Task 166100

Name boinc2docker_25973_1556834951.044338_0
Workunit 73979
Created 2 May 2019, 22:09:14 UTC
Sent 2 May 2019, 22:45:28 UTC
Report deadline 9 May 2019, 22:45:28 UTC
Received 6 May 2019, 3:09:04 UTC
Server state Over
Outcome Success
Client state Done
Exit status 0 (0x00000000)
Computer ID 278
Run time 2 min 29 sec
CPU time 2 min 5 sec
Validate state Valid
Credit 12.64
Device peak FLOPS 12.77 GFLOPS
Application version boinc2docker v1.07 (vbox64_mt)
x86_64-apple-darwin
Peak working set size 162.79 MB
Peak swap size 8,302.41 MB
Peak disk usage 798.13 MB

Stderr output

<core_client_version>7.14.2</core_client_version>
<![CDATA[
<stderr_txt>
2019-05-05 22:06:28 (4132): vboxwrapper (7.7.26197): starting
2019-05-05 22:06:30 (4132): Feature: Checkpoint interval offset (184 seconds)
2019-05-05 22:06:30 (4132): Detected: VirtualBox VboxManage Interface (Version: 6.0.6)
2019-05-05 22:06:30 (4132): Detected: Minimum checkpoint interval (600.000000 seconds)
2019-05-05 22:06:30 (4132): Create VM. (boinc_eaa8e0ca81fd6b00, slot#0)
2019-05-05 22:06:30 (4132): Updating drive controller type and model for desired configuration.
2019-05-05 22:06:30 (4132): Setting Memory Size for VM. (8388MB)
2019-05-05 22:06:30 (4132): Setting CPU Count for VM. (4)
2019-05-05 22:06:30 (4132): Setting Chipset Options for VM.
2019-05-05 22:06:31 (4132): Setting Boot Options for VM.
2019-05-05 22:06:31 (4132): Setting Network Configuration for NAT.
2019-05-05 22:06:31 (4132): Enabling VM Network Access.
2019-05-05 22:06:31 (4132): Disabling USB Support for VM.
2019-05-05 22:06:31 (4132): Disabling COM Port Support for VM.
2019-05-05 22:06:31 (4132): Disabling LPT Port Support for VM.
2019-05-05 22:06:31 (4132): Disabling Audio Support for VM.
2019-05-05 22:06:31 (4132): Disabling Clipboard Support for VM.
2019-05-05 22:06:32 (4132): Disabling Drag and Drop Support for VM.
2019-05-05 22:06:32 (4132): Adding storage controller(s) to VM.
2019-05-05 22:06:32 (4132): Adding virtual ISO 9660 disk drive to VM. (vm_isocontext.iso)
2019-05-05 22:06:32 (4132): Adding VirtualBox Guest Additions to VM.
2019-05-05 22:06:32 (4132): Adding network bandwidth throttle group to VM. (Defaulting to 1024GB)
2019-05-05 22:06:32 (4132): Enabling shared directory for VM.
2019-05-05 22:06:33 (4132): Starting VM. (boinc_eaa8e0ca81fd6b00, slot#0)
2019-05-05 22:06:34 (4132): Successfully started VM. (PID = '4535')
2019-05-05 22:06:34 (4132): Reporting VM Process ID to BOINC.
2019-05-05 22:06:34 (4132): Guest Log: BIOS: VirtualBox 6.0.6
2019-05-05 22:06:34 (4132): Guest Log: CPUID EDX: 0x178bfbff
2019-05-05 22:06:34 (4132): VM state change detected. (old = 'poweroff', new = 'running')
2019-05-05 22:06:34 (4132): Preference change detected
2019-05-05 22:06:34 (4132): Setting CPU throttle for VM. (100%)
2019-05-05 22:06:34 (4132): Setting checkpoint interval to 1800 seconds. (Higher value of (Preference: 1800 seconds) or (Vbox_job.xml: 600 seconds))
2019-05-05 22:06:36 (4132): Guest Log: BIOS: Boot : bseqnr=1, bootseq=0032
2019-05-05 22:06:36 (4132): Guest Log: int13_harddisk: function 02, unmapped device for ELDL=80
2019-05-05 22:06:36 (4132): Guest Log: BIOS: Boot from Hard Disk 0 failed
2019-05-05 22:06:36 (4132): Guest Log: BIOS: Boot : bseqnr=2, bootseq=0003
2019-05-05 22:06:36 (4132): Guest Log: BIOS: Booting from CD-ROM...
2019-05-05 22:06:37 (4132): Guest Log: BIOS: KBD: unsupported int 16h function 03
2019-05-05 22:06:37 (4132): Guest Log: BIOS: AX=0305 BX=0000 CX=0000 DX=0000 
2019-05-05 22:06:46 (4132): Guest Log: net.ipv4.ip_forward = 1
2019-05-05 22:06:46 (4132): Guest Log: sysctl: cannot stat /proc/sys/net/ipv6/conf/all/forwarding: No such file or directory
2019-05-05 22:06:46 (4132): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory
2019-05-05 22:06:46 (4132): Guest Log: sysctl: "cannot stat %s" is an unknown key
2019-05-05 22:06:46 (4132): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory
2019-05-05 22:06:46 (4132): Guest Log: Segmentation fault
2019-05-05 22:06:46 (4132): Guest Log: automount ...
2019-05-05 22:06:46 (4132): Guest Log: vgdrvHeartbeatInit: Setting up heartbeat to trigger every 2000 milliseconds
2019-05-05 22:06:46 (4132): Guest Log: vboxguest: misc device minor 56, IRQ 20, I/O port d020, MMIO at 00000000f0400000 (size 0x400000)
2019-05-05 22:06:46 (4132): Guest Log: Is the disk unpartitioned?, test for the 'boot2docker format-me' string
2019-05-05 22:06:46 (4132): Guest Log: automount over.
2019-05-05 22:06:46 (4132): Guest Log: Setting hostname to boot2docker Done.
2019-05-05 22:06:46 (4132): Guest Log: Sun May  5 22:06:44 UTC 2019 dhcp -------------------------------
2019-05-05 22:06:51 (4132): Guest Log: udevadm settle - timeout of 5 seconds reached, the event queue contains:
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1102)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00 (1334)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:00 (1335)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:01 (1336)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:02 (1337)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:03 (1338)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXPWRBN:00 (1339)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXPWRBN:00/input/input0 (1340)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXPWRBN:00/input/input0/event0 (1341)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSLPBN:00 (1342)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSLPBN:00/input/input1 (1343)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00 (1345)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00 (1346)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/ACPI0003:00 (1347)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/ACPI0003:00/power_supply/AC (1348)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00 (1349)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00/device:01 (1350)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00/input/input6 (1351)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00/input/input6/event5 (1352)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0400:00 (1353)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0400:01 (1354)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:00 (1355)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:01 (1356)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:02 (1357)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:03 (1358)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0C02:00 (1359)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0C0A:00 (1360)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP8390:00 (1361)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00 (1362)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/APP0001:00 (1363)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0200:00 (1367)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0303:00 (1368)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1369)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0B00:00 (1370)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0F03:00 (1371)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:02 (1372)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:00 (1373)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:01 (1374)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:02 (1375)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:03 (1376)
2019-05-05 22:06:51 (4132): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:01 (1377)
2019-05-05 22:06:52 (4132): Guest Log: Sun May  5 22:06:50 UTC 2019 dhcp -------------------------------
2019-05-05 22:06:52 (4132): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log
2019-05-05 22:06:52 (4132): Guest Log: 00:00:00.000210 main     OS P00:00:00.004709 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 directoryr
2019-05-05 22:06:52 (4132): Guest Log: ct: Linu00:00:00.004769 vminfo   Error: Unable to connect to system D-Bus (1/3): D-Bus not installedx
2019-05-05 22:06:52 (4132): Guest Log: ct: Linu00:00:00.004769 vminfo   Error: Unable to connect to system D-Bus (1/3): D-Bus not installedx
2019-05-05 22:06:52 (4132): Guest Log: 00:00:00.000246 main     OS Release: 4.1.19-boot2docker
2019-05-05 22:06:52 (4132): Guest Log: 00:00:00.000287 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016
2019-05-05 22:06:52 (4132): Guest Log: 00:00:00.000371 main     Executable: /sbin/VBoxService
2019-05-05 22:06:52 (4132): Guest Log: 00:00:00.000373 main     Process ID: 853
2019-05-05 22:06:52 (4132): Guest Log: 00:00:00.000374 main     Package type: LINUX_64BITS_GENERIC
2019-05-05 22:06:52 (4132): Guest Log: 00:00:00.001424 main     5.0.16 r105871 started. Verbose level = 0
2019-05-05 22:06:53 (4132): Guest Log: Mounting BOINC shared/...
2019-05-05 22:06:53 (4132): Guest Log: -------------------
2019-05-05 22:06:53 (4132): Guest Log: Mon May  6 03:06:52 UTC 2019
2019-05-05 22:06:58 (4132): Guest Log: 00:00:05.006277 vminfo   Error: Unable to connect to system D-Bus (2/3): D-Bus not installed
2019-05-05 22:06:58 (4132): Guest Log: Mon May  6 03:06:57 UTC 2019
2019-05-05 22:06:58 (4132): Guest Log: 1: lo: <LOOPBACK,UP,LOWER_UP> mtu 65536 qdisc noqueue state UNKNOWN group default 
2019-05-05 22:06:58 (4132): Guest Log:     link/loopback 00:00:00:00:00:00 brd 00:00:00:00:00:00
2019-05-05 22:06:58 (4132): Guest Log:     inet 127.0.0.1/8 scope host lo
2019-05-05 22:06:58 (4132): Guest Log:        valid_lft forever preferred_lft forever
2019-05-05 22:06:58 (4132): Guest Log: 2: dummy0: <BROADCAST,NOARP> mtu 1500 qdisc noop state DOWN group default 
2019-05-05 22:06:58 (4132): Guest Log:     link/ether f2:1c:04:1c:f9:15 brd ff:ff:ff:ff:ff:ff
2019-05-05 22:06:58 (4132): Guest Log: 3: eth0: <BROADCAST,MULTICAST,UP,LOWER_UP> mtu 1500 qdisc pfifo_fast state UP group default qlen 1000
2019-05-05 22:06:58 (4132): Guest Log:     link/ether 08:00:27:91:58:7a brd ff:ff:ff:ff:ff:ff
2019-05-05 22:06:58 (4132): Guest Log:     inet 10.0.2.15/24 brd 10.0.2.255 scope global eth0
2019-05-05 22:06:58 (4132): Guest Log:        valid_lft forever preferred_lft forever
2019-05-05 22:06:58 (4132): Guest Log: -------------------
2019-05-05 22:06:58 (4132): Guest Log: Linking /etc/docker to /var/lib/boot2docker for persistence
2019-05-05 22:06:58 (4132): Guest Log: Waiting for Docker daemon to start...
2019-05-05 22:06:59 (4132): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE
2019-05-05 22:06:59 (4132): Guest Log: Running boinc_app...
2019-05-05 22:06:59 (4132): Guest Log: Importing Docker image from BOINC...
2019-05-05 22:07:03 (4132): Guest Log: 00:00:10.006894 vminfo   Error: Unable to connect to system D-Bus (3/3): D-Bus not installed
2019-05-05 22:08:11 (4132): Guest Log: Prerun diagnostics...
2019-05-05 22:08:11 (4132): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE
2019-05-05 22:08:11 (4132): Guest Log: carlosred/blast     latest              e77b3f740615        11 months ago       1.972 GB
2019-05-05 22:08:11 (4132): Guest Log: CONTAINER ID        IMAGE               COMMAND             CREATED             STATUS              PORTS               NAMES
2019-05-05 22:08:11 (4132): Guest Log: 1.9G	/var/lib/docker
2019-05-05 22:08:11 (4132): Guest Log:               total        used        free      shared  buff/cache   available
2019-05-05 22:08:11 (4132): Guest Log: Mem:           8156          68        5855        2147        2232        5866
2019-05-05 22:08:11 (4132): Guest Log: Swap:          1987           0        1987
2019-05-05 22:08:11 (4132): Guest Log: Prerun commands...
2019-05-05 22:08:11 (4132): Guest Log: Running... 
2019-05-05 22:08:11 (4132): Guest Log: --2019-05-06 03:08:11--  http://boinc.tacc.utexas.edu:5060/boincserver/v2/reef/carlos.red@utexas.edu/P04156.fasta
2019-05-05 22:08:17 (4132): Guest Log: Resolving boinc.tacc.utexas.edu (boinc.tacc.utexas.edu)... 129.114.60.78
2019-05-05 22:08:17 (4132): Guest Log: Connecting to boinc.tacc.utexas.edu (boinc.tacc.utexas.edu)|129.114.60.78|:5060... connected.
2019-05-05 22:08:17 (4132): Guest Log: HTTP request sent, awaiting response... 200 OK
2019-05-05 22:08:17 (4132): Guest Log: Length: 342 [text/html]
2019-05-05 22:08:17 (4132): Guest Log: Saving to: 'P04156.fasta'
2019-05-05 22:08:17 (4132): Guest Log:      0K                                                       100% 84.7M=0s
2019-05-05 22:08:17 (4132): Guest Log: 2019-05-06 03:08:16 (84.7 MB/s) - 'P04156.fasta' saved [342/342]
2019-05-05 22:08:17 (4132): Guest Log: --2019-05-06 03:08:16--  http://boinc.tacc.utexas.edu:5060/boincserver/v2/reef/carlos.red@utexas.edu/zebrafish.1.protein.faa.gz
2019-05-05 22:08:47 (4132): Guest Log: Resolving boinc.tacc.utexas.edu (boinc.tacc.utexas.edu)... failed: Temporary failure in name resolution.
2019-05-05 22:08:47 (4132): Guest Log: wget: unable to resolve host address 'boinc.tacc.utexas.edu'
2019-05-05 22:08:47 (4132): Guest Log: gzip: zebrafish.1.protein.faa.gz: No such file or directory
2019-05-05 22:08:47 (4132): Guest Log: Building a new DB, current time: 05/06/2019 03:08:46
2019-05-05 22:08:47 (4132): Guest Log: New DB name:   /data/zebrafish.1.protein.faa
2019-05-05 22:08:47 (4132): Guest Log: New DB title:  zebrafish.1.protein.faa
2019-05-05 22:08:47 (4132): Guest Log: Sequence type: Protein
2019-05-05 22:08:47 (4132): Guest Log: Keep Linkouts: T
2019-05-05 22:08:47 (4132): Guest Log: Keep MBits: T
2019-05-05 22:08:47 (4132): Guest Log: Maximum file size: 1000000000B
2019-05-05 22:08:47 (4132): Guest Log: BLAST options error: File zebrafish.1.protein.faa does not exist
2019-05-05 22:08:47 (4132): Guest Log: BLAST Database error: No alias or index file found for protein database [zebrafish.1.protein.faa] in search path [/data::]
2019-05-05 22:08:48 (4132): Guest Log: Postrun commands...
2019-05-05 22:08:48 (4132): Guest Log: boinc_app exited (0)
2019-05-05 22:08:48 (4132): Guest Log: Saving results...
2019-05-05 22:08:48 (4132): Guest Log: results.txt
2019-05-05 22:08:48 (4132): VM Completion File Detected.
2019-05-05 22:08:48 (4132): Powering off VM.
2019-05-05 22:08:48 (4132): Successfully stopped VM.
2019-05-05 22:08:48 (4132): Deregistering VM. (boinc_eaa8e0ca81fd6b00, slot#0)
2019-05-05 22:08:48 (4132): Removing network bandwidth throttle group from VM.
2019-05-05 22:08:49 (4132): Removing storage controller(s) from VM.
2019-05-05 22:08:49 (4132): Removing VM from VirtualBox.
2019-05-05 22:08:49 (4132): Removing virtual ISO 9660 disk from VirtualBox.
22:08:54 (4132): called boinc_finish(0)

</stderr_txt>
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