Task 225365

Name boinc2docker_17678_1556845895.683048_3
Workunit 96021
Created 10 May 2019, 21:08:27 UTC
Sent 10 May 2019, 21:13:47 UTC
Report deadline 17 May 2019, 21:13:47 UTC
Received 15 May 2019, 10:16:33 UTC
Server state Over
Outcome Success
Client state Done
Exit status 0 (0x00000000)
Computer ID 50
Run time 3 min 3 sec
CPU time 3 min 3 sec
Validate state Valid
Credit 15.63
Device peak FLOPS 12.47 GFLOPS
Application version boinc2docker v1.07 (vbox64_mt)
x86_64-pc-linux-gnu
Peak working set size 89.74 MB
Peak swap size 98.57 MB
Peak disk usage 340.70 MB

Stderr output

<core_client_version>7.6.9</core_client_version>
<![CDATA[
<stderr_txt>
2019-05-15 12:13:16 (287288): vboxwrapper (7.9.26200): starting
2019-05-15 12:13:16 (287288): Feature: Checkpoint interval offset (378 seconds)
2019-05-15 12:13:16 (287288): Detected: VirtualBox COM Interface (Version: 5.1.4)
2019-05-15 12:13:16 (287288): Detected: Minimum checkpoint interval (600.000000 seconds)
2019-05-15 12:13:16 (287288): Create VM. (boinc_41f9452ce29ccaa8, slot#6)
2019-05-15 12:13:16 (287288): Updating drive controller type and model for desired configuration.
2019-05-15 12:13:16 (287288): Setting Memory Size for VM. (3534MB)
2019-05-15 12:13:16 (287288): Setting CPU Count for VM. (4)
2019-05-15 12:13:16 (287288): Setting Chipset Options for VM.
2019-05-15 12:13:16 (287288): Setting Boot Options for VM.
2019-05-15 12:13:16 (287288): Enabling VM Network Access.
2019-05-15 12:13:16 (287288): Setting Network Configuration for NAT.
2019-05-15 12:13:16 (287288): Disabling USB Support for VM.
2019-05-15 12:13:16 (287288): Disabling COM Port Support for VM.
2019-05-15 12:13:16 (287288): Disabling LPT Port Support for VM.
2019-05-15 12:13:16 (287288): Disabling Audio Support for VM.
2019-05-15 12:13:16 (287288): Disabling Clipboard Support for VM.
2019-05-15 12:13:16 (287288): Disabling Drag and Drop Support for VM.
2019-05-15 12:13:16 (287288): Adding storage controller(s) to VM.
2019-05-15 12:13:16 (287288): Adding virtual ISO 9660 disk drive to VM. (vm_isocontext.iso)
2019-05-15 12:13:16 (287288): Adding VirtualBox Guest Additions to VM.
2019-05-15 12:13:16 (287288): Adding network bandwidth throttle group to VM. (Defaulting to 1024GB)
2019-05-15 12:13:16 (287288): Enabling shared directory for VM.
2019-05-15 12:13:16 (287288): Starting VM. (boinc_41f9452ce29ccaa8, slot#6)
2019-05-15 12:13:25 (287288): Guest Log: BIOS: VirtualBox 5.1.4

2019-05-15 12:13:25 (287288): Guest Log: BIOS: Boot : bseqnr=1, bootseq=0032

2019-05-15 12:13:25 (287288): Guest Log: int13_harddisk: function 02, unmapped device for ELDL=80

2019-05-15 12:13:25 (287288): Guest Log: BIOS: Boot from Hard Disk 0 failed

2019-05-15 12:13:25 (287288): Guest Log: BIOS: Boot : bseqnr=2, bootseq=0003

2019-05-15 12:13:25 (287288): Guest Log: BIOS: Booting from CD-ROM...

2019-05-15 12:13:25 (287288): Guest Log: BIOS: KBD: unsupported int 16h function 03

2019-05-15 12:13:25 (287288): Guest Log: BIOS: AX=0305 BX=0000 CX=0000 DX=0000 

2019-05-15 12:13:25 (287288): Successfully started VM. (PID = '292008')
2019-05-15 12:13:25 (287288): Reporting VM Process ID to BOINC.
2019-05-15 12:13:30 (287288): VM state change detected. (old = 'poweroff', new = 'running')
2019-05-15 12:13:40 (287288): Guest Log: vgdrvHeartbeatInit: Setting up heartbeat to trigger every 2000 milliseconds

2019-05-15 12:13:40 (287288): Guest Log: vboxguest: misc device minor 56, IRQ 20, I/O port d020, MMIO at 00000000f0400000 (size 0x400000)

2019-05-15 12:13:40 (287288): Preference change detected
2019-05-15 12:13:40 (287288): Setting CPU throttle for VM. (100%)
2019-05-15 12:13:40 (287288): Setting checkpoint interval to 600 seconds. (Higher value of (Preference: 60 seconds) or (Vbox_job.xml: 600 seconds))
2019-05-15 12:14:25 (287288): Guest Log: net.ipv4.ip_forward = 1

2019-05-15 12:14:25 (287288): Guest Log: sysctl: cannot stat /proc/sys/net/ipv6/conf/all/forwarding: No such file or directory

2019-05-15 12:14:25 (287288): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-05-15 12:14:25 (287288): Guest Log: sysctl: "cannot stat %s" is an unknown key

2019-05-15 12:14:25 (287288): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-05-15 12:14:25 (287288): Guest Log: Segmentation fault

2019-05-15 12:14:30 (287288): Guest Log: automount ...

2019-05-15 12:14:30 (287288): Guest Log: Is the disk unpartitioned?, test for the 'boot2docker format-me' string

2019-05-15 12:14:40 (287288): Guest Log: automount over.

2019-05-15 12:14:50 (287288): Guest Log: Setting hostname to boot2docker Done.

2019-05-15 12:14:50 (287288): Guest Log: Wed May 15 12:14:45 UTC 2019 dhcp -------------------------------

2019-05-15 12:14:55 (287288): Guest Log: udevadm settle - timeout of 5 seconds reached, the event queue contains:

2019-05-15 12:14:55 (287288): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1386)

2019-05-15 12:15:00 (287288): Guest Log: Wed May 15 12:14:54 UTC 2019 dhcp -------------------------------

2019-05-15 12:15:00 (287288): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.001056 main     Log opened 2019-05-15T12:14:54.842571000Z

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.001289 main     OS Product: Linux

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.001333 main     OS Release: 4.1.19-boot2docker

2019-05-15 12:15:00 (287288): Guest Log: VBoxSe00:00:00.001539 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016

2019-05-15 12:15:00 (287288): Guest Log: rvice 5.0.00:00:00.001611 main     Executable: /sbin/VBoxService

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.001612 main     Process ID: 945

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.001613 main     Package type: LINUX_64BITS_GENERIC

2019-05-15 12:15:00 (287288): Guest Log: r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.009425 main     5.0.16 r105871 started. Verbose level = 0

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.001056 main     Log opened 2019-05-15T12:14:54.842571000Z

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.359803 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

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.364777 vminfo   Error: Unable to connect to system D-Bus (1/3): D-Bus not installed

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.001289 main     OS Product: Linux

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.001333 main     OS Release: 4.1.19-boot2docker

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.001539 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.001611 main     Executable: /sbin/VBoxService

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.001612 main     Process ID: 945

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.001613 main     Package type: LINUX_64BITS_GENERIC

2019-05-15 12:15:00 (287288): Guest Log: 00:00:00.009425 main     5.0.16 r105871 started. Verbose level = 0

2019-05-15 12:15:00 (287288): Guest Log: Mounting BOINC shared/...

2019-05-15 12:15:00 (287288): Guest Log: -------------------

2019-05-15 12:15:00 (287288): Guest Log: Wed May 15 10:14:59 UTC 2019

2019-05-15 12:15:05 (287288): Guest Log: 00:00:05.402281 vminfo   Error: Unable to connect to system D-Bus (2/3): D-Bus not installed

2019-05-15 12:15:05 (287288): Guest Log: Wed May 15 10:15:04 UTC 2019

2019-05-15 12:15:05 (287288): Guest Log: 1: lo: <LOOPBACK,UP,LOWER_UP> mtu 65536 qdisc noqueue state UNKNOWN group default 

2019-05-15 12:15:05 (287288): Guest Log:     link/loopback 00:00:00:00:00:00 brd 00:00:00:00:00:00

2019-05-15 12:15:05 (287288): Guest Log:     inet 127.0.0.1/8 scope host lo

2019-05-15 12:15:05 (287288): Guest Log:        valid_lft forever preferred_lft forever

2019-05-15 12:15:05 (287288): Guest Log:     inet6 ::1/128 scope host 

2019-05-15 12:15:05 (287288): Guest Log:        valid_lft forever preferred_lft forever

2019-05-15 12:15:05 (287288): Guest Log: 2: dummy0: <BROADCAST,NOARP> mtu 1500 qdisc noop state DOWN group default 

2019-05-15 12:15:05 (287288): Guest Log:     link/ether 7a:cb:92:84:36:ee brd ff:ff:ff:ff:ff:ff

2019-05-15 12:15:05 (287288): Guest Log: 3: eth0: <BROADCAST,MULTICAST,UP,LOWER_UP> mtu 1500 qdisc pfifo_fast state UP group default qlen 1000

2019-05-15 12:15:05 (287288): Guest Log:     link/ether 08:00:27:5e:63:c7 brd ff:ff:ff:ff:ff:ff

2019-05-15 12:15:05 (287288): Guest Log:     inet 10.0.2.15/24 brd 10.0.2.255 scope global eth0

2019-05-15 12:15:05 (287288): Guest Log:        valid_lft forever preferred_lft forever

2019-05-15 12:15:05 (287288): Guest Log:     inet6 fe80::a00:27ff:fe5e:63c7/64 scope link 

2019-05-15 12:15:05 (287288): Guest Log:        valid_lft forever preferred_lft forever

2019-05-15 12:15:05 (287288): Guest Log: -------------------

2019-05-15 12:15:05 (287288): Guest Log: Linking /etc/docker to /var/lib/boot2docker for persistence

2019-05-15 12:15:05 (287288): Guest Log: Waiting for Docker daemon to start...

2019-05-15 12:15:10 (287288): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-05-15 12:15:10 (287288): Guest Log: Running boinc_app...

2019-05-15 12:15:10 (287288): Guest Log: Importing Docker image from BOINC...

2019-05-15 12:15:10 (287288): Guest Log: 00:00:10.409869 vminfo   Error: Unable to connect to system D-Bus (3/3): D-Bus not installed

2019-05-15 12:15:50 (287288): Guest Log: Prerun diagnostics...

2019-05-15 12:15:50 (287288): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-05-15 12:15:50 (287288): Guest Log: carlosred/bowtie    built               4beacb78841d        11 months ago       758.7 MB

2019-05-15 12:15:50 (287288): Guest Log: CONTAINER ID        IMAGE               COMMAND             CREATED             STATUS              PORTS               NAMES

2019-05-15 12:15:50 (287288): Guest Log: 753.8M	/var/lib/docker

2019-05-15 12:15:50 (287288): Guest Log:               total        used        free      shared  buff/cache   available

2019-05-15 12:15:50 (287288): Guest Log: Mem:           3461          50        2451         917         959        2452

2019-05-15 12:15:50 (287288): Guest Log: Swap:           811           0         811

2019-05-15 12:15:50 (287288): Guest Log: Prerun commands...

2019-05-15 12:15:50 (287288): Guest Log: Running... 

2019-05-15 12:15:50 (287288): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current

2019-05-15 12:15:50 (287288): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed

2019-05-15 12:16:00 (287288): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-15 12:16:00 (287288): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-15 12:16:00 (287288): Guest Log:   0 14.4M    0 18317    0     0  13906      0  0:18:08  0:00:01  0:18:07 13908

2019-05-15 12:16:00 (287288): Guest Log:   4 14.4M    4  737k    0     0   313k      0  0:00:47  0:00:02  0:00:45  313k

2019-05-15 12:16:00 (287288): Guest Log:  13 14.4M   13 1937k    0     0   601k      0  0:00:24  0:00:03  0:00:21  601k

2019-05-15 12:16:00 (287288): Guest Log:  23 14.4M   23 3445k    0     0   812k      0  0:00:18  0:00:04  0:00:14  812k

2019-05-15 12:16:00 (287288): Guest Log:  33 14.4M   33 4975k    0     0   943k      0  0:00:15  0:00:05  0:00:10  993k

2019-05-15 12:16:00 (287288): Guest Log:  43 14.4M   43 6425k    0     0  1032k      0  0:00:14  0:00:06  0:00:08 1306k

2019-05-15 12:16:00 (287288): Guest Log:  53 14.4M   53 7852k    0     0  1087k      0  0:00:13  0:00:07  0:00:06 1461k

2019-05-15 12:16:00 (287288): Guest Log:  62 14.4M   62 9308k    0     0  1132k      0  0:00:13  0:00:08  0:00:05 1474k

2019-05-15 12:16:00 (287288): Guest Log:  73 14.4M   73 10.5M    0     0  1171k      0  0:00:12  0:00:09  0:00:03 1477k

2019-05-15 12:16:00 (287288): Guest Log:  83 14.4M   83 12.0M    0     0  1203k      0  0:00:12  0:00:10  0:00:02 1481k

2019-05-15 12:16:00 (287288): Guest Log:  93 14.4M   93 13.4M    0     0  1225k      0  0:00:12  0:00:11  0:00:01 1465k

2019-05-15 12:16:00 (287288): Guest Log: 100 14.4M  100 14.4M    0     0  1240k      0  0:00:11  0:00:11 --:--:-- 1474k

2019-05-15 12:16:00 (287288): Guest Log: Archive:  s_cerevisiae.ebwt.zip

2019-05-15 12:16:00 (287288): Guest Log:   inflating: s_cerevisiae.1.ebwt     

2019-05-15 12:16:00 (287288): Guest Log:   inflating: s_cerevisiae.2.ebwt     

2019-05-15 12:16:00 (287288): Guest Log:   inflating: s_cerevisiae.3.ebwt     

2019-05-15 12:16:00 (287288): Guest Log:   inflating: s_cerevisiae.4.ebwt     

2019-05-15 12:16:00 (287288): Guest Log:   inflating: s_cerevisiae.rev.1.ebwt  

2019-05-15 12:16:00 (287288): Guest Log:   inflating: s_cerevisiae.rev.2.ebwt  

2019-05-15 12:16:00 (287288): Guest Log:   inflating: make_s_cerevisiae.sh    

2019-05-15 12:16:00 (287288): Guest Log: # reads processed: 1

2019-05-15 12:16:00 (287288): Guest Log: # reads with at least one reported alignment: 1 (100.00%)

2019-05-15 12:16:00 (287288): Guest Log: # reads that failed to align: 0 (0.00%)

2019-05-15 12:16:00 (287288): Guest Log: Reported 1 alignments

2019-05-15 12:16:05 (287288): Guest Log: Postrun commands...

2019-05-15 12:16:05 (287288): Guest Log: boinc_app exited (0)

2019-05-15 12:16:05 (287288): Guest Log: Saving results...

2019-05-15 12:16:05 (287288): Guest Log: make_s_cerevisiae.sh

2019-05-15 12:16:05 (287288): Guest Log: res_bowtie.txt

2019-05-15 12:16:05 (287288): VM Completion File Detected.
2019-05-15 12:16:05 (287288): Powering off VM.
2019-05-15 12:16:07 (287288): Successfully stopped VM.
2019-05-15 12:16:12 (287288): Deregistering VM. (boinc_41f9452ce29ccaa8, slot#6)
2019-05-15 12:16:12 (287288): Removing virtual disk drive(s) from VM.
2019-05-15 12:16:12 (287288): Removing network bandwidth throttle group from VM.
2019-05-15 12:16:12 (287288): Removing storage controller(s) from VM.
2019-05-15 12:16:12 (287288): Removing VM from VirtualBox.
12:16:17 (287288): called boinc_finish(0)

</stderr_txt>
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