Task 225525

Name boinc2docker_17749_1556845896.304127_3
Workunit 96023
Created 10 May 2019, 21:08:59 UTC
Sent 10 May 2019, 21:14:27 UTC
Report deadline 17 May 2019, 21:14:27 UTC
Received 10 May 2019, 21:32:06 UTC
Server state Over
Outcome Success
Client state Done
Exit status 0 (0x00000000)
Computer ID 281
Run time 2 min 3 sec
CPU time 1 min 18 sec
Validate state Valid
Credit 15.08
Device peak FLOPS 15.45 GFLOPS
Application version boinc2docker v1.07 (vbox64_mt)
x86_64-pc-linux-gnu
Peak working set size 124.50 MB
Peak swap size 4,567.35 MB
Peak disk usage 340.70 MB

Stderr output

<core_client_version>7.14.2</core_client_version>
<![CDATA[
<stderr_txt>
2019-05-10 16:26:58 (15189): vboxwrapper (7.7.26197): starting
2019-05-10 16:27:00 (15189): Feature: Checkpoint interval offset (545 seconds)
2019-05-10 16:27:00 (15189): Detected: VirtualBox VboxManage Interface (Version: 6.0.6)
2019-05-10 16:27:00 (15189): Detected: Minimum checkpoint interval (600.000000 seconds)
2019-05-10 16:27:00 (15189): Create VM. (boinc_d909f2c2d05c60ca, slot#24)
2019-05-10 16:27:00 (15189): Updating drive controller type and model for desired configuration.
2019-05-10 16:27:00 (15189): Setting Memory Size for VM. (3534MB)
2019-05-10 16:27:00 (15189): Setting CPU Count for VM. (4)
2019-05-10 16:27:00 (15189): Setting Chipset Options for VM.
2019-05-10 16:27:00 (15189): Setting Boot Options for VM.
2019-05-10 16:27:01 (15189): Setting Network Configuration for NAT.
2019-05-10 16:27:01 (15189): Enabling VM Network Access.
2019-05-10 16:27:01 (15189): Disabling USB Support for VM.
2019-05-10 16:27:01 (15189): Disabling COM Port Support for VM.
2019-05-10 16:27:01 (15189): Disabling LPT Port Support for VM.
2019-05-10 16:27:01 (15189): Disabling Audio Support for VM.
2019-05-10 16:27:01 (15189): Disabling Clipboard Support for VM.
2019-05-10 16:27:01 (15189): Disabling Drag and Drop Support for VM.
2019-05-10 16:27:02 (15189): Adding storage controller(s) to VM.
2019-05-10 16:27:02 (15189): Adding virtual ISO 9660 disk drive to VM. (vm_isocontext.iso)
2019-05-10 16:27:02 (15189): Adding VirtualBox Guest Additions to VM.
2019-05-10 16:27:02 (15189): Adding network bandwidth throttle group to VM. (Defaulting to 1024GB)
2019-05-10 16:27:02 (15189): Enabling shared directory for VM.
2019-05-10 16:27:02 (15189): Starting VM. (boinc_d909f2c2d05c60ca, slot#24)
2019-05-10 16:27:04 (15189): Successfully started VM. (PID = '15599')
2019-05-10 16:27:04 (15189): Reporting VM Process ID to BOINC.
2019-05-10 16:27:04 (15189): Guest Log: BIOS: VirtualBox 6.0.6
2019-05-10 16:27:04 (15189): Guest Log: CPUID EDX: 0x178bfbff
2019-05-10 16:27:04 (15189): VM state change detected. (old = 'poweroff', new = 'running')
2019-05-10 16:27:04 (15189): Preference change detected
2019-05-10 16:27:04 (15189): Setting CPU throttle for VM. (100%)
2019-05-10 16:27:04 (15189): Setting checkpoint interval to 1800 seconds. (Higher value of (Preference: 1800 seconds) or (Vbox_job.xml: 600 seconds))
2019-05-10 16:27:09 (15189): Guest Log: BIOS: Boot : bseqnr=1, bootseq=0032
2019-05-10 16:27:09 (15189): Guest Log: int13_harddisk: function 02, unmapped device for ELDL=80
2019-05-10 16:27:09 (15189): Guest Log: BIOS: Boot from Hard Disk 0 failed
2019-05-10 16:27:09 (15189): Guest Log: BIOS: Boot : bseqnr=2, bootseq=0003
2019-05-10 16:27:09 (15189): Guest Log: BIOS: Booting from CD-ROM...
2019-05-10 16:27:14 (15189): Guest Log: BIOS: KBD: unsupported int 16h function 03
2019-05-10 16:27:14 (15189): Guest Log: BIOS: AX=0305 BX=0000 CX=0000 DX=0000 
2019-05-10 16:27:28 (15189): Guest Log: vgdrvHeartbeatInit: Setting up heartbeat to trigger every 2000 milliseconds
2019-05-10 16:27:28 (15189): Guest Log: vboxguest: misc device minor 56, IRQ 20, I/O port d020, MMIO at 00000000f0400000 (size 0x400000)
2019-05-10 16:27:29 (15189): Guest Log: net.ipv4.ip_forward = 1
2019-05-10 16:27:29 (15189): Guest Log: sysctl: cannot stat /proc/sys/net/ipv6/conf/all/forwarding: No such file or directory
2019-05-10 16:27:29 (15189): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory
2019-05-10 16:27:29 (15189): Guest Log: sysctl: "cannot stat %s" is an unknown key
2019-05-10 16:27:29 (15189): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory
2019-05-10 16:27:29 (15189): Guest Log: Segmentation fault
2019-05-10 16:27:29 (15189): Guest Log: automount ...
2019-05-10 16:27:29 (15189): Guest Log: Is the disk unpartitioned?, test for the 'boot2docker format-me' string
2019-05-10 16:27:29 (15189): Guest Log: automount over.
2019-05-10 16:27:29 (15189): Guest Log: Setting hostname to boot2docker Done.
2019-05-10 16:27:29 (15189): Guest Log: Fri May 10 16:27:27 UTC 2019 dhcp -------------------------------
2019-05-10 16:27:34 (15189): Guest Log: udevadm settle - timeout of 5 seconds reached, the event queue contains:
2019-05-10 16:27:34 (15189): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1389)
2019-05-10 16:27:37 (15189): Guest Log: Fri May 10 16:27:34 UTC 2019 dhcp -------------------------------
2019-05-10 16:27:37 (15189): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.000152 main     Log opened 2019-05-10T16:27:34.777291000Z
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.000329 main     OS Product: Linux
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.000375 main     OS Release: 4.1.19-boot2docker
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.000445 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.000485 main     Executable: /sbin/VBoxService
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.000487 main     Process ID: 894
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.000488 main     Package type: LINUX_64BITS_GENERIC
2019-05-10 16:27:37 (15189): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.000152 main     Log opened 2019-05-10T16:27:34.777291000Z
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.000329 main     OS Product: Linux
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.000375 main     OS Release: 4.1.19-boot2docker
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.000445 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.000485 main     Executable: /sbin/VBoxService
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.000487 main     Process ID: 894
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.000488 main     Package type: LINUX_64BITS_GENERIC
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.016401 main     5.0.16 r105871 started. Verbose level = 0
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.016401 main     5.0.16 r105871 started. Verbose level = 0
2019-05-10 16:27:37 (15189): Guest Log: 00:00:00.068203 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 16:27:37 (15189): Guest Log: 00:00:00.068372 vminfo   Error: Unable to connect to system D-Bus (1/3): D-Bus not installed
2019-05-10 16:27:37 (15189): Guest Log: Mounting BOINC shared/...
2019-05-10 16:27:38 (15189): Guest Log: -------------------
2019-05-10 16:27:38 (15189): Guest Log: Fri May 10 21:27:37 UTC 2019
2019-05-10 16:27:42 (15189): Guest Log: 00:00:05.071282 vminfo   Error: Unable to connect to system D-Bus (2/3): D-Bus not installed
2019-05-10 16:27:43 (15189): Guest Log: Fri May 10 21:27:42 UTC 2019
2019-05-10 16:27:43 (15189): Guest Log: 1: lo: <LOOPBACK,UP,LOWER_UP> mtu 65536 qdisc noqueue state UNKNOWN group default 
2019-05-10 16:27:43 (15189): Guest Log:     link/loopback 00:00:00:00:00:00 brd 00:00:00:00:00:00
2019-05-10 16:27:43 (15189): Guest Log:     inet 127.0.0.1/8 scope host lo
2019-05-10 16:27:43 (15189): Guest Log:        valid_lft forever preferred_lft forever
2019-05-10 16:27:43 (15189): Guest Log: 2: dummy0: <BROADCAST,NOARP> mtu 1500 qdisc noop state DOWN group default 
2019-05-10 16:27:43 (15189): Guest Log:     link/ether 92:e0:10:02:b6:89 brd ff:ff:ff:ff:ff:ff
2019-05-10 16:27:43 (15189): Guest Log: 3: eth0: <BROADCAST,MULTICAST,UP,LOWER_UP> mtu 1500 qdisc pfifo_fast state UP group default qlen 1000
2019-05-10 16:27:43 (15189): Guest Log:     link/ether 08:00:27:82:10:3e brd ff:ff:ff:ff:ff:ff
2019-05-10 16:27:43 (15189): Guest Log:     inet 10.0.2.15/24 brd 10.0.2.255 scope global eth0
2019-05-10 16:27:43 (15189): Guest Log:        valid_lft forever preferred_lft forever
2019-05-10 16:27:43 (15189): Guest Log: -------------------
2019-05-10 16:27:43 (15189): Guest Log: Linking /etc/docker to /var/lib/boot2docker for persistence
2019-05-10 16:27:43 (15189): Guest Log: Waiting for Docker daemon to start...
2019-05-10 16:27:49 (15189): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE
2019-05-10 16:27:49 (15189): Guest Log: Running boinc_app...
2019-05-10 16:27:49 (15189): Guest Log: Importing Docker image from BOINC...
2019-05-10 16:27:49 (15189): Guest Log: 00:00:10.074420 vminfo   Error: Unable to connect to system D-Bus (3/3): D-Bus not installed
2019-05-10 16:28:32 (15189): Guest Log: Prerun diagnostics...
2019-05-10 16:28:32 (15189): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE
2019-05-10 16:28:32 (15189): Guest Log: carlosred/bowtie    built               4beacb78841d        11 months ago       758.7 MB
2019-05-10 16:28:32 (15189): Guest Log: CONTAINER ID        IMAGE               COMMAND             CREATED             STATUS              PORTS               NAMES
2019-05-10 16:28:32 (15189): Guest Log: 753.8M	/var/lib/docker
2019-05-10 16:28:32 (15189): Guest Log:               total        used        free      shared  buff/cache   available
2019-05-10 16:28:32 (15189): Guest Log: Mem:           3461          55        2446         917         959        2446
2019-05-10 16:28:32 (15189): Guest Log: Swap:           813           0         813
2019-05-10 16:28:32 (15189): Guest Log: Prerun commands...
2019-05-10 16:28:32 (15189): Guest Log: Running... 
2019-05-10 16:28:33 (15189): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
2019-05-10 16:28:33 (15189): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed
2019-05-10 16:28:51 (15189): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
2019-05-10 16:28:51 (15189): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
2019-05-10 16:28:51 (15189): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:01 --:--:--     0
2019-05-10 16:28:51 (15189): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:02 --:--:--     0
2019-05-10 16:28:51 (15189): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:03 --:--:--     0
2019-05-10 16:28:51 (15189): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:04 --:--:--     0
2019-05-10 16:28:51 (15189): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:05 --:--:--     0
2019-05-10 16:28:51 (15189): Guest Log:   0 14.4M    0 43297    0     0   6848      0  0:36:50  0:00:06  0:36:44  9012
2019-05-10 16:28:51 (15189): Guest Log:   7 14.4M    7 1058k    0     0   146k      0  0:01:41  0:00:07  0:01:34  224k
2019-05-10 16:28:51 (15189): Guest Log:  15 14.4M   15 2307k    0     0   279k      0  0:00:52  0:00:08  0:00:44  488k
2019-05-10 16:28:51 (15189): Guest Log:  24 14.4M   24 3557k    0     0   384k      0  0:00:38  0:00:09  0:00:29  753k
2019-05-10 16:28:51 (15189): Guest Log:  32 14.4M   32 4807k    0     0   469k      0  0:00:31  0:00:10  0:00:21 1025k
2019-05-10 16:28:51 (15189): Guest Log:  40 14.4M   40 6057k    0     0   538k      0  0:00:27  0:00:11  0:00:16 1221k
2019-05-10 16:28:51 (15189): Guest Log:  49 14.4M   49 7309k    0     0   596k      0  0:00:24  0:00:12  0:00:12 1249k
2019-05-10 16:28:51 (15189): Guest Log:  57 14.4M   57 8557k    0     0   646k      0  0:00:22  0:00:13  0:00:09 1250k
2019-05-10 16:28:51 (15189): Guest Log:  66 14.4M   66 9806k    0     0   688k      0  0:00:21  0:00:14  0:00:07 1249k
2019-05-10 16:28:51 (15189): Guest Log:  74 14.4M   74 10.7M    0     0   725k      0  0:00:20  0:00:15  0:00:05 1250k
2019-05-10 16:28:51 (15189): Guest Log:  83 14.4M   83 12.0M    0     0   757k      0  0:00:19  0:00:16  0:00:03 1250k
2019-05-10 16:28:51 (15189): Guest Log:  91 14.4M   91 13.2M    0     0   786k      0  0:00:18  0:00:17  0:00:01 1250k
2019-05-10 16:28:51 (15189): Guest Log: 100 14.4M  100 14.4M    0     0   811k      0  0:00:18  0:00:18 --:--:-- 1250k
2019-05-10 16:28:51 (15189): Guest Log: Archive:  s_cerevisiae.ebwt.zip
2019-05-10 16:28:51 (15189): Guest Log:   inflating: s_cerevisiae.1.ebwt     
2019-05-10 16:28:51 (15189): Guest Log:   inflating: s_cerevisiae.2.ebwt     
2019-05-10 16:28:51 (15189): Guest Log:   inflating: s_cerevisiae.3.ebwt     
2019-05-10 16:28:51 (15189): Guest Log:   inflating: s_cerevisiae.4.ebwt     
2019-05-10 16:28:51 (15189): Guest Log:   inflating: s_cerevisiae.rev.1.ebwt  
2019-05-10 16:28:51 (15189): Guest Log:   inflating: s_cerevisiae.rev.2.ebwt  
2019-05-10 16:28:51 (15189): Guest Log:   inflating: make_s_cerevisiae.sh    
2019-05-10 16:28:51 (15189): Guest Log: # reads processed: 1
2019-05-10 16:28:51 (15189): Guest Log: # reads with at least one reported alignment: 1 (100.00%)
2019-05-10 16:28:51 (15189): Guest Log: # reads that failed to align: 0 (0.00%)
2019-05-10 16:28:51 (15189): Guest Log: Reported 1 alignments
2019-05-10 16:28:53 (15189): Guest Log: Postrun commands...
2019-05-10 16:28:53 (15189): Guest Log: boinc_app exited (0)
2019-05-10 16:28:53 (15189): Guest Log: Saving results...
2019-05-10 16:28:53 (15189): Guest Log: make_s_cerevisiae.sh
2019-05-10 16:28:53 (15189): Guest Log: res_bowtie.txt
2019-05-10 16:28:53 (15189): VM Completion File Detected.
2019-05-10 16:28:53 (15189): Powering off VM.
2019-05-10 16:28:53 (15189): Successfully stopped VM.
2019-05-10 16:28:53 (15189): Deregistering VM. (boinc_d909f2c2d05c60ca, slot#24)
2019-05-10 16:28:53 (15189): Removing network bandwidth throttle group from VM.
2019-05-10 16:28:53 (15189): Removing storage controller(s) from VM.
2019-05-10 16:28:54 (15189): Removing VM from VirtualBox.
2019-05-10 16:28:54 (15189): Removing virtual ISO 9660 disk from VirtualBox.
16:28:59 (15189): called boinc_finish(0)

</stderr_txt>
]]>