Task 187233

Name boinc2docker_27095_1556840575.007351_1
Workunit 84537
Created 2 May 2019, 23:42:57 UTC
Sent 3 May 2019, 14:35:39 UTC
Report deadline 10 May 2019, 14:35:39 UTC
Received 7 May 2019, 1:20:17 UTC
Server state Over
Outcome Success
Client state Done
Exit status 0 (0x00000000)
Computer ID 117
Run time 2 min 9 sec
CPU time 1 min 2 sec
Validate state Valid
Credit 5.11
Device peak FLOPS 6.26 GFLOPS
Application version boinc2docker v1.07 (vbox64_mt)
windows_x86_64
Peak working set size 86.74 MB
Peak swap size 106.73 MB
Peak disk usage 524.70 MB

Stderr output

<core_client_version>7.14.2</core_client_version>
<![CDATA[
<stderr_txt>
2019-05-07 09:17:57 (25808): vboxwrapper (7.9.26200): starting
2019-05-07 09:17:57 (25808): Feature: Checkpoint interval offset (343 seconds)
2019-05-07 09:17:57 (25808): Detected: VirtualBox COM Interface (Version: 5.1.22)
2019-05-07 09:17:57 (25808): Detected: Minimum checkpoint interval (600.000000 seconds)
2019-05-07 09:17:57 (25808): Create VM. (boinc_7107b4bbe5622444, slot#3)
2019-05-07 09:17:57 (25808): Updating drive controller type and model for desired configuration.
2019-05-07 09:17:57 (25808): Setting Memory Size for VM. (5584MB)
2019-05-07 09:17:57 (25808): Setting CPU Count for VM. (4)
2019-05-07 09:17:57 (25808): Setting Chipset Options for VM.
2019-05-07 09:17:57 (25808): Setting Boot Options for VM.
2019-05-07 09:17:57 (25808): Enabling VM Network Access.
2019-05-07 09:17:57 (25808): Setting Network Configuration for NAT.
2019-05-07 09:17:57 (25808): Disabling USB Support for VM.
2019-05-07 09:17:57 (25808): Disabling COM Port Support for VM.
2019-05-07 09:17:57 (25808): Disabling LPT Port Support for VM.
2019-05-07 09:17:57 (25808): Disabling Audio Support for VM.
2019-05-07 09:17:57 (25808): Disabling Clipboard Support for VM.
2019-05-07 09:17:57 (25808): Disabling Drag and Drop Support for VM.
2019-05-07 09:17:57 (25808): Adding storage controller(s) to VM.
2019-05-07 09:17:57 (25808): Adding virtual ISO 9660 disk drive to VM. (vm_isocontext.iso)
2019-05-07 09:17:57 (25808): Adding VirtualBox Guest Additions to VM.
2019-05-07 09:17:57 (25808): Adding network bandwidth throttle group to VM. (Defaulting to 1024GB)
2019-05-07 09:17:57 (25808): Enabling shared directory for VM.
2019-05-07 09:17:57 (25808): Starting VM. (boinc_7107b4bbe5622444, slot#3)
2019-05-07 09:18:07 (25808): Guest Log: BIOS: VirtualBox 5.1.22

2019-05-07 09:18:07 (25808): Guest Log: BIOS: Boot : bseqnr=1, bootseq=0032

2019-05-07 09:18:07 (25808): Guest Log: int13_harddisk: function 02, unmapped device for ELDL=80

2019-05-07 09:18:07 (25808): Guest Log: BIOS: Boot from Hard Disk 0 failed

2019-05-07 09:18:07 (25808): Guest Log: BIOS: Boot : bseqnr=2, bootseq=0003

2019-05-07 09:18:07 (25808): Guest Log: BIOS: Booting from CD-ROM...

2019-05-07 09:18:07 (25808): Guest Log: BIOS: KBD: unsupported int 16h function 03

2019-05-07 09:18:07 (25808): Guest Log: BIOS: AX=0305 BX=0000 CX=0000 DX=0000 

2019-05-07 09:18:07 (25808): Successfully started VM. (PID = '21360')
2019-05-07 09:18:07 (25808): Reporting VM Process ID to BOINC.
2019-05-07 09:18:12 (25808): VM state change detected. (old = 'poweroff', new = 'running')
2019-05-07 09:18:22 (25808): Guest Log: net.ipv4.ip_forward = 1

2019-05-07 09:18:22 (25808): Guest Log: sysctl: cannot stat /proc/sys/net/ipv6/conf/all/forwarding: No such file or directory

2019-05-07 09:18:22 (25808): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-05-07 09:18:22 (25808): Guest Log: sysctl: "cannot stat %s" is an unknown key

2019-05-07 09:18:22 (25808): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-05-07 09:18:22 (25808): Guest Log: Segmentation fault

2019-05-07 09:18:22 (25808): Guest Log: automount ...

2019-05-07 09:18:22 (25808): Guest Log: Is the disk unpartitioned?, test for the 'boot2docker format-me' string

2019-05-07 09:18:22 (25808): Guest Log: automount over.

2019-05-07 09:18:22 (25808): Guest Log: Setting hostname to boot2docker Done.

2019-05-07 09:18:22 (25808): Guest Log: Tue May  7 09:18:16 UTC 2019 dhcp -------------------------------

2019-05-07 09:18:22 (25808): Guest Log: vgdrvHeartbeatInit: Setting up heartbeat to trigger every 2000 milliseconds

2019-05-07 09:18:22 (25808): Guest Log: vboxguest: misc device minor 56, IRQ 20, I/O port d020, MMIO at 00000000f0400000 (size 0x400000)

2019-05-07 09:18:22 (25808): Preference change detected
2019-05-07 09:18:22 (25808): Setting CPU throttle for VM. (100%)
2019-05-07 09:18:22 (25808): Setting checkpoint interval to 600 seconds. (Higher value of (Preference: 600 seconds) or (Vbox_job.xml: 600 seconds))
2019-05-07 09:18:27 (25808): Guest Log: udevadm settle - timeout of 5 seconds reached, the event queue contains:

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1103)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00 (1335)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:00 (1336)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:01 (1337)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:02 (1338)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:03 (1339)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXPWRBN:00 (1340)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXPWRBN:00/input/input0 (1341)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXPWRBN:00/input/input0/event0 (1342)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSLPBN:00 (1343)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSLPBN:00/input/input1 (1344)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSLPBN:00/input/input1/event1 (1345)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00 (1346)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00 (1347)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/ACPI0003:00 (1348)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/ACPI0003:00/power_supply/AC (1349)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00 (1350)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00/device:01 (1351)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00/input/input6 (1352)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00/input/input6/event5 (1353)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0400:00 (1354)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0400:01 (1355)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:00 (1356)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:01 (1357)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:02 (1358)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:03 (1359)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0C02:00 (1360)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0C0A:00 (1361)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP8390:00 (1362)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00 (1363)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/APP0001:00 (1364)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0000:00 (1365)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0100:00 (1366)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0103:00 (1367)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0200:00 (1368)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0303:00 (1369)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1370)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0B00:00 (1371)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0F03:00 (1372)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:02 (1373)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:00 (1374)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:01 (1375)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:02 (1376)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:03 (1377)

2019-05-07 09:18:27 (25808): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:01 (1378)

2019-05-07 09:18:27 (25808): Guest Log: Tue May  7 09:18:22 UTC 2019 dhcp -------------------------------

2019-05-07 09:18:27 (25808): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.000151 main     Log opened 2019-05-07T09:18:22.525211000Z

2019-05-07 09:18:27 (25808): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.000151 main     Log opened 2019-05-07T09:18:22.525211000Z

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.004308 main     OS Product: Linux

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.004308 main     OS Product: Linux

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.005740 main     OS Release: 4.1.19-boot2docker

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.005740 main     OS Release: 4.1.19-boot2docker

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.006835 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.006921 main     Executable: /sbin/VBoxService

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.006923 main     Process ID: 889

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.006925 main     Package type: LINUX_64BITS_GENERIC

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.006835 main     OS Version00:00:00.007923 main     5.0.16 r105871 started. Verbose level = 0:

2019-05-07 09:18:27 (25808): Guest Log: #1 SMP Sun Apr 17 19:40:54 UTC 2016

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.006921 main     Executable: /sbin/VBoxService

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.006923 main     Process ID: 889

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.006925 main     Package type: LINUX_64BITS_GENERIC

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.013278 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

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.013354 vminfo   Error: Unable to connect to system D-Bus (1/3): D-Bus not installed

2019-05-07 09:18:27 (25808): Guest Log: 00:00:00.007923 main     5.0.16 r105871 started. Verbose level = 0

2019-05-07 09:18:27 (25808): Guest Log: Mounting BOINC shared/...

2019-05-07 09:18:27 (25808): Guest Log: -------------------

2019-05-07 09:18:27 (25808): Guest Log: Tue May  7 01:18:24 UTC 2019

2019-05-07 09:18:33 (25808): Guest Log: 00:00:05.015612 vminfo   Error: Unable to connect to system D-Bus (2/3): D-Bus not installed

2019-05-07 09:18:33 (25808): Guest Log: Tue May  7 01:18:29 UTC 2019

2019-05-07 09:18:33 (25808): Guest Log: 1: lo: <LOOPBACK,UP,LOWER_UP> mtu 65536 qdisc noqueue state UNKNOWN group default 

2019-05-07 09:18:33 (25808): Guest Log:     link/loopback 00:00:00:00:00:00 brd 00:00:00:00:00:00

2019-05-07 09:18:33 (25808): Guest Log:     inet 127.0.0.1/8 scope host lo

2019-05-07 09:18:33 (25808): Guest Log:        valid_lft forever preferred_lft forever

2019-05-07 09:18:33 (25808): Guest Log: 2: dummy0: <BROADCAST,NOARP> mtu 1500 qdisc noop state DOWN group default 

2019-05-07 09:18:33 (25808): Guest Log:     link/ether 76:b0:13:04:86:1c brd ff:ff:ff:ff:ff:ff

2019-05-07 09:18:33 (25808): Guest Log: 3: eth0: <BROADCAST,MULTICAST,UP,LOWER_UP> mtu 1500 qdisc pfifo_fast state UP group default qlen 1000

2019-05-07 09:18:33 (25808): Guest Log:     link/ether 08:00:27:86:f2:bf brd ff:ff:ff:ff:ff:ff

2019-05-07 09:18:33 (25808): Guest Log:     inet 10.0.2.15/24 brd 10.0.2.255 scope global eth0

2019-05-07 09:18:33 (25808): Guest Log:        valid_lft forever preferred_lft forever

2019-05-07 09:18:33 (25808): Guest Log: -------------------

2019-05-07 09:18:33 (25808): Guest Log: Linking /etc/docker to /var/lib/boot2docker for persistence

2019-05-07 09:18:33 (25808): Guest Log: Waiting for Docker daemon to start...

2019-05-07 09:18:33 (25808): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-05-07 09:18:33 (25808): Guest Log: Running boinc_app...

2019-05-07 09:18:33 (25808): Guest Log: Importing Docker image from BOINC...

2019-05-07 09:18:38 (25808): Guest Log: 00:00:10.016785 vminfo   Error: Unable to connect to system D-Bus (3/3): D-Bus not installed

2019-05-07 09:19:48 (25808): Guest Log: Prerun diagnostics...

2019-05-07 09:19:48 (25808): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-05-07 09:19:48 (25808): Guest Log: carlosred/gromacs   latest              da5fd8ed5910        10 months ago       1.271 GB

2019-05-07 09:19:48 (25808): Guest Log: CONTAINER ID        IMAGE               COMMAND             CREATED             STATUS              PORTS               NAMES

2019-05-07 09:19:48 (25808): Guest Log: 1.3G	/var/lib/docker

2019-05-07 09:19:48 (25808): Guest Log:               total        used        free      shared  buff/cache   available

2019-05-07 09:19:48 (25808): Guest Log: Mem:           5408          65        3779        1484        1563        3790

2019-05-07 09:19:48 (25808): Guest Log: Swap:          1300           0        1300

2019-05-07 09:19:48 (25808): Guest Log: Prerun commands...

2019-05-07 09:19:48 (25808): Guest Log: Running... 

2019-05-07 09:19:48 (25808): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current

2019-05-07 09:19:48 (25808): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed

2019-05-07 09:19:48 (25808): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-07 09:19:48 (25808): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-07 09:19:48 (25808): Guest Log:  17 80810   17 14380    0     0  12558      0  0:00:06  0:00:01  0:00:05 12558

2019-05-07 09:19:48 (25808): Guest Log: 100 80810  100 80810    0     0  48695      0  0:00:01  0:00:01 --:--:-- 48680

2019-05-07 09:19:48 (25808): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current

2019-05-07 09:19:48 (25808): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed

2019-05-07 09:19:48 (25808): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-07 09:19:48 (25808): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-07 09:19:48 (25808): Guest Log: 100  1206  100  1206    0     0   1316      0 --:--:-- --:--:-- --:--:--  1316

2019-05-07 09:19:48 (25808): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current

2019-05-07 09:19:48 (25808): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed

2019-05-07 09:19:53 (25808): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-07 09:19:53 (25808): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-05-07 09:19:53 (25808): Guest Log: 100  3467  100  3467    0     0   3659      0 --:--:-- --:--:-- --:--:--  3657

2019-05-07 09:19:53 (25808): Guest Log: GROMACS:    gmx grompp, VERSION 5.0.7

2019-05-07 09:19:53 (25808): Guest Log: GROMACS is written by:

2019-05-07 09:19:53 (25808): Guest Log: Emile Apol         Rossen Apostolov   Herman J.C. Berendsen Par Bjelkmar       

2019-05-07 09:19:53 (25808): Guest Log: Aldert van Buuren  Rudi van Drunen    Anton Feenstra     Sebastian Fritsch  

2019-05-07 09:19:53 (25808): Guest Log: Gerrit Groenhof    Christoph Junghans Peter Kasson       Carsten Kutzner    

2019-05-07 09:19:53 (25808): Guest Log: Per Larsson        Justin A. Lemkul   Magnus Lundborg    Pieter Meulenhoff  

2019-05-07 09:19:53 (25808): Guest Log: Erik Marklund      Teemu Murtola      Szilard Pall       Sander Pronk       

2019-05-07 09:19:53 (25808): Guest Log: Roland Schulz      Alexey Shvetsov    Michael Shirts     Alfons Sijbers     

2019-05-07 09:19:53 (25808): Guest Log: Peter Tieleman     Christian Wennberg Maarten Wolf       

2019-05-07 09:19:53 (25808): Guest Log: and the project leaders:

2019-05-07 09:19:53 (25808): Guest Log: Mark Abraham, Berk Hess, Erik Lindahl, and David van der Spoel

2019-05-07 09:19:53 (25808): Guest Log: Copyright (c) 1991-2000, University of Groningen, The Netherlands.

2019-05-07 09:19:53 (25808): Guest Log: Copyright (c) 2001-2014, The GROMACS development team at

2019-05-07 09:19:53 (25808): Guest Log: Uppsala University, Stockholm University and

2019-05-07 09:19:53 (25808): Guest Log: the Royal Institute of Technology, Sweden.

2019-05-07 09:19:53 (25808): Guest Log: check out http://www.gromacs.org for more information.

2019-05-07 09:19:53 (25808): Guest Log: GROMACS is free software; you can redistribute it and/or modify it

2019-05-07 09:19:53 (25808): Guest Log: under the terms of the GNU Lesser General Public License

2019-05-07 09:19:53 (25808): Guest Log: as published by the Free Software Foundation; either version 2.1

2019-05-07 09:19:53 (25808): Guest Log: of the License, or (at your option) any later version.

2019-05-07 09:19:53 (25808): Guest Log: GROMACS:      gmx grompp, VERSION 5.0.7

2019-05-07 09:19:53 (25808): Guest Log: Executable:   /usr/local/gromacs/bin/gmx

2019-05-07 09:19:53 (25808): Guest Log: Library dir:  /usr/local/gromacs/share/gromacs/top

2019-05-07 09:19:53 (25808): Guest Log: Command line:

2019-05-07 09:19:53 (25808): Guest Log:   gmx grompp -f em_steep.mdp -c methane_water.gro -p topol.top -o min_thing.tpr

2019-05-07 09:19:53 (25808): Guest Log: NOTE 1 [file em_steep.mdp]:

2019-05-07 09:19:53 (25808): Guest Log:   With Verlet lists the optimal nstlist is >= 10, with GPUs >= 20. Note

2019-05-07 09:19:53 (25808): Guest Log:   that with the Verlet scheme, nstlist has no effect on the accuracy of

2019-05-07 09:19:53 (25808): Guest Log:   your simulation.

2019-05-07 09:19:53 (25808): Guest Log: Setting the LD random seed to 3217531916

2019-05-07 09:19:53 (25808): Guest Log: Generated 332520 of the 332520 non-bonded parameter combinations

2019-05-07 09:19:53 (25808): Guest Log: Generating 1-4 interactions: fudge = 0.5

2019-05-07 09:19:53 (25808): Guest Log: Generated 332520 of the 332520 1-4 parameter combinations

2019-05-07 09:19:53 (25808): Guest Log: Excluding 3 bonded neighbours molecule type 'Methane'

2019-05-07 09:19:53 (25808): Guest Log: Excluding 2 bonded neighbours molecule type 'SOL'

2019-05-07 09:19:53 (25808): Guest Log: Coupling 1 copies of molecule type 'Methane'

2019-05-07 09:19:53 (25808): Guest Log: Removing all charge groups because cutoff-scheme=Verlet

2019-05-07 09:19:53 (25808): Guest Log: Number of degrees of freedom in T-Coupling group rest is 3584.00

2019-05-07 09:19:53 (25808): Guest Log: Estimate for the relative computational load of the PME mesh part: 0.22

2019-05-07 09:19:53 (25808): Guest Log: There was 1 note

2019-05-07 09:19:53 (25808): Guest Log: gcq#13: "If Life Seems Jolly Rotten, There's Something You've Forgotten !" (Monty Python)

2019-05-07 09:19:53 (25808): Guest Log: turning H bonds into constraints...

2019-05-07 09:19:53 (25808): Guest Log: turning H bonds into constraints...

2019-05-07 09:19:53 (25808): Guest Log: Analysing residue names:

2019-05-07 09:19:53 (25808): Guest Log: There are:     1      Other residues

2019-05-07 09:19:53 (25808): Guest Log: There are:   596      Water residues

2019-05-07 09:19:53 (25808): Guest Log: Analysing residues not classified as Protein/DNA/RNA/Water and splitting into groups...

2019-05-07 09:19:53 (25808): Guest Log: Calculating fourier grid dimensions for X Y Z

2019-05-07 09:19:53 (25808): Guest Log: Using a fourier grid of 25x25x25, spacing 0.119 0.119 0.119

2019-05-07 09:19:53 (25808): Guest Log: This run will generate roughly 19 Mb of data

2019-05-07 09:19:53 (25808): Guest Log: Postrun commands...

2019-05-07 09:19:53 (25808): Guest Log: boinc_app exited (0)

2019-05-07 09:19:53 (25808): Guest Log: Saving results...

2019-05-07 09:19:53 (25808): Guest Log: em_steep.mdp

2019-05-07 09:19:53 (25808): Guest Log: mdout.mdp

2019-05-07 09:19:53 (25808): Guest Log: min_thing.tpr

2019-05-07 09:19:53 (25808): VM Completion File Detected.
2019-05-07 09:19:53 (25808): Powering off VM.
2019-05-07 09:19:54 (25808): Successfully stopped VM.
2019-05-07 09:19:59 (25808): Deregistering VM. (boinc_7107b4bbe5622444, slot#3)
2019-05-07 09:19:59 (25808): Removing virtual disk drive(s) from VM.
2019-05-07 09:19:59 (25808): Removing network bandwidth throttle group from VM.
2019-05-07 09:19:59 (25808): Removing storage controller(s) from VM.
2019-05-07 09:19:59 (25808): Removing VM from VirtualBox.
09:20:04 (25808): called boinc_finish(0)

</stderr_txt>
]]>