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Double free or corruption (fasttop) when running tutorial #15

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Eder-K opened this issue Mar 5, 2020 · 3 comments
Closed

Double free or corruption (fasttop) when running tutorial #15

Eder-K opened this issue Mar 5, 2020 · 3 comments

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@Eder-K
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Eder-K commented Mar 5, 2020 •
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The SU2-Calculix systemtest is failing on TravisCI, the logs for the docker containers can be found here (corresponding log to the linked TravisCI build 1773.17). The log shows that the su2 participant crashes at the end of the simulation with:

Process #0/0: Finalizing preCICE...
Run finished at Tue Feb 25 07:21:54 2020
Global runtime       = 147721.000000ms / 147.721000s
Number of processors = 1
# Rank: 0

                                                                         Event |      Count |  Total[ms] |    Max[ms] |    Min[ms] |    Avg[ms] | Time Ratio |
--------------------------------------------------------------------------------------------------------------------------------------------------------------
                                                                       _GLOBAL |          1 |     147721 |     147721 |     147721 |     147721 |      1.000 |
                                                                       advance |        932 |      16926 |         91 |          6 |         18 |      0.115 |
                                                       advance/m2n.receiveData |        932 |        105 |          0 |          0 |          0 |      0.001 |
                                                          advance/m2n.sendData |        932 |        273 |          7 |          0 |          0 |      0.002 |
                    advance/map.nn.computeMapping.FromCalculix_MeshToSU2_Mesh0 |          1 |          1 |          1 |          1 |          1 |      0.000 |
 advance/map.nn.computeMapping.FromCalculix_MeshToSU2_Mesh0.getIndexOnVertices |          1 |          0 |          0 |          0 |          0 |      0.000 |
                    advance/map.nn.computeMapping.FromSU2_Mesh0ToCalculix_Mesh |          1 |          4 |          4 |          4 |          4 |      0.000 |
 advance/map.nn.computeMapping.FromSU2_Mesh0ToCalculix_Mesh.getIndexOnVertices |          1 |          1 |          1 |          1 |          1 |      0.000 |
                           advance/map.nn.mapData.FromCalculix_MeshToSU2_Mesh0 |        932 |         89 |          0 |          0 |          0 |      0.001 |
                           advance/map.nn.mapData.FromSU2_Mesh0ToCalculix_Mesh |        932 |         42 |          0 |          0 |          0 |      0.000 |
                                                                     configure |          1 |          1 |          1 |          1 |          1 |      0.000 |
                                                                      finalize |          1 |         39 |         39 |         39 |         39 |      0.000 |
                                                                    initialize |          1 |        104 |        104 |        104 |        104 |      0.001 |
                                   initialize/m2n.broadcastVertexDistributions |          1 |          0 |          0 |          0 |          0 |      0.000 |
                                          initialize/m2n.buildCommunicationMap |          1 |          0 |          0 |          0 |          0 |      0.000 |
                                           initialize/m2n.createCommunications |          1 |          9 |          9 |          9 |          9 |      0.000 |
                                     initialize/m2n.exchangeVertexDistribution |          1 |         44 |         44 |         44 |         44 |      0.000 |
                                        initialize/m2n.requestMasterConnection |          1 |          8 |          8 |          8 |          8 |      0.000 |
                                        initialize/m2n.requestSlavesConnection |          1 |         54 |         54 |         54 |         54 |      0.000 |
                                    initialize/partition.prepareMesh.SU2_Mesh0 |          1 |          0 |          0 |          0 |          0 |      0.000 |
                          initialize/partition.receiveGlobalMesh.Calculix_Mesh |          1 |         36 |         36 |         36 |         36 |      0.000 |
                                                                solver.advance |        932 |     130402 |        292 |          9 |        139 |      0.883 |
                                                             solver.initialize |          1 |        219 |        219 |        219 |        219 |      0.001 |


*** Error in `SU2_CFD': double free or corruption (fasttop): 0x0000000002245ce0 ***
                                                                          Name |        Max |  MaxOnRank |        Min |  MinOnRank |    Min/Max |
-------------------------------------------------------------------------------------------------------------------------------------------------
                                                                       _GLOBAL | 147721.000000 |          0 | 147721.000000 |          0 |   1.000000 |
                                                                       advance |  91.000000 |          0 |   6.000000 |          0 |   0.065934 |
                                                       advance/m2n.receiveData |   0.000000 |          0 |   0.000000 |          0 |   0.000000 |
                                                          advance/m2n.sendData |   7.000000 |          0 |   0.000000 |          0 |   0.000000 |
                    advance/map.nn.computeMapping.FromCalculix_MeshToSU2_Mesh0 |   1.000000 |          0 |   1.000000 |          0 |   1.000000 |
 advance/map.nn.computeMapping.FromCalculix_MeshToSU2_Mesh0.getIndexOnVertices |   0.000000 |          0 |   0.000000 |          0 |   0.000000 |
                    advance/map.nn.computeMapping.FromSU2_Mesh0ToCalculix_Mesh |   4.000000 |          0 |   4.000000 |          0 |   1.000000 |
 advance/map.nn.computeMapping.FromSU2_Mesh0ToCalculix_Mesh.getIndexOnVertices |   1.000000 |          0 |   1.000000 |          0 |   1.000000 |
                           advance/map.nn.mapData.FromCalculix_MeshToSU2_Mesh0 |   0.000000 |          0 |   0.000000 |          0 |   0.000000 |
                           advance/map.nn.mapData.FromSU2_Mesh0ToCalculix_Mesh |   0.000000 |          0 |   0.000000 |          0 |   0.000000 |
                                                                     configure |   1.000000 |          0 |   1.000000 |          0 |   1.000000 |
                                                                      finalize |  39.000000 |          0 |  39.000000 |          0 |   1.000000 |
                                                                    initialize | 104.000000 |          0 | 104.000000 |          0 |   1.000000 |
                                   initialize/m2n.broadcastVertexDistributions |   0.000000 |          0 |   0.000000 |          0 |   0.000000 |
                                          initialize/m2n.buildCommunicationMap |   0.000000 |          0 |   0.000000 |          0 |   0.000000 |
                                           initialize/m2n.createCommunications |   9.000000 |          0 |   9.000000 |          0 |   1.000000 |
                                     initialize/m2n.exchangeVertexDistribution |  44.000000 |          0 |  44.000000 |          0 |   1.000000 |
                                        initialize/m2n.requestMasterConnection |   8.000000 |          0 |   8.000000 |          0 |   1.000000 |
                                        initialize/m2n.requestSlavesConnection |  54.000000 |          0 |  54.000000 |          0 |   1.000000 |
                                    initialize/partition.prepareMesh.SU2_Mesh0 |   0.000000 |          0 |   0.000000 |          0 |   0.000000 |
                          initialize/partition.receiveGlobalMesh.Calculix_Mesh |  36.000000 |          0 |  36.000000 |          0 |   1.000000 |
                                                                solver.advance | 292.000000 |          0 |   9.000000 |          0 |   0.030822 |
                                                             solver.initialize | 219.000000 |          0 | 219.000000 |          0 |   1.000000 |
Process #0/0: Done finalizing preCICE!
======= Backtrace: =========
/lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7f69fdfa57e5]
/lib/x86_64-linux-gnu/libc.so.6(+0x8037a)[0x7f69fdfae37a]
/lib/x86_64-linux-gnu/libc.so.6(cfree+0x4c)[0x7f69fdfb253c]
SU2_CFD[0x4c24d4]
SU2_CFD[0x423f78]
/lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7f69fdf4e830]
SU2_CFD[0x423829]

======= Memory map: ========
00400000-0106d000 r-xp 00000000 08:01 1978128                            /home/precice/su2-bin/bin/SU2_CFD
0126c000-0129d000 r--p 00c6c000 08:01 1978128                            /home/precice/su2-bin/bin/SU2_CFD
0129d000-0129e000 rw-p 00c9d000 08:01 1978128                            /home/precice/su2-bin/bin/SU2_CFD
0129e000-012f3000 rw-p 00000000 00:00 0 
02231000-031eb000 rw-p 00000000 00:00 0                                  [heap]
7f69ed07f000-7f69ed080000 ---p 00000000 00:00 0 
7f69ed080000-7f69ed880000 rw-p 00000000 00:00 0 
7f69ed880000-7f69ed881000 ---p 00000000 00:00 0 
7f69ed881000-7f69ee081000 rw-p 00000000 00:00 0 
7f69f0000000-7f69f0021000 rw-p 00000000 00:00 0 
7f69f0021000-7f69f4000000 ---p 00000000 00:00 0 
7f69f6025000-7f69f6026000 ---p 00000000 00:00 0 
7f69f6026000-7f69f6826000 rw-p 00000000 00:00 0 
7f69f7652000-7f69f765d000 r-xp 00000000 08:01 1444328                    /lib/x86_64-linux-gnu/libnss_files-2.23.so
7f69f765d000-7f69f785c000 ---p 0000b000 08:01 1444328                    /lib/x86_64-linux-gnu/libnss_files-2.23.so
7f69f785c000-7f69f785d000 r--p 0000a000 08:01 1444328                    /lib/x86_64-linux-gnu/libnss_files-2.23.so
7f69f785d000-7f69f785e000 rw-p 0000b000 08:01 1444328                    /lib/x86_64-linux-gnu/libnss_files-2.23.so
7f69f785e000-7f69f7864000 rw-p 00000000 00:00 0 
7f69f7864000-7f69f786f000 r-xp 00000000 08:01 1444332                    /lib/x86_64-linux-gnu/libnss_nis-2.23.so
7f69f786f000-7f69f7a6e000 ---p 0000b000 08:01 1444332                    /lib/x86_64-linux-gnu/libnss_nis-2.23.so
7f69f7a6e000-7f69f7a6f000 r--p 0000a000 08:01 1444332                    /lib/x86_64-linux-gnu/libnss_nis-2.23.so
7f69f7a6f000-7f69f7a70000 rw-p 0000b000 08:01 1444332                    /lib/x86_64-linux-gnu/libnss_nis-2.23.so
7f69f7e5e000-7f69f7e74000 r-xp 00000000 08:01 1444322                    /lib/x86_64-linux-gnu/libnsl-2.23.so
7f69f7e74000-7f69f8073000 ---p 00016000 08:01 1444322                    /lib/x86_64-linux-gnu/libnsl-2.23.so
7f69f8073000-7f69f8074000 r--p 00015000 08:01 1444322                    /lib/x86_64-linux-gnu/libnsl-2.23.so
7f69f8074000-7f69f8075000 rw-p 00016000 08:01 1444322                    /lib/x86_64-linux-gnu/libnsl-2.23.so
7f69f8075000-7f69f8077000 rw-p 00000000 00:00 0 
7f69f8077000-7f69f807f000 r-xp 00000000 08:01 1444324                    /lib/x86_64-linux-gnu/libnss_compat-2.23.so
7f69f807f000-7f69f827e000 ---p 00008000 08:01 1444324                    /lib/x86_64-linux-gnu/libnss_compat-2.23.so
7f69f827e000-7f69f827f000 r--p 00007000 08:01 1444324                    /lib/x86_64-linux-gnu/libnss_compat-2.23.so
7f69f827f000-7f69f8280000 rw-p 00008000 08:01 1444324                    /lib/x86_64-linux-gnu/libnss_compat-2.23.so
7f69f888b000-7f69f8894000 r-xp 00000000 08:01 1581101                    /usr/lib/x86_64-linux-gnu/libltdl.so.7.3.1
7f69f8894000-7f69f8a93000 ---p 00009000 08:01 1581101                    /usr/lib/x86_64-linux-gnu/libltdl.so.7.3.1
7f69f8a93000-7f69f8a94000 r--p 00008000 08:01 1581101                    /usr/lib/x86_64-linux-gnu/libltdl.so.7.3.1
7f69f8a94000-7f69f8a95000 rw-p 00009000 08:01 1581101                    /usr/lib/x86_64-linux-gnu/libltdl.so.7.3.1
7f69f8a95000-7f69f8a9f000 r-xp 00000000 08:01 1581131                    /usr/lib/x86_64-linux-gnu/libnuma.so.1.0.0
7f69f8a9f000-7f69f8c9e000 ---p 0000a000 08:01 1581131                    /usr/lib/x86_64-linux-gnu/libnuma.so.1.0.0
7f69f8c9e000-7f69f8c9f000 r--p 00009000 08:01 1581131                    /usr/lib/x86_64-linux-gnu/libnuma.so.1.0.0
7f69f8c9f000-7f69f8ca0000 rw-p 0000a000 08:01 1581131                    /usr/lib/x86_64-linux-gnu/libnuma.so.1.0.0
7f69f8ca0000-7f69f8ca2000 r-xp 00000000 08:01 1444373                    /lib/x86_64-linux-gnu/libutil-2.23.so
7f69f8ca2000-7f69f8ea1000 ---p 00002000 08:01 1444373                    /lib/x86_64-linux-gnu/libutil-2.23.so
7f69f8ea1000-7f69f8ea2000 r--p 00001000 08:01 1444373                    /lib/x86_64-linux-gnu/libutil-2.23.so
7f69f8ea2000-7f69f8ea3000 rw-p 00002000 08:01 1444373                    /lib/x86_64-linux-gnu/libutil-2.23.so
7f69f8ea3000-7f69f8edc000 r-xp 00000000 08:01 1581030                    /usr/lib/x86_64-linux-gnu/libhwloc.so.5.6.8
7f69f8edc000-7f69f90db000 ---p 00039000 08:01 1581030                    /usr/lib/x86_64-linux-gnu/libhwloc.so.5.6.8
7f69f90db000-7f69f90dc000 r--p 00038000 08:01 1581030                    /usr/lib/x86_64-linux-gnu/libhwloc.so.5.6.8
7f69f90dc000-7f69f90dd000 rw-p 00039000 08:01 1581030                    /usr/lib/x86_64-linux-gnu/libhwloc.so.5.6.8
7f69f90dd000-7f69fa993000 r-xp 00000000 08:01 1581036                    /usr/lib/x86_64-linux-gnu/libicudata.so.55.1
7f69fa993000-7f69fab92000 ---p 018b6000 08:01 1581036                    /usr/lib/x86_64-linux-gnu/libicudata.so.55.1
7f69fab92000-7f69fab93000 r--p 018b5000 08:01 1581036                    /usr/lib/x86_64-linux-gnu/libicudata.so.55.1
7f69fab93000-7f69fab94000 rw-p 018b6000 08:01 1581036                    /usr/lib/x86_64-linux-gnu/libicudata.so.55.1
7f69fab94000-7f69fade6000 r-xp 00000000 08:01 1581040                    /usr/lib/x86_64-linux-gnu/libicui18n.so.55.1
7f69fade6000-7f69fafe6000 ---p 00252000 08:01 1581040                    /usr/lib/x86_64-linux-gnu/libicui18n.so.55.1
7f69fafe6000-7f69faff5000 r--p 00252000 08:01 1581040                    /usr/lib/x86_64-linux-gnu/libicui18n.so.55.1
7f69faff5000-7f69faff6000 rw-p 00261000 08:01 1581040                    /usr/lib/x86_64-linux-gnu/libicui18n.so.55.1
7f69faff6000-7f69fb086000 r-xp 00000000 08:01 1578154                    /usr/lib/openmpi/lib/libopen-pal.so.13.0.2
7f69fb086000-7f69fb286000 ---p 00090000 08:01 1578154                    /usr/lib/openmpi/lib/libopen-pal.so.13.0.2
7f69fb286000-7f69fb28a000 r--p 00090000 08:01 1578154                    /usr/lib/openmpi/lib/libopen-pal.so.13.0.2
7f69fb28a000-7f69fb28e000 rw-p 00094000 08:01 1578154                    /usr/lib/openmpi/lib/libopen-pal.so.13.0.2
7f69fb28e000-7f69fb293000 rw-p 00000000 00:00 0 
7f69fb293000-7f69fb308000 r-xp 00000000 08:01 1578156                    /usr/lib/openmpi/lib/libopen-rte.so.12.0.2
7f69fb308000-7f69fb507000 ---p 00075000 08:01 1578156                    /usr/lib/openmpi/lib/libopen-rte.so.12.0.2
7f69fb507000-7f69fb508000 r--p 00074000 08:01 1578156                    /usr/lib/openmpi/lib/libopen-rte.so.12.0.2
7f69fb508000-7f69fb50b000 rw-p 00075000 08:01 1578156                    /usr/lib/openmpi/lib/libopen-rte.so.12.0.2
7f69fb50b000-7f69fb50d000 rw-p 00000000 00:00 0 
7f69fb50d000-7f69fb51a000 r-xp 00000000 08:01 1577318                    /usr/lib/libibverbs.so.1.0.0
7f69fb51a000-7f69fb71a000 ---p 0000d000 08:01 1577318                    /usr/lib/libibverbs.so.1.0.0
7f69fb71a000-7f69fb71b000 r--p 0000d000 08:01 1577318                    /usr/lib/libibverbs.so.1.0.0
7f69fb71b000-7f69fb71c000 rw-p 0000e000 08:01 1577318                    /usr/lib/libibverbs.so.1.0.0
7f69fb71c000-7f69fb73d000 r-xp 00000000 08:01 1444310                    /lib/x86_64-linux-gnu/liblzma.so.5.0.0
7f69fb73d000-7f69fb93c000 ---p 00021000 08:01 1444310                    /lib/x86_64-linux-gnu/liblzma.so.5.0.0
7f69fb93c000-7f69fb93d000 r--p 00020000 08:01 1444310                    /lib/x86_64-linux-gnu/liblzma.so.5.0.0
7f69fb93d000-7f69fb93e000 rw-p 00021000 08:01 1444310                    /lib/x86_64-linux-gnu/liblzma.so.5.0.0
7f69fb93e000-7f69fb957000 r-xp 00000000 08:01 1444378                    /lib/x86_64-linux-gnu/libz.so.1.2.8
7f69fb957000-7f69fbb56000 ---p 00019000 08:01 1444378                    /lib/x86_64-linux-gnu/libz.so.1.2.8
7f69fbb56000-7f69fbb57000 r--p 00018000 08:01 1444378                    /lib/x86_64-linux-gnu/libz.so.1.2.8
7f69fbb57000-7f69fbb58000 rw-p 00019000 08:01 1444378                    /lib/x86_64-linux-gnu/libz.so.1.2.8
7f69fbb58000-7f69fbcd7000 r-xp 00000000 08:01 1581064                    /usr/lib/x86_64-linux-gnu/libicuuc.so.55.1
7f69fbcd7000-7f69fbed7000 ---p 0017f000 08:01 1581064                    /usr/lib/x86_64-linux-gnu/libicuuc.so.55.1
7f69fbed7000-7f69fbee7000 r--p 0017f000 08:01 1581064                    /usr/lib/x86_64-linux-gnu/libicuuc.so.55.1
7f69fbee7000-7f69fbee8000 rw-p 0018f000 08:01 1581064                    /usr/lib/x86_64-linux-gnu/libicuuc.so.55.1
7f69fbee8000-7f69fbeec000 rw-p 00000000 00:00 0 
7f69fbeec000-7f69fc006000 r-xp 00000000 08:01 1840512                    /usr/local/lib/libboost_regex.so.1.65.1
7f69fc006000-7f69fc205000 ---p 0011a000 08:01 1840512                    /usr/local/lib/libboost_regex.so.1.65.1
7f69fc205000-7f69fc20a000 r--p 00119000 08:01 1840512                    /usr/local/lib/libboost_regex.so.1.65.1
7f69fc20a000-7f69fc20c000 rw-p 0011e000 08:01 1840512                    /usr/local/lib/libboost_regex.so.1.65.1
7f69fc20c000-7f69fc20d000 rw-p 00000000 00:00 0 
7f69fc20d000-7f69fc214000 r-xp 00000000 08:01 1444353                    /lib/x86_64-linux-gnu/librt-2.23.so
7f69fc214000-7f69fc413000 ---p 00007000 08:01 1444353                    /lib/x86_64-linux-gnu/librt-2.23.so
7f69fc413000-7f69fc414000 r--p 00006000 08:01 1444353                    /lib/x86_64-linux-gnu/librt-2.23.so
7f69fc414000-7f69fc415000 rw-p 00007000 08:01 1444353                    /lib/x86_64-linux-gnu/librt-2.23.so
7f69fc415000-7f69fc4c7000 r-xp 00000000 08:01 1578142                    /usr/lib/openmpi/lib/libmpi.so.12.0.2
7f69fc4c7000-7f69fc6c7000 ---p 000b2000 08:01 1578142                    /usr/lib/openmpi/lib/libmpi.so.12.0.2
7f69fc6c7000-7f69fc6c8000 r--p 000b2000 08:01 1578142                    /usr/lib/openmpi/lib/libmpi.so.12.0.2
7f69fc6c8000-7f69fc6d8000 rw-p 000b3000 08:01 1578142                    /usr/lib/openmpi/lib/libmpi.so.12.0.2
7f69fc6d8000-7f69fc6eb000 rw-p 00000000 00:00 0 
7f69fc6eb000-7f69fc703000 r-xp 00000000 08:01 1578144                    /usr/lib/openmpi/lib/libmpi_cxx.so.1.1.3
7f69fc703000-7f69fc903000 ---p 00018000 08:01 1578144                    /usr/lib/openmpi/lib/libmpi_cxx.so.1.1.3
7f69fc903000-7f69fc905000 r--p 00018000 08:01 1578144                    /usr/lib/openmpi/lib/libmpi_cxx.so.1.1.3
7f69fc905000-7f69fc906000 rw-p 0001a000 08:01 1578144                    /usr/lib/openmpi/lib/libmpi_cxx.so.1.1.3
7f69fc906000-7f69fc91e000 r-xp 00000000 08:01 1444347                    /lib/x86_64-linux-gnu/libpthread-2.23.so
7f69fc91e000-7f69fcb1d000 ---p 00018000 08:01 1444347                    /lib/x86_64-linux-gnu/libpthread-2.23.so
7f69fcb1d000-7f69fcb1e000 r--p 00017000 08:01 1444347                    /lib/x86_64-linux-gnu/libpthread-2.23.so
7f69fcb1e000-7f69fcb1f000 rw-p 00018000 08:01 1444347                    /lib/x86_64-linux-gnu/libpthread-2.23.so
7f69fcb1f000-7f69fcb23000 rw-p 00000000 00:00 0 
7f69fcb23000-7f69fccd4000 r-xp 00000000 08:01 1581208                    /usr/lib/x86_64-linux-gnu/libxml2.so.2.9.3
7f69fccd4000-7f69fced3000 ---p 001b1000 08:01 1581208                    /usr/lib/x86_64-linux-gnu/libxml2.so.2.9.3
7f69fced3000-7f69fcedb000 r--p 001b0000 08:01 1581208                    /usr/lib/x86_64-linux-gnu/libxml2.so.2.9.3
7f69fcedb000-7f69fcedd000 rw-p 001b8000 08:01 1581208                    /usr/lib/x86_64-linux-gnu/libxml2.so.2.9.3
7f69fcedd000-7f69fcede000 rw-p 00000000 00:00 0 
7f69fcede000-7f69fcee1000 r-xp 00000000 08:01 1444292                    /lib/x86_64-linux-gnu/libdl-2.23.so
7f69fcee1000-7f69fd0e0000 ---p 00003000 08:01 1444292                    /lib/x86_64-linux-gnu/libdl-2.23.so
7f69fd0e0000-7f69fd0e1000 r--p 00002000 08:01 1444292                    /lib/x86_64-linux-gnu/libdl-2.23.so
7f69fd0e1000-7f69fd0e2000 rw-p 00003000 08:01 1444292                    /lib/x86_64-linux-gnu/libdl-2.23.so
7f69fd0e2000-7f69fd109000 r-xp 00000000 08:01 1840519                    /usr/local/lib/libboost_thread.so.1.65.1
7f69fd109000-7f69fd308000 ---p 00027000 08:01 1840519                    /usr/local/lib/libboost_thread.so.1.65.1
7f69fd308000-7f69fd30a000 r--p 00026000 08:01 1840519                    /usr/local/lib/libboost_thread.so.1.65.1
7f69fd30a000-7f69fd30b000 rw-p 00028000 08:01 1840519                    /usr/local/lib/libboost_thread.so.1.65.1
7f69fd30b000-7f69fd30e000 r-xp 00000000 08:01 1840515                    /usr/local/lib/libboost_system.so.1.65.1
7f69fd30e000-7f69fd50d000 ---p 00003000 08:01 1840515                    /usr/local/lib/libboost_system.so.1.65.1
7f69fd50d000-7f69fd50e000 r--p 00002000 08:01 1840515                    /usr/local/lib/libboost_system.so.1.65.1
7f69fd50e000-7f69fd50f000 rw-p 00003000 08:01 1840515                    /usr/local/lib/libboost_system.so.1.65.1
7f69fd50f000-7f69fd58b000 r-xp 00000000 08:01 1840509                    /usr/local/lib/libboost_program_options.so.1.65.1
7f69fd58b000-7f69fd78b000 ---p 0007c000 08:01 1840509                    /usr/local/lib/libboost_program_options.so.1.65.1
7f69fd78b000-7f69fd78e000 r--p 0007c000 08:01 1840509                    /usr/local/lib/libboost_program_options.so.1.65.1
7f69fd78e000-7f69fd78f000 rw-p 0007f000 08:01 1840509                    /usr/local/lib/libboost_program_options.so.1.65.1
7f69fd78f000-7f69fd832000 r-xp 00000000 08:01 1840503                    /usr/local/lib/libboost_log_setup.so.1.65.1
7f69fd832000-7f69fda31000 ---p 000a3000 08:01 1840503                    /usr/local/lib/libboost_log_setup.so.1.65.1
7f69fda31000-7f69fda36000 r--p 000a2000 08:01 1840503                    /usr/local/lib/libboost_log_setup.so.1.65.1
7f69fda36000-7f69fda37000 rw-p 000a7000 08:01 1840503                    /usr/local/lib/libboost_log_setup.so.1.65.1
7f69fda37000-7f69fda39000 rw-p 00000000 00:00 0 
7f69fda39000-7f69fdb0b000 r-xp 00000000 08:01 1840500                    /usr/local/lib/libboost_log.so.1.65.1
7f69fdb0b000-7f69fdd0b000 ---p 000d2000 08:01 1840500                    /usr/local/lib/libboost_log.so.1.65.1
7f69fdd0b000-7f69fdd11000 r--p 000d2000 08:01 1840500                    /usr/local/lib/libboost_log.so.1.65.1
7f69fdd11000-7f69fdd13000 rw-p 000d8000 08:01 1840500                    /usr/local/lib/libboost_log.so.1.65.1
7f69fdd13000-7f69fdd2c000 r-xp 00000000 08:01 1840497                    /usr/local/lib/libboost_filesystem.so.1.65.1
7f69fdd2c000-7f69fdf2c000 ---p 00019000 08:01 1840497                    /usr/local/lib/libboost_filesystem.so.1.65.1
7f69fdf2c000-7f69fdf2d000 r--p 00019000 08:01 1840497                    /usr/local/lib/libboost_filesystem.so.1.65.1
7f69fdf2d000-7f69fdf2e000 rw-p 0001a000 08:01 1840497                    /usr/local/lib/libboost_filesystem.so.1.65.1
7f69fdf2e000-7f69fe0ee000 r-xp 00000000 08:01 1444279                    /lib/x86_64-linux-gnu/libc-2.23.so
7f69fe0ee000-7f69fe2ee000 ---p 001c0000 08:01 1444279                    /lib/x86_64-linux-gnu/libc-2.23.so
7f69fe2ee000-7f69fe2f2000 r--p 001c0000 08:01 1444279                    /lib/x86_64-linux-gnu/libc-2.23.so
7f69fe2f2000-7f69fe2f4000 rw-p 001c4000 08:01 1444279                    /lib/x86_64-linux-gnu/libc-2.23.so
7f69fe2f4000-7f69fe2f8000 rw-p 00000000 00:00 0 
7f69fe2f8000-7f69fe30e000 r-xp 00000000 08:01 1444300                    /lib/x86_64-linux-gnu/libgcc_s.so.1
7f69fe30e000-7f69fe50d000 ---p 00016000 08:01 1444300                    /lib/x86_64-linux-gnu/libgcc_s.so.1
7f69fe50d000-7f69fe50e000 rw-p 00015000 08:01 1444300                    /lib/x86_64-linux-gnu/libgcc_s.so.1
7f69fe50e000-7f69fe616000 r-xp 00000000 08:01 1444311                    /lib/x86_64-linux-gnu/libm-2.23.so
7f69fe616000-7f69fe815000 ---p 00108000 08:01 1444311                    /lib/x86_64-linux-gnu/libm-2.23.so
7f69fe815000-7f69fe816000 r--p 00107000 08:01 1444311                    /lib/x86_64-linux-gnu/libm-2.23.so
7f69fe816000-7f69fe817000 rw-p 00108000 08:01 1444311                    /lib/x86_64-linux-gnu/libm-2.23.so
7f69fe817000-7f69fe989000 r-xp 00000000 08:01 1447622                    /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.21
7f69fe989000-7f69feb89000 ---p 00172000 08:01 1447622                    /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.21
7f69feb89000-7f69feb93000 r--p 00172000 08:01 1447622                    /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.21
7f69feb93000-7f69feb95000 rw-p 0017c000 08:01 1447622                    /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.21
7f69feb95000-7f69feb99000 rw-p 00000000 00:00 0 
7f69feb99000-7f69fff32000 r-xp 00000000 08:01 1841278                    /home/precice/precice-install/lib/libprecice.so.2.0.0
7f69fff32000-7f6a00132000 ---p 01399000 08:01 1841278                    /home/precice/precice-install/lib/libprecice.so.2.0.0
7f6a00132000-7f6a0013e000 r--p 01399000 08:01 1841278                    /home/precice/precice-install/lib/libprecice.so.2.0.0
7f6a0013e000-7f6a00188000 rw-p 013a5000 08:01 1841278                    /home/precice/precice-install/lib/libprecice.so.2.0.0
7f6a00188000-7f6a00189000 rw-p 00000000 00:00 0 
7f6a00189000-7f6a001af000 r-xp 00000000 08:01 1444259                    /lib/x86_64-linux-gnu/ld-2.23.so
7f6a00385000-7f6a003a4000 rw-p 00000000 00:00 0 
7f6a003ac000-7f6a003ae000 rw-p 00000000 00:00 0 
7f6a003ae000-7f6a003af000 r--p 00025000 08:01 1444259                    /lib/x86_64-linux-gnu/ld-2.23.so
7f6a003af000-7f6a003b0000 rw-p 00026000 08:01 1444259                    /lib/x86_64-linux-gnu/ld-2.23.so
7f6a003b0000-7f6a003b1000 rw-p 00000000 00:00 0 
7fff49f03000-7fff49f24000 rw-p 00000000 00:00 0                          [stack]
7fff49fae000-7fff49fb0000 r--p 00000000 00:00 0                          [vvar]
7fff49fb0000-7fff49fb2000 r-xp 00000000 00:00 0                          [vdso]
ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0                  [vsyscall]
[eb7952132262:00007] *** Process received signal ***
[eb7952132262:00007] Signal: Aborted (6)
[eb7952132262:00007] Signal code:  (-6)
[eb7952132262:00007] [ 0] /lib/x86_64-linux-gnu/libc.so.6(+0x354b0)[0x7f69fdf634b0]
[eb7952132262:00007] [ 1] /lib/x86_64-linux-gnu/libc.so.6(gsignal+0x38)[0x7f69fdf63428]
[eb7952132262:00007] [ 2] /lib/x86_64-linux-gnu/libc.so.6(abort+0x16a)[0x7f69fdf6502a]
[eb7952132262:00007] [ 3] /lib/x86_64-linux-gnu/libc.so.6(+0x777ea)[0x7f69fdfa57ea]
[eb7952132262:00007] [ 4] /lib/x86_64-linux-gnu/libc.so.6(+0x8037a)[0x7f69fdfae37a]
[eb7952132262:00007] [ 5] /lib/x86_64-linux-gnu/libc.so.6(cfree+0x4c)[0x7f69fdfb253c]
[eb7952132262:00007] [ 6] SU2_CFD[0x4c24d4]
[eb7952132262:00007] [ 7] SU2_CFD[0x423f78]
[eb7952132262:00007] [ 8] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7f69fdf4e830]
[eb7952132262:00007] [ 9] SU2_CFD[0x423829]
[eb7952132262:00007] *** End of error message ***
/bin/bash: line 3:     7 Aborted                 (core dumped) SU2_CFD Fluid/euler_config_coupled.cfg

Additional info:
TravisCI runs a Ubuntu 14.04 virtual machine
SU2 and CCX adapters run in Ubuntu 16.04 based docker containers
using SU2 adapter v6.0.0
running the develop branch of the SU2-CCX tutorial

Note that @MakisH also experienced a similar error an error when running the parallel version of the tutorial on a local machine (running Ubuntu 16.04)

Seems closely related to #3 , but only appeared recently on TravisCI. The last successful job was around Feb 17th. The test appears to be working now, failing sporadically with the same error. Unfortunately I have no idea what could be the cause of it.

Update: The same error occurs when running the adapters in Ubuntu 18.04.
@MakisH
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MakisH commented Mar 5, 2020

Note that @MakisH also experienced a similar error when running the parallel version of the tutorial on a local machine (running Ubuntu 16.04)

I actually had a different error (see attachment). The serial variant ran without any issues.
Su2.log

@Eder-K Eder-K mentioned this issue Mar 8, 2020
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@davidscn
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Running the tutorial with SU2 built in debug (non-default) succeeds without any corruption.

@MakisH
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MakisH commented Apr 3, 2024

This should not be relevant with the rewritten adapter, which uses the Python wrapper of SU2.
Please reopen if needed.

@MakisH MakisH closed this as not planned Won't fix, can't repro, duplicate, stale Apr 3, 2024
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@MakisH @davidscn @Eder-K