Hi Niels,

I didn't have R installed that is not fixed but i still see the same errors.

2015-07-01 14:45:13 MSG threatmonitor[3741]: # MonetDB 5 server v11.19.15 "Oct2014-SP4"

2015-07-01 14:45:13 MSG threatmonitor[3741]: # Serving database 'threatmonitor', using 2 threads

2015-07-01 14:45:13 MSG threatmonitor[3741]: # Compiled for x86_64-unknown-linux-gnu/64bit with 64bit OIDs dynamically linked

2015-07-01 14:45:13 MSG threatmonitor[3741]: # Found 7.411 GiB available main-memory.

2015-07-01 14:45:13 MSG threatmonitor[3741]: # Visit http://www.monetdb.org/ for further information

2015-07-01 14:45:13 MSG threatmonitor[3741]: !TypeException:user.main[1412]:object code for command rapi.prelude missing

2015-07-01 14:45:13 MSG threatmonitor[3741]: !TypeException:user.main[1412]:'rapi.prelude' undefined in: _1412:void := rapi.prelude()

2015-07-01 14:45:13 MSG merovingian[9]: database 'threatmonitor' (3741) has exited with exit status 0

2015-07-01 14:45:13 MSG merovingian[9]: database 'threatmonitor' has shut down

2015-07-01 14:45:18 ERR merovingian[9]: client error: database 'threatmonitor' started up, but failed to open up a communication channel

2015-07-01 14:46:35 MSG merovingian[9]: caught SIGTERM, starting shutdown sequence

2015-07-01 14:46:38 MSG control[9]: control channel closed

The linking against R shared library looks good.

[root@dev-vnc-01 lib]# ldd /usr/lib64/monetdb5/lib_rapi.so

linux-vdso.so.1 (0x00007fff843fe000)

libmonetdb5.so.17 => /usr/lib/libmonetdb5.so.17 (0x00007fa313eb8000)

libmapi.so.7 => /usr/lib/libmapi.so.7 (0x00007fa313c9f000)

libuuid.so.1 => /usr/lib/libuuid.so.1 (0x00007fa313a9a000)

libreadline.so.6 => /usr/lib/libreadline.so.6 (0x00007fa31384e000)

libpcre.so.1 => /usr/lib/libpcre.so.1 (0x00007fa3135de000)

libxml2.so.2 => /usr/lib/libxml2.so.2 (0x00007fa313279000)

libbat.so.11 => /usr/lib/libbat.so.11 (0x00007fa312ba1000)

libstream.so.6 => /usr/lib/libstream.so.6 (0x00007fa312993000)

libssl.so.1.0.0 => /usr/lib/libssl.so.1.0.0 (0x00007fa312718000)

libcrypto.so.1.0.0 => /usr/lib/libcrypto.so.1.0.0 (0x00007fa3122a0000)

libcurl.so.4 => /usr/lib/libcurl.so.4 (0x00007fa31202c000)

libz.so.1 => /usr/lib/libz.so.1 (0x00007fa311e16000)

libbz2.so.1.0 => /usr/lib/libbz2.so.1.0 (0x00007fa311c05000)

libR.so => /usr/lib/libR.so (0x00007fa311662000)

liblzma.so.5 => /usr/lib/liblzma.so.5 (0x00007fa31143c000)

librt.so.1 => /usr/lib/librt.so.1 (0x00007fa311233000)

libdl.so.2 => /usr/lib/libdl.so.2 (0x00007fa31102f000)

libm.so.6 => /usr/lib/libm.so.6 (0x00007fa310d2b000)

libicuuc.so.55 => /usr/lib/libicuuc.so.55 (0x00007fa310997000)

libicui18n.so.55 => /usr/lib/libicui18n.so.55 (0x00007fa310531000)

libatomic_ops.so.1 => /usr/lib/libatomic_ops.so.1 (0x00007fa31032e000)

libpthread.so.0 => /usr/lib/libpthread.so.0 (0x00007fa310110000)

libc.so.6 => /usr/lib/libc.so.6 (0x00007fa30fd6e000)

/usr/lib64/ld-linux-x86-64.so.2 (0x00007fa31456f000)

libncursesw.so.5 => /usr/lib/libncursesw.so.5 (0x00007fa30fb08000)

libidn.so.11 => /usr/lib/libidn.so.11 (0x00007fa30f8d4000)

libssh2.so.1 => /usr/lib/libssh2.so.1 (0x00007fa30f6a9000)

libgssapi_krb5.so.2 => /usr/lib/libgssapi_krb5.so.2 (0x00007fa30f45c000)

libkrb5.so.3 => /usr/lib/libkrb5.so.3 (0x00007fa30f177000)

libk5crypto.so.3 => /usr/lib/libk5crypto.so.3 (0x00007fa30ef43000)

libcom_err.so.2 => /usr/lib/libcom_err.so.2 (0x00007fa30ed3f000)

libRblas.so => /usr/lib/libRblas.so (0x00007fa30eb12000)

libgomp.so.1 => /usr/lib/libgomp.so.1 (0x00007fa30e8ef000)

libicudata.so.55 => /usr/lib/libicudata.so.55 (0x00007fa30ce39000)

libstdc++.so.6 => /usr/lib/libstdc++.so.6 (0x00007fa30cab6000)

libgcc_s.so.1 => /usr/lib/libgcc_s.so.1 (0x00007fa30c8a0000)

libkrb5support.so.0 => /usr/lib/libkrb5support.so.0 (0x00007fa30c693000)

libkeyutils.so.1 => /usr/lib/libkeyutils.so.1 (0x00007fa30c48e000)

libresolv.so.2 => /usr/lib/libresolv.so.2 (0x00007fa30c277000)

Regards,

Brian Hood

On Wed, Jul 1, 2015 at 2:12 PM, Niels Nes <Niels.Nes@cwi.nl> wrote:

On Wed, Jul 01, 2015 at 02:06:47PM +0100, Brian Hood wrote:
> Hi All,
>
> I seems when i look at the output i of the error log it seems there are
> missing methods, i have seen this as a bug report from a while ago
> online but i can't see the see the solution.
>
> Any ideas ?
wild guess, you didn't install R?

Niels

>
> [root@dev-vnc-01 /]# monetdbd start /var/monetdb5/dbfarm
>
> [root@dev-vnc-01 /]#
> [root@dev-vnc-01 /]# monetdb status
> name state health remarks
> threatmonitor S 5d 100% 7s mapi:monetdb://dev-vnc-01:50000/
> threatmonitor
> [root@dev-vnc-01 /]# monetdb start threatmonitor
> starting database 'threatmonitor'... FAILED
> start: starting 'threatmonitor' failed: database 'threatmonitor'
> started up, but failed to open up a communication channel
> [root@dev-vnc-01 /]# pacman -Q monetdb
> monetdb 11.19.15-1
> [root@dev-vnc-01 /]# monetdb -v
> MonetDB Database Server Toolkit v1.1 (Oct2014-SP4)
> [root@dev-vnc-01 /]# tail -70 /var/monetdb5/dbfarm/merovingian.log
> 2015-06-25 23:31:58 MSG merovingian[293]: monitoring dbfarm /var/
> monetdb5/dbfarm
> 2015-06-25 23:32:18 MSG merovingian[293]: accepting connections on TCP
> socket 0.0.0.0:50000
> 2015-06-25 23:32:18 MSG merovingian[293]: accepting connections on UNIX
> domain socket /tmp/.s.monetdb.50000
> 2015-06-25 23:32:38 MSG discovery[293]: listening for UDP messages on
> 0.0.0.0:50000
> 2015-06-25 23:32:38 MSG control[293]: accepting connections on UNIX
> domain socket /tmp/.s.merovingian.50000
> 2015-06-25 23:32:38 MSG discovery[293]: new neighbour dev-vnc-01
> (dev-vnc-01)
> 2015-06-25 23:32:53 MSG control[293]: (local): created database
> 'threatmonitor'
> 2015-06-25 23:32:59 MSG control[293]: (local): served status list
> 2015-06-25 23:32:59 MSG control[293]: (local): released database
> 'threatmonitor'
> 2015-06-25 23:32:59 MSG discovery[293]: new database mapi:monetdb://
> dev-vnc-01:50000/threatmonitor (ttl=660s)
> 2015-06-25 23:33:08 MSG merovingian[293]: starting database
> 'threatmonitor', up min/avg/max: 0s/0s/0s, crash average: 0.00 0.00
> 0.00 (0-0=0)
> 2015-06-25 23:33:08 MSG merovingian[293]: sending process 304 (database
> 'threatmonitor') the TERM signal
> 2015-06-25 23:33:08 MSG threatmonitor[304]: arguments: /usr/bin/
> mserver5 --dbpath=/var/monetdb5/dbfarm/threatmonitor --set
> merovingian_uri=mapi:monetdb://dev-vnc-01:50000/threatmonitor --set
> mapi_open=false --set mapi_port=0 --set mapi_usock=/var/monetdb5/dbfarm
> /threatmonitor/.mapi.sock --set monet_vault_key=/var/monetdb5/dbfarm/
> threatmonitor/.vaultkey --set gdk_nr_threads=2 --set max_clients=64
> --set sql_optimizer=default_pipe --set monet_daemon=yes
> 2015-06-25 23:33:08 MSG threatmonitor[304]: # MonetDB 5 server
> v11.19.15 "Oct2014-SP4"
> 2015-06-25 23:33:08 MSG threatmonitor[304]: # Serving database
> 'threatmonitor', using 2 threads
> 2015-06-25 23:33:08 MSG threatmonitor[304]: # Compiled for
> x86_64-unknown-linux-gnu/64bit with 64bit OIDs dynamically linked
> 2015-06-25 23:33:08 MSG threatmonitor[304]: # Found 7.411 GiB available
> main-memory.
> 2015-06-25 23:33:08 MSG threatmonitor[304]: # Copyright (c) 1993-July
> 2008 CWI.
> 2015-06-25 23:33:08 MSG threatmonitor[304]: # Copyright (c) August
> 2008-2015 MonetDB B.V., all rights reserved
> 2015-06-25 23:33:08 MSG threatmonitor[304]: # Visit http://
> www.monetdb.org/ for further information
> 2015-06-25 23:33:08 MSG threatmonitor[304]: !TypeException:user.main
> [1412]:object code for command rapi.prelude missing
> 2015-06-25 23:33:08 MSG threatmonitor[304]: !TypeException:user.main
> [1412]:'rapi.prelude' undefined in: _1412:void := rapi.prelude()
> 2015-06-25 23:33:08 MSG merovingian[293]: database 'threatmonitor'
> (304) has exited with exit status 0
> 2015-06-25 23:33:08 MSG merovingian[293]: database 'threatmonitor' has
> shut down
> 2015-06-25 23:33:08 ERR merovingian[293]: client error: database
> 'threatmonitor' started up, but failed to open up a communication
> channel
> 2015-06-25 23:33:08 MSG merovingian[293]: starting database
> 'threatmonitor', up min/avg/max: 0s/0s/0s, crash average: 0.00 0.00
> 0.00 (1-1=0)
> 2015-06-25 23:33:09 MSG merovingian[293]: sending process 307 (database
> 'threatmonitor') the TERM signal
> 2015-06-25 23:33:09 MSG threatmonitor[307]: arguments: /usr/bin/
> mserver5 --dbpath=/var/monetdb5/dbfarm/threatmonitor --set
> merovingian_uri=mapi:monetdb://dev-vnc-01:50000/threatmonitor --set
> mapi_open=false --set mapi_port=0 --set mapi_usock=/var/monetdb5/dbfarm
> /threatmonitor/.mapi.sock --set monet_vault_key=/var/monetdb5/dbfarm/

> threatmonitor/.vaultkey --set gdk_nr_threads=2 --set max_clients=64
> --set sql_optimizer=default_pipe --set monet_daemon=yes
> 2015-06-25 23:33:09 MSG threatmonitor[307]: # MonetDB 5 server
> v11.19.15 "Oct2014-SP4"
> 2015-06-25 23:33:09 MSG threatmonitor[307]: # Serving database
> 'threatmonitor', using 2 threads
> 2015-06-25 23:33:09 MSG threatmonitor[307]: # Compiled for
> x86_64-unknown-linux-gnu/64bit with 64bit OIDs dynamically linked
> 2015-06-25 23:33:09 MSG threatmonitor[307]: # Found 7.411 GiB available
> main-memory.
> 2015-06-25 23:33:09 MSG threatmonitor[307]: # Copyright (c) 1993-July
> 2008 CWI.
> 2015-06-25 23:33:09 MSG threatmonitor[307]: # Copyright (c) August
> 2008-2015 MonetDB B.V., all rights reserved
> 2015-06-25 23:33:09 MSG threatmonitor[307]: # Visit http://
> www.monetdb.org/ for further information
> 2015-06-25 23:33:09 MSG threatmonitor[307]: !TypeException:user.main
> [1412]:object code for command rapi.prelude missing
> 2015-06-25 23:33:09 MSG threatmonitor[307]: !TypeException:user.main
> [1412]:'rapi.prelude' undefined in: _1412:void := rapi.prelude()
> 2015-06-25 23:33:09 MSG merovingian[293]: database 'threatmonitor'
> (307) has exited with exit status 0
> 2015-06-25 23:33:09 MSG merovingian[293]: database 'threatmonitor' has
> shut down
> 2015-06-25 23:33:13 ERR merovingian[293]: client error: database
> 'threatmonitor' started up, but failed to open up a communication
> channel
> 2015-06-26 00:08:20 MSG control[293]: (local): served status list
> 2015-06-26 00:08:20 ERR control[293]: (local): received stop signal for
> non running database: threatmonitor
> 2015-06-26 00:08:29 MSG merovingian[293]: caught SIGTERM, starting
> shutdown sequence
> 2015-06-26 00:08:30 MSG control[293]: control channel closed
> 2015-06-26 00:08:31 MSG merovingian[293]: Merovingian 1.7 stopped
> 2015-07-01 12:57:10 MSG merovingian[9]: Merovingian 1.7 (Oct2014-SP4)
> starting
> 2015-07-01 12:57:10 MSG merovingian[9]: monitoring dbfarm /var/monetdb5
> /dbfarm
> 2015-07-01 12:57:30 MSG merovingian[9]: accepting connections on TCP
> socket 0.0.0.0:50000
> 2015-07-01 12:57:30 MSG merovingian[9]: accepting connections on UNIX
> domain socket /tmp/.s.monetdb.50000
> 2015-07-01 12:57:50 MSG discovery[9]: listening for UDP messages on
> 0.0.0.0:50000
> 2015-07-01 12:57:50 MSG control[9]: accepting connections on UNIX
> domain socket /tmp/.s.merovingian.50000
> 2015-07-01 12:57:50 MSG discovery[9]: new neighbour dev-vnc-01
> (dev-vnc-01)
> 2015-07-01 12:57:50 MSG discovery[9]: new database mapi:monetdb://
> dev-vnc-01:50000/threatmonitor (ttl=660s)
> 2015-07-01 12:57:54 MSG control[9]: (local): served status list
> 2015-07-01 12:58:03 MSG control[9]: (local): served status list
> 2015-07-01 12:58:03 MSG merovingian[9]: starting database
> 'threatmonitor', up min/avg/max: 0s/7s/27s, crash average: 0.00 0.00
> 0.00 (10-10=0)
> 2015-07-01 12:58:03 MSG merovingian[9]: sending process 15 (database
> 'threatmonitor') the TERM signal
> 2015-07-01 12:58:03 MSG threatmonitor[15]: arguments: /usr/bin/mserver5
> --dbpath=/var/monetdb5/dbfarm/threatmonitor --set merovingian_uri=

> mapi:monetdb://dev-vnc-01:50000/threatmonitor --set mapi_open=false
> --set mapi_port=0 --set mapi_usock=/var/monetdb5/dbfarm/threatmonitor
> /.mapi.sock --set monet_vault_key=/var/monetdb5/dbfarm/threatmonitor

> /.vaultkey --set gdk_nr_threads=2 --set max_clients=64 --set
> sql_optimizer=default_pipe --set monet_daemon=yes
> 2015-07-01 12:58:03 MSG threatmonitor[15]: # MonetDB 5 server v11.19.15
> "Oct2014-SP4"
> 2015-07-01 12:58:03 MSG threatmonitor[15]: # Serving database
> 'threatmonitor', using 2 threads
> 2015-07-01 12:58:03 MSG threatmonitor[15]: # Compiled for
> x86_64-unknown-linux-gnu/64bit with 64bit OIDs dynamically linked
> 2015-07-01 12:58:03 MSG threatmonitor[15]: # Found 7.411 GiB available
> main-memory.
> 2015-07-01 12:58:03 MSG threatmonitor[15]: # Copyright (c) 1993-July
> 2008 CWI.
> 2015-07-01 12:58:03 MSG threatmonitor[15]: # Copyright (c) August
> 2008-2015 MonetDB B.V., all rights reserved
> 2015-07-01 12:58:03 MSG threatmonitor[15]: # Visit http://
> www.monetdb.org/ for further information
> 2015-07-01 12:58:03 MSG threatmonitor[15]: !TypeException:user.main
> [1412]:object code for command rapi.prelude missing
> 2015-07-01 12:58:03 MSG threatmonitor[15]: !TypeException:user.main
> [1412]:'rapi.prelude' undefined in: _1412:void := rapi.prelude()
> 2015-07-01 12:58:03 MSG merovingian[9]: database 'threatmonitor' (15)
> has exited with exit status 0
> 2015-07-01 12:58:03 MSG merovingian[9]: database 'threatmonitor' has
> shut down
> 2015-07-01 12:58:03 ERR control[9]: (local): failed to fork mserver:
> database 'threatmonitor' started up, but failed to open up a
> communication channel
>
> Regards,
>
> Brian Hood

> _______________________________________________
> users-list mailing list
> users-list@monetdb.org
> https://www.monetdb.org/mailman/listinfo/users-list

--
Niels Nes, Manager ITF, Centrum Wiskunde & Informatica (CWI)
Science Park 123, 1098 XG Amsterdam, The Netherlands
room L3.14, phone ++31 20 592-4098 sip:4098@sip.cwi.nl
url: https://www.cwi.nl/people/niels e-mail: Niels.Nes@cwi.nl

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