Task 120401

Name boinc2docker_10775_1554006762.337352_5
Workunit 46226
Created 11 Apr 2019, 22:59:07 UTC
Sent 11 Apr 2019, 22:59:58 UTC
Report deadline 18 Apr 2019, 22:59:58 UTC
Received 12 Apr 2019, 5:08:42 UTC
Server state Over
Outcome Success
Client state Done
Exit status 0 (0x00000000)
Computer ID 846
Run time 4 min 1 sec
CPU time 3 min 15 sec
Validate state Valid
Credit 27.62
Device peak FLOPS 16.00 GFLOPS
Application version boinc2docker v1.07 (vbox64_mt)
windows_x86_64
Peak working set size 97.31 MB
Peak swap size 126.26 MB
Peak disk usage 798.19 MB

Stderr output

<core_client_version>7.6.33</core_client_version>
<![CDATA[
<stderr_txt>
2019-04-12 07:04:32 (22788): vboxwrapper (7.9.26200): starting
2019-04-12 07:04:32 (22788): Feature: Checkpoint interval offset (163 seconds)
2019-04-12 07:04:32 (22788): Detected: VirtualBox COM Interface (Version: 5.1.18)
2019-04-12 07:04:32 (22788): Detected: Minimum checkpoint interval (600.000000 seconds)
2019-04-12 07:04:32 (22788): Create VM. (boinc_d20cb17e688ce27a, slot#0)
2019-04-12 07:04:32 (22788): Updating drive controller type and model for desired configuration.
2019-04-12 07:04:32 (22788): Setting Memory Size for VM. (8388MB)
2019-04-12 07:04:32 (22788): Setting CPU Count for VM. (4)
2019-04-12 07:04:32 (22788): Setting Chipset Options for VM.
2019-04-12 07:04:32 (22788): Setting Boot Options for VM.
2019-04-12 07:04:32 (22788): Enabling VM Network Access.
2019-04-12 07:04:32 (22788): Setting Network Configuration for NAT.
2019-04-12 07:04:32 (22788): Disabling USB Support for VM.
2019-04-12 07:04:32 (22788): Disabling COM Port Support for VM.
2019-04-12 07:04:32 (22788): Disabling LPT Port Support for VM.
2019-04-12 07:04:32 (22788): Disabling Audio Support for VM.
2019-04-12 07:04:32 (22788): Disabling Clipboard Support for VM.
2019-04-12 07:04:32 (22788): Disabling Drag and Drop Support for VM.
2019-04-12 07:04:32 (22788): Adding storage controller(s) to VM.
2019-04-12 07:04:32 (22788): Adding virtual ISO 9660 disk drive to VM. (vm_isocontext.iso)
2019-04-12 07:04:32 (22788): Adding VirtualBox Guest Additions to VM.
2019-04-12 07:04:32 (22788): Adding network bandwidth throttle group to VM. (Defaulting to 1024GB)
2019-04-12 07:04:32 (22788): Enabling shared directory for VM.
2019-04-12 07:04:32 (22788): Starting VM. (boinc_d20cb17e688ce27a, slot#0)
2019-04-12 07:04:39 (22788): Guest Log: BIOS: VirtualBox 5.1.18

2019-04-12 07:04:39 (22788): Guest Log: BIOS: Boot : bseqnr=1, bootseq=0032

2019-04-12 07:04:39 (22788): Guest Log: int13_harddisk: function 02, unmapped device for ELDL=80

2019-04-12 07:04:39 (22788): Guest Log: BIOS: Boot from Hard Disk 0 failed

2019-04-12 07:04:39 (22788): Guest Log: BIOS: Boot : bseqnr=2, bootseq=0003

2019-04-12 07:04:39 (22788): Guest Log: BIOS: Booting from CD-ROM...

2019-04-12 07:04:39 (22788): Successfully started VM. (PID = '10548')
2019-04-12 07:04:39 (22788): Reporting VM Process ID to BOINC.
2019-04-12 07:04:44 (22788): Guest Log: BIOS: KBD: unsupported int 16h function 03

2019-04-12 07:04:44 (22788): Guest Log: BIOS: AX=0305 BX=0000 CX=0000 DX=0000 

2019-04-12 07:04:44 (22788): VM state change detected. (old = 'poweroff', new = 'running')
2019-04-12 07:04:54 (22788): Preference change detected
2019-04-12 07:04:54 (22788): Setting CPU throttle for VM. (100%)
2019-04-12 07:04:54 (22788): Setting checkpoint interval to 600 seconds. (Higher value of (Preference: 60 seconds) or (Vbox_job.xml: 600 seconds))
2019-04-12 07:04:59 (22788): Guest Log: net.ipv4.ip_forward = 1

2019-04-12 07:04:59 (22788): Guest Log: sysctl: cannot stat /proc/sys/net/ipv6/conf/all/forwarding: No such file or directory

2019-04-12 07:04:59 (22788): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-04-12 07:04:59 (22788): Guest Log: sysctl: "cannot stat %s" is an unknown key

2019-04-12 07:04:59 (22788): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-04-12 07:04:59 (22788): Guest Log: Segmentation fault

2019-04-12 07:04:59 (22788): Guest Log: automount ...

2019-04-12 07:04:59 (22788): Guest Log: Is the disk unpartitioned?, test for the 'boot2docker format-me' string

2019-04-12 07:04:59 (22788): Guest Log: automount over.

2019-04-12 07:04:59 (22788): Guest Log: Setting hostname to boot2docker Done.

2019-04-12 07:04:59 (22788): Guest Log: Fri Apr 12 07:04:53 UTC 2019 dhcp -------------------------------

2019-04-12 07:04:59 (22788): Guest Log: Fri Apr 12 07:04:53 UTC 2019 dhcp -------------------------------

2019-04-12 07:04:59 (22788): Guest Log: vgdrvHeartbeatInit: Setting up heartbeat to trigger every 2000 milliseconds

2019-04-12 07:04:59 (22788): Guest Log: vboxguest: misc device minor 56, IRQ 20, I/O port d020, MMIO at 00000000f0400000 (size 0x400000)

2019-04-12 07:04:59 (22788): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.000064 main     Log opened 2019-04-12T07:04:54.899286000Z

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.000468 main     OS Product: Linux

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.000667 main     OS Release: 4.1.19-boot2docker

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.000862 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.001054 main     Executable: /sbin/VBoxService

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.001055 main     Process ID: 787

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.001056 main     Package type: LINUX_64BITS_GENERIC

2019-04-12 07:04:59 (22788): Guest Log: V00:00:00.005951 main     5.0.16 r105871 started. Verbose level = 0

2019-04-12 07:04:59 (22788): Guest Log: BoxService 5.000:00:00.019971 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

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.020242 vminfo   Error: Unable to connect to system D-Bus (1/3): D-Bus not installed

2019-04-12 07:04:59 (22788): Guest Log: .16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.000064 main     Log opened 2019-04-12T07:04:54.899286000Z

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.000468 main     OS Product: Linux

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.000667 main     OS Release: 4.1.19-boot2docker

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.000862 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.001054 main     Executable: /sbin/VBoxService

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.001055 main     Process ID: 787

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.001056 main     Package type: LINUX_64BITS_GENERIC

2019-04-12 07:04:59 (22788): Guest Log: 00:00:00.005951 main     5.0.16 r105871 started. Verbose level = 0

2019-04-12 07:04:59 (22788): Guest Log: Mounting BOINC shared/...

2019-04-12 07:04:59 (22788): Guest Log: -------------------

2019-04-12 07:04:59 (22788): Guest Log: Fri Apr 12 05:04:57 UTC 2019

2019-04-12 07:05:04 (22788): Guest Log: 00:00:05.026337 vminfo   Error: Unable to connect to system D-Bus (2/3): D-Bus not installed

2019-04-12 07:05:04 (22788): Guest Log: Fri Apr 12 05:05:02 UTC 2019

2019-04-12 07:05:04 (22788): Guest Log: 1: lo: <LOOPBACK,UP,LOWER_UP> mtu 65536 qdisc noqueue state UNKNOWN group default 

2019-04-12 07:05:04 (22788): Guest Log:     link/loopback 00:00:00:00:00:00 brd 00:00:00:00:00:00

2019-04-12 07:05:04 (22788): Guest Log:     inet 127.0.0.1/8 scope host lo

2019-04-12 07:05:04 (22788): Guest Log:        valid_lft forever preferred_lft forever

2019-04-12 07:05:04 (22788): Guest Log: 2: dummy0: <BROADCAST,NOARP> mtu 1500 qdisc noop state DOWN group default 

2019-04-12 07:05:04 (22788): Guest Log:     link/ether 4e:82:18:24:35:84 brd ff:ff:ff:ff:ff:ff

2019-04-12 07:05:04 (22788): Guest Log: 3: eth0: <BROADCAST,MULTICAST> mtu 1500 qdisc noop state DOWN group default qlen 1000

2019-04-12 07:05:04 (22788): Guest Log:     link/ether 08:00:27:0c:db:9d brd ff:ff:ff:ff:ff:ff

2019-04-12 07:05:04 (22788): Guest Log: -------------------

2019-04-12 07:05:04 (22788): Guest Log: Linking /etc/docker to /var/lib/boot2docker for persistence

2019-04-12 07:05:04 (22788): Guest Log: Waiting for Docker daemon to start...

2019-04-12 07:05:04 (22788): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-04-12 07:05:04 (22788): Guest Log: Running boinc_app...

2019-04-12 07:05:04 (22788): Guest Log: Importing Docker image from BOINC...

2019-04-12 07:05:09 (22788): Guest Log: 00:00:10.028313 vminfo   Error: Unable to connect to system D-Bus (3/3): D-Bus not installed

2019-04-12 07:06:54 (22788): Guest Log: Prerun diagnostics...

2019-04-12 07:06:54 (22788): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-04-12 07:06:54 (22788): Guest Log: carlosred/blast     latest              e77b3f740615        10 months ago       1.972 GB

2019-04-12 07:06:54 (22788): Guest Log: CONTAINER ID        IMAGE               COMMAND             CREATED             STATUS              PORTS               NAMES

2019-04-12 07:06:54 (22788): Guest Log: 1.9G	/var/lib/docker

2019-04-12 07:06:54 (22788): Guest Log:               total        used        free      shared  buff/cache   available

2019-04-12 07:06:54 (22788): Guest Log: Mem:           8156          72        5852        2146        2231        5862

2019-04-12 07:06:54 (22788): Guest Log: Swap:          1976           0        1976

2019-04-12 07:06:54 (22788): Guest Log: Prerun commands...

2019-04-12 07:06:54 (22788): Guest Log: Running... 

2019-04-12 07:06:54 (22788): Guest Log: --2019-04-12 05:06:54--  http://boinc.tacc.utexas.edu:5060/boincserver/v2/reef/carlos.red@utexas.edu/P04156.fasta

2019-04-12 07:07:34 (22788): Guest Log: Resolving boinc.tacc.utexas.edu (boinc.tacc.utexas.edu)... failed: Temporary failure in name resolution.

2019-04-12 07:07:34 (22788): Guest Log: wget: unable to resolve host address 'boinc.tacc.utexas.edu'

2019-04-12 07:07:34 (22788): Guest Log: --2019-04-12 05:07:34--  http://boinc.tacc.utexas.edu:5060/boincserver/v2/reef/carlos.red@utexas.edu/zebrafish.1.protein.faa.gz

2019-04-12 07:08:14 (22788): Guest Log: Resolving boinc.tacc.utexas.edu (boinc.tacc.utexas.edu)... failed: Temporary failure in name resolution.

2019-04-12 07:08:14 (22788): Guest Log: wget: unable to resolve host address 'boinc.tacc.utexas.edu'

2019-04-12 07:08:14 (22788): Guest Log: gzip: zebrafish.1.protein.faa.gz: No such file or directory

2019-04-12 07:08:14 (22788): Guest Log: Building a new DB, current time: 04/12/2019 05:08:14

2019-04-12 07:08:14 (22788): Guest Log: New DB name:   /data/zebrafish.1.protein.faa

2019-04-12 07:08:14 (22788): Guest Log: New DB title:  zebrafish.1.protein.faa

2019-04-12 07:08:14 (22788): Guest Log: Sequence type: Protein

2019-04-12 07:08:14 (22788): Guest Log: Keep Linkouts: T

2019-04-12 07:08:14 (22788): Guest Log: Keep MBits: T

2019-04-12 07:08:14 (22788): Guest Log: Maximum file size: 1000000000B

2019-04-12 07:08:14 (22788): Guest Log: BLAST options error: File zebrafish.1.protein.faa does not exist

2019-04-12 07:08:14 (22788): Guest Log: Command line argument error: Argument "query". File is not accessible:  `P04156.fasta'

2019-04-12 07:08:19 (22788): Guest Log: Postrun commands...

2019-04-12 07:08:19 (22788): Guest Log: boinc_app exited (0)

2019-04-12 07:08:19 (22788): Guest Log: Saving results...

2019-04-12 07:08:19 (22788): Guest Log: tar: *: Cannot stat: No such file or directory

2019-04-12 07:08:19 (22788): Guest Log: tar: Exiting with failure status due to previous errors

2019-04-12 07:08:19 (22788): VM Completion File Detected.
2019-04-12 07:08:19 (22788): Powering off VM.
2019-04-12 07:08:21 (22788): Successfully stopped VM.
2019-04-12 07:08:26 (22788): Deregistering VM. (boinc_d20cb17e688ce27a, slot#0)
2019-04-12 07:08:26 (22788): Removing virtual disk drive(s) from VM.
2019-04-12 07:08:26 (22788): Removing network bandwidth throttle group from VM.
2019-04-12 07:08:26 (22788): Removing storage controller(s) from VM.
2019-04-12 07:08:26 (22788): Removing VM from VirtualBox.
07:08:31 (22788): called boinc_finish(0)

</stderr_txt>
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