Task 182800

Name boinc2docker_8763_1556839440.726472_1
Workunit 82321
Created 2 May 2019, 23:24:02 UTC
Sent 3 May 2019, 10:40:43 UTC
Report deadline 10 May 2019, 10:40:43 UTC
Received 4 May 2019, 3:15:26 UTC
Server state Over
Outcome Success
Client state Done
Exit status 0 (0x00000000)
Computer ID 567
Run time 2 min 13 sec
CPU time 50 sec
Validate state Valid
Credit 3.68
Device peak FLOPS 12.54 GFLOPS
Application version boinc2docker v1.07 (vbox64_mt)
x86_64-pc-linux-gnu
Peak working set size 120.39 MB
Peak swap size 132.89 MB
Peak disk usage 524.77 MB

Stderr output

<core_client_version>7.14.2</core_client_version>
<![CDATA[
<stderr_txt>
2019-05-04 13:12:56 (6700): vboxwrapper (7.9.26200): starting
2019-05-04 13:12:56 (6700): Feature: Checkpoint interval offset (401 seconds)
2019-05-04 13:12:56 (6700): Detected: VirtualBox COM Interface (Version: 5.2.8)
2019-05-04 13:12:56 (6700): Detected: Minimum checkpoint interval (600.000000 seconds)
2019-05-04 13:12:56 (6700): Create VM. (boinc_256bd9ab7dca066c, slot#22)
2019-05-04 13:12:56 (6700): Updating drive controller type and model for desired configuration.
2019-05-04 13:12:56 (6700): Setting Memory Size for VM. (5584MB)
2019-05-04 13:12:56 (6700): Setting CPU Count for VM. (4)
2019-05-04 13:12:56 (6700): Setting Chipset Options for VM.
2019-05-04 13:12:56 (6700): Setting Boot Options for VM.
2019-05-04 13:12:56 (6700): Enabling VM Network Access.
2019-05-04 13:12:56 (6700): Setting Network Configuration for NAT.
2019-05-04 13:12:56 (6700): Disabling USB Support for VM.
2019-05-04 13:12:56 (6700): Disabling COM Port Support for VM.
2019-05-04 13:12:56 (6700): Disabling LPT Port Support for VM.
2019-05-04 13:12:56 (6700): Disabling Audio Support for VM.
2019-05-04 13:12:56 (6700): Disabling Clipboard Support for VM.
2019-05-04 13:12:56 (6700): Disabling Drag and Drop Support for VM.
2019-05-04 13:12:56 (6700): Adding storage controller(s) to VM.
2019-05-04 13:12:56 (6700): Adding virtual ISO 9660 disk drive to VM. (vm_isocontext.iso)
2019-05-04 13:12:56 (6700): Adding VirtualBox Guest Additions to VM.
2019-05-04 13:12:56 (6700): Adding network bandwidth throttle group to VM. (Defaulting to 1024GB)
2019-05-04 13:12:56 (6700): Enabling shared directory for VM.
2019-05-04 13:12:56 (6700): Starting VM. (boinc_256bd9ab7dca066c, slot#22)
2019-05-04 13:13:05 (6700): Guest Log: BIOS: VirtualBox 5.2.8

2019-05-04 13:13:05 (6700): Guest Log: CPUID EDX: 0x178bfbff

2019-05-04 13:13:05 (6700): Guest Log: BIOS: Boot : bseqnr=1, bootseq=0032

2019-05-04 13:13:05 (6700): Guest Log: int13_harddisk: function 02, unmapped device for ELDL=80

2019-05-04 13:13:05 (6700): Guest Log: BIOS: Boot from Hard Disk 0 failed

2019-05-04 13:13:05 (6700): Guest Log: BIOS: Boot : bseqnr=2, bootseq=0003

2019-05-04 13:13:05 (6700): Guest Log: BIOS: Booting from CD-ROM...

2019-05-04 13:13:05 (6700): Successfully started VM. (PID = '2560')
2019-05-04 13:13:05 (6700): Reporting VM Process ID to BOINC.
2019-05-04 13:13:10 (6700): Guest Log: BIOS: KBD: unsupported int 16h function 03

2019-05-04 13:13:10 (6700): Guest Log: BIOS: AX=0305 BX=0000 CX=0000 DX=0000 

2019-05-04 13:13:10 (6700): VM state change detected. (old = 'poweroff', new = 'running')
2019-05-04 13:13:20 (6700): Guest Log: net.ipv4.ip_forward = 1

2019-05-04 13:13:20 (6700): Guest Log: sysctl: cannot stat /proc/sys/net/ipv6/conf/all/forwarding: No such file or directory

2019-05-04 13:13:20 (6700): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-05-04 13:13:20 (6700): Guest Log: sysctl: "cannot stat %s" is an unknown key

2019-05-04 13:13:20 (6700): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-05-04 13:13:20 (6700): Guest Log: Segmentation fault

2019-05-04 13:13:20 (6700): Guest Log: automount ...

2019-05-04 13:13:20 (6700): Guest Log: vgdrvHeartbeatInit: Setting up heartbeat to trigger every 2000 milliseconds

2019-05-04 13:13:20 (6700): Guest Log: vboxguest: misc device minor 56, IRQ 20, I/O port d020, MMIO at 00000000f0400000 (size 0x400000)

2019-05-04 13:13:20 (6700): Guest Log: Is the disk unpartitioned?, test for the 'boot2docker format-me' string

2019-05-04 13:13:20 (6700): Guest Log: automount over.

2019-05-04 13:13:20 (6700): Guest Log: Setting hostname to boot2docker Done.

2019-05-04 13:13:20 (6700): Guest Log: Sat May  4 13:13:16 UTC 2019 dhcp -------------------------------

2019-05-04 13:13:20 (6700): Preference change detected
2019-05-04 13:13:20 (6700): Setting CPU throttle for VM. (90%)
2019-05-04 13:13:20 (6700): Setting checkpoint interval to 600 seconds. (Higher value of (Preference: 60 seconds) or (Vbox_job.xml: 600 seconds))
2019-05-04 13:13:25 (6700): Guest Log: udevadm settle - timeout of 5 seconds reached, the event queue contains:

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1103)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00 (1337)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:00 (1338)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:01 (1339)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:02 (1340)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:03 (1341)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXPWRBN:00 (1342)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXPWRBN:00/input/input0 (1343)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXPWRBN:00/input/input0/event0 (1344)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSLPBN:00 (1345)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSLPBN:00/input/input1 (1346)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSLPBN:00/input/input1/event1 (1347)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00 (1348)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00 (1349)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/ACPI0003:00 (1350)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/ACPI0003:00/power_supply/AC (1351)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00 (1352)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00/device:01 (1353)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00/input/input6 (1354)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00/input/input6/event5 (1355)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0400:00 (1356)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0400:01 (1357)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:00 (1358)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:01 (1359)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:02 (1360)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:03 (1361)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0C02:00 (1362)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0C0A:00 (1363)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP8390:00 (1364)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00 (1365)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/APP0001:00 (1366)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0000:00 (1367)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0100:00 (1368)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0103:00 (1369)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0200:00 (1370)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0303:00 (1371)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1372)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0B00:00 (1373)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0F03:00 (1374)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:02 (1375)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:00 (1376)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:01 (1377)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:02 (1378)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:03 (1379)

2019-05-04 13:13:25 (6700): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:01 (1380)

2019-05-04 13:13:25 (6700): Guest Log: Sat May  4 13:13:22 UTC 2019 dhcp -------------------------------

2019-05-04 13:13:25 (6700): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.000128 main     Log opened 2019-05-04T13:13:22.658051000Z

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.000268 main     OS Product: Linux

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.000321 main     OS Release: 4.1.19-boot2docker

2019-05-04 13:13:25 (6700): Guest Log: VB00:00:00.000390 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016o

2019-05-04 13:13:25 (6700): Guest Log: xSe00:00:00.000446 main     Executable: /sbin/VBoxServicer

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.000448 main     Process ID: 899

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.000449 main     Package type: LINUX_64BITS_GENERIC

2019-05-04 13:13:25 (6700): Guest Log: ice 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.000128 main     Log opened 2019-05-04T13:13:22.658051000Z

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.000268 main     OS Product: Linux

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.000321 main     OS Release: 4.1.19-boot2docker

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.000390 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.000446 main     Executable: /sbin/VBoxService

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.000448 main     Process ID: 899

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.000449 main     Package type: LINUX_64BITS_GENERIC

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.013235 main     5.0.16 r105871 started. Verbose level = 0

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.013235 main     5.0.16 r105871 started. Verbose level = 0

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.016402 vminfo   rtldrNativeLoad: dlopen('libdbus-1.so.3', RTLD_NOW | RTLD_LOCAL) failed: libdbus-1.so.3: cannot open shared object file: No such file or directory

2019-05-04 13:13:25 (6700): Guest Log: 00:00:00.016482 vminfo   Error: Unable to connect to system D-Bus (1/3): D-Bus not installed

2019-05-04 13:13:25 (6700): Guest Log: Mounting BOINC shared/...

2019-05-04 13:13:25 (6700): Guest Log: -------------------

2019-05-04 13:13:25 (6700): Guest Log: Sat May  4 03:13:24 UTC 2019

2019-05-04 13:13:30 (6700): Guest Log: 00:00:05.021056 vminfo   Error: Unable to connect to system D-Bus (2/3): D-Bus not installed

2019-05-04 13:13:30 (6700): Guest Log: Sat May  4 03:13:34 UTC 2019

2019-05-04 13:13:30 (6700): Guest Log: 1: lo: <LOOPBACK,UP,LOWER_UP> mtu 65536 qdisc noqueue state UNKNOWN group default 

2019-05-04 13:13:30 (6700): Guest Log:     link/loopback 00:00:00:00:00:00 brd 00:00:00:00:00:00

2019-05-04 13:13:30 (6700): Guest Log:     inet 127.0.0.1/8 scope host lo

2019-05-04 13:13:30 (6700): Guest Log:        valid_lft forever preferred_lft forever

2019-05-04 13:13:30 (6700): Guest Log:     inet6 ::1/128 scope host 

2019-05-04 13:13:30 (6700): Guest Log:        valid_lft forever preferred_lft forever

2019-05-04 13:13:30 (6700): Guest Log: 2: dummy0: <BROADCAST,NOARP> mtu 1500 qdisc noop state DOWN group default 

2019-05-04 13:13:30 (6700): Guest Log:     link/ether 76:7a:8f:f9:14:04 brd ff:ff:ff:ff:ff:ff

2019-05-04 13:13:30 (6700): Guest Log: 3: eth0: <BROADCAST,MULTICAST,UP,LOWER_UP> mtu 1500 qdisc pfifo_fast state UP group default qlen 1000

2019-05-04 13:13:30 (6700): Guest Log:     link/ether 08:00:27:68:b3:df brd ff:ff:ff:ff:ff:ff

2019-05-04 13:13:30 (6700): Guest Log:     inet 10.0.2.15/24 brd 10.0.2.255 scope global eth0

2019-05-04 13:13:30 (6700): Guest Log:        valid_lft forever preferred_lft forever

2019-05-04 13:13:30 (6700): Guest Log:     inet6 fe80::a00:27ff:fe68:b3df/64 scope link 

2019-05-04 13:13:30 (6700): Guest Log:        valid_lft forever preferred_lft forever

2019-05-04 13:13:30 (6700): Guest Log: -------------------

2019-05-04 13:13:30 (6700): Guest Log: Linking /etc/docker to /var/lib/boot2docker for persistence

2019-05-04 13:13:30 (6700): Guest Log: Waiting for Docker daemon to start...

2019-05-04 13:13:35 (6700): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-05-04 13:13:35 (6700): Guest Log: Running boinc_app...

2019-05-04 13:13:35 (6700): Guest Log: Importing Docker image from BOINC...

2019-05-04 13:13:35 (6700): Guest Log: 00:00:10.021664 vminfo   Error: Unable to connect to system D-Bus (3/3): D-Bus not installed

2019-05-04 13:14:50 (6700): Guest Log: Prerun diagnostics...

2019-05-04 13:14:50 (6700): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-05-04 13:14:50 (6700): Guest Log: carlosred/gromacs   latest              da5fd8ed5910        10 months ago       1.271 GB

2019-05-04 13:14:50 (6700): Guest Log: CONTAINER ID        IMAGE               COMMAND             CREATED             STATUS              PORTS               NAMES

2019-05-04 13:14:50 (6700): Guest Log: 1.3G	/var/lib/docker

2019-05-04 13:14:50 (6700): Guest Log:               total        used        free      shared  buff/cache   available

2019-05-04 13:14:50 (6700): Guest Log: Mem:           5408          69        3776        1484        1563        3786

2019-05-04 13:14:50 (6700): Guest Log: Swap:          1299           0        1299

2019-05-04 13:14:50 (6700): Guest Log: Prerun commands...

2019-05-04 13:14:50 (6700): Guest Log: Running... 

2019-05-04 13:14:55 (6700): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current

2019-05-04 13:14:55 (6700): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed

2019-05-04 13:14:55 (6700): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-04 13:14:55 (6700): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-04 13:14:55 (6700): Guest Log:  83 80810   83 67636    0     0  42706      0  0:00:01  0:00:01 --:--:-- 42699

2019-05-04 13:14:55 (6700): Guest Log: 100 80810  100 80810    0     0  50378      0  0:00:01  0:00:01 --:--:-- 50380

2019-05-04 13:14:55 (6700): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current

2019-05-04 13:14:55 (6700): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed

2019-05-04 13:14:55 (6700): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-04 13:14:55 (6700): Guest Log: 100  1206  100  1206    0     0   2468      0 --:--:-- --:--:-- --:--:--  2471

2019-05-04 13:14:55 (6700): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current

2019-05-04 13:14:55 (6700): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed

2019-05-04 13:14:55 (6700): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-04 13:14:55 (6700): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-04 13:14:55 (6700): Guest Log: 100  3467  100  3467    0     0   6972      0 --:--:-- --:--:-- --:--:--  6961

2019-05-04 13:14:55 (6700): Guest Log: /bin/bash: line 1:    16 Illegal instruction     gmx grompp -f em_steep.mdp -c methane_water.gro -p topol.top -o min_thing.tpr

2019-05-04 13:14:55 (6700): Guest Log: Postrun commands...

2019-05-04 13:14:55 (6700): Guest Log: boinc_app exited (0)

2019-05-04 13:14:55 (6700): Guest Log: Saving results...

2019-05-04 13:14:55 (6700): Guest Log: em_steep.mdp

2019-05-04 13:14:55 (6700): VM Completion File Detected.
2019-05-04 13:14:55 (6700): Powering off VM.
2019-05-04 13:14:57 (6700): Successfully stopped VM.
2019-05-04 13:15:02 (6700): Deregistering VM. (boinc_256bd9ab7dca066c, slot#22)
2019-05-04 13:15:02 (6700): Removing virtual disk drive(s) from VM.
2019-05-04 13:15:02 (6700): Removing network bandwidth throttle group from VM.
2019-05-04 13:15:02 (6700): Removing storage controller(s) from VM.
2019-05-04 13:15:02 (6700): Removing VM from VirtualBox.
13:15:07 (6700): called boinc_finish(0)

</stderr_txt>
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