On 4 Jan 2007, at 14:46, Camargo R D S wrote:
Seems that it is, but I looked as a root and as renata and I couldn't
find it.
There is no such process.
ok, at this stage I think we are out of BioMart 'jurisdiction' and
we'll need to ask
someone else for help. It is always a good idea to send the install
problem
emails to mart-dev as there is much more expertise there and we are
probably
missing something really obvious
Hi guys -
can someone help us with the following. Renata (cc'ed on this email) has
managed to (almost) successfully start BioMart server. We can see
httpd.pid in biomart-plib/logs. However we can't access the server
using the machine ip address see below on the expected port
ei 155.245.58.197:5555 (the port is indeed 5555 as listed in httpd.conf)
[EMAIL PROTECTED]:/home/renata/biomart/biomart-perl# /sbin/ifconfig
eth0 Link encap:Ethernet HWaddr 00:14:6C:2E:1A:AA
inet addr:155.245.58.197 Bcast:155.245.58.255
Mask:255.255.255.0
inet6 addr: fe80::214:6cff:fe2e:1aaa/64 Scope:Link
UP BROADCAST RUNNING MULTICAST MTU:1500 Metric:1
RX packets:96977 errors:0 dropped:0 overruns:0 frame:0
TX packets:86760 errors:0 dropped:0 overruns:0 carrier:0
collisions:0 txqueuelen:1000
RX bytes:63325668 (60.3 MiB) TX bytes:35621215 (33.9 MiB)
Interrupt:233 Base address:0x4c00
lo Link encap:Local Loopback
inet addr:127.0.0.1 Mask:255.0.0.0
inet6 addr: ::1/128 Scope:Host
UP LOOPBACK RUNNING MTU:16436 Metric:1
RX packets:1809 errors:0 dropped:0 overruns:0 frame:0
TX packets:1809 errors:0 dropped:0 overruns:0 carrier:0
collisions:0 txqueuelen:0
RX bytes:481461 (470.1 KiB) TX bytes:481461 (470.1 KiB)
and the process number listed in httpd.pid is nowhere to be found
see below:
any suggestion on how to debug it are welcome,
a.
[EMAIL PROTECTED]:/home/renata/biomart/biomart-perl# cd logs
[EMAIL PROTECTED]:/home/renata/biomart/biomart-perl/logs#
[EMAIL PROTECTED]:/home/renata/biomart/biomart-perl/logs# ls
access_log CVS error_log httpd.pid
so you have httpd.pid, it is running somewhere :)
you started it correctly, now we need to find out where :)
what's in 'httpd.id'
can you see this process anywhere?
[EMAIL PROTECTED]:/home/renata/biomart/biomart-perl/logs# cat httpd.pid
10986
[EMAIL PROTECTED]:/home/renata/biomart/biomart-perl/logs# ps -Uroot
PID TTY TIME CMD
1 ? 00:00:01 init
2 ? 00:00:00 migration/0
3 ? 00:00:00 ksoftirqd/0
4 ? 00:00:00 watchdog/0
5 ? 00:00:00 migration/1
6 ? 00:00:00 ksoftirqd/1
7 ? 00:00:00 watchdog/1
8 ? 00:00:00 events/0
9 ? 00:00:00 events/1
10 ? 00:00:00 khelper
11 ? 00:00:00 kthread
14 ? 00:00:00 kblockd/0
15 ? 00:00:00 kblockd/1
16 ? 00:00:00 kacpid
17 ? 00:00:00 kacpi_notify
113 ? 00:00:00 kseriod
154 ? 00:00:00 pdflush
155 ? 00:00:00 pdflush
156 ? 00:00:00 kswapd0
157 ? 00:00:00 aio/0
158 ? 00:00:00 aio/1
789 ? 00:00:00 kirqd
1717 ? 00:00:00 ata/0
1718 ? 00:00:00 ata/1
1723 ? 00:00:00 scsi_eh_0
1724 ? 00:00:00 scsi_eh_1
1802 ? 00:00:00 khubd
1893 ? 00:00:00 kjournald
1993 ? 00:00:00 logd
2139 ? 00:00:00 udevd
2961 ? 00:00:00 shpchpd
2975 ? 00:00:00 kpsmoused
3174 ? 00:00:00 hda_codec
3697 tty1 00:00:00 getty
3698 tty2 00:00:00 getty
3701 tty3 00:00:00 getty
3702 tty4 00:00:00 getty
3703 tty5 00:00:00 getty
3704 tty6 00:00:00 getty
3933 ? 00:00:00 acpid
4057 ? 00:00:00 dd
4072 ? 00:00:00 kdm
4082 tty7 00:01:54 Xorg
4150 ? 00:00:00 kdm
4174 ? 00:00:00 automount
4229 ? 00:00:00 hpiod
4331 ? 00:00:00 apt-index-watch
4365 ? 00:00:00 hald-runner
4477 ? 00:00:00 nfsd4
4478 ? 00:00:00 nfsd
4479 ? 00:00:00 nfsd
4480 ? 00:00:00 nfsd
4481 ? 00:00:00 nfsd
4482 ? 00:00:00 lockd
4483 ? 00:00:00 rpciod/0
4484 ? 00:00:00 rpciod/1
4485 ? 00:00:00 nfsd
4486 ? 00:00:00 nfsd
4487 ? 00:00:00 nfsd
4488 ? 00:00:00 nfsd
4492 ? 00:00:00 rpc.mountd
4511 ? 00:00:00 ondemand
4541 ? 00:00:00 sshd
4643 ? 00:00:00 hcid
4647 ? 00:00:00 sdpd
4668 ? 00:00:00 krfcommd
4677 ? 00:00:00 pwpulld
4707 ? 00:00:00 atd
4720 ? 00:00:00 cron
5260 ? 00:00:00 syslogd
5909 pts/2 00:00:00 bash
11559 pts/1 00:00:00 bash
12071 pts/2 00:00:00 ps
Thanks !
Renata
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Arek Kasprzyk
EMBL-European Bioinformatics Institute.
Wellcome Trust Genome Campus, Hinxton,
Cambridge CB10 1SD, UK.
Tel: +44-(0)1223-494606
Fax: +44-(0)1223-494468
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--
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--
Renata da Silva Camargo
Departments of Mathematical Sciences & Biological Sciences
University of Essex
------------------------------------------------------------------------
-------
Arek Kasprzyk
EMBL-European Bioinformatics Institute.
Wellcome Trust Genome Campus, Hinxton,
Cambridge CB10 1SD, UK.
Tel: +44-(0)1223-494606
Fax: +44-(0)1223-494468
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