Task 235532

Name boinc2docker_25625_1560466389.739315_2
Workunit 101274
Created 20 Jun 2019, 23:31:05 UTC
Sent 20 Jun 2019, 23:34:46 UTC
Report deadline 27 Jun 2019, 23:34:46 UTC
Received 21 Jun 2019, 0:08:21 UTC
Server state Over
Outcome Success
Client state Done
Exit status 0 (0x00000000)
Computer ID 67
Run time 1 min 34 sec
CPU time 58 sec
Validate state Valid
Credit 2.09
Device peak FLOPS 12.86 GFLOPS
Application version boinc2docker v1.07 (vbox64_mt)
x86_64-pc-linux-gnu
Peak working set size 110.77 MB
Peak swap size 4,291.90 MB
Peak disk usage 340.71 MB

Stderr output

<core_client_version>7.9.3</core_client_version>
<![CDATA[
<stderr_txt>
2019-06-21 02:04:01 (23362): vboxwrapper (7.7.26197): starting
2019-06-21 02:04:01 (23362): Feature: Checkpoint interval offset (567 seconds)
2019-06-21 02:04:01 (23362): Detected: VirtualBox VboxManage Interface (Version: 5.2.18)
2019-06-21 02:04:01 (23362): Detected: Minimum checkpoint interval (600.000000 seconds)
2019-06-21 02:04:01 (23362): Create VM. (boinc_d23df56155e98aab, slot#2)
2019-06-21 02:04:01 (23362): Updating drive controller type and model for desired configuration.
2019-06-21 02:04:02 (23362): Setting Memory Size for VM. (3534MB)
2019-06-21 02:04:02 (23362): Setting CPU Count for VM. (4)
2019-06-21 02:04:02 (23362): Setting Chipset Options for VM.
2019-06-21 02:04:02 (23362): Setting Boot Options for VM.
2019-06-21 02:04:02 (23362): Setting Network Configuration for NAT.
2019-06-21 02:04:02 (23362): Enabling VM Network Access.
2019-06-21 02:04:03 (23362): Disabling USB Support for VM.
2019-06-21 02:04:03 (23362): Disabling COM Port Support for VM.
2019-06-21 02:04:03 (23362): Disabling LPT Port Support for VM.
2019-06-21 02:04:03 (23362): Disabling Audio Support for VM.
2019-06-21 02:04:03 (23362): Disabling Clipboard Support for VM.
2019-06-21 02:04:03 (23362): Disabling Drag and Drop Support for VM.
2019-06-21 02:04:03 (23362): Adding storage controller(s) to VM.
2019-06-21 02:04:03 (23362): Adding virtual ISO 9660 disk drive to VM. (vm_isocontext.iso)
2019-06-21 02:04:03 (23362): Adding network bandwidth throttle group to VM. (Defaulting to 1024GB)
2019-06-21 02:04:04 (23362): Enabling shared directory for VM.
2019-06-21 02:04:04 (23362): Starting VM. (boinc_d23df56155e98aab, slot#2)
2019-06-21 02:04:05 (23362): Successfully started VM. (PID = '23744')
2019-06-21 02:04:05 (23362): Reporting VM Process ID to BOINC.
2019-06-21 02:04:05 (23362): Guest Log: BIOS: VirtualBox 5.2.18
2019-06-21 02:04:05 (23362): Guest Log: CPUID EDX: 0x178bfbff
2019-06-21 02:04:05 (23362): VM state change detected. (old = 'poweroff', new = 'running')
2019-06-21 02:04:05 (23362): Preference change detected
2019-06-21 02:04:05 (23362): Setting CPU throttle for VM. (100%)
2019-06-21 02:04:05 (23362): Setting checkpoint interval to 600 seconds. (Higher value of (Preference: 60 seconds) or (Vbox_job.xml: 600 seconds))
2019-06-21 02:04:07 (23362): Guest Log: BIOS: Boot : bseqnr=1, bootseq=0032
2019-06-21 02:04:07 (23362): Guest Log: int13_harddisk: function 02, unmapped device for ELDL=80
2019-06-21 02:04:07 (23362): Guest Log: BIOS: Boot from Hard Disk 0 failed
2019-06-21 02:04:07 (23362): Guest Log: BIOS: Boot : bseqnr=2, bootseq=0003
2019-06-21 02:04:07 (23362): Guest Log: BIOS: Booting from CD-ROM...
2019-06-21 02:04:08 (23362): Guest Log: BIOS: KBD: unsupported int 16h function 03
2019-06-21 02:04:08 (23362): Guest Log: BIOS: AX=0305 BX=0000 CX=0000 DX=0000 
2019-06-21 02:04:18 (23362): Guest Log: net.ipv4.ip_forward = 1
2019-06-21 02:04:18 (23362): Guest Log: sysctl: cannot stat /proc/sys/net/ipv6/conf/all/forwarding: No such file or directory
2019-06-21 02:04:18 (23362): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory
2019-06-21 02:04:18 (23362): Guest Log: sysctl: "cannot stat %s" is an unknown key
2019-06-21 02:04:18 (23362): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory
2019-06-21 02:04:18 (23362): Guest Log: Segmentation fault
2019-06-21 02:04:18 (23362): Guest Log: automount ...
2019-06-21 02:04:18 (23362): Guest Log: vgdrvHeartbeatInit: Setting up heartbeat to trigger every 2000 milliseconds
2019-06-21 02:04:18 (23362): Guest Log: vboxguest: misc device minor 56, IRQ 20, I/O port d020, MMIO at 00000000f0400000 (size 0x400000)
2019-06-21 02:04:21 (23362): Guest Log: Is the disk unpartitioned?, test for the 'boot2docker format-me' string
2019-06-21 02:04:21 (23362): Guest Log: automount over.
2019-06-21 02:04:21 (23362): Guest Log: Setting hostname to boot2docker Done.
2019-06-21 02:04:21 (23362): Guest Log: Fri Jun 21 02:04:18 UTC 2019 dhcp -------------------------------
2019-06-21 02:04:26 (23362): Guest Log: udevadm settle - timeout of 5 seconds reached, the event queue contains:
2019-06-21 02:04:26 (23362): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1349)
2019-06-21 02:04:27 (23362): Guest Log: Fri Jun 21 02:04:24 UTC 2019 dhcp -------------------------------
2019-06-21 02:04:27 (23362): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.000086 main     Log opened 2019-06-21T02:04:25.017361000Z
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.000193 main     OS Product: Linux
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.000227 main     OS Release: 4.1.19-boot2docker
2019-06-21 02:04:27 (23362): Guest Log: V00:00:00.000268 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016
2019-06-21 02:04:27 (23362): Guest Log: BoxS00:00:00.000304 main     Executable: /sbin/VBoxServicee
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.000306 main     Process ID: 809r
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.000306 main     Package type: LINUX_64BITS_GENERIC
2019-06-21 02:04:27 (23362): Guest Log: ice 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.001366 main     5.0.16 r105871 started. Verbose level = 0
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.000086 main     Log opened 2019-06-21T02:04:25.017361000Z
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.003578 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
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.003641 vminfo   Error: Unable to connect to system D-Bus (1/3): D-Bus not installed
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.000193 main     OS Product: Linux
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.000227 main     OS Release: 4.1.19-boot2docker
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.000268 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.000304 main     Executable: /sbin/VBoxService
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.000306 main     Process ID: 809
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.000306 main     Package type: LINUX_64BITS_GENERIC
2019-06-21 02:04:27 (23362): Guest Log: 00:00:00.001366 main     5.0.16 r105871 started. Verbose level = 0
2019-06-21 02:04:27 (23362): Guest Log: Mounting BOINC shared/...
2019-06-21 02:04:28 (23362): Guest Log: -------------------
2019-06-21 02:04:28 (23362): Guest Log: Fri Jun 21 00:04:27 UTC 2019
2019-06-21 02:04:32 (23362): Guest Log: 00:00:05.006424 vminfo   Error: Unable to connect to system D-Bus (2/3): D-Bus not installed
2019-06-21 02:04:33 (23362): Guest Log: Fri Jun 21 00:04:32 UTC 2019
2019-06-21 02:04:33 (23362): Guest Log: 1: lo: <LOOPBACK,UP,LOWER_UP> mtu 65536 qdisc noqueue state UNKNOWN group default 
2019-06-21 02:04:33 (23362): Guest Log:     link/loopback 00:00:00:00:00:00 brd 00:00:00:00:00:00
2019-06-21 02:04:33 (23362): Guest Log:     inet 127.0.0.1/8 scope host lo
2019-06-21 02:04:33 (23362): Guest Log:        valid_lft forever preferred_lft forever
2019-06-21 02:04:33 (23362): Guest Log:     inet6 ::1/128 scope host 
2019-06-21 02:04:33 (23362): Guest Log:        valid_lft forever preferred_lft forever
2019-06-21 02:04:33 (23362): Guest Log: 2: dummy0: <BROADCAST,NOARP> mtu 1500 qdisc noop state DOWN group default 
2019-06-21 02:04:33 (23362): Guest Log:     link/ether 16:27:64:5f:d5:c8 brd ff:ff:ff:ff:ff:ff
2019-06-21 02:04:33 (23362): Guest Log: 3: eth0: <BROADCAST,MULTICAST,UP,LOWER_UP> mtu 1500 qdisc pfifo_fast state UP group default qlen 1000
2019-06-21 02:04:33 (23362): Guest Log:     link/ether 08:00:27:5e:0b:08 brd ff:ff:ff:ff:ff:ff
2019-06-21 02:04:33 (23362): Guest Log:     inet 10.0.2.15/24 brd 10.0.2.255 scope global eth0
2019-06-21 02:04:33 (23362): Guest Log:        valid_lft forever preferred_lft forever
2019-06-21 02:04:33 (23362): Guest Log:     inet6 fe80::a00:27ff:fe5e:b08/64 scope link 
2019-06-21 02:04:33 (23362): Guest Log:        valid_lft forever preferred_lft forever
2019-06-21 02:04:33 (23362): Guest Log: -------------------
2019-06-21 02:04:33 (23362): Guest Log: Linking /etc/docker to /var/lib/boot2docker for persistence
2019-06-21 02:04:33 (23362): Guest Log: Waiting for Docker daemon to start...
2019-06-21 02:04:34 (23362): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE
2019-06-21 02:04:34 (23362): Guest Log: Running boinc_app...
2019-06-21 02:04:34 (23362): Guest Log: Importing Docker image from BOINC...
2019-06-21 02:04:37 (23362): Guest Log: 00:00:10.007073 vminfo   Error: Unable to connect to system D-Bus (3/3): D-Bus not installed
2019-06-21 02:05:05 (23362): Guest Log: Prerun diagnostics...
2019-06-21 02:05:05 (23362): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE
2019-06-21 02:05:05 (23362): Guest Log: carlosred/bowtie    built               4beacb78841d        12 months ago       758.7 MB
2019-06-21 02:05:05 (23362): Guest Log: CONTAINER ID        IMAGE               COMMAND             CREATED             STATUS              PORTS               NAMES
2019-06-21 02:05:05 (23362): Guest Log: 753.8M	/var/lib/docker
2019-06-21 02:05:05 (23362): Guest Log:               total        used        free      shared  buff/cache   available
2019-06-21 02:05:05 (23362): Guest Log: Mem:           3461          51        2450         917         959        2450
2019-06-21 02:05:05 (23362): Guest Log: Swap:           814           0         814
2019-06-21 02:05:05 (23362): Guest Log: Prerun commands...
2019-06-21 02:05:05 (23362): Guest Log: Running... 
2019-06-21 02:05:06 (23362): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
2019-06-21 02:05:06 (23362): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed
2019-06-21 02:05:26 (23362): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
2019-06-21 02:05:26 (23362): Guest Log:   0 14.4M    0 43057    0     0  59986      0  0:04:12 --:--:--  0:04:12 59967
2019-06-21 02:05:26 (23362): Guest Log:  34 14.4M   34 5090k    0     0   664k      0  0:00:22  0:00:07  0:00:15  741k
2019-06-21 02:05:26 (23362): Guest Log:  39 14.4M   39 5830k    0     0   673k      0  0:00:21  0:00:08  0:00:13  741k
2019-06-21 02:05:26 (23362): Guest Log:  44 14.4M   44 6572k    0     0   680k      0  0:00:21  0:00:09  0:00:12  741k
2019-06-21 02:05:26 (23362): Guest Log:  49 14.4M   49 7313k    0     0   686k      0  0:00:21  0:00:10  0:00:11  771k
2019-06-21 02:05:26 (23362): Guest Log:  54 14.4M   54 8053k    0     0   690k      0  0:00:21  0:00:11  0:00:10  740k
2019-06-21 02:05:26 (23362): Guest Log:  59 14.4M   59 8795k    0     0   694k      0  0:00:21  0:00:12  0:00:09  740k
2019-06-21 02:05:26 (23362): Guest Log:  64 14.4M   64 9537k    0     0   698k      0  0:00:21  0:00:13  0:00:08  741k
2019-06-21 02:05:26 (23362): Guest Log:  69 14.4M   69 10.0M    0     0   701k      0  0:00:21  0:00:14  0:00:07  740k
2019-06-21 02:05:26 (23362): Guest Log:  74 14.4M   74 10.7M    0     0   703k      0  0:00:21  0:00:15  0:00:06  740k
2019-06-21 02:05:26 (23362): Guest Log:  79 14.4M   79 11.4M    0     0   705k      0  0:00:20  0:00:16  0:00:04  740k
2019-06-21 02:05:26 (23362): Guest Log:  84 14.4M   84 12.2M    0     0   707k      0  0:00:20  0:00:17  0:00:03  740k
2019-06-21 02:05:26 (23362): Guest Log:  89 14.4M   89 12.8M    0     0   705k      0  0:00:20  0:00:18  0:00:02  724k
2019-06-21 02:05:26 (23362): Guest Log:  93 14.4M   93 13.5M    0     0   703k      0  0:00:20  0:00:19  0:00:01  711k
2019-06-21 02:05:26 (23362): Guest Log:  98 14.4M   98 14.2M    0     0   705k      0  0:00:20  0:00:20 --:--:--  709k
2019-06-21 02:05:26 (23362): Guest Log: 100 14.4M  100 14.4M    0     0   705k      0  0:00:20  0:00:20 --:--:--  704k
2019-06-21 02:05:26 (23362): Guest Log: Archive:  s_cerevisiae.ebwt.zip
2019-06-21 02:05:26 (23362): Guest Log:   inflating: s_cerevisiae.1.ebwt     
2019-06-21 02:05:26 (23362): Guest Log:   inflating: s_cerevisiae.2.ebwt     
2019-06-21 02:05:26 (23362): Guest Log:   inflating: s_cerevisiae.3.ebwt     
2019-06-21 02:05:26 (23362): Guest Log:   inflating: s_cerevisiae.4.ebwt     
2019-06-21 02:05:26 (23362): Guest Log:   inflating: s_cerevisiae.rev.1.ebwt  
2019-06-21 02:05:26 (23362): Guest Log:   inflating: s_cerevisiae.rev.2.ebwt  
2019-06-21 02:05:26 (23362): Guest Log:   inflating: make_s_cerevisiae.sh    
2019-06-21 02:05:26 (23362): Guest Log: # reads processed: 1
2019-06-21 02:05:26 (23362): Guest Log: # reads with at least one reported alignment: 1 (100.00%)
2019-06-21 02:05:26 (23362): Guest Log: # reads that failed to align: 0 (0.00%)
2019-06-21 02:05:26 (23362): Guest Log: Reported 1 alignments
2019-06-21 02:05:27 (23362): Guest Log: Postrun commands...
2019-06-21 02:05:27 (23362): Guest Log: boinc_app exited (0)
2019-06-21 02:05:27 (23362): Guest Log: Saving results...
2019-06-21 02:05:27 (23362): Guest Log: make_s_cerevisiae.sh
2019-06-21 02:05:27 (23362): Guest Log: res_bowtie.txt
2019-06-21 02:05:27 (23362): VM Completion File Detected.
2019-06-21 02:05:27 (23362): Powering off VM.
2019-06-21 02:05:28 (23362): Successfully stopped VM.
2019-06-21 02:05:28 (23362): Deregistering VM. (boinc_d23df56155e98aab, slot#2)
2019-06-21 02:05:28 (23362): Removing network bandwidth throttle group from VM.
2019-06-21 02:05:28 (23362): Removing storage controller(s) from VM.
2019-06-21 02:05:28 (23362): Removing VM from VirtualBox.
2019-06-21 02:05:28 (23362): Removing virtual ISO 9660 disk from VirtualBox.
02:05:33 (23362): called boinc_finish(0)

</stderr_txt>
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