Task 224499

Name boinc2docker_8860_1556845783.988307_2
Workunit 95778
Created 10 May 2019, 7:36:15 UTC
Sent 10 May 2019, 7:36:21 UTC
Report deadline 17 May 2019, 7:36:21 UTC
Received 10 May 2019, 8:05:08 UTC
Server state Over
Outcome Success
Client state Done
Exit status 0 (0x00000000)
Computer ID 280
Run time 2 min 2 sec
CPU time 1 min 26 sec
Validate state Valid
Credit 15.25
Device peak FLOPS 14.97 GFLOPS
Application version boinc2docker v1.07 (vbox64_mt)
x86_64-pc-linux-gnu
Peak working set size 124.55 MB
Peak swap size 4,343.30 MB
Peak disk usage 340.70 MB

Stderr output

<core_client_version>7.14.2</core_client_version>
<![CDATA[
<stderr_txt>
2019-05-10 02:39:06 (22658): vboxwrapper (7.7.26197): starting
2019-05-10 02:39:06 (22658): Feature: Checkpoint interval offset (389 seconds)
2019-05-10 02:39:06 (22658): Detected: VirtualBox VboxManage Interface (Version: 6.0.6)
2019-05-10 02:39:06 (22658): Detected: Minimum checkpoint interval (600.000000 seconds)
2019-05-10 02:39:06 (22658): Create VM. (boinc_97560fd5ea0304b5, slot#15)
2019-05-10 02:39:06 (22658): Updating drive controller type and model for desired configuration.
2019-05-10 02:39:06 (22658): Setting Memory Size for VM. (3534MB)
2019-05-10 02:39:06 (22658): Setting CPU Count for VM. (4)
2019-05-10 02:39:07 (22658): Setting Chipset Options for VM.
2019-05-10 02:39:07 (22658): Setting Boot Options for VM.
2019-05-10 02:39:07 (22658): Setting Network Configuration for NAT.
2019-05-10 02:39:07 (22658): Enabling VM Network Access.
2019-05-10 02:39:07 (22658): Disabling USB Support for VM.
2019-05-10 02:39:07 (22658): Disabling COM Port Support for VM.
2019-05-10 02:39:07 (22658): Disabling LPT Port Support for VM.
2019-05-10 02:39:07 (22658): Disabling Audio Support for VM.
2019-05-10 02:39:07 (22658): Disabling Clipboard Support for VM.
2019-05-10 02:39:07 (22658): Disabling Drag and Drop Support for VM.
2019-05-10 02:39:08 (22658): Adding storage controller(s) to VM.
2019-05-10 02:39:08 (22658): Adding virtual ISO 9660 disk drive to VM. (vm_isocontext.iso)
2019-05-10 02:39:08 (22658): Adding VirtualBox Guest Additions to VM.
2019-05-10 02:39:08 (22658): Adding network bandwidth throttle group to VM. (Defaulting to 1024GB)
2019-05-10 02:39:08 (22658): Enabling shared directory for VM.
2019-05-10 02:39:08 (22658): Starting VM. (boinc_97560fd5ea0304b5, slot#15)
2019-05-10 02:39:10 (22658): Successfully started VM. (PID = '23070')
2019-05-10 02:39:10 (22658): Reporting VM Process ID to BOINC.
2019-05-10 02:39:10 (22658): Guest Log: BIOS: VirtualBox 6.0.6
2019-05-10 02:39:10 (22658): Guest Log: CPUID EDX: 0x178bfbff
2019-05-10 02:39:10 (22658): VM state change detected. (old = 'poweroff', new = 'running')
2019-05-10 02:39:10 (22658): Preference change detected
2019-05-10 02:39:10 (22658): Setting CPU throttle for VM. (100%)
2019-05-10 02:39:10 (22658): Setting checkpoint interval to 1800 seconds. (Higher value of (Preference: 1800 seconds) or (Vbox_job.xml: 600 seconds))
2019-05-10 02:39:13 (22658): Guest Log: BIOS: Boot : bseqnr=1, bootseq=0032
2019-05-10 02:39:13 (22658): Guest Log: int13_harddisk: function 02, unmapped device for ELDL=80
2019-05-10 02:39:13 (22658): Guest Log: BIOS: Boot from Hard Disk 0 failed
2019-05-10 02:39:13 (22658): Guest Log: BIOS: Boot : bseqnr=2, bootseq=0003
2019-05-10 02:39:13 (22658): Guest Log: BIOS: Booting from CD-ROM...
2019-05-10 02:39:22 (22658): Guest Log: BIOS: KBD: unsupported int 16h function 03
2019-05-10 02:39:22 (22658): Guest Log: BIOS: AX=0305 BX=0000 CX=0000 DX=0000 
2019-05-10 02:39:36 (22658): Guest Log: vgdrvHeartbeatInit: Setting up heartbeat to trigger every 2000 milliseconds
2019-05-10 02:39:36 (22658): Guest Log: vboxguest: misc device minor 56, IRQ 20, I/O port d020, MMIO at 00000000f0400000 (size 0x400000)
2019-05-10 02:39:37 (22658): Guest Log: net.ipv4.ip_forward = 1
2019-05-10 02:39:37 (22658): Guest Log: sysctl: cannot stat /proc/sys/net/ipv6/conf/all/forwarding: No such file or directory
2019-05-10 02:39:37 (22658): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory
2019-05-10 02:39:37 (22658): Guest Log: sysctl: "cannot stat %s" is an unknown key
2019-05-10 02:39:37 (22658): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory
2019-05-10 02:39:37 (22658): Guest Log: Segmentation fault
2019-05-10 02:39:37 (22658): Guest Log: automount ...
2019-05-10 02:39:38 (22658): Guest Log: Is the disk unpartitioned?, test for the 'boot2docker format-me' string
2019-05-10 02:39:38 (22658): Guest Log: automount over.
2019-05-10 02:39:38 (22658): Guest Log: Setting hostname to boot2docker Done.
2019-05-10 02:39:38 (22658): Guest Log: Fri May 10 02:39:36 UTC 2019 dhcp -------------------------------
2019-05-10 02:39:43 (22658): Guest Log: udevadm settle - timeout of 5 seconds reached, the event queue contains:
2019-05-10 02:39:43 (22658): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1384)
2019-05-10 02:39:44 (22658): Guest Log: Fri May 10 02:39:42 UTC 2019 dhcp -------------------------------
2019-05-10 02:39:44 (22658): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.000133 main     Log opened 2019-05-10T02:39:42.940240000Z
2019-05-10 02:39:44 (22658): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.000133 main     Log opened 2019-05-10T02:39:42.940240000Z
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.003885 main     OS Product: Linux
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.003885 main     OS Product: Linux
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.005045 main     OS Release: 4.1.19-boot2docker
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.005045 main     OS Release: 4.1.19-boot2docker
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.006384 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.006384 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.007894 main     Executable: /sbin/VBoxService
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.007897 main     Process ID: 884
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.007898 main     Package type: LINUX_64BITS_GENERIC
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.007894 main     Executable: /sbin/VBoxService
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.007897 main     Process ID: 884
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.007898 main     Package type: LINUX_64BITS_GENERIC
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.017716 main     5.0.16 r105871 started. Verbose level = 0
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.017716 main     5.0.16 r105871 started. Verbose level = 0
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.055065 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
2019-05-10 02:39:44 (22658): Guest Log: 00:00:00.055177 vminfo   Error: Unable to connect to system D-Bus (1/3): D-Bus not installed
2019-05-10 02:39:45 (22658): Guest Log: Mounting BOINC shared/...
2019-05-10 02:39:46 (22658): Guest Log: -------------------
2019-05-10 02:39:46 (22658): Guest Log: Fri May 10 07:39:45 UTC 2019
2019-05-10 02:39:50 (22658): Guest Log: 00:00:05.057485 vminfo   Error: Unable to connect to system D-Bus (2/3): D-Bus not installed
2019-05-10 02:39:51 (22658): Guest Log: Fri May 10 07:39:50 UTC 2019
2019-05-10 02:39:51 (22658): Guest Log: 1: lo: <LOOPBACK,UP,LOWER_UP> mtu 65536 qdisc noqueue state UNKNOWN group default 
2019-05-10 02:39:51 (22658): Guest Log:     link/loopback 00:00:00:00:00:00 brd 00:00:00:00:00:00
2019-05-10 02:39:51 (22658): Guest Log:     inet 127.0.0.1/8 scope host lo
2019-05-10 02:39:51 (22658): Guest Log:        valid_lft forever preferred_lft forever
2019-05-10 02:39:51 (22658): Guest Log: 2: dummy0: <BROADCAST,NOARP> mtu 1500 qdisc noop state DOWN group default 
2019-05-10 02:39:51 (22658): Guest Log:     link/ether b2:39:37:68:4a:c3 brd ff:ff:ff:ff:ff:ff
2019-05-10 02:39:51 (22658): Guest Log:     link/ether 08:00:27:40:0b:46 brd ff:ff:ff:ff:ff:ff
2019-05-10 02:39:51 (22658): Guest Log:     inet 10.0.2.15/24 brd 10.0.2.255 scope global eth0
2019-05-10 02:39:51 (22658): Guest Log:        valid_lft forever preferred_lft forever
2019-05-10 02:39:51 (22658): Guest Log: -------------------
2019-05-10 02:39:51 (22658): Guest Log: Linking /etc/docker to /var/lib/boot2docker for persistence
2019-05-10 02:39:51 (22658): Guest Log: Waiting for Docker daemon to start...
2019-05-10 02:39:54 (22658): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE
2019-05-10 02:39:54 (22658): Guest Log: Running boinc_app...
2019-05-10 02:39:54 (22658): Guest Log: Importing Docker image from BOINC...
2019-05-10 02:39:54 (22658): Guest Log: 00:00:10.058623 vminfo   Error: Unable to connect to system D-Bus (3/3): D-Bus not installed
2019-05-10 02:40:37 (22658): Guest Log: Prerun diagnostics...
2019-05-10 02:40:38 (22658): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE
2019-05-10 02:40:38 (22658): Guest Log: carlosred/bowtie    built               4beacb78841d        11 months ago       758.7 MB
2019-05-10 02:40:38 (22658): Guest Log: CONTAINER ID        IMAGE               COMMAND             CREATED             STATUS              PORTS               NAMES
2019-05-10 02:40:38 (22658): Guest Log: 753.8M	/var/lib/docker
2019-05-10 02:40:38 (22658): Guest Log:               total        used        free      shared  buff/cache   available
2019-05-10 02:40:38 (22658): Guest Log: Mem:           3461          56        2445         917         959        2445
2019-05-10 02:40:38 (22658): Guest Log: Swap:           813           0         813
2019-05-10 02:40:38 (22658): Guest Log: Prerun commands...
2019-05-10 02:40:38 (22658): Guest Log: Running... 
2019-05-10 02:40:38 (22658): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
2019-05-10 02:40:38 (22658): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed
2019-05-10 02:40:58 (22658): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
2019-05-10 02:40:58 (22658): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:01 --:--:--     0
2019-05-10 02:40:58 (22658): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:02 --:--:--     0
2019-05-10 02:40:58 (22658): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:03 --:--:--     0
2019-05-10 02:40:58 (22658): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:04 --:--:--     0
2019-05-10 02:40:58 (22658): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:05 --:--:--     0
2019-05-10 02:40:58 (22658): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:06 --:--:--     0
2019-05-10 02:40:58 (22658): Guest Log:   4 14.4M    4  738k    0     0   106k      0  0:02:18  0:00:06  0:02:12  167k
2019-05-10 02:40:58 (22658): Guest Log:  13 14.4M   13 1937k    0     0   244k      0  0:01:00  0:00:07  0:00:53  440k
2019-05-10 02:40:58 (22658): Guest Log:  20 14.4M   20 3024k    0     0   338k      0  0:00:43  0:00:08  0:00:35  689k
2019-05-10 02:40:58 (22658): Guest Log:  28 14.4M   28 4206k    0     0   423k      0  0:00:34  0:00:09  0:00:25  959k
2019-05-10 02:40:58 (22658): Guest Log:  36 14.4M   36 5448k    0     0   498k      0  0:00:29  0:00:10  0:00:19 1111k
2019-05-10 02:40:58 (22658): Guest Log:  44 14.4M   44 6572k    0     0   551k      0  0:00:26  0:00:11  0:00:15 1165k
2019-05-10 02:40:58 (22658): Guest Log:  50 14.4M   50 7440k    0     0   575k      0  0:00:25  0:00:12  0:00:13 1100k
2019-05-10 02:40:58 (22658): Guest Log:  56 14.4M   56 8400k    0     0   603k      0  0:00:24  0:00:13  0:00:11 1074k
2019-05-10 02:40:58 (22658): Guest Log:  62 14.4M   62 9256k    0     0   620k      0  0:00:23  0:00:14  0:00:09 1009k
2019-05-10 02:40:58 (22658): Guest Log:  67 14.4M   67 9988k    0     0   627k      0  0:00:23  0:00:15  0:00:08  908k
2019-05-10 02:40:58 (22658): Guest Log:  73 14.4M   73 10.5M    0     0   637k      0  0:00:23  0:00:16  0:00:07  844k
2019-05-10 02:40:58 (22658): Guest Log:  79 14.4M   79 11.4M    0     0   654k      0  0:00:22  0:00:17  0:00:05  858k
2019-05-10 02:40:58 (22658): Guest Log:  87 14.4M   87 12.6M    0     0   685k      0  0:00:21  0:00:18  0:00:03  915k
2019-05-10 02:40:58 (22658): Guest Log:  96 14.4M   96 13.8M    0     0   713k      0  0:00:20  0:00:19  0:00:01  993k
2019-05-10 02:40:58 (22658): Guest Log: 100 14.4M  100 14.4M    0     0   725k      0  0:00:20  0:00:20 --:--:-- 1077k
2019-05-10 02:40:58 (22658): Guest Log: Archive:  s_cerevisiae.ebwt.zip
2019-05-10 02:40:58 (22658): Guest Log:   inflating: s_cerevisiae.1.ebwt     
2019-05-10 02:40:58 (22658): Guest Log:   inflating: s_cerevisiae.2.ebwt     
2019-05-10 02:40:58 (22658): Guest Log:   inflating: s_cerevisiae.3.ebwt     
2019-05-10 02:40:58 (22658): Guest Log:   inflating: s_cerevisiae.4.ebwt     
2019-05-10 02:40:58 (22658): Guest Log:   inflating: s_cerevisiae.rev.1.ebwt  
2019-05-10 02:40:58 (22658): Guest Log:   inflating: s_cerevisiae.rev.2.ebwt  
2019-05-10 02:40:58 (22658): Guest Log:   inflating: make_s_cerevisiae.sh    
2019-05-10 02:40:58 (22658): Guest Log: # reads processed: 1
2019-05-10 02:40:58 (22658): Guest Log: # reads with at least one reported alignment: 1 (100.00%)
2019-05-10 02:40:58 (22658): Guest Log: # reads that failed to align: 0 (0.00%)
2019-05-10 02:40:58 (22658): Guest Log: Reported 1 alignments
2019-05-10 02:40:59 (22658): Guest Log: Postrun commands...
2019-05-10 02:40:59 (22658): Guest Log: boinc_app exited (0)
2019-05-10 02:40:59 (22658): Guest Log: Saving results...
2019-05-10 02:40:59 (22658): Guest Log: make_s_cerevisiae.sh
2019-05-10 02:40:59 (22658): Guest Log: res_bowtie.txt
2019-05-10 02:40:59 (22658): VM Completion File Detected.
2019-05-10 02:40:59 (22658): Powering off VM.
2019-05-10 02:41:00 (22658): Successfully stopped VM.
2019-05-10 02:41:00 (22658): Deregistering VM. (boinc_97560fd5ea0304b5, slot#15)
2019-05-10 02:41:00 (22658): Removing network bandwidth throttle group from VM.
2019-05-10 02:41:00 (22658): Removing storage controller(s) from VM.
2019-05-10 02:41:00 (22658): Removing VM from VirtualBox.
2019-05-10 02:41:00 (22658): Removing virtual ISO 9660 disk from VirtualBox.
02:41:05 (22658): called boinc_finish(0)

</stderr_txt>
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