Task 216945

Name boinc2docker_10273_1556847396.701374_1
Workunit 99391
Created 3 May 2019, 1:36:38 UTC
Sent 3 May 2019, 23:56:10 UTC
Report deadline 10 May 2019, 23:56:10 UTC
Received 7 May 2019, 1:24:23 UTC
Server state Over
Outcome Success
Client state Done
Exit status 0 (0x00000000)
Computer ID 257
Run time 1 min 38 sec
CPU time 57 sec
Validate state Valid
Credit 12.77
Device peak FLOPS 6.91 GFLOPS
Application version boinc2docker v1.07 (vbox64_mt)
x86_64-pc-linux-gnu
Peak working set size 91.41 MB
Peak swap size 103.03 MB
Peak disk usage 340.69 MB

Stderr output

<core_client_version>7.14.2</core_client_version>
<![CDATA[
<stderr_txt>
2019-05-06 20:40:12 (13708): vboxwrapper (7.9.26200): starting
2019-05-06 20:40:12 (13708): Feature: Checkpoint interval offset (220 seconds)
2019-05-06 20:40:12 (13708): Detected: VirtualBox COM Interface (Version: 5.2.8)
2019-05-06 20:40:12 (13708): Detected: Minimum checkpoint interval (600.000000 seconds)
2019-05-06 20:40:12 (13708): Create VM. (boinc_f67711f9ef89504c, slot#0)
2019-05-06 20:40:12 (13708): Updating drive controller type and model for desired configuration.
2019-05-06 20:40:13 (13708): Setting Memory Size for VM. (3534MB)
2019-05-06 20:40:13 (13708): Setting CPU Count for VM. (2)
2019-05-06 20:40:13 (13708): Setting Chipset Options for VM.
2019-05-06 20:40:13 (13708): Setting Boot Options for VM.
2019-05-06 20:40:13 (13708): Enabling VM Network Access.
2019-05-06 20:40:13 (13708): Setting Network Configuration for NAT.
2019-05-06 20:40:13 (13708): Disabling USB Support for VM.
2019-05-06 20:40:13 (13708): Disabling COM Port Support for VM.
2019-05-06 20:40:13 (13708): Disabling LPT Port Support for VM.
2019-05-06 20:40:13 (13708): Disabling Audio Support for VM.
2019-05-06 20:40:13 (13708): Disabling Clipboard Support for VM.
2019-05-06 20:40:13 (13708): Disabling Drag and Drop Support for VM.
2019-05-06 20:40:13 (13708): Adding storage controller(s) to VM.
2019-05-06 20:40:13 (13708): Adding virtual ISO 9660 disk drive to VM. (vm_isocontext.iso)
2019-05-06 20:40:13 (13708): Adding VirtualBox Guest Additions to VM.
2019-05-06 20:40:13 (13708): Adding network bandwidth throttle group to VM. (Defaulting to 1024GB)
2019-05-06 20:40:13 (13708): Enabling shared directory for VM.
2019-05-06 20:40:13 (13708): Starting VM. (boinc_f67711f9ef89504c, slot#0)
2019-05-06 20:40:23 (13708): Guest Log: BIOS: VirtualBox 5.2.8

2019-05-06 20:40:23 (13708): Guest Log: CPUID EDX: 0x178bfbff

2019-05-06 20:40:23 (13708): Guest Log: BIOS: Boot : bseqnr=1, bootseq=0032

2019-05-06 20:40:23 (13708): Guest Log: int13_harddisk: function 02, unmapped device for ELDL=80

2019-05-06 20:40:23 (13708): Guest Log: BIOS: Boot from Hard Disk 0 failed

2019-05-06 20:40:23 (13708): Guest Log: BIOS: Boot : bseqnr=2, bootseq=0003

2019-05-06 20:40:23 (13708): Guest Log: BIOS: Booting from CD-ROM...

2019-05-06 20:40:23 (13708): Guest Log: BIOS: KBD: unsupported int 16h function 03

2019-05-06 20:40:23 (13708): Guest Log: BIOS: AX=0305 BX=0000 CX=0000 DX=0000 

2019-05-06 20:40:23 (13708): Successfully started VM. (PID = '2332')
2019-05-06 20:40:23 (13708): Reporting VM Process ID to BOINC.
2019-05-06 20:40:28 (13708): VM state change detected. (old = 'poweroff', new = 'running')
2019-05-06 20:40:41 (13708): Guest Log: vgdrvHeartbeatInit: Setting up heartbeat to trigger every 2000 milliseconds

2019-05-06 20:40:41 (13708): Guest Log: vboxguest: misc device minor 56, IRQ 20, I/O port d020, MMIO at 00000000f0400000 (size 0x400000)

2019-05-06 20:40:41 (13708): Guest Log: net.ipv4.ip_forward = 1

2019-05-06 20:40:41 (13708): Guest Log: sysctl: cannot stat /proc/sys/net/ipv6/conf/all/forwarding: No such file or directory

2019-05-06 20:40:41 (13708): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-05-06 20:40:41 (13708): Guest Log: sysctl: "cannot stat %s" is an unknown key

2019-05-06 20:40:41 (13708): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-05-06 20:40:41 (13708): Guest Log: Segmentation fault

2019-05-06 20:40:41 (13708): Guest Log: automount ...

2019-05-06 20:40:41 (13708): Guest Log: Is the disk unpartitioned?, test for the 'boot2docker format-me' string

2019-05-06 20:40:41 (13708): Guest Log: automount over.

2019-05-06 20:40:41 (13708): Guest Log: Setting hostname to boot2docker Done.

2019-05-06 20:40:41 (13708): Guest Log: Mon May  6 20:40:35 UTC 2019 dhcp -------------------------------

2019-05-06 20:40:41 (13708): Preference change detected
2019-05-06 20:40:41 (13708): Setting CPU throttle for VM. (100%)
2019-05-06 20:40:41 (13708): Setting checkpoint interval to 600 seconds. (Higher value of (Preference: 60 seconds) or (Vbox_job.xml: 600 seconds))
2019-05-06 20:40:46 (13708): Guest Log: udevadm settle - timeout of 5 seconds reached, the event queue contains:

2019-05-06 20:40:46 (13708): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00/input/input7 (1334)

2019-05-06 20:40:46 (13708): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00/input/input7/event6 (1335)

2019-05-06 20:40:46 (13708): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0400:00 (1336)

2019-05-06 20:40:46 (13708): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:03 (1341)

2019-05-06 20:40:46 (13708): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0C02:00 (1342)

2019-05-06 20:40:46 (13708): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0C0A:00 (1343)

2019-05-06 20:40:46 (13708): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP8390:00 (1344)

2019-05-06 20:40:46 (13708): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0200:00 (1350)

2019-05-06 20:40:46 (13708): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0303:00 (1351)

2019-05-06 20:40:46 (13708): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1352)

2019-05-06 20:40:46 (13708): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0B00:00 (1353)

2019-05-06 20:40:46 (13708): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0F03:00 (1354)

2019-05-06 20:40:46 (13708): Guest Log: Mon May  6 20:40:41 UTC 2019 dhcp -------------------------------

2019-05-06 20:40:46 (13708): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.000662 main     Log opened 2019-05-06T20:40:42.492595000Z

2019-05-06 20:40:46 (13708): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.000662 main     Log opened 2019-05-06T20:40:42.492595000Z

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.006139 main     OS Product: Linux

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.006139 main     OS Product: Linux

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.008049 main     OS Release: 4.1.19-boot2docker

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.008169 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.008229 main     Executable: /sbin/VBoxService

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.008230 main     Process ID: 799

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.008231 main     Package type: LINUX_64BITS_GENERIC

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.008049 main     OS Release: 4.1.19-boot2docker

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.008169 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.008229 main     Executable: /sbin/VBoxService

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.008230 main     Process ID: 799

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.008231 main     Package type: LINUX_64BITS00:00:00.016591 main     5.0.16 r105871 started. Verbose level = 0

2019-05-06 20:40:46 (13708): Guest Log: _GENERIC

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.016591 main     5.0.16 r105871 started. Verbose level = 0

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.038963 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

2019-05-06 20:40:46 (13708): Guest Log: 00:00:00.039276 vminfo   Error: Unable to connect to system D-Bus (1/3): D-Bus not installed

2019-05-06 20:40:46 (13708): Guest Log: Mounting BOINC shared/...

2019-05-06 20:40:46 (13708): Guest Log: -------------------

2019-05-06 20:40:46 (13708): Guest Log: Tue May  7 00:40:45 UTC 2019

2019-05-06 20:40:51 (13708): Guest Log: 00:00:05.073108 vminfo   Error: Unable to connect to system D-Bus (2/3): D-Bus not installed

2019-05-06 20:40:51 (13708): Guest Log: Tue May  7 00:40:52 UTC 2019

2019-05-06 20:40:51 (13708): Guest Log: 1: lo: <LOOPBACK,UP,LOWER_UP> mtu 65536 qdisc noqueue state UNKNOWN group default 

2019-05-06 20:40:51 (13708): Guest Log:     link/loopback 00:00:00:00:00:00 brd 00:00:00:00:00:00

2019-05-06 20:40:51 (13708): Guest Log:     inet 127.0.0.1/8 scope host lo

2019-05-06 20:40:51 (13708): Guest Log:        valid_lft forever preferred_lft forever

2019-05-06 20:40:51 (13708): Guest Log:     inet6 ::1/128 scope host 

2019-05-06 20:40:51 (13708): Guest Log:        valid_lft forever preferred_lft forever

2019-05-06 20:40:51 (13708): Guest Log: 2: dummy0: <BROADCAST,NOARP> mtu 1500 qdisc noop state DOWN group default 

2019-05-06 20:40:51 (13708): Guest Log:     link/ether be:6f:3d:4c:55:fd brd ff:ff:ff:ff:ff:ff

2019-05-06 20:40:51 (13708): Guest Log: 3: eth0: <BROADCAST,MULTICAST,UP,LOWER_UP> mtu 1500 qdisc pfifo_fast state UP group default qlen 1000

2019-05-06 20:40:51 (13708): Guest Log:     link/ether 08:00:27:79:72:7f brd ff:ff:ff:ff:ff:ff

2019-05-06 20:40:51 (13708): Guest Log:     inet 10.0.2.15/24 brd 10.0.2.255 scope global eth0

2019-05-06 20:40:51 (13708): Guest Log:        valid_lft forever preferred_lft forever

2019-05-06 20:40:51 (13708): Guest Log:     inet6 fe80::a00:27ff:fe79:727f/64 scope link 

2019-05-06 20:40:51 (13708): Guest Log:        valid_lft forever preferred_lft forever

2019-05-06 20:40:51 (13708): Guest Log: -------------------

2019-05-06 20:40:51 (13708): Guest Log: Linking /etc/docker to /var/lib/boot2docker for persistence

2019-05-06 20:40:51 (13708): Guest Log: Waiting for Docker daemon to start...

2019-05-06 20:40:56 (13708): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-05-06 20:40:56 (13708): Guest Log: Running boinc_app...

2019-05-06 20:40:56 (13708): Guest Log: Importing Docker image from BOINC...

2019-05-06 20:40:56 (13708): Guest Log: 00:00:10.085201 vminfo   Error: Unable to connect to system D-Bus (3/3): D-Bus not installed

2019-05-06 20:41:14 (13708): VM state change detected. (old = 'running', new = 'paused')
2019-05-06 20:41:24 (13708): VM state change detected. (old = 'paused', new = 'running')
2019-05-06 20:41:44 (13708): Guest Log: Prerun diagnostics...

2019-05-06 20:41:44 (13708): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-05-06 20:41:44 (13708): Guest Log: carlosred/bowtie    built               4beacb78841d        10 months ago       758.7 MB

2019-05-06 20:41:44 (13708): Guest Log: CONTAINER ID        IMAGE               COMMAND             CREATED             STATUS              PORTS               NAMES

2019-05-06 20:41:44 (13708): Guest Log: 753.8M	/var/lib/docker

2019-05-06 20:41:44 (13708): Guest Log:               total        used        free      shared  buff/cache   available

2019-05-06 20:41:44 (13708): Guest Log: Mem:           3461          52        2451         917         957        2451

2019-05-06 20:41:44 (13708): Guest Log: Swap:           815           0         815

2019-05-06 20:41:44 (13708): Guest Log: Prerun commands...

2019-05-06 20:41:44 (13708): Guest Log: Running... 

2019-05-06 20:41:44 (13708): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current

2019-05-06 20:41:44 (13708): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed

2019-05-06 20:41:50 (13708): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-06 20:41:50 (13708): Guest Log:   0 14.4M    0  105k    0     0   150k      0  0:01:38 --:--:--  0:01:38  150k

2019-05-06 20:41:50 (13708): Guest Log:  18 14.4M   18 2774k    0     0  1641k      0  0:00:09  0:00:01  0:00:08 1641k

2019-05-06 20:41:50 (13708): Guest Log:  41 14.4M   41 6199k    0     0  2186k      0  0:00:06  0:00:02  0:00:04 2185k

2019-05-06 20:41:50 (13708): Guest Log:  68 14.4M   68  9.8M    0     0  2758k      0  0:00:05  0:00:03  0:00:02 2758k

2019-05-06 20:41:50 (13708): Guest Log: 100 14.4M  100 14.4M    0     0  3298k      0  0:00:04  0:00:04 --:--:-- 3298k

2019-05-06 20:41:50 (13708): Guest Log: Archive:  s_cerevisiae.ebwt.zip

2019-05-06 20:41:50 (13708): Guest Log:   inflating: s_cerevisiae.1.ebwt     

2019-05-06 20:41:50 (13708): Guest Log:   inflating: s_cerevisiae.2.ebwt     

2019-05-06 20:41:50 (13708): Guest Log:   inflating: s_cerevisiae.3.ebwt     

2019-05-06 20:41:50 (13708): Guest Log:   inflating: s_cerevisiae.4.ebwt     

2019-05-06 20:41:50 (13708): Guest Log:   inflating: s_cerevisiae.rev.1.ebwt  

2019-05-06 20:41:50 (13708): Guest Log:   inflating: s_cerevisiae.rev.2.ebwt  

2019-05-06 20:41:50 (13708): Guest Log:   inflating: make_s_cerevisiae.sh    

2019-05-06 20:41:50 (13708): Guest Log: # reads processed: 1

2019-05-06 20:41:50 (13708): Guest Log: # reads with at least one reported alignment: 1 (100.00%)

2019-05-06 20:41:50 (13708): Guest Log: # reads that failed to align: 0 (0.00%)

2019-05-06 20:41:50 (13708): Guest Log: Reported 1 alignments

2019-05-06 20:41:50 (13708): Guest Log: Postrun commands...

2019-05-06 20:41:50 (13708): Guest Log: boinc_app exited (0)

2019-05-06 20:41:50 (13708): Guest Log: Saving results...

2019-05-06 20:41:50 (13708): Guest Log: make_s_cerevisiae.sh

2019-05-06 20:41:50 (13708): Guest Log: res_bowtie.txt

2019-05-06 20:41:50 (13708): VM Completion File Detected.
2019-05-06 20:41:50 (13708): Powering off VM.
2019-05-06 20:41:51 (13708): Successfully stopped VM.
2019-05-06 20:41:56 (13708): Deregistering VM. (boinc_f67711f9ef89504c, slot#0)
2019-05-06 20:41:56 (13708): Removing virtual disk drive(s) from VM.
2019-05-06 20:41:56 (13708): Removing network bandwidth throttle group from VM.
2019-05-06 20:41:56 (13708): Removing storage controller(s) from VM.
2019-05-06 20:41:56 (13708): Removing VM from VirtualBox.
20:42:01 (13708): called boinc_finish(0)

</stderr_txt>
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