so...Missing separate debuginfo fo r /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_basic.so+
-Try: zypper install -C "debuginfo(build-id)=3071c6ccb164728e334021fb839e3dc7d32d17b8"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_basic.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_self.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_self.so+
-Try: zypper install -C "debuginfo(build-id)=4fc1a2752f46d7ad70731ae052612aa67d6eb962"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_self.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_sm.so...Missing separate debuginfo for / usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_sm.so+
-Try: zypper install -C "debuginfo(build-id)=6b43dd821c6413a7241cf7df46e03150f441406c"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_sm.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_tuned.so...Missing separate debuginfo fo r /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_tuned.so+
-Try: zypper install -C "debuginfo(build-id)=26402e3410056c24a36ef443501d36d2641cb0eb"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_coll_tuned.so+
-Reading symbols from /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_osc_pt2pt.so...Missing separate debuginfo for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_osc_pt2pt.so+
-Try: zypper install -C "debuginfo(build-id)=4f559b9379deccfa22ca487e146def8db19b6107"+
-(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/mpi/gcc/openmpi/lib64/openmpi/mca_osc_pt2pt.so+
-Reading symbols from /usr/lib64/gerris/libtopics3D.so...(no debugging symbols found)...done.+
-Loaded symbols for /usr/lib64/gerris/libtopics3D.so+
- +
-warning: Corrupted shared library list+
-Core was generated by `gerris3D -m parallel3D.gfs'.+
-Program terminated with signal 8, Arithmetic exception.+
-#0 0x00007fc83f471ecd in triBoxOverlap () from /usr/lib64/libgts-0.7.so.5+
-(gdb)+
</pre> </pre>

Revision as of 03:37, 29 November 2011

Emily's Favourite Error Messages


This page is a place for storing error messages so I can compare and contrast.


Nicholson Canyon viscous3D parallel runs

I get the same message on both turbine and the new modelling computer and it occurs at the same position:


Modelling computer:

   step:       1 t:      0.50000000 dt:  5.000000e-01 cpu:     31.87250000 real:     34.53414900
   MAC projection        before     after       rate
   niter:    7
   residual.bias:   -7.007e-03 -5.369e-05
   residual.first:   7.016e-03  5.373e-05      2
   residual.second:  1.461e-02  7.277e-05    2.1
   residual.infty:   3.525e-02  7.272e-04    1.7
   Approximate projection
   niter:    3
   residual.bias:   -1.151e-04 -5.477e-05
   residual.first:   1.547e-04  5.481e-05    1.4
   residual.second:  5.344e-04  7.187e-05      2
   residual.infty:   2.145e-02  7.902e-04      3
   [NIWA-36410:06625] *** Process received signal ***
   [NIWA-36410:06625] Signal: Segmentation fault (11)
   [NIWA-36410:06625] Signal code: Address not mapped (1)
   [NIWA-36410:06625] Failing at address: 0x8
   [NIWA-36410:06625] [ 0] /lib64/libpthread.so.0(+0xf2d0) [0x7ffb7880b2d0]
   [NIWA-36410:06625] [ 1] /usr/lib64/libgfs3D-1.3.so.2(+0x4728e) [0x7ffb794a628e]
   [NIWA-36410:06625] [ 2] /usr/lib64/libgfs3D-1.3.so.2(+0x152a9) [0x7ffb794742a9]
   [NIWA-36410:06625] *** End of error message ***
   mpirun noticed that job rank 0 with PID 6619 on node NIWA-36410 exited on signal 15 (Terminated).
   7 additional processes aborted (not shown)

Turbine:

   step:       1 t:      0.50000000 dt:  5.000000e-01 cpu:     54.26500000 real:     57.84363200
   MAC projection        before     after       rate
   niter:    7
   residual.bias:   -7.007e-03 -5.369e-05
   residual.first:   7.016e-03  5.373e-05      2
   residual.second:  1.461e-02  7.277e-05    2.1
   residual.infty:   3.525e-02  7.272e-04    1.7
   Approximate projection
   niter:    3
   residual.bias:   -1.151e-04 -5.477e-05
   residual.first:   1.546e-04  5.481e-05    1.4
   residual.second:  5.338e-04  7.187e-05      2
   residual.infty:   2.141e-02  7.902e-04      3
   [rotor03:20387] *** Process received signal ***
   [rotor03:20387] Signal: Segmentation fault (11) 
   [rotor03:20387] Signal code: Address not mapped (1) 
   [rotor03:20387] Failing at address: 0x8 
   [rotor03:20387] [ 0] /lib64/libpthread.so.0 [0x7f64b72c0c00]
   [rotor03:20387] [ 1] /usr/lib64/libgfs3D-1.3.so.2 [0x7f64b8c0944f]
   [rotor03:20387] [ 2] /usr/lib64/libgfs3D-1.3.so.2 [0x7f64b8bdc609]
   [rotor03:20387] *** End of error message ***
   mpirun noticed that job rank 0 with PID 20381 on node rotor03 exited on signal 15 (Terminated).
   7 additional processes aborted (not shown)

The same code runs in series, I also tried with 2 and 4 cpus and it failed with the same error message (although at t=1 for 4 nodes and before writing any output for 2 nodes. It seemed to be consistent when it failed.


--- Gerris Debugging When running gerris debugging after the fact (i.e. as Stephane suggested doing the following)

% ulimit -c unlimited
% <rerun, crash should display "(core dumped)">
% ls core*
% gdb gerris3D core
gdb> where

I get:

#0  0x00007fd8198c228e in match_periodic_bc ()
   from /usr/lib64/libgfs3D-1.3.so.2
#1  0x00007fd8198902a9 in cell_traverse_boundary_leafs ()
   from /usr/lib64/libgfs3D-1.3.so.2
#2  0x00007fd8198902a9 in cell_traverse_boundary_leafs ()
   from /usr/lib64/libgfs3D-1.3.so.2
#3  0x00007fd8198902a9 in cell_traverse_boundary_leafs ()
   from /usr/lib64/libgfs3D-1.3.so.2
#4  0x00007fd8198902a9 in cell_traverse_boundary_leafs ()
   from /usr/lib64/libgfs3D-1.3.so.2
#5  0x00007fd8198902a9 in cell_traverse_boundary_leafs ()
   from /usr/lib64/libgfs3D-1.3.so.2
#6  0x00007fd8198902a9 in cell_traverse_boundary_leafs ()
   from /usr/lib64/libgfs3D-1.3.so.2
#7  0x00007fd8198c5faf in match_box_bc () from /usr/lib64/libgfs3D-1.3.so.2
#8  0x00007fd8198c8db3 in domain_foreach () from /usr/lib64/libgfs3D-1.3.so.2
#9  0x00007fd8198cde21 in gfs_domain_tag_droplets ()
   from /usr/lib64/libgfs3D-1.3.so.2
#10 0x00007fd8198ce0ae in gfs_domain_remove_droplets ()
   from /usr/lib64/libgfs3D-1.3.so.2
#11 0x00007fd8198d6b59 in gfs_remove_droplets_event ()
   from /usr/lib64/libgfs3D-1.3.so.2
#12 0x00007fd8198d2825 in gfs_event_do () from /usr/lib64/libgfs3D-1.3.so.2
#13 0x00007fd81965fcb7 in slist_container_foreach ()
   from /usr/lib64/libgts-0.7.so.5
#14 0x00007fd8198da97f in simulation_run () from /usr/lib64/libgfs3D-1.3.so.2
#15 0x00007fd8198dc2a8 in gfs_simulation_run ()
   from /usr/lib64/libgfs3D-1.3.so.2
#16 0x0000000000402d3f in main ()


Parallel runs of solid block scenario

The following was generated using the debugging suggestion above. This was running on a 8 core modelling computer. Looking at the core dump using gdb I get:

#0  0x00007f330388fecd in triBoxOverlap () from /usr/lib64/libgts-0.7.so.5
#1  0x00007f3303857452 in gts_bbox_overlaps_triangle () from /usr/lib64/libgts-0.7.so.5
#2  0x00007f3303b305b2 in face_overlaps_box () from /usr/lib64/libgfs3D-1.3.so.2
#3  0x00007f33035850d3 in g_hash_table_foreach () from /lib64/libglib-2.0.so.0
#4  0x00007f330386e215 in gts_surface_foreach_face () from /usr/lib64/libgts-0.7.so.5
#5  0x00007f3303b3268e in cell_is_cut () from /usr/lib64/libgfs3D-1.3.so.2
#6  0x00007f3303b319a7 in cell_traverse_cut () from /usr/lib64/libgfs3D-1.3.so.2
#7  0x00007f3303b31c4f in gfs_cell_traverse_cut () from /usr/lib64/libgfs3D-1.3.so.2
#8  0x00007f3303aefdb3 in domain_foreach () from /usr/lib64/libgfs3D-1.3.so.2
#9  0x00007f3303af0728 in gfs_domain_traverse_cut () from /usr/lib64/libgfs3D-1.3.so.2
#10 0x00007f3303b3eb5b in simulation_moving_run () from /usr/lib64/libgfs3D-1.3.so.2
#11 0x00007f3303b032a8 in gfs_simulation_run () from /usr/lib64/libgfs3D-1.3.so.2
#12 0x0000000000402d3f in main ()
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