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]: # Copyright (c) 1993-July 2008
CWI.
2015-07-01 14:45:13 MSG threatmonitor[3741]: # Copyright (c) August
2008-2015 MonetDB B.V., all rights reserved
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
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
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-- 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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