Task 248068

Name boinc2docker_5336_1564955638.730239_1
Workunit 110764
Created 4 Aug 2019, 21:54:00 UTC
Sent 4 Aug 2019, 21:57:55 UTC
Report deadline 11 Aug 2019, 21:57:55 UTC
Received 5 Aug 2019, 4:09:02 UTC
Server state Over
Outcome Success
Client state Done
Exit status 0 (0x00000000)
Computer ID 1539
Run time 1 min 55 sec
CPU time 54 sec
Validate state Valid
Credit 4.81
Device peak FLOPS 15.22 GFLOPS
Application version boinc2docker v1.07 (vbox64_mt)
x86_64-pc-linux-gnu
Peak working set size 94.02 MB
Peak swap size 105.11 MB
Peak disk usage 340.70 MB

Stderr output

<core_client_version>7.14.2</core_client_version>
<![CDATA[
<stderr_txt>
2019-08-04 21:06:59 (11752): vboxwrapper (7.9.26200): starting
2019-08-04 21:06:59 (11752): Feature: Checkpoint interval offset (103 seconds)
2019-08-04 21:06:59 (11752): Detected: VirtualBox VboxManage Interface (Version: 6.0.8)
2019-08-04 21:07:00 (11752): Detected: Minimum checkpoint interval (600.000000 seconds)
2019-08-04 21:07:00 (11752): Create VM. (boinc_980719a696a45b2c, slot#22)
2019-08-04 21:07:00 (11752): Updating drive controller type and model for desired configuration.
2019-08-04 21:07:01 (11752): Setting Memory Size for VM. (3534MB)
2019-08-04 21:07:01 (11752): Setting CPU Count for VM. (4)
2019-08-04 21:07:01 (11752): Setting Chipset Options for VM.
2019-08-04 21:07:02 (11752): Setting Boot Options for VM.
2019-08-04 21:07:02 (11752): Setting Network Configuration for NAT.
2019-08-04 21:07:02 (11752): Enabling VM Network Access.
2019-08-04 21:07:03 (11752): Disabling USB Support for VM.
2019-08-04 21:07:03 (11752): Disabling COM Port Support for VM.
2019-08-04 21:07:03 (11752): Disabling LPT Port Support for VM.
2019-08-04 21:07:03 (11752): Disabling Audio Support for VM.
2019-08-04 21:07:04 (11752): Disabling Clipboard Support for VM.
2019-08-04 21:07:04 (11752): Disabling Drag and Drop Support for VM.
2019-08-04 21:07:04 (11752): Adding storage controller(s) to VM.
2019-08-04 21:07:04 (11752): Adding virtual ISO 9660 disk drive to VM. (vm_isocontext.iso)
2019-08-04 21:07:05 (11752): Adding VirtualBox Guest Additions to VM.
2019-08-04 21:07:05 (11752): Adding network bandwidth throttle group to VM. (Defaulting to 1024GB)
2019-08-04 21:07:05 (11752): Enabling shared directory for VM.
2019-08-04 21:07:06 (11752): Starting VM using VboxManage interface. (boinc_980719a696a45b2c, slot#22)
2019-08-04 21:07:10 (11752): Successfully started VM. (PID = '12452')
2019-08-04 21:07:10 (11752): Reporting VM Process ID to BOINC.
2019-08-04 21:07:15 (11752): Guest Log: BIOS: VirtualBox 6.0.8

2019-08-04 21:07:15 (11752): Guest Log: CPUID EDX: 0x178bfbff

2019-08-04 21:07:15 (11752): Guest Log: BIOS: Boot : bseqnr=1, bootseq=0032

2019-08-04 21:07:15 (11752): Guest Log: int13_harddisk: function 02, unmapped device for ELDL=80

2019-08-04 21:07:15 (11752): Guest Log: BIOS: Boot from Hard Disk 0 failed

2019-08-04 21:07:15 (11752): Guest Log: BIOS: Boot : bseqnr=2, bootseq=0003

2019-08-04 21:07:15 (11752): Guest Log: BIOS: Booting from CD-ROM...

2019-08-04 21:07:15 (11752): Guest Log: BIOS: KBD: unsupported int 16h function 03

2019-08-04 21:07:15 (11752): Guest Log: BIOS: AX=0305 BX=0000 CX=0000 DX=0000 

2019-08-04 21:07:15 (11752): VM state change detected. (old = 'poweroff', new = 'running')
2019-08-04 21:07:26 (11752): Preference change detected
2019-08-04 21:07:26 (11752): Setting CPU throttle for VM. (100%)
2019-08-04 21:07:26 (11752): Setting checkpoint interval to 600 seconds. (Higher value of (Preference: 60 seconds) or (Vbox_job.xml: 600 seconds))
2019-08-04 21:07:42 (11752): Guest Log: net.ipv4.ip_forward = 1

2019-08-04 21:07:42 (11752): Guest Log: sysctl: cannot stat /proc/sys/net/ipv6/conf/all/forwarding: No such file or directory

2019-08-04 21:07:42 (11752): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-08-04 21:07:42 (11752): Guest Log: sysctl: "cannot stat %s" is an unknown key

2019-08-04 21:07:42 (11752): Guest Log: sysctl: setting key "cannot stat %s": No such file or directory

2019-08-04 21:07:42 (11752): Guest Log: Segmentation fault

2019-08-04 21:07:42 (11752): Guest Log: automount ...

2019-08-04 21:07:42 (11752): Guest Log: Is the disk unpartitioned?, test for the 'boot2docker format-me' string

2019-08-04 21:07:42 (11752): Guest Log: vgdrvHeartbeatInit: Setting up heartbeat to trigger every 2000 milliseconds

2019-08-04 21:07:42 (11752): Guest Log: vboxguest: misc device minor 56, IRQ 20, I/O port d020, MMIO at 00000000f0400000 (size 0x400000)

2019-08-04 21:07:42 (11752): Guest Log: automount over.

2019-08-04 21:07:42 (11752): Guest Log: Setting hostname to boot2docker Done.

2019-08-04 21:07:42 (11752): Guest Log: Sun Aug  4 21:07:35 UTC 2019 dhcp -------------------------------

2019-08-04 21:07:47 (11752): Guest Log: udevadm settle - timeout of 5 seconds reached, the event queue contains:

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1104)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00 (1337)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:00 (1338)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:01 (1339)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:02 (1340)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXCPU:03 (1341)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXPWRBN:00 (1342)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXPWRBN:00/input/input0 (1343)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXPWRBN:00/input/input0/event0 (1344)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSLPBN:00 (1345)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSLPBN:00/input/input1 (1346)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSLPBN:00/input/input1/event1 (1347)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00 (1348)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00 (1349)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/ACPI0003:00 (1350)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/ACPI0003:00/power_supply/AC (1351)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00 (1352)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00/device:01 (1353)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00/input/input6 (1354)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/LNXVIDEO:00/input/input6/event5 (1355)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0400:00 (1356)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0400:01 (1357)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:00 (1358)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:01 (1359)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:02 (1360)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0501:03 (1361)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0C02:00 (1362)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP0C0A:00 (1363)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/PNP8390:00 (1364)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00 (1365)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/APP0001:00 (1366)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0000:00 (1367)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0100:00 (1368)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0103:00 (1369)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0200:00 (1370)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0303:00 (1371)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0700:00 (1372)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0B00:00 (1373)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:00/PNP0F03:00 (1374)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0A03:00/device:02 (1375)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:00 (1376)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:01 (1377)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:02 (1378)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:00/PNP0C0F:03 (1379)

2019-08-04 21:07:47 (11752): Guest Log:   /sys/devices/LNXSYSTM:00/LNXSYBUS:01 (1380)

2019-08-04 21:07:47 (11752): Guest Log: Sun Aug  4 21:07:41 UTC 2019 dhcp -------------------------------

2019-08-04 21:07:47 (11752): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.000092 main     Log opened 2019-08-04T21:07:41.723707000Z

2019-08-04 21:07:47 (11752): Guest Log: VBoxService 5.0.16 r105871 (verbosity: 0) linux.amd64 (Mar  4 2016 17:38:55) release log

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.000092 main     Log opened 2019-08-04T21:07:41.723707000Z

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.005843 main     OS Product: Linux

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.005843 main     OS Product: Linux

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.007353 main     OS Release: 4.1.19-boot2docker

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.007450 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.007495 main     Executable: /sbin/VBoxService

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.007497 main     Process ID: 897

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.007498 main     Package type: LINUX_64BITS_GENERIC

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.007353 main     OS Release: 4.1.19-boot2docker

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.008693 main     5.0.16 r105871 started. Verbose level = 0

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.007450 main     OS Version: #1 SMP Sun Apr 17 19:40:54 UTC 2016

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.011526 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

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.011605 vminfo   Error: Unable to connect to system D-Bus (1/3): D-Bus not installed

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.007495 main     Executable: /sbin/VBoxService

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.007497 main     Process ID: 897

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.007498 main     Package type: LINUX_64BITS_GENERIC

2019-08-04 21:07:47 (11752): Guest Log: 00:00:00.008693 main     5.0.16 r105871 started. Verbose level = 0

2019-08-04 21:07:47 (11752): Guest Log: Mounting BOINC shared/...

2019-08-04 21:07:47 (11752): Guest Log: -------------------

2019-08-04 21:07:47 (11752): Guest Log: Mon Aug  5 04:07:44 UTC 2019

2019-08-04 21:07:52 (11752): Guest Log: 00:00:05.014443 vminfo   Error: Unable to connect to system D-Bus (2/3): D-Bus not installed

2019-08-04 21:07:52 (11752): Guest Log: Mon Aug  5 04:07:49 UTC 2019

2019-08-04 21:07:52 (11752): Guest Log: 1: lo: <LOOPBACK,UP,LOWER_UP> mtu 65536 qdisc noqueue state UNKNOWN group default 

2019-08-04 21:07:52 (11752): Guest Log:     link/loopback 00:00:00:00:00:00 brd 00:00:00:00:00:00

2019-08-04 21:07:52 (11752): Guest Log:     inet 127.0.0.1/8 scope host lo

2019-08-04 21:07:52 (11752): Guest Log:        valid_lft forever preferred_lft forever

2019-08-04 21:07:52 (11752): Guest Log:     inet6 ::1/128 scope host 

2019-08-04 21:07:52 (11752): Guest Log:        valid_lft forever preferred_lft forever

2019-08-04 21:07:52 (11752): Guest Log: 2: dummy0: <BROADCAST,NOARP> mtu 1500 qdisc noop state DOWN group default 

2019-08-04 21:07:52 (11752): Guest Log:     link/ether 9a:bb:cc:f9:0b:12 brd ff:ff:ff:ff:ff:ff

2019-08-04 21:07:52 (11752): Guest Log: 3: eth0: <BROADCAST,MULTICAST,UP,LOWER_UP> mtu 1500 qdisc pfifo_fast state UP group default qlen 1000

2019-08-04 21:07:52 (11752): Guest Log:     link/ether 08:00:27:78:da:2b brd ff:ff:ff:ff:ff:ff

2019-08-04 21:07:52 (11752): Guest Log:     inet 10.0.2.15/24 brd 10.0.2.255 scope global eth0

2019-08-04 21:07:52 (11752): Guest Log:        valid_lft forever preferred_lft forever

2019-08-04 21:07:52 (11752): Guest Log:     inet6 fe80::a00:27ff:fe78:da2b/64 scope link 

2019-08-04 21:07:52 (11752): Guest Log:        valid_lft forever preferred_lft forever

2019-08-04 21:07:52 (11752): Guest Log: -------------------

2019-08-04 21:07:52 (11752): Guest Log: Linking /etc/docker to /var/lib/boot2docker for persistence

2019-08-04 21:07:52 (11752): Guest Log: Waiting for Docker daemon to start...

2019-08-04 21:07:52 (11752): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-08-04 21:07:52 (11752): Guest Log: Running boinc_app...

2019-08-04 21:07:52 (11752): Guest Log: Importing Docker image from BOINC...

2019-08-04 21:07:58 (11752): Guest Log: 00:00:10.015184 vminfo   Error: Unable to connect to system D-Bus (3/3): D-Bus not installed

2019-08-04 21:08:40 (11752): Guest Log: Prerun diagnostics...

2019-08-04 21:08:40 (11752): Guest Log: REPOSITORY          TAG                 IMAGE ID            CREATED             SIZE

2019-08-04 21:08:40 (11752): Guest Log: carlosred/bowtie    built               4beacb78841d        13 months ago       758.7 MB

2019-08-04 21:08:40 (11752): Guest Log: CONTAINER ID        IMAGE               COMMAND             CREATED             STATUS              PORTS               NAMES

2019-08-04 21:08:40 (11752): Guest Log: 753.8M	/var/lib/docker

2019-08-04 21:08:40 (11752): Guest Log:               total        used        free      shared  buff/cache   available

2019-08-04 21:08:40 (11752): Guest Log: Mem:           3461          53        2448         917         959        2449

2019-08-04 21:08:40 (11752): Guest Log: Swap:           815           0         815

2019-08-04 21:08:40 (11752): Guest Log: Prerun commands...

2019-08-04 21:08:40 (11752): Guest Log: Running... 

2019-08-04 21:08:40 (11752): Guest Log:   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current

2019-08-04 21:08:40 (11752): Guest Log:                                  Dload  Upload   Total   Spent    Left  Speed

2019-08-04 21:08:45 (11752): Guest Log:   0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2019-08-04 21:08:45 (11752): Guest Log:   0 14.4M    0 55337    0     0  86697      0  0:02:54 --:--:--  0:02:54 86599

2019-08-04 21:08:45 (11752): Guest Log:  18 14.4M   18 2743k    0     0  1620k      0  0:00:09  0:00:01  0:00:08 1620k

2019-08-04 21:08:45 (11752): Guest Log:  36 14.4M   36 5397k    0     0  2043k      0  0:00:07  0:00:02  0:00:05 2043k

2019-08-04 21:08:45 (11752): Guest Log:  59 14.4M   59 8804k    0     0  2422k      0  0:00:06  0:00:03  0:00:03 2422k

2019-08-04 21:08:45 (11752): Guest Log:  90 14.4M   90 13.1M    0     0  2903k      0  0:00:05  0:00:04  0:00:01 2902k

2019-08-04 21:08:45 (11752): Guest Log: 100 14.4M  100 14.4M    0     0  3008k      0  0:00:04  0:00:04 --:--:-- 3445k

2019-08-04 21:08:45 (11752): Guest Log: Archive:  s_cerevisiae.ebwt.zip

2019-08-04 21:08:45 (11752): Guest Log:   inflating: s_cerevisiae.1.ebwt     

2019-08-04 21:08:45 (11752): Guest Log:   inflating: s_cerevisiae.2.ebwt     

2019-08-04 21:08:45 (11752): Guest Log:   inflating: s_cerevisiae.3.ebwt     

2019-08-04 21:08:45 (11752): Guest Log:   inflating: s_cerevisiae.4.ebwt     

2019-08-04 21:08:45 (11752): Guest Log:   inflating: s_cerevisiae.rev.1.ebwt  

2019-08-04 21:08:45 (11752): Guest Log:   inflating: s_cerevisiae.rev.2.ebwt  

2019-08-04 21:08:45 (11752): Guest Log:   inflating: make_s_cerevisiae.sh    

2019-08-04 21:08:45 (11752): Guest Log: # reads processed: 1

2019-08-04 21:08:45 (11752): Guest Log: # reads with at least one reported alignment: 1 (100.00%)

2019-08-04 21:08:45 (11752): Guest Log: # reads that failed to align: 0 (0.00%)

2019-08-04 21:08:45 (11752): Guest Log: Reported 1 alignments

2019-08-04 21:08:45 (11752): Guest Log: Postrun commands...

2019-08-04 21:08:45 (11752): Guest Log: boinc_app exited (0)

2019-08-04 21:08:45 (11752): Guest Log: Saving results...

2019-08-04 21:08:45 (11752): Guest Log: make_s_cerevisiae.sh

2019-08-04 21:08:45 (11752): Guest Log: res_bowtie.txt

2019-08-04 21:08:45 (11752): VM Completion File Detected.
2019-08-04 21:08:45 (11752): Powering off VM.
2019-08-04 21:08:46 (11752): Successfully stopped VM.
2019-08-04 21:08:46 (11752): Deregistering VM. (boinc_980719a696a45b2c, slot#22)
2019-08-04 21:08:46 (11752): Removing network bandwidth throttle group from VM.
2019-08-04 21:08:46 (11752): Removing VM from VirtualBox.
2019-08-04 21:08:46 (11752): Removing virtual ISO 9660 disk from VirtualBox.
21:08:52 (11752): called boinc_finish(0)

</stderr_txt>
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