Task 182815

Name boinc2docker_9055_1556839444.586779_0
Workunit 82329
Created 2 May 2019, 23:24:07 UTC
Sent 3 May 2019, 10:40:43 UTC
Report deadline 10 May 2019, 10:40:43 UTC
Received 4 May 2019, 3:20:28 UTC
Server state Over
Outcome Success
Client state Done
Exit status 0 (0x00000000)
Computer ID 567
Run time 2 min 18 sec
CPU time 1 min 56 sec
Validate state Valid
Credit 4.64
Device peak FLOPS 12.54 GFLOPS
Application version boinc2docker v1.07 (vbox64_mt)
windows_x86_64
Peak working set size 118.78 MB
Peak swap size 132.73 MB
Peak disk usage 524.91 MB

Stderr output

<core_client_version>7.14.2</core_client_version>
<![CDATA[
<stderr_txt>
2019-05-04 13:17:52 (9208): vboxwrapper (7.9.26200): starting
2019-05-04 13:17:52 (9208): Feature: Checkpoint interval offset (551 seconds)
2019-05-04 13:17:52 (9208): Detected: VirtualBox COM Interface (Version: 5.2.8)
2019-05-04 13:17:52 (9208): Detected: Minimum checkpoint interval (600.000000 seconds)
2019-05-04 13:17:52 (9208): Create VM. (boinc_3702c7fbb7d8ea7c, slot#51)
2019-05-04 13:17:52 (9208): Updating drive controller type and model for desired configuration.
2019-05-04 13:17:52 (9208): Setting Memory Size for VM. (5584MB)
2019-05-04 13:17:52 (9208): Setting CPU Count for VM. (4)
2019-05-04 13:17:52 (9208): Setting Chipset Options for VM.
2019-05-04 13:17:52 (9208): Setting Boot Options for VM.
2019-05-04 13:17:52 (9208): Enabling VM Network Access.
2019-05-04 13:17:52 (9208): Setting Network Configuration for NAT.
2019-05-04 13:17:52 (9208): Disabling USB Support for VM.
2019-05-04 13:17:52 (9208): Disabling COM Port Support for VM.
2019-05-04 13:17:52 (9208): Disabling LPT Port Support for VM.
2019-05-04 13:17:52 (9208): Disabling Audio Support for VM.
2019-05-04 13:17:52 (9208): Disabling Clipboard Support for VM.
2019-05-04 13:17:52 (9208): Disabling Drag and Drop Support for VM.
2019-05-04 13:17:53 (9208): Adding storage controller(s) to VM.
2019-05-04 13:17:53 (9208): Adding virtual ISO 9660 disk drive to VM. (vm_isocontext.iso)
2019-05-04 13:17:53 (9208): Adding VirtualBox Guest Additions to VM.
2019-05-04 13:17:53 (9208): Adding network bandwidth throttle group to VM. (Defaulting to 1024GB)
2019-05-04 13:17:53 (9208): Enabling shared directory for VM.
2019-05-04 13:17:53 (9208): Starting VM. (boinc_3702c7fbb7d8ea7c, slot#51)
2019-05-04 13:18:01 (9208): Guest Log: BIOS: VirtualBox 5.2.8

2019-05-04 13:18:01 (9208): Guest Log: CPUID EDX: 0x178bfbff

2019-05-04 13:18:01 (9208): Guest Log: BIOS: Boot : bseqnr=1, bootseq=0032

2019-05-04 13:18:01 (9208): Guest Log: int13_harddisk: function 02, unmapped device for ELDL=80

2019-05-04 13:18:01 (9208): Guest Log: BIOS: Boot from Hard Disk 0 failed

2019-05-04 13:18:01 (9208): Guest Log: BIOS: Boot : bseqnr=2, bootseq=0003

2019-05-04 13:18:01 (9208): Guest Log: BIOS: Booting from CD-ROM...

2019-05-04 13:18:01 (9208): Guest Log: BIOS: KBD: unsupported int 16h function 03

2019-05-04 13:18:01 (9208): Guest Log: BIOS: AX=0305 BX=0000 CX=0000 DX=0000 

2019-05-04 13:18:01 (9208): Successfully started VM. (PID = '9100')
2019-05-04 13:18:01 (9208): Reporting VM Process ID to BOINC.
2019-05-04 13:18:06 (9208): VM state change detected. (old = 'poweroff', new = 'running')
2019-05-04 13:18:11 (9208): Guest Log: net.ipv4.ip_forward = 1

2019-05-04 13:18:11 (9208): Guest Log: sysctl: cannot stat /proc/sys/net/ipv6/conf/all/forwarding: No such file or directory

2019-05-04 13:18:11 (9208): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-05-04 13:18:11 (9208): Guest Log: sysctl: "cannot stat %s" is an unknown key

2019-05-04 13:18:11 (9208): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-05-04 13:18:11 (9208): Guest Log: Segmentation fault

2019-05-04 13:18:11 (9208): Guest Log: automount ...

2019-05-04 13:18:11 (9208): Guest Log: vgdrvHeartbeatInit: Setting up heartbeat to trigger every 2000 milliseconds

2019-05-04 13:18:11 (9208): Guest Log: vboxguest: misc device minor 56, IRQ 20, I/O port d020, MMIO at 00000000f0400000 (size 0x400000)

2019-05-04 13:18:17 (9208): Guest Log: Is the disk unpartitioned?, test for the 'boot2docker format-me' string

2019-05-04 13:18:17 (9208): Guest Log: automount over.

2019-05-04 13:18:17 (9208): Guest Log: Setting hostname to boot2docker Done.

2019-05-04 13:18:17 (9208): Guest Log: Sat May  4 13:18:10 UTC 2019 dhcp -------------------------------

2019-05-04 13:18:17 (9208): Preference change detected
2019-05-04 13:18:17 (9208): Setting CPU throttle for VM. (90%)
2019-05-04 13:18:17 (9208): Setting checkpoint interval to 600 seconds. (Higher value of (Preference: 60 seconds) or (Vbox_job.xml: 600 seconds))
2019-05-04 13:18:22 (9208): Guest Log: udevadm settle - timeout of 5 seconds reached, the event queue contains:

2019-05-04 13:18:22 (9208): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1366)

2019-05-04 13:18:22 (9208): Guest Log: Sat May  4 13:18:16 UTC 2019 dhcp -------------------------------

2019-05-04 13:18:22 (9208): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log

2019-05-04 13:18:22 (9208): Guest Log: 00:00:00.000118 main     Log opened 2019-05-04T13:18:16.715060000Z

2019-05-04 13:18:22 (9208): Guest Log: VBoxService 5.0.16 r105871 (verbos00:00:00.000768 main     OS Product: Linux

2019-05-04 13:18:22 (9208): Guest Log: ty: 000:00:00.000864 main     OS Release: 4.1.19-boot2docker

2019-05-04 13:18:22 (9208): Guest Log:  li00:00:00.000914 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016

2019-05-04 13:18:22 (9208): Guest Log: ux.00:00:00.000964 main     Executable: /sbin/VBoxService

2019-05-04 13:18:22 (9208): Guest Log: 00:00:00.000965 main     Process ID: 924

2019-05-04 13:18:22 (9208): Guest Log: 00:00:00.000966 main   m

2019-05-04 13:18:22 (9208): Guest Log: d64 (Mar  4 2016 17:38:55) release log

2019-05-04 13:18:22 (9208): Guest Log: 00:00:00.002164 main     5.0.16 r105871 started. Verbose level = 0

2019-05-04 13:18:22 (9208): Guest Log: 00:00:00.000118 main     Log opened 2019-05-04T13:18:16.715060000Z

2019-05-04 13:18:22 (9208): Guest Log: 00:00:00.004977 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 13:18:22 (9208): Guest Log: 00:00:00.005057 vminfo   Error: Unable to connect to system D-Bus (1/3): D-Bus not installed

2019-05-04 13:18:22 (9208): Guest Log: 00:00:00.000768 main     OS Product: Linux

2019-05-04 13:18:22 (9208): Guest Log: 00:00:00.000864 main     OS Release: 4.1.19-boot2docker

2019-05-04 13:18:22 (9208): Guest Log: 00:00:00.000914 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016

2019-05-04 13:18:22 (9208): Guest Log: 00:00:00.000964 main     Executable: /sbin/VBoxService

2019-05-04 13:18:22 (9208): Guest Log: 00:00:00.000965 main     Process ID: 924

2019-05-04 13:18:22 (9208): Guest Log: 00:00:00.000966 main     Package type: LINUX_64BITS_GENERIC

2019-05-04 13:18:22 (9208): Guest Log: 00:00:00.002164 main     5.0.16 r105871 started. Verbose level = 0

2019-05-04 13:18:22 (9208): Guest Log: Mounting BOINC shared/...

2019-05-04 13:18:22 (9208): Guest Log: -------------------

2019-05-04 13:18:22 (9208): Guest Log: Sat May  4 03:18:19 UTC 2019

2019-05-04 13:18:27 (9208): Guest Log: 00:00:05.012616 vminfo   Error: Unable to connect to system D-Bus (2/3): D-Bus not installed

2019-05-04 13:18:27 (9208): Guest Log: Sat May  4 03:18:24 UTC 2019

2019-05-04 13:18:27 (9208): Guest Log: 1: lo: <LOOPBACK,UP,LOWER_UP> mtu 65536 qdisc noqueue state UNKNOWN group default 

2019-05-04 13:18:27 (9208): Guest Log:     link/loopback 00:00:00:00:00:00 brd 00:00:00:00:00:00

2019-05-04 13:18:27 (9208): Guest Log:     inet 127.0.0.1/8 scope host lo

2019-05-04 13:18:27 (9208): Guest Log:        valid_lft forever preferred_lft forever

2019-05-04 13:18:27 (9208): Guest Log: 2: dummy0: <BROADCAST,NOARP> mtu 1500 qdisc noop state DOWN group default 

2019-05-04 13:18:27 (9208): Guest Log:     link/ether 1e:27:79:4b:dc:4b brd ff:ff:ff:ff:ff:ff

2019-05-04 13:18:27 (9208): Guest Log: 3: eth0: <BROADCAST,MULTICAST,UP,LOWER_UP> mtu 1500 qdisc pfifo_fast state UP group default qlen 1000

2019-05-04 13:18:27 (9208): Guest Log:     link/ether 08:00:27:9f:6c:30 brd ff:ff:ff:ff:ff:ff

2019-05-04 13:18:27 (9208): Guest Log:     inet 10.0.2.15/24 brd 10.0.2.255 scope global eth0

2019-05-04 13:18:27 (9208): Guest Log:        valid_lft forever preferred_lft forever

2019-05-04 13:18:27 (9208): Guest Log: -------------------

2019-05-04 13:18:27 (9208): Guest Log: Linking /etc/docker to /var/lib/boot2docker for persistence

2019-05-04 13:18:27 (9208): Guest Log: Waiting for Docker daemon to start...

2019-05-04 13:18:27 (9208): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-05-04 13:18:27 (9208): Guest Log: Running boinc_app...

2019-05-04 13:18:27 (9208): Guest Log: Importing Docker image from BOINC...

2019-05-04 13:18:32 (9208): Guest Log: 00:00:10.013695 vminfo   Error: Unable to connect to system D-Bus (3/3): D-Bus not installed

2019-05-04 13:19:52 (9208): Guest Log: Prerun diagnostics...

2019-05-04 13:19:52 (9208): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-05-04 13:19:52 (9208): Guest Log: carlosred/gromacs   latest              da5fd8ed5910        10 months ago       1.271 GB

2019-05-04 13:19:52 (9208): Guest Log: CONTAINER ID        IMAGE               COMMAND             CREATED             STATUS              PORTS               NAMES

2019-05-04 13:19:52 (9208): Guest Log: 1.3G	/var/lib/docker

2019-05-04 13:19:52 (9208): Guest Log:               total        used        free      shared  buff/cache   available

2019-05-04 13:19:52 (9208): Guest Log: Mem:           5408          67        3777        1484        1563        3788

2019-05-04 13:19:52 (9208): Guest Log: Swap:          1298           0        1298

2019-05-04 13:19:52 (9208): Guest Log: Prerun commands...

2019-05-04 13:19:52 (9208): Guest Log: Running... 

2019-05-04 13:19:52 (9208): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current

2019-05-04 13:19:52 (9208): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed

2019-05-04 13:19:57 (9208): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-04 13:19:57 (9208): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-04 13:19:57 (9208): Guest Log:  69 80810   69 56340    0     0  29950      0  0:00:02  0:00:01  0:00:01 29952

2019-05-04 13:19:57 (9208): Guest Log: 100 80810  100 80810    0     0  38257      0  0:00:02  0:00:02 --:--:-- 38262

2019-05-04 13:19:57 (9208): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current

2019-05-04 13:19:57 (9208): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed

2019-05-04 13:19:57 (9208): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-04 13:19:57 (9208): Guest Log: 100  1206  100  1206    0     0   2504      0 --:--:-- --:--:-- --:--:--  2507

2019-05-04 13:19:57 (9208): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current

2019-05-04 13:19:57 (9208): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed

2019-05-04 13:19:57 (9208): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-04 13:19:57 (9208): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-04 13:19:57 (9208): Guest Log: 100  3467  100  3467    0     0   7239      0 --:--:-- --:--:-- --:--:--  7237

2019-05-04 13:19:57 (9208): Guest Log: /bin/bash: line 1:    18 Illegal instruction     gmx grompp -f em_steep.mdp -c methane_water.gro -p topol.top -o min_thing.tpr

2019-05-04 13:19:57 (9208): Guest Log: Postrun commands...

2019-05-04 13:19:57 (9208): Guest Log: boinc_app exited (0)

2019-05-04 13:19:57 (9208): Guest Log: Saving results...

2019-05-04 13:19:57 (9208): Guest Log: em_steep.mdp

2019-05-04 13:19:57 (9208): VM Completion File Detected.
2019-05-04 13:19:57 (9208): Powering off VM.
2019-05-04 13:19:58 (9208): Successfully stopped VM.
2019-05-04 13:20:03 (9208): Deregistering VM. (boinc_3702c7fbb7d8ea7c, slot#51)
2019-05-04 13:20:03 (9208): Removing virtual disk drive(s) from VM.
2019-05-04 13:20:03 (9208): Removing network bandwidth throttle group from VM.
2019-05-04 13:20:03 (9208): Removing storage controller(s) from VM.
2019-05-04 13:20:03 (9208): Removing VM from VirtualBox.
13:20:08 (9208): called boinc_finish(0)

</stderr_txt>
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