Task 225517

Name boinc2docker_20685_1556845932.420091_2
Workunit 96105
Created 10 May 2019, 21:08:54 UTC
Sent 10 May 2019, 21:13:47 UTC
Report deadline 17 May 2019, 21:13:47 UTC
Received 15 May 2019, 10:48:52 UTC
Server state Over
Outcome Success
Client state Done
Exit status 0 (0x00000000)
Computer ID 50
Run time 3 min 1 sec
CPU time 2 min 56 sec
Validate state Valid
Credit 15.35
Device peak FLOPS 12.47 GFLOPS
Application version boinc2docker v1.07 (vbox64_mt)
x86_64-pc-linux-gnu
Peak working set size 89.32 MB
Peak swap size 98.15 MB
Peak disk usage 340.76 MB

Stderr output

<core_client_version>7.6.9</core_client_version>
<![CDATA[
<stderr_txt>
2019-05-15 12:45:41 (138268): vboxwrapper (7.9.26200): starting
2019-05-15 12:45:41 (138268): Feature: Checkpoint interval offset (468 seconds)
2019-05-15 12:45:41 (138268): Detected: VirtualBox COM Interface (Version: 5.1.4)
2019-05-15 12:45:41 (138268): Detected: Minimum checkpoint interval (600.000000 seconds)
2019-05-15 12:45:41 (138268): Create VM. (boinc_fd05d1022988998c, slot#2)
2019-05-15 12:45:41 (138268): Updating drive controller type and model for desired configuration.
2019-05-15 12:45:41 (138268): Setting Memory Size for VM. (3534MB)
2019-05-15 12:45:41 (138268): Setting CPU Count for VM. (4)
2019-05-15 12:45:41 (138268): Setting Chipset Options for VM.
2019-05-15 12:45:41 (138268): Setting Boot Options for VM.
2019-05-15 12:45:41 (138268): Enabling VM Network Access.
2019-05-15 12:45:41 (138268): Setting Network Configuration for NAT.
2019-05-15 12:45:41 (138268): Disabling USB Support for VM.
2019-05-15 12:45:41 (138268): Disabling COM Port Support for VM.
2019-05-15 12:45:41 (138268): Disabling LPT Port Support for VM.
2019-05-15 12:45:41 (138268): Disabling Audio Support for VM.
2019-05-15 12:45:41 (138268): Disabling Clipboard Support for VM.
2019-05-15 12:45:41 (138268): Disabling Drag and Drop Support for VM.
2019-05-15 12:45:41 (138268): Adding storage controller(s) to VM.
2019-05-15 12:45:41 (138268): Adding virtual ISO 9660 disk drive to VM. (vm_isocontext.iso)
2019-05-15 12:45:41 (138268): Adding VirtualBox Guest Additions to VM.
2019-05-15 12:45:41 (138268): Adding network bandwidth throttle group to VM. (Defaulting to 1024GB)
2019-05-15 12:45:41 (138268): Enabling shared directory for VM.
2019-05-15 12:45:41 (138268): Starting VM. (boinc_fd05d1022988998c, slot#2)
2019-05-15 12:45:49 (138268): Guest Log: BIOS: VirtualBox 5.1.4

2019-05-15 12:45:49 (138268): Guest Log: BIOS: Boot : bseqnr=1, bootseq=0032

2019-05-15 12:45:49 (138268): Guest Log: int13_harddisk: function 02, unmapped device for ELDL=80

2019-05-15 12:45:49 (138268): Guest Log: BIOS: Boot from Hard Disk 0 failed

2019-05-15 12:45:49 (138268): Guest Log: BIOS: Boot : bseqnr=2, bootseq=0003

2019-05-15 12:45:49 (138268): Guest Log: BIOS: Booting from CD-ROM...

2019-05-15 12:45:49 (138268): Guest Log: BIOS: KBD: unsupported int 16h function 03

2019-05-15 12:45:49 (138268): Guest Log: BIOS: AX=0305 BX=0000 CX=0000 DX=0000 

2019-05-15 12:45:49 (138268): Successfully started VM. (PID = '83692')
2019-05-15 12:45:49 (138268): Reporting VM Process ID to BOINC.
2019-05-15 12:45:54 (138268): VM state change detected. (old = 'poweroff', new = 'running')
2019-05-15 12:46:04 (138268): Preference change detected
2019-05-15 12:46:04 (138268): Setting CPU throttle for VM. (100%)
2019-05-15 12:46:04 (138268): Setting checkpoint interval to 600 seconds. (Higher value of (Preference: 60 seconds) or (Vbox_job.xml: 600 seconds))
2019-05-15 12:46:29 (138268): Guest Log: vgdrvHeartbeatInit: Setting up heartbeat to trigger every 2000 milliseconds

2019-05-15 12:46:29 (138268): Guest Log: vboxguest: misc device minor 56, IRQ 20, I/O port d020, MMIO at 00000000f0400000 (size 0x400000)

2019-05-15 12:46:44 (138268): Guest Log: net.ipv4.ip_forward = 1

2019-05-15 12:46:44 (138268): Guest Log: sysctl: cannot stat /proc/sys/net/ipv6/conf/all/forwarding: No such file or directory

2019-05-15 12:46:44 (138268): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-05-15 12:46:44 (138268): Guest Log: sysctl: "cannot stat %s" is an unknown key

2019-05-15 12:46:44 (138268): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-05-15 12:46:44 (138268): Guest Log: Segmentation fault

2019-05-15 12:46:49 (138268): Guest Log: automount ...

2019-05-15 12:46:54 (138268): Guest Log: Is the disk unpartitioned?, test for the 'boot2docker format-me' string

2019-05-15 12:46:54 (138268): Guest Log: automount over.

2019-05-15 12:47:04 (138268): Guest Log: Setting hostname to boot2docker Done.

2019-05-15 12:47:04 (138268): Guest Log: Wed May 15 12:47:02 UTC 2019 dhcp -------------------------------

2019-05-15 12:47:14 (138268): Guest Log: udevadm settle - timeout of 5 seconds reached, the event queue contains:

2019-05-15 12:47:14 (138268): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1386)

2019-05-15 12:47:14 (138268): Guest Log: Wed May 15 12:47:10 UTC 2019 dhcp -------------------------------

2019-05-15 12:47:14 (138268): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.000578 main     Log opened 2019-05-15T12:47:11.069204000Z

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.000731 main     OS Product: Linux

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.000770 main     OS Release: 4.1.19-boot2docker

2019-05-15 12:47:14 (138268): Guest Log: VB00:00:00.000824 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016

2019-05-15 12:47:14 (138268): Guest Log: xS00:00:00.000861 main     Executable: /sbin/VBoxServicee

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.000862 main     Process ID: 876r

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.000863 main     Package type: LINUX_64BITS_GENERIC

2019-05-15 12:47:14 (138268): Guest Log: ice 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.002869 main     5.0.16 r105871 started. Verbose level = 0

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.000578 main     Log opened 2019-05-15T12:47:11.069204000Z

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.331090 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

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.333964 vminfo   Error: Unable to connect to system D-Bus (1/3): D-Bus not installed

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.000731 main     OS Product: Linux

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.000770 main     OS Release: 4.1.19-boot2docker

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.000824 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.000861 main     Executable: /sbin/VBoxService

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.000862 main     Process ID: 876

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.000863 main     Package type: LINUX_64BITS_GENERIC

2019-05-15 12:47:14 (138268): Guest Log: 00:00:00.002869 main     5.0.16 r105871 started. Verbose level = 0

2019-05-15 12:47:19 (138268): Guest Log: Mounting BOINC shared/...

2019-05-15 12:47:19 (138268): Guest Log: -------------------

2019-05-15 12:47:19 (138268): Guest Log: Wed May 15 10:47:15 UTC 2019

2019-05-15 12:47:19 (138268): Guest Log: 00:00:05.357810 vminfo   Error: Unable to connect to system D-Bus (2/3): D-Bus not installed

2019-05-15 12:47:24 (138268): Guest Log: Wed May 15 10:47:20 UTC 2019

2019-05-15 12:47:24 (138268): Guest Log: 1: lo: <LOOPBACK,UP,LOWER_UP> mtu 65536 qdisc noqueue state UNKNOWN group default 

2019-05-15 12:47:24 (138268): Guest Log:     link/loopback 00:00:00:00:00:00 brd 00:00:00:00:00:00

2019-05-15 12:47:24 (138268): Guest Log:     inet 127.0.0.1/8 scope host lo

2019-05-15 12:47:24 (138268): Guest Log:        valid_lft forever preferred_lft forever

2019-05-15 12:47:24 (138268): Guest Log:     inet6 ::1/128 scope host 

2019-05-15 12:47:24 (138268): Guest Log:        valid_lft forever preferred_lft forever

2019-05-15 12:47:24 (138268): Guest Log: 2: dummy0: <BROADCAST,NOARP> mtu 1500 qdisc noop state DOWN group default 

2019-05-15 12:47:24 (138268): Guest Log:     link/ether 4e:80:7d:8c:05:d2 brd ff:ff:ff:ff:ff:ff

2019-05-15 12:47:24 (138268): Guest Log: 3: eth0: <BROADCAST,MULTICAST,UP,LOWER_UP> mtu 1500 qdisc pfifo_fast state UP group default qlen 1000

2019-05-15 12:47:24 (138268): Guest Log:     link/ether 08:00:27:6f:3e:9f brd ff:ff:ff:ff:ff:ff

2019-05-15 12:47:24 (138268): Guest Log:     inet 10.0.2.15/24 brd 10.0.2.255 scope global eth0

2019-05-15 12:47:24 (138268): Guest Log:        valid_lft forever preferred_lft forever

2019-05-15 12:47:24 (138268): Guest Log:     inet6 fe80::a00:27ff:fe6f:3e9f/64 scope link 

2019-05-15 12:47:24 (138268): Guest Log:        valid_lft forever preferred_lft forever

2019-05-15 12:47:24 (138268): Guest Log: -------------------

2019-05-15 12:47:24 (138268): Guest Log: Linking /etc/docker to /var/lib/boot2docker for persistence

2019-05-15 12:47:24 (138268): Guest Log: Waiting for Docker daemon to start...

2019-05-15 12:47:24 (138268): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-05-15 12:47:24 (138268): Guest Log: Running boinc_app...

2019-05-15 12:47:24 (138268): Guest Log: Importing Docker image from BOINC...

2019-05-15 12:47:24 (138268): Guest Log: 00:00:10.371291 vminfo   Error: Unable to connect to system D-Bus (3/3): D-Bus not installed

2019-05-15 12:48:04 (138268): Guest Log: Prerun diagnostics...

2019-05-15 12:48:04 (138268): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-05-15 12:48:04 (138268): Guest Log: carlosred/bowtie    built               4beacb78841d        11 months ago       758.7 MB

2019-05-15 12:48:04 (138268): Guest Log: CONTAINER ID        IMAGE               COMMAND             CREATED             STATUS              PORTS               NAMES

2019-05-15 12:48:04 (138268): Guest Log: 753.8M	/var/lib/docker

2019-05-15 12:48:04 (138268): Guest Log:               total        used        free      shared  buff/cache   available

2019-05-15 12:48:04 (138268): Guest Log: Mem:           3461          52        2449         918         959        2449

2019-05-15 12:48:04 (138268): Guest Log: Swap:           814           0         814

2019-05-15 12:48:04 (138268): Guest Log: Prerun commands...

2019-05-15 12:48:04 (138268): Guest Log: Running... 

2019-05-15 12:48:04 (138268): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current

2019-05-15 12:48:04 (138268): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed

2019-05-15 12:48:29 (138268): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-15 12:48:29 (138268): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:01 --:--:--     0

2019-05-15 12:48:29 (138268): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:02 --:--:--     0

2019-05-15 12:48:29 (138268): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:03 --:--:--     0

2019-05-15 12:48:29 (138268): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:04 --:--:--     0

2019-05-15 12:48:29 (138268): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:05 --:--:--     0

2019-05-15 12:48:29 (138268): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:06 --:--:--     0

2019-05-15 12:48:29 (138268): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:07 --:--:--     0

2019-05-15 12:48:29 (138268): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:08 --:--:--     0

2019-05-15 12:48:29 (138268): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:09 --:--:--     0

2019-05-15 12:48:29 (138268): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:10 --:--:--     0

2019-05-15 12:48:29 (138268): Guest Log:   0     0    0     0    0     0      0      0 --:--:--  0:00:11 --:--:--     0

2019-05-15 12:48:29 (138268): Guest Log:   0 14.4M    0 55237    0     0   4401      0  0:57:19  0:00:12  0:57:07 11058

2019-05-15 12:48:29 (138268): Guest Log:   6 14.4M    6  953k    0     0  71927      0  0:03:30  0:00:13  0:03:17  189k

2019-05-15 12:48:29 (138268): Guest Log:  16 14.4M   16 2416k    0     0   165k      0  0:01:29  0:00:14  0:01:15  478k

2019-05-15 12:48:29 (138268): Guest Log:  26 14.4M   26 3942k    0     0   252k      0  0:00:58  0:00:15  0:00:43  776k

2019-05-15 12:48:29 (138268): Guest Log:  35 14.4M   35 5280k    0     0   319k      0  0:00:46  0:00:16  0:00:30 1062k

2019-05-15 12:48:29 (138268): Guest Log:  45 14.4M   45 6736k    0     0   384k      0  0:00:38  0:00:17  0:00:21 1340k

2019-05-15 12:48:29 (138268): Guest Log:  55 14.4M   55 8260k    0     0   444k      0  0:00:33  0:00:18  0:00:15 1465k

2019-05-15 12:48:29 (138268): Guest Log:  65 14.4M   65 9722k    0     0   497k      0  0:00:29  0:00:19  0:00:10 1483k

2019-05-15 12:48:29 (138268): Guest Log:  75 14.4M   75 10.9M    0     0   543k      0  0:00:27  0:00:20  0:00:07 1477k

2019-05-15 12:48:29 (138268): Guest Log:  85 14.4M   85 12.3M    0     0   586k      0  0:00:25  0:00:21  0:00:04 1468k

2019-05-15 12:48:29 (138268): Guest Log:  95 14.4M   95 13.7M    0     0   626k      0  0:00:23  0:00:22  0:00:01 1476k

2019-05-15 12:48:29 (138268): Guest Log: 100 14.4M  100 14.4M    0     0   642k      0  0:00:22  0:00:22 --:--:-- 1471k

2019-05-15 12:48:29 (138268): Guest Log: Archive:  s_cerevisiae.ebwt.zip

2019-05-15 12:48:29 (138268): Guest Log:   inflating: s_cerevisiae.1.ebwt     

2019-05-15 12:48:29 (138268): Guest Log:   inflating: s_cerevisiae.2.ebwt     

2019-05-15 12:48:29 (138268): Guest Log:   inflating: s_cerevisiae.3.ebwt     

2019-05-15 12:48:29 (138268): Guest Log:   inflating: s_cerevisiae.4.ebwt     

2019-05-15 12:48:29 (138268): Guest Log:   inflating: s_cerevisiae.rev.1.ebwt  

2019-05-15 12:48:29 (138268): Guest Log:   inflating: s_cerevisiae.rev.2.ebwt  

2019-05-15 12:48:29 (138268): Guest Log:   inflating: make_s_cerevisiae.sh    

2019-05-15 12:48:29 (138268): Guest Log: # reads processed: 1

2019-05-15 12:48:29 (138268): Guest Log: # reads with at least one reported alignment: 1 (100.00%)

2019-05-15 12:48:29 (138268): Guest Log: # reads that failed to align: 0 (0.00%)

2019-05-15 12:48:29 (138268): Guest Log: Reported 1 alignments

2019-05-15 12:48:29 (138268): Guest Log: Postrun commands...

2019-05-15 12:48:29 (138268): Guest Log: boinc_app exited (0)

2019-05-15 12:48:29 (138268): Guest Log: Saving results...

2019-05-15 12:48:29 (138268): Guest Log: make_s_cerevisiae.sh

2019-05-15 12:48:29 (138268): Guest Log: res_bowtie.txt

2019-05-15 12:48:29 (138268): VM Completion File Detected.
2019-05-15 12:48:29 (138268): Powering off VM.
2019-05-15 12:48:31 (138268): Successfully stopped VM.
2019-05-15 12:48:36 (138268): Deregistering VM. (boinc_fd05d1022988998c, slot#2)
2019-05-15 12:48:36 (138268): Removing virtual disk drive(s) from VM.
2019-05-15 12:48:36 (138268): Removing network bandwidth throttle group from VM.
2019-05-15 12:48:36 (138268): Removing storage controller(s) from VM.
2019-05-15 12:48:36 (138268): Removing VM from VirtualBox.
12:48:41 (138268): called boinc_finish(0)

</stderr_txt>
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