Task 224529

Name boinc2docker_8148_1556845776.883760_2
Workunit 95758
Created 10 May 2019, 10:17:49 UTC
Sent 10 May 2019, 10:19:21 UTC
Report deadline 17 May 2019, 10:19:21 UTC
Received 10 May 2019, 11:47:23 UTC
Server state Over
Outcome Success
Client state Done
Exit status 0 (0x00000000)
Computer ID 286
Run time 2 min 1 sec
CPU time 1 min 35 sec
Validate state Valid
Credit 14.78
Device peak FLOPS 14.75 GFLOPS
Application version boinc2docker v1.07 (vbox64_mt)
x86_64-pc-linux-gnu
Peak working set size 124.35 MB
Peak swap size 4,893.84 MB
Peak disk usage 340.70 MB

Stderr output

<core_client_version>7.14.2</core_client_version>
<![CDATA[
<stderr_txt>
2019-05-10 05:56:41 (19726): vboxwrapper (7.7.26197): starting
2019-05-10 05:56:41 (19726): Feature: Checkpoint interval offset (228 seconds)
2019-05-10 05:56:41 (19726): Detected: VirtualBox VboxManage Interface (Version: 6.0.6)
2019-05-10 05:56:41 (19726): Detected: Minimum checkpoint interval (600.000000 seconds)
2019-05-10 05:56:41 (19726): Create VM. (boinc_20524319840fc5b6, slot#13)
2019-05-10 05:56:41 (19726): Updating drive controller type and model for desired configuration.
2019-05-10 05:56:41 (19726): Setting Memory Size for VM. (3534MB)
2019-05-10 05:56:41 (19726): Setting CPU Count for VM. (4)
2019-05-10 05:56:42 (19726): Setting Chipset Options for VM.
2019-05-10 05:56:42 (19726): Setting Boot Options for VM.
2019-05-10 05:56:42 (19726): Setting Network Configuration for NAT.
2019-05-10 05:56:42 (19726): Enabling VM Network Access.
2019-05-10 05:56:42 (19726): Disabling USB Support for VM.
2019-05-10 05:56:42 (19726): Disabling COM Port Support for VM.
2019-05-10 05:56:42 (19726): Disabling LPT Port Support for VM.
2019-05-10 05:56:42 (19726): Disabling Audio Support for VM.
2019-05-10 05:56:42 (19726): Disabling Clipboard Support for VM.
2019-05-10 05:56:42 (19726): Disabling Drag and Drop Support for VM.
2019-05-10 05:56:43 (19726): Adding storage controller(s) to VM.
2019-05-10 05:56:43 (19726): Adding virtual ISO 9660 disk drive to VM. (vm_isocontext.iso)
2019-05-10 05:56:43 (19726): Adding VirtualBox Guest Additions to VM.
2019-05-10 05:56:43 (19726): Adding network bandwidth throttle group to VM. (Defaulting to 1024GB)
2019-05-10 05:56:43 (19726): Enabling shared directory for VM.
2019-05-10 05:56:43 (19726): Starting VM. (boinc_20524319840fc5b6, slot#13)
2019-05-10 05:56:45 (19726): Successfully started VM. (PID = '20143')
2019-05-10 05:56:45 (19726): Reporting VM Process ID to BOINC.
2019-05-10 05:56:45 (19726): Guest Log: BIOS: VirtualBox 6.0.6
2019-05-10 05:56:45 (19726): Guest Log: CPUID EDX: 0x178bfbff
2019-05-10 05:56:45 (19726): VM state change detected. (old = 'poweroff', new = 'running')
2019-05-10 05:56:45 (19726): Preference change detected
2019-05-10 05:56:45 (19726): Setting CPU throttle for VM. (100%)
2019-05-10 05:56:45 (19726): Setting checkpoint interval to 1800 seconds. (Higher value of (Preference: 1800 seconds) or (Vbox_job.xml: 600 seconds))
2019-05-10 05:56:50 (19726): Guest Log: BIOS: Boot : bseqnr=1, bootseq=0032
2019-05-10 05:56:50 (19726): Guest Log: int13_harddisk: function 02, unmapped device for ELDL=80
2019-05-10 05:56:50 (19726): Guest Log: BIOS: Boot from Hard Disk 0 failed
2019-05-10 05:56:50 (19726): Guest Log: BIOS: Boot : bseqnr=2, bootseq=0003
2019-05-10 05:56:50 (19726): Guest Log: BIOS: Booting from CD-ROM...
2019-05-10 05:56:57 (19726): Guest Log: BIOS: KBD: unsupported int 16h function 03
2019-05-10 05:56:57 (19726): Guest Log: BIOS: AX=0305 BX=0000 CX=0000 DX=0000 
2019-05-10 05:57:11 (19726): Guest Log: vgdrvHeartbeatInit: Setting up heartbeat to trigger every 2000 milliseconds
2019-05-10 05:57:11 (19726): Guest Log: vboxguest: misc device minor 56, IRQ 20, I/O port d020, MMIO at 00000000f0400000 (size 0x400000)
2019-05-10 05:57:12 (19726): Guest Log: net.ipv4.ip_forward = 1
2019-05-10 05:57:12 (19726): Guest Log: sysctl: cannot stat /proc/sys/net/ipv6/conf/all/forwarding: No such file or directory
2019-05-10 05:57:12 (19726): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory
2019-05-10 05:57:12 (19726): Guest Log: sysctl: "cannot stat %s" is an unknown key
2019-05-10 05:57:12 (19726): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory
2019-05-10 05:57:12 (19726): Guest Log: Segmentation fault
2019-05-10 05:57:12 (19726): Guest Log: automount ...
2019-05-10 05:57:14 (19726): Guest Log: Is the disk unpartitioned?, test for the 'boot2docker format-me' string
2019-05-10 05:57:14 (19726): Guest Log: automount over.
2019-05-10 05:57:14 (19726): Guest Log: Setting hostname to boot2docker Done.
2019-05-10 05:57:14 (19726): Guest Log: Fri May 10 05:57:12 UTC 2019 dhcp -------------------------------
2019-05-10 05:57:19 (19726): Guest Log: udevadm settle - timeout of 5 seconds reached, the event queue contains:
2019-05-10 05:57:19 (19726): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1386)
2019-05-10 05:57:21 (19726): Guest Log: Fri May 10 05:57:18 UTC 2019 dhcp -------------------------------
2019-05-10 05:57:21 (19726): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.000116 main     Log opened 2019-05-10T05:57:19.384474000Z
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.000259 main     OS Product: Linux
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.000303 main     OS Release: 4.1.19-boot2docker
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.000343 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.000380 main     Executable: /sbin/VBoxService
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.000381 main     Process ID: 820
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.000382 main     Package type: LINUX_64BITS_GENERIC
2019-05-10 05:57:21 (19726): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.000116 main     Log opened 2019-05-10T05:57:19.384474000Z
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.000259 main     OS Product: Linux
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.000303 main     OS Release: 4.1.19-boot2docker
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.000343 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.000380 main     Executable: /sbin/VBoxService
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.000381 main     Process ID: 820
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.000382 main     Package type: LINUX_64BITS_GENERIC
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.012999 main     5.0.16 r105871 started. Verbose level = 0
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.012999 main     5.0.16 r105871 started. Verbose level = 0
2019-05-10 05:57:21 (19726): Guest Log: 00:00:00.107154 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 05:57:21 (19726): Guest Log: 00:00:00.107277 vminfo   Error: Unable to connect to system D-Bus (1/3): D-Bus not installed
2019-05-10 05:57:21 (19726): Guest Log: Mounting BOINC shared/...
2019-05-10 05:57:21 (19726): Guest Log: -------------------
2019-05-10 05:57:22 (19726): Guest Log: Fri May 10 10:57:21 UTC 2019
2019-05-10 05:57:25 (19726): Guest Log: 00:00:05.138880 vminfo   Error: Unable to connect to system D-Bus (2/3): D-Bus not installed
2019-05-10 05:57:27 (19726): Guest Log: Fri May 10 10:57:26 UTC 2019
2019-05-10 05:57:27 (19726): Guest Log: 1: lo: <LOOPBACK,UP,LOWER_UP> mtu 65536 qdisc noqueue state UNKNOWN group default 
2019-05-10 05:57:27 (19726): Guest Log:     link/loopback 00:00:00:00:00:00 brd 00:00:00:00:00:00
2019-05-10 05:57:27 (19726): Guest Log:     inet 127.0.0.1/8 scope host lo
2019-05-10 05:57:27 (19726): Guest Log:        valid_lft forever preferred_lft forever
2019-05-10 05:57:27 (19726): Guest Log: 2: dummy0: <BROADCAST,NOARP> mtu 1500 qdisc noop state DOWN group default 
2019-05-10 05:57:27 (19726): Guest Log:     link/ether 06:fe:e8:2c:76:60 brd ff:ff:ff:ff:ff:ff
2019-05-10 05:57:27 (19726): Guest Log: 3: eth0: <BROADCAST,MULTICAST,UP,LOWER_UP> mtu 1500 qdisc pfifo_fast state UP group default qlen 1000
2019-05-10 05:57:27 (19726): Guest Log:     link/ether 08:00:27:78:35:43 brd ff:ff:ff:ff:ff:ff
2019-05-10 05:57:27 (19726): Guest Log:     inet 10.0.2.15/24 brd 10.0.2.255 scope global eth0
2019-05-10 05:57:27 (19726): Guest Log:        valid_lft forever preferred_lft forever
2019-05-10 05:57:27 (19726): Guest Log: -------------------
2019-05-10 05:57:27 (19726): Guest Log: Linking /etc/docker to /var/lib/boot2docker for persistence
2019-05-10 05:57:27 (19726): Guest Log: Waiting for Docker daemon to start...
2019-05-10 05:57:32 (19726): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE
2019-05-10 05:57:32 (19726): Guest Log: Running boinc_app...
2019-05-10 05:57:32 (19726): Guest Log: Importing Docker image from BOINC...
2019-05-10 05:57:32 (19726): Guest Log: 00:00:10.141021 vminfo   Error: Unable to connect to system D-Bus (3/3): D-Bus not installed
2019-05-10 05:58:20 (19726): VM state change detected. (old = 'running', new = 'paused')
2019-05-10 06:46:42 (19726): VM state change detected. (old = 'paused', new = 'running')
2019-05-10 06:46:42 (19726): Guest Log: Prerun diagnostics...
2019-05-10 06:46:42 (19726): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE
2019-05-10 06:46:42 (19726): Guest Log: carlosred/bowtie    built               4beacb78841d        11 months ago       758.7 MB
2019-05-10 06:46:42 (19726): Guest Log: CONTAINER ID        IMAGE               COMMAND             CREATED             STATUS              PORTS               NAMES
2019-05-10 06:46:42 (19726): Guest Log: 753.8M	/var/lib/docker
2019-05-10 06:46:42 (19726): Guest Log:               total        used        free      shared  buff/cache   available
2019-05-10 06:46:42 (19726): Guest Log: Mem:           3461          52        2449         917         958        2449
2019-05-10 06:46:42 (19726): Guest Log: Swap:           814           0         814
2019-05-10 06:46:42 (19726): Guest Log: Prerun commands...
2019-05-10 06:46:42 (19726): Guest Log: Running... 
2019-05-10 06:46:43 (19726): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
2019-05-10 06:46:43 (19726): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed
2019-05-10 06:47:03 (19726): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
2019-05-10 06:47:03 (19726): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
2019-05-10 06:47:03 (19726): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:01 --:--:--     0
2019-05-10 06:47:03 (19726): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:02 --:--:--     0
2019-05-10 06:47:03 (19726): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:03 --:--:--     0
2019-05-10 06:47:03 (19726): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:04 --:--:--     0
2019-05-10 06:47:03 (19726): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:05 --:--:--     0
2019-05-10 06:47:03 (19726): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:06 --:--:--     0
2019-05-10 06:47:03 (19726): Guest Log:   1 14.4M    1  172k    0     0  23926      0  0:10:32  0:00:07  0:10:25 36454
2019-05-10 06:47:03 (19726): Guest Log:   9 14.4M    9 1387k    0     0   165k      0  0:01:29  0:00:08  0:01:21  286k
2019-05-10 06:47:03 (19726): Guest Log:  17 14.4M   17 2637k    0     0   281k      0  0:00:52  0:00:09  0:00:43  544k
2019-05-10 06:47:03 (19726): Guest Log:  24 14.4M   24 3693k    0     0   352k      0  0:00:41  0:00:10  0:00:31  747k
2019-05-10 06:47:03 (19726): Guest Log:  34 14.4M   34 5138k    0     0   451k      0  0:00:32  0:00:11  0:00:21 1063k
2019-05-10 06:47:03 (19726): Guest Log:  43 14.4M   43 6388k    0     0   516k      0  0:00:28  0:00:12  0:00:16 1243k
2019-05-10 06:47:03 (19726): Guest Log:  51 14.4M   51 7640k    0     0   571k      0  0:00:25  0:00:13  0:00:12 1250k
2019-05-10 06:47:03 (19726): Guest Log:  60 14.4M   60 8890k    0     0   618k      0  0:00:23  0:00:14  0:00:09 1250k
2019-05-10 06:47:03 (19726): Guest Log:  68 14.4M   68  9.9M    0     0   659k      0  0:00:22  0:00:15  0:00:07 1317k
2019-05-10 06:47:03 (19726): Guest Log:  77 14.4M   77 11.1M    0     0   695k      0  0:00:21  0:00:16  0:00:05 1250k
2019-05-10 06:47:03 (19726): Guest Log:  85 14.4M   85 12.3M    0     0   727k      0  0:00:20  0:00:17  0:00:03 1250k
2019-05-10 06:47:03 (19726): Guest Log:  93 14.4M   93 13.5M    0     0   755k      0  0:00:19  0:00:18  0:00:01 1250k
2019-05-10 06:47:03 (19726): Guest Log: 100 14.4M  100 14.4M    0     0   774k      0  0:00:19  0:00:19 --:--:-- 1250k
2019-05-10 06:47:03 (19726): Guest Log: Archive:  s_cerevisiae.ebwt.zip
2019-05-10 06:47:03 (19726): Guest Log:   inflating: s_cerevisiae.1.ebwt     
2019-05-10 06:47:03 (19726): Guest Log:   inflating: s_cerevisiae.2.ebwt     
2019-05-10 06:47:03 (19726): Guest Log:   inflating: s_cerevisiae.3.ebwt     
2019-05-10 06:47:03 (19726): Guest Log:   inflating: s_cerevisiae.4.ebwt     
2019-05-10 06:47:03 (19726): Guest Log:   inflating: s_cerevisiae.rev.1.ebwt  
2019-05-10 06:47:03 (19726): Guest Log:   inflating: s_cerevisiae.rev.2.ebwt  
2019-05-10 06:47:03 (19726): Guest Log:   inflating: make_s_cerevisiae.sh    
2019-05-10 06:47:03 (19726): Guest Log: # reads processed: 1
2019-05-10 06:47:03 (19726): Guest Log: # reads with at least one reported alignment: 1 (100.00%)
2019-05-10 06:47:03 (19726): Guest Log: # reads that failed to align: 0 (0.00%)
2019-05-10 06:47:03 (19726): Guest Log: Reported 1 alignments
2019-05-10 06:47:03 (19726): Guest Log: Postrun commands...
2019-05-10 06:47:03 (19726): Guest Log: boinc_app exited (0)
2019-05-10 06:47:03 (19726): Guest Log: Saving results...
2019-05-10 06:47:03 (19726): Guest Log: make_s_cerevisiae.sh
2019-05-10 06:47:03 (19726): Guest Log: res_bowtie.txt
2019-05-10 06:47:03 (19726): VM Completion File Detected.
2019-05-10 06:47:03 (19726): Powering off VM.
2019-05-10 06:47:04 (19726): Successfully stopped VM.
2019-05-10 06:47:04 (19726): Deregistering VM. (boinc_20524319840fc5b6, slot#13)
2019-05-10 06:47:04 (19726): Removing network bandwidth throttle group from VM.
2019-05-10 06:47:04 (19726): Removing storage controller(s) from VM.
2019-05-10 06:47:04 (19726): Removing VM from VirtualBox.
2019-05-10 06:47:04 (19726): Removing virtual ISO 9660 disk from VirtualBox.
06:47:09 (19726): called boinc_finish(0)

</stderr_txt>
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