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• Uninstall php5 installed from source

  - by diegomichel

  I have tried to install php5 from source , and it worked... Then for some reason need to install the official packets, so i tried a make uninstall and for my surprise there is such make uninstall... so i tried delete all the installed files by hand. Then installed the official debian packages and it worked fine... till i need install sqlite module, which give me the following error: php --version PHP Warning: PHP Startup: Unable to load dynamic library '/usr/lib/php5/20090626/pdo_sqlite.so' - /usr/lib/php5/20090626/pdo_sqlite.so: undefined symbol: php_pdo_register_driver in Unknown on line 0 PHP Warning: PHP Startup: Unable to load dynamic library '/usr/lib/php5/20090626/sqlite.so' - /usr/lib/php5/20090626/sqlite.so: undefined symbol: php_pdo_register_driver in Unknown on line 0 PHP 5.3.1-5 with Suhosin-Patch (cli) (built: Feb 22 2010 22:46:05) Copyright (c) 1997-2009 The PHP Group Zend Engine v2.3.0, Copyright (c) 1998-2009 Zend Technologies So i remember that manual install i did, and i think there is some old lib installed causing that problem, the bad thing is that there is not such make uninstall on the source code of php5... php-5.2.13 > make uninstall make: *** No rule to make target `uninstall'. Stop. I have tried reinstall and purge all php related packages via aptitude with not success. OS: Debian Squeeze. uname -a Linux desktop 2.6.32-trunk-amd64 #1 SMP Sun Jan 10 22:40:40 UTC 2010 x86_64 GNU/Linux Any idea how to fix that?

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• Jobs with anacron won't run

  - by mareser

  I would like to run two bash scripts daily using anacron in order to backup some data. Unfortunately I can't figure out why said scripts are not executed. For test purposes I let cron execute the scripts and it worked fine. cat /etc/anacrontab gives # /etc/anacrontab: configuration file for anacron # See anacron(8) and anacrontab(5) for details. SHELL=/bin/sh PATH=/usr/local/sbin:/usr/local/bin:/sbin:/bin:/usr/sbin:/usr/bin # These replace cron's entries 1 5 cron.daily nice run-parts --report /etc/cron.daily 7 10 cron.weekly nice run-parts --report /etc/cron.weekly @monthly 15 cron.monthly nice run-parts --report /etc/cron.monthly 1 5 TB_bak /bin/sh /home/vasco2/Dropbox/Scripts/backup_TB.sh 1 5 key_db_bak /bin/sh /home/vasco2/Dropbox/Scripts/bak_key_db.sh The output of ls ~/Dropbox/Scripts/ is backup_TB.sh bak_key_db.sh I use Linux Mint Katya. uname -a gives Linux vasco2 2.6.38-8-generic-pae #42-Ubuntu SMP Mon Apr 11 05:17:09 UTC 2011 i686 i686 i386 GNU/Linux I would be very happy if somebody could point me in the right direction on why those scripts won't get executed. P.S.: There is no anacron tag on superuser.com. Maybe somebody wants to change that.

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• how i can identify which process is making UDP traffic on linux?

  - by boos

  my machine is continously making udp dns traffic request. what i need to know is the PID of the process generating this traffic. The normal way in TCP connection is to use netstat/lsof and get the process associated at the pid. Is UDP the connection is stateles, so, when i call netastat/lsof i can see it only if the UDP socket is opened and it's sending traffic. I have tried with lsof -i UDP and with nestat -anpue but i cant be able to find wich process is doing that request because i need to call lsof/netstat exactly when the udp traffic is sended, if i call lsof/netstat before/after the udp datagram is sended is impossible to view the opened UDP socket. call netstat/lsof exactly when 3/4 udp packet is sended is IMPOSSIBLE. how i can identify the infamous process ? I have already inspected the traffic to try to identify the sended PID from the content of the packet, but is not possible to identify it from the contect of the traffic. anyone can help me ? I'm root on this machine FEDORA 12 Linux noise.company.lan 2.6.32.16-141.fc12.x86_64 #1 SMP Wed Jul 7 04:49:59 UTC 2010 x86_64 x86_64 x86_64 GNU/Linux

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• uname -a gives wrong version of kernel in gentoo?

  - by freedrull

  Hi I'm running gentoo and doing uname -a gives the wrong kernel version. tony@P_P-o ~ $ uname -a Linux P_P-o 2.6.27-gentoo-r8 #12 SMP PREEMPT Sun Nov 8 19:46:59 PST 2009 i686 Genuine Intel(R) CPU T2060 @ 1.60GHz GenuineIntel GNU/Linux Running eix gentoo-sources shows that I have a later version than that installed: tony@P_P-o ~ $ eix gentoo-sources [U] sys-kernel/gentoo-sources Available versions: (2.6.16-r13) 2.6.16-r13!b!s (2.6.25-r9) 2.6.25-r9!b!s (2.6.26-r4) 2.6.26-r4!b!s (2.6.27-r8) 2.6.27-r8!b!s (2.6.27-r10) 2.6.27-r10!b!s (2.6.28-r5) 2.6.28-r5!b!s (2.6.28-r6) 2.6.28-r6!b!s (2.6.29-r5) 2.6.29-r5!b!s (2.6.29-r6) 2.6.29-r6!b!s (2.6.30) ~2.6.30!b!s (2.6.30-r3) ~2.6.30-r3!b!s (2.6.30-r4) 2.6.30-r4!b!s (2.6.30-r5) 2.6.30-r5!b!s (2.6.30-r6) 2.6.30-r6!b!s (2.6.30-r7) 2.6.30-r7!b!s (2.6.30-r8) 2.6.30-r8!b!s (2.6.31) ~2.6.31!b!s (2.6.31-r1) ~2.6.31-r1!b!s (2.6.31-r2) ~2.6.31-r2!b!s (2.6.31-r3) ~2.6.31-r3!b!s (2.6.31-r4) ~2.6.31-r4!b!s {build symlink ultra1} Installed versions: 2.6.27-r8(2.6.27-r8)!b!s(07:48:25 PM 06/19/2009)(-build -symlink) 2.6.28-r5(2.6.28-r5)!b!s(12:35:17 PM 06/08/2009)(-build -symlink) 2.6.29-r5(2.6.29-r5)!b!s(07:44:33 PM 06/19/2009)(-build -symlink) 2.6.30-r6(2.6.30-r6)!b!s(11:14:45 PM 10/02/2009)(-build -symlink) Homepage: http://dev.gentoo.org/~dsd/genpatches Description: Full sources including the Gentoo patchset for the 2.6 kernel tree What gives?

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• Setting up MongoDB in High Performance Computing LSF linux cluster

  - by Dnaiel

  I am trying to run mongo in a LSF cluster computing environment where I have no admin control. Our sysadmin installed mongodb, but it is not running. Any ideas on what should I ask the server admin to do for it to run? Or if I could run it locally? [node1382]allelix> mongod --dbpath /users/dnaiel/ma/mongodb/ Tue Oct 2 21:33:48 [initandlisten] MongoDB starting : pid=22436 port=27017 dbpath=/seq/epigenome01/allelix/ma/mongodb/ 64-bit host=node1382 Tue Oct 2 21:33:48 [initandlisten] Tue Oct 2 21:33:48 [initandlisten] ** WARNING: You are running on a NUMA machine. Tue Oct 2 21:33:48 [initandlisten] ** We suggest launching mongod like this to avoid performance problems: Tue Oct 2 21:33:48 [initandlisten] ** numactl --interleave=all mongod [other options] Tue Oct 2 21:33:48 [initandlisten] Tue Oct 2 21:33:48 [initandlisten] db version v2.2.0, pdfile version 4.5 Tue Oct 2 21:33:48 [initandlisten] git version: f5e83eae9cfbec7fb7a071321928f00d1b0c5207 Tue Oct 2 21:33:48 [initandlisten] build info: Linux ip-10-2-29-40 2.6.21.7-2.ec2.v1.2.fc8xen #1 SMP Fri Nov 20 17:48:28 EST 2009 x86_64 BOOST_LIB_VERSION=1_49 Tue Oct 2 21:33:48 [initandlisten] options: { dbpath: "/users/dnaiel/ma/mongodb/" } Tue Oct 2 21:33:48 [initandlisten] journal dir=users/dnaiel/ma/mongodb/journal Tue Oct 2 21:33:48 [initandlisten] recover begin Tue Oct 2 21:33:48 [initandlisten] info no lsn file in journal/ directory Tue Oct 2 21:33:48 [initandlisten] recover lsn: 0 Tue Oct 2 21:33:48 [initandlisten] recover /seq/epigenome01/allelix/ma/mongodb/journal/j._0 Tue Oct 2 21:33:48 [initandlisten] recover cleaning up Tue Oct 2 21:33:48 [initandlisten] removeJournalFiles Tue Oct 2 21:33:48 [initandlisten] recover done Tue Oct 2 21:33:48 [websvr] admin web console waiting for connections on port 28017 Tue Oct 2 21:33:48 [initandlisten] waiting for connections on port 27017 It basically waits forever and cannot start mongodb. These servers are not webservers but they do have network access, it's a cloud computing LSF environment system. Any advice would be welcome, thanks in advance.

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• How to debug a kernel created using ubuntu-vm-builder?

  - by user265592

  Aim: Trying to perform a code walkthrough of what functions are getting called for sending and receiving packets over the network. I am building a kernel and using gdb for debugging/ tracing purposes. I have build a vm using the following command : time sudo ubuntu-vm-builder qemu precise --arch 'amd64' --mem '1024' --rootsize '4096' --swapsize '1024' --kernel-flavour 'generic' --hostname 'ubuntu' --components 'main' --name 'Bob' --user 'ubuntu' --pass 'ubuntu' --bridge 'br0' --libvirt 'qemu:///system' And I can run the VM successfully in qemu using the following command: qemu-system-x86_64 -smp 1 -drive file=tmpGgEOzK.qcow2 "$@" -net nic -net user -serial stdio -redir tcp:2222::22 Now, I want to debug the kernel using gdb. For this I need an executable with debug symbols(vmlinux), which apparently I don't have, as the vm-builder never asked for any such options and simply created a .qcow2 file. Question 1: Am I taking the correct approach to solve the problem and is there an easier way to do it? Question 2: Is there a way to debug this kernel using GDB? P.S: I don't have hardware support for KVM. Please correct me if I am wrong. Thanks.

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• What can cause kernel out_of_memory error?

  - by nbolton

  I'm running Debian GNU/Linux 5.0 and I'm experiencing intermittent out_of_memory errors coming from the kernel. The server stops responding to all but pings, and I have to reboot the server. # uname -a Linux xxx 2.6.18-164.9.1.el5xen #1 SMP Tue Dec 15 21:31:37 EST 2009 x86_64 GNU/Linux This seems to be the important bit from /var/log/messages Dec 28 20:16:25 slarti kernel: Call Trace: Dec 28 20:16:25 slarti kernel: [<ffffffff802bedff>] out_of_memory+0x8b/0x203 Dec 28 20:16:25 slarti kernel: [<ffffffff8020f825>] __alloc_pages+0x245/0x2ce Dec 28 20:16:25 slarti kernel: [<ffffffff8021377f>] __do_page_cache_readahead+0xc6/0x1ab Dec 28 20:16:25 slarti kernel: [<ffffffff80214015>] filemap_nopage+0x14c/0x360 Dec 28 20:16:25 slarti kernel: [<ffffffff80208ebc>] __handle_mm_fault+0x443/0x1337 Dec 28 20:16:25 slarti kernel: [<ffffffff8026766a>] do_page_fault+0xf7b/0x12e0 Dec 28 20:16:25 slarti kernel: [<ffffffff8026ef17>] monotonic_clock+0x35/0x7b Dec 28 20:16:25 slarti kernel: [<ffffffff80262da3>] thread_return+0x6c/0x113 Dec 28 20:16:25 slarti kernel: [<ffffffff8021afef>] remove_vma+0x4c/0x53 Dec 28 20:16:25 slarti kernel: [<ffffffff80264901>] _spin_lock_irqsave+0x9/0x14 Dec 28 20:16:25 slarti kernel: [<ffffffff8026082b>] error_exit+0x0/0x6e Full snippet here: http://pastebin.com/a7eWf7VZ I thought that perhaps the server was actually running out of memory (it has 1GB physical memory), but my Cacti memory graph looks OK to me... But strangely the load graph goes through the roof shortly before the kernel crashes: What logs can I look at for more info? Update: Maybe noteworthy - the CPU percentage and network traffic graphs were both normal at the time of the crash. The only abnormality was the average load graph.

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• How to make Synaptics touchpad work better on Linux?

  - by whitequark

  I have Debian Squeeze currently installed on a Samsung N250 netbook with a Synaptics touchpad. These touchpads are, generally, good, and everything works perfectly on Windows. The support is extremely sucky on Linux through. Of course it has all the cool features like two-finger scrolling, but the cursor (or whatever is a replacement for cursor when scrolling) is trembling awfully. It trembles when I just keep the finger on touchpad, it shakes awfully if the finger is close to the top of touchpad, and when I'm scrolling with it (no matter with two fingers or one), the page shakes a lot too. None of this behavior is observed even in Windows XP with just the default drivers installed. Here's the Xorg version: $ Xorg -version X.Org X Server 1.7.7 Release Date: 2010-05-04 X Protocol Version 11, Revision 0 Build Operating System: Linux 2.6.32-5-686 i686 Debian Current Operating System: Linux mannaz 2.6.32-5-686 #1 SMP Fri Dec 10 16:12:40 UTC 2010 i686 Kernel command line: BOOT_IMAGE=/vmlinuz-2.6.32-5-686 root=/dev/mapper/mannaz-root ro quiet splash Build Date: 02 December 2010 01:08:37AM xorg-server 2:1.7.7-10 (Julien Cristau <[email protected]>) Current version of pixman: 0.16.4 and here is synclient -l output: http://pastebin.com/Eqa6hGXP

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• Connect to Apache times out randomly

  - by Amadan

  We are trying to set up an Apache server on a remote machine, but we experience strange behaviour. Checking with telnet remote.machine 80, one of these things happen randomly: Connect and serve content normally (no delay) Connect after a long pause Connect normally, then time out without response Timeout on connect Once connected, the request seems to be processed normally. These things do not occur if I connect from that machine directly to localhost 80. The Apache is dedicated, as is the server it runs on (runs only this one application, no-one else is using it for anything else). I am not an administrator of the remote site, and I do not know the network architecture over there, but apparently it's firewalled: (HTTP port is open, SSH port is IP-restricted, most others are closed). If there was any one pattern, I might have some ideas, but this variety of symptoms baffles me. Any ideas as to what could be causing this? Apache is 2.2; Server version is: Linux version 2.6.9-22.ELsmp ([email protected]) (gcc version 3.4.4 20050721 (Red Hat 3.4.4-2)) #1 SMP Mon Sep 19 18:32:14 EDT 2005

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• mkfs Operation Takes Very Long on Linux Software Raid 5

  - by Elmar Weber

  I've set-up a Linux software raid level 5 consisting of 4 * 2 TB disks. The disk array was created with a 64k stripe size and no other configuration parameters. After the initial rebuild I tried to create a filesystem and this step takes very long (about half an hour or more). I tried to create an xfs and ext3 filesystem, both took a long time, with mkfs.ext3 I observed the following behaviour, which might be helpful: writing inode tables runs fast until it reaches 1053 (~ 1 second), then it writes about 50, waits for two seconds, then the next 50 are written (according to the console display) when I try to cancel the operation with Control+C it hangs for half a minute before it is really canceled The performance of the disks individually is very good, I've run bonnie++ on each one separately with write / read values of around 95 / 110MB/s. Even when I run bonnie++ on every drive in parallel the values are only reduced by about 10 MB. So I'm excluding hardware / I/O scheduling in general as a problem source. I tried different configuration parameters for stripe_cache_size and readahead size without success, but I don't think they are that relevant for the file system creation operation. The server details: Linux server 2.6.35-27-generic #48-Ubuntu SMP x86_64 GNU/Linux mdadm - v2.6.7.1 Does anyone has a suggestion on how to further debug this?

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• SSL connection hangs as client hello (curl, openssl client, apt-get, wget, everything)

  - by Niklas B

  Hi, I've run into a problem on my Debian VPS (a xen domU) regarding SSL. Namely almost all SSL connections hangs at client hello. For example: # curl -vI https://graph.facebook.com About to connect() to graph.facebook.com port 443 (#0) Trying 66.220.146.48... connected Connected to graph.facebook.com (66.220.146.48) port 443 (#0) successfully set certificate verify locations: CAfile: none CApath: /etc/ssl/certs SSLv3, TLS handshake, Client hello (1): It's the same when using the openssl client. However, some of the SSL traffic works (for example https://www.nordea.se). Server #uname -a Linux server.com 2.6.26-1-xen-amd64 #1 SMP Fri Mar 13 21:39:38 UTC 2009 x86_64 GNU/Linux It does however work on my Dom 0 (the main xen host). Apt-get I can't even run apt-get update with the debian security sources (hangs on reading headers) Open SSL At the begining I thought I had an old openssl client (0.9.8o-4) since I appeared to have a newer on the Dom 0 (0.9.8g-15+lenny8) but doing a manuanl update on the openssl deb didn't help. Open SSL Client This is the full output of when the openssl client hangs: http://pastebin.com/PAjwMap9 Closing thoughts I've Googled the crap out of this, and I'm not getting any further. I've seen problems with curl, apt-get etc. but they are all specific relating to the very application - not general for the system. Any thoughts?

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• Debian Stable: Can't update kernel, libc won't update.

  - by pascal

  I use Debian Stable (squeeze) on a virtual host where I can't touch the kernel, it's stuck (and will be for some time as support told me) at Linux 2.6.18-028stab070.3 #1 SMP Wed Jul 21 18:33:27 MSD 2010 x86_64 So when I try to update, several packages fail with FATAL: kernel too old for example Preparing to replace libgcc1 1:4.6.0-11 (using .../libgcc1_1%3a4.6.1-1_amd64.deb) ... Unpacking replacement libgcc1 ... Setting up libgcc1 (1:4.6.1-1) ... FATAL: kernel too old Segmentation fault dpkg: error processing libgcc1 (--configure): subprocess installed post-installation script returned error exit status 139 and some version chaos ensued: The following packages have unmet dependencies: libc-dev-bin : Depends: libc6 (> 2.13) but 2.11.2-13 is installed libc6 : Depends: libc-bin (= 2.11.2-13) but 2.13-5 is installed libc6-dev : Depends: libc6 (= 2.13-5) but 2.11.2-13 is installed libquadmath0 : Depends: gcc-4.6-base (= 4.6.0-2) but 4.6.0-11 is installed libstdc++6 : Depends: gcc-4.6-base (= 4.6.0-2) but 4.6.0-11 is installed locales : Depends: glibc-2.13-1 What should I do? I want to keep the system up-to-date, so I want to pin as few packets as possible, but I also don't want to have to compile anything manually. Trying to pin the status quo and figured out where the error came from: ldconfig segfaults. -v doesn't print anything more so I can't tell what's the actual problem. # ldconfig FATAL: kernel too old

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• Apache serving empty gzip with assets produced by Rails Asset Pipeline

  - by PizzaPill

  I followed the steps described on the blogpost The Asset Pipeline, from development to production and tweaked them to my environment. The two important files are: /etc/apache/site-available/example.com <VirtualHost *:80> ServerName example.com ServerAlias www.example.com DocumentRoot "/var/www/sites/example.com/current/public" ErrorLog "/var/log/apache2/example.com-error_log" CustomLog "/var/log/apache2/example.com-access_log" common <Directory "/var/www/sites/example.com/current/public"> Options All AllowOverride All Order allow,deny Allow from all </Directory> <Directory "/var/www/sites/example.com/current/public/assets"> AllowOverride All </Directory> <LocationMatch "^/assets/.*$"> Header unset Last-Modified Header unset ETag FileETag none ExpiresActive On ExpiresDefault "access plus 1 year" </LocationMatch> RewriteEngine On # Remove the www RewriteCond %{HTTP_HOST} ^www.example.com$ [NC] RewriteRule ^(.*)$ http://example.com/$1 [R=301,L] </VirtualHost> /var/www/sites/example.com/shared/assets/.htaccess RewriteEngine on RewriteCond %{HTTP:Accept-Encoding} \b(x-)?gzip\b RewriteCond %{REQUEST_FILENAME}.gz -s RewriteRule ^(.+) $1.gz [L] <FilesMatch \.css\.gz$> ForceType text/css Header set Content-Encoding gzip </FilesMatch> <FilesMatch \.js\.gz$> ForceType text/javascript Header set Content-Encoding gzip </FilesMatch> But apache seems to send empty gzip files because the testsite looses all styles and firebug doesnt find any content for the css files. Altough if I call the assets-path directly I get some gibberish that looks like binary data. If I move the htaccess-file everything is back to normal. How could I find out where/what went wrong or do you have any suggestions what error I made? > apache2 -v System: Server version: Apache/2.2.14 (Ubuntu) Server built: Mar 5 2012 16:42:17 > uname -a Linux node0 2.6.18-028stab094.3 #1 SMP Thu Sep 22 12:47:37 MSD 2011 x86_64 GNU/Linux

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• Host name change breaking http? Fedora

  - by Dave

  OK so I have been messing around on my development server. It has been a while since I have had my head in linux and I suspect I have broken something. I have SSH running and that is working fine. I also have HTTP and I had FTP running also. Earlier today I decided I wanted to rename the machine so I updated the /etc/hosts file and /etc/sysconfig/network. I also changed the server name in the httpd.conf. I rebooted the machine and reconnected to SSH fine. Later I was messing around with the FTP service (trying to tighten up the user security) and when i tried to connect remotely to FTP no joy, it said cannot connect. I thought that was weird but had planned to remove ftp as we will be using github so removed ftp and moved on. Then I tried to connect to the website but major fail. even connecting to the IP address is failing. I used lynx to connect to the localhost and there was my site so something going on at server level. I thought maybe something up with iptables but I have not changed them but tried adding http but still no joy. I have a - Fedora release 17 (Beefy Miracle) NAME=Fedora VERSION="17 (Beefy Miracle)" ID=fedora VERSION_ID=17 PRETTY_NAME="Fedora 17 (Beefy Miracle)" ANSI_COLOR="0;34" CPE_NAME="cpe:/o:fedoraproject:fedora:17" Fedora release 17 (Beefy Miracle) Fedora release 17 (Beefy Miracle) Linux version 3.3.4-5.fc17.x86_64 ([email protected]) (gcc version 4.7.0 20120504 (Red Hat 4.7.0-4) (GCC) ) #1 SMP Mon May 7 17:29:34 UTC 2012 This is my iptables -L Chain INPUT (policy ACCEPT) target prot opt source destination ACCEPT all -- anywhere anywhere state RELATED,ESTABLISHED ACCEPT icmp -- anywhere anywhere ACCEPT all -- anywhere anywhere ACCEPT tcp -- anywhere anywhere state NEW tcp dpt:ssh REJECT all -- anywhere anywhere reject-with icmp-host-prohibited Chain FORWARD (policy ACCEPT) target prot opt source destination REJECT all -- anywhere anywhere reject-with icmp-host-prohibited Chain OUTPUT (policy ACCEPT) target prot opt source destination Like I say I can use SSH no issue but http although running is a no go from a remote computer. Any ideas?

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• ubuntu dmidecode is not functioning properly

  - by Alaa Alomari

  dmidecode is giving irrelevant and conflicted results. it shows that i have two slots while the correct is 8 (the board is Tyan S5350.) uname -a Linux synd01 3.0.0-16-server #29-Ubuntu SMP Tue Feb 14 13:08:12 UTC 2012 x86_64 x86_64 x86_64 GNU/Linux root@synd01:/home/badmin# dmidecode -t 16 dmidecode 2.9 SMBIOS 2.33 present. Handle 0x0011, DMI type 16, 15 bytes Physical Memory Array Location: System Board Or Motherboard Use: System Memory Error Correction Type: None Maximum Capacity: 4 GB Error Information Handle: Not Provided Number Of Devices: 2 while root@synd01:/home/badmin# dmidecode -t 17 | grep Size Size: No Module Installed Size: No Module Installed Size: 1024 MB Size: 1024 MB Size: No Module Installed Size: No Module Installed Size: 1024 MB Size: 1024 MB also lshw shows: *-memory description: System Memory physical id: 11 slot: System board or motherboard size: 4GiB *-bank:0 description: DIMM DDR Synchronous 166 MHz (6.0 ns) [empty] physical id: 0 slot: J3B1 clock: 166MHz (6.0ns) *-bank:1 description: DIMM DDR Synchronous 166 MHz (6.0 ns) [empty] physical id: 1 slot: J3B3 clock: 166MHz (6.0ns) *-bank:2 description: DIMM DDR Synchronous 166 MHz (6.0 ns) physical id: 2 slot: J2B2 size: 1GiB width: 64 bits clock: 166MHz (6.0ns) *-bank:3 description: DIMM DDR Synchronous 166 MHz (6.0 ns) physical id: 3 slot: J2B4 size: 1GiB width: 64 bits clock: 166MHz (6.0ns) *-bank:4 description: DIMM DDR Synchronous 166 MHz (6.0 ns) [empty] physical id: 4 slot: J3B2 clock: 166MHz (6.0ns) *-bank:5 description: DIMM DDR Synchronous 166 MHz (6.0 ns) [empty] physical id: 5 slot: J2B1 clock: 166MHz (6.0ns) *-bank:6 description: DIMM DDR Synchronous 166 MHz (6.0 ns) physical id: 6 slot: J2B3 size: 1GiB width: 64 bits clock: 166MHz (6.0ns) *-bank:7 description: DIMM DDR Synchronous 166 MHz (6.0 ns) physical id: 7 slot: J1B1 size: 1GiB width: 64 bits clock: 166MHz (6.0ns) what might cause this conflict and how can i fix it? Thanks

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• /usr/bin/install hangs, apparently due to SELinux

  - by Cooper

  I'm trying to use the GNU coreutils install utility, however it is hanging: /usr/bin/install -v test_file test_dir/ `test_file' -> `test_dir/test_file I see the same behavior whether I run as a normal user, or root/sudo. I ran an strace -f, and this is the end of the output: ... read(4, "<username>\t-d\tsystem_u:object_r:ho"..., 4096) = 2197 <0.000012> brk(0x6e3b1000) = 0x6e3b1000 <0.000009> mmap(NULL, 29138944, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) = 0x2abd831ae000 <0.000014> munmap(0x2abd815dd000, 29138944) = 0 <0.003466> The read() is reading from /etc/selinux/targeted/contexts/files/file_contexts.homedirs, apparently successfully. It appears that the process is hanging right after the munmap, but continues to eat 100% CPU. My two questions are: 1) Any good way to see what is going on with the process? I'm currently too lazy to compile a debug version of install I can run gdb on - but a strong suggestion in an answer here may motivate me to do so if needed. 2) Any idea what the SELinux issue could be? I'm not too familiar with SELinux. Additional info of possible relevance: # ls -Z drwxr-xr-x my_user 7001 user_u:object_r:user_home_t test_dir -rw-r--r-- my_user 7001 user_u:object_r:user_home_t test_file # id ... context=user_u:system_r:unconfined_t # uname -a Linux hostname 2.6.18-238.1.1.el5 #1 SMP Tue Jan 4 13:32:19 EST 2011 x86_64 x86_64 x86_64 GNU/Linux I am suspicious that SELinux + Quest Authentication Services (QAS) is causing the issue. QAS is generally well behaved, but it did cause the /etc/selinux/targeted/contexts/files/file_contexts.homedirs to get quite large (~18k users, @23 lines per user) Update: install -v -Z user_u:object_r:user_home_t file dir/ seems to work. Can anyone suggest why, given that SELinux is in permissive mode (see comments).

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• Linux server: Dropped packets

  - by Lars

  I see dropped packets using ifconfig on my eth0 interface: eth0 Link encap:Ethernet HWaddr 00:15:17:0d:03:ca inet addr:10.0.1.2 Bcast:10.0.1.255 Mask:255.255.255.0 UP BROADCAST RUNNING MULTICAST MTU:9000 Metric:1 RX packets:30268348 errors:0 dropped:70721 overruns:0 frame:0 TX packets:133076885 errors:0 dropped:0 overruns:0 carrier:0 collisions:0 txqueuelen:1000 RX bytes:8699434077 (8.6 GB) TX bytes:194937313025 (194.9 GB) Interrupt:16 Memory:feae0000-feb00000 When i use ethtool -S i dont see anything wrong: NIC statistics: rx_packets: 30267138 tx_packets: 133074510 rx_bytes: 8699356158 tx_bytes: 194934147340 rx_broadcast: 35296 tx_broadcast: 5435 rx_multicast: 0 tx_multicast: 0 rx_errors: 0 tx_errors: 0 tx_dropped: 0 multicast: 0 collisions: 0 rx_length_errors: 0 rx_over_errors: 0 rx_crc_errors: 0 rx_frame_errors: 0 rx_no_buffer_count: 0 rx_missed_errors: 0 tx_aborted_errors: 0 tx_carrier_errors: 0 tx_fifo_errors: 0 tx_heartbeat_errors: 0 tx_window_errors: 0 tx_abort_late_coll: 0 tx_deferred_ok: 0 tx_single_coll_ok: 0 tx_multi_coll_ok: 0 tx_timeout_count: 0 tx_restart_queue: 0 rx_long_length_errors: 0 rx_short_length_errors: 0 rx_align_errors: 0 tx_tcp_seg_good: 5757001 tx_tcp_seg_failed: 0 rx_flow_control_xon: 8649 rx_flow_control_xoff: 62072 tx_flow_control_xon: 0 tx_flow_control_xoff: 0 rx_long_byte_count: 8699356158 rx_csum_offload_good: 30212111 rx_csum_offload_errors: 0 rx_header_split: 10857552 alloc_rx_buff_failed: 0 tx_smbus: 0 rx_smbus: 0 dropped_smbus: 0 rx_dma_failed: 0 tx_dma_failed: 0 I am running Ubuntu 12.04 with kernel 3.2.0-30-generic #48-Ubuntu SMP I have pinged every device on my internal network for about 24 hours, without packet loss. Also checked my router and my interface to the WAN, also no errors there. Does anyone have any clue?

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• DPMS does not work: the monitor is not switched off

  - by bortzmeyer

  I have a monitor which was properly switched off by my Debian PC when unused. I attached it to another machine and, this times, it is never switched off. In /etc/X11/xorg.conf, I have: Section "Monitor" Identifier "Generic Monitor" Option "DPMS" It is recognized when X11 starts: (II) Loading extension DPMS ... (II) VESA(0): DPMS capabilities: StandBy Suspend Off; RGB/Color Display ... (**) Option "dpms" (**) VESA(0): DPMS enabled The operating system is Debian stable "lenny". The graphics card is: 00:02.0 VGA compatible controller: Intel Corporation 82G33/G31 Express Integrate d Graphics Controller (rev 02) (prog-if 00 [VGA controller]) Subsystem: Hewlett-Packard Company Device 2a6f Flags: bus master, fast devsel, latency 0, IRQ 5 Memory at fe900000 (32-bit, non-prefetchable) [size=512K] I/O ports at b080 [size=8] Memory at d0000000 (32-bit, prefetchable) [size=256M] Memory at fe800000 (32-bit, non-prefetchable) [size=1M] Capabilities: [90] Message Signalled Interrupts: Mask- 64bit- Queue=0/0 Enable-Capabilities: [d0] Power Management version 2 X11 is: X.Org X Server 1.4.2 Release Date: 11 June 2008 X Protocol Version 11, Revision 0 Build Operating System: Linux Debian (xorg-server 2:1.4.2-10.lenny2) Current Operating System: Linux ludwigVII 2.6.26-2-686 #1 SMP Sun Jun 21 04:57:3 8 UTC 2009 i686 Build Date: 08 June 2009 09:12:57AM

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• nfs mount with nfs 3

  - by rahrahruby

  I am running CentOS 6.4 Kernel version 2.6.32-358.23.2.el6.x86_64 #1 SMP and have the following nfs info: nfs-utils-lib-1.1.5-6.el6.x86_64 nfs4-acl-tools-0.3.3-6.el6.x86_64 nfs-utils-1.2.3-36.el6.x86_64 and am trying to mount an nfs volume with nfs3. I have the following line in my fstab: 172.16.11.87:/volume1/web /home/nas nfsver=3 rsize=8192,wsize=8192,timeo=14,intr(no_root_squach) When I run nfsstat it still shows the client as nfs4 Server rpc stats: calls badcalls badauth badclnt xdrcall 0 0 0 0 0 Client rpc stats: calls retrans authrefrsh 1988817 6 1988818 Client nfs v4: null read write commit open open_conf 0 0% 36943 1% 21606 1% 401 0% 392369 19% 375986 18% open_noat open_dgrd close setattr fsinfo renew 0 0% 0 0% 387945 19% 22904 1% 3 0% 2914 0% setclntid confirm lock lockt locku access 1 0% 1 0% 0 0% 0 0% 0 0% 97856 4% getattr lookup lookup_root remove rename link 613996 30% 29888 1% 1 0% 1248 0% 253 0% 414 0% symlink create pathconf statfs readlink readdir 26 0% 226 0% 2 0% 3 0% 0 0% 3825 0% server_caps delegreturn getacl setacl fs_locations rel_lkowner 5 0% 0 0% 0 0% 0 0% 0 0% 0 0% exchange_id create_ses destroy_ses sequence get_lease_t reclaim_comp 0 0% 0 0% 0 0% 0 0% 0 0% 0 0% layoutget layoutcommit layoutreturn getdevlist getdevinfo ds_write 0 0% 0 0% 0 0% 0 0% 0 0% 0 0% ds_commit 0 0%

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• mkfs Operation Takes Very Long on Linux Software Raid 5

  - by Elmar Weber

  I've set-up a Linux software raid level 5 consisting of 4 * 2 TB disks. The disk array was created with a 64k stripe size and no other configuration parameters. After the initial rebuild I tried to create a filesystem and this step takes very long (about half an hour or more). I tried to create an xfs and ext3 filesystem, both took a long time, with mkfs.ext3 I observed the following behaviour, which might be helpful: writing inode tables runs fast until it reaches 1053 (~ 1 second), then it writes about 50, waits for two seconds, then the next 50 are written (according to the console display) when I try to cancel the operation with Control+C it hangs for half a minute before it is really canceled The performance of the disks individually is very good, I've run bonnie++ on each one separately with write / read values of around 95 / 110MB/s. Even when I run bonnie++ on every drive in parallel the values are only reduced by about 10 MB. So I'm excluding hardware / I/O scheduling in general as a problem source. I tried different configuration parameters for stripe_cache_size and readahead size without success, but I don't think they are that relevant for the file system creation operation. The server details: Linux server 2.6.35-27-generic #48-Ubuntu SMP x86_64 GNU/Linux mdadm - v2.6.7.1 Does anyone has a suggestion on how to further debug this?

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• What are these CPU cache settings? Snoop Filter, ACL prefetch, HW prefetch

  - by eater

  I was in my BIOS setup turning on VT-x support today and saw these other settings. A little googling indicates that they each seem to turn on some sort of optimization to do with the CPU's L2 cache. They were all turned off by default. The processor in question is an Intel Xeon quad-core 3.4GHz (X5492). My OS is Linux 2.6.35.10-74.fc14.x86_64 #1 SMP Thu Dec 23 16:04:50 UTC 2010 x86_64 x86_64 x86_64 GNU/Linux. I have 4GB of RAM if that matters. Here's what the BIOS manufacturer has to say: Snoop Filter Enabling the snoop filter typically improves performance by reducing snoop traffic on the frontside bus in dual processor configurations. Well I like the sound of improved performance. Why would the BIOS have this off by default? Or by dual processor do they not mean multi-core? Regardless, is there a downside if this is on? ACL Prefetch When enabled, the Adjacent Cache Line Prefetcher fetches both cache lines that comprise a cache line pair when it determines required data is not currently in its cache. When disabled, the processor will only fetch the cache line required by the processor. HW Prefetch Fetches an extra line of data into L2 from external memory. Both of these sound like optimizations that have some drawbacks. What are the reasons to turn them on? What are the reasons to leave them off. Why is the default off?

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• MongoDB data directory transfer and upgrade

  - by KPL

  I just transferred my data directory (of Mongo 1.6.5) to a new server and installed Mongo 2.0 on it. I set the data directory path and did sudo server mongod restart. It failed, and the log file output says this - ***** SERVER RESTARTED ***** Sun Oct 9 07:51:47 [initandlisten] MongoDB starting : pid=8224 port=27017 dbpath=/database/mongodb 64-bit host=domU-12-31-39-09-35-81 Sun Oct 9 07:51:47 [initandlisten] db version v2.0.0, pdfile version 4.5 Sun Oct 9 07:51:47 [initandlisten] git version: 695c67dff0ffc361b8568a13366f027caa406222 Sun Oct 9 07:51:47 [initandlisten] build info: Linux bs-linux64.10gen.cc 2.6.21.7-2.ec2.v1.2.fc8xen #1 SMP Fri Nov 20 17:48:28 EST 2009 x86_64 BOOST_LIB_VERSION=1_41 Sun Oct 9 07:51:47 [initandlisten] options: { auth: "true", config: "/etc/mongod.conf", dbpath: "/database/mongodb", fork: "true", logappend: "true", logpath: "/var/log/mongo/mongod.log", nojournal: "true" } Sun Oct 9 07:51:47 [initandlisten] couldn't open /database/mongodb/local.ns errno:1 Operation not permitted Sun Oct 9 07:51:47 [initandlisten] error couldn't open file /database/mongodb/local.ns terminating Sun Oct 9 07:51:47 dbexit: Sun Oct 9 07:51:47 [initandlisten] shutdown: going to close listening sockets... Sun Oct 9 07:51:47 [initandlisten] shutdown: going to flush diaglog... Sun Oct 9 07:51:47 [initandlisten] shutdown: going to close sockets... Sun Oct 9 07:51:47 [initandlisten] shutdown: waiting for fs preallocator... Sun Oct 9 07:51:47 [initandlisten] shutdown: closing all files... Sun Oct 9 07:51:47 [initandlisten] closeAllFiles() finished Sun Oct 9 07:51:47 [initandlisten] shutdown: removing fs lock... Sun Oct 9 07:51:47 dbexit: really exiting now I have already run it with --upgrade once.

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• Growing a Linux software RAID5 array

  - by chrismetcalf

  On my home file server, I've got a 1.5TB software RAID5 array, built from four 500gb Western Digital drives. I've got a fifth drive that I usually run as a hot spare (but have out of the array at the moment), but if I can I'd like to add that to the array and grow it to 2TB since I'm running out of space. I Googled for guidance, but there seem to be a lot of differing opinions out there (many of them probably now out-of-date) as to whether or not that is possible and/or smart. What's the right way to go about this, or should I start looking into building a new array with more space? Version details: %> cat /etc/issue Debian GNU/Linux 5.0 \n \l %> uname -a Linux magrathea 2.6.26-1-686-bigmem #1 SMP Sat Jan 10 19:13:22 UTC 2009 i686 GNU/Linux %> /sbin/mdadm --version mdadm - v2.6.7.2 - 14th November 2008 %> cat /proc/mdstat Personalities : [raid1] [raid6] [raid5] [raid4] md1 : active raid1 hdc1[0] hdd1[1] 293033536 blocks [2/2] [UU] md0 : active raid5 sde1[3] sda1[0] sdc1[2] sdb1[1] 1465151808 blocks level 5, 64k chunk, algorithm 2 [4/4] [UUUU]

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• Replace Linux Boot-Drive | ext3 to btrfs

  - by bardiir

  I've got a headless server running Debian Linux currently. Linux vault 3.2.0-3-686-pae #1 SMP Mon Jul 23 03:50:34 UTC 2012 i686 GNU/Linux The root filesystem is located on an ext3 partition on the main harddrive. My data is located on multiple harddrives that are bundled to a storage pool running with btrfs. UUID=072a7fce-bfea-46fa-923f-4fb0827ae428 / ext3 errors=remount-ro 0 1 UUID=b50965f1-a2e1-443f-876f-578b5f93cbf1 none swap sw 0 0 UUID=881e3ad9-31c4-4296-ae60-eae6c98ea45f none swap sw 0 0 UUID=30d8ae34-e2f0-44b4-bbcc-22d761a128f6 /data btrfs defaults,compress,autodefrag 0 0 What I'd like to do is to place / into the btrfs pool too. The ideal solution would provide the flexibility to boot from any disk in the system alike, so if the main drive fails I'd just need to swap another one into the main slot and it would be bootable like the main one. My main problem is, everything I do needs to result in a bootable system that is open to ssh logins via network as this server is 100% headless so there is no possibility to boot it from a live cd or anything like that. So I'd like to be extra sure everything works out fine :) How would I best go about this? Can anybody hint me to guides or whip something up for these tasks? Anything I forgot to think about? Copy root-data into btrfs pool, adjust mountpoints,... Adjust GRUB to boot from btrfs pool UUID or the local device where GRUB is installed Sync GRUB to all harddrives so every drive is equally bootable (is this even possible without destroying the btrfs partitions on the drives or would I need to disconnect the drives, install grub on them and then connect them back with a slightly smaller partition?)

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• Slow manipulation of netfilter rules

  - by Ole Martin Eide

  I have a script maintaining gre tunnels and firewall rules using the "ip" and "iptables" tools. Setting up hundreds of tunnels, and adresses per interface runs just fine. Takes less than 0.1 second per interface, however when I get around to do the firewall rules everything slows down spending 0.5 per insertion. Why is it running so slow? What can I do to improve the speed? It seems like I could try ipset instead, but I really feel there is something wrong with the kernel or something. The interesting thing is that the first 10 rules runs fast, then it slows down.. mybox(root) foo# iptables -V iptables v1.3.5 mybox(root) foo# uname -a Linux foo 2.6.18-164.el5 #1 SMP Tue Aug 18 15:51:48 EDT 2009 x86_64 x86_64 x86_64 GNU/Linux mybox(root) foo# cat test.sh #!/bin/sh for n in {1..100} do /sbin/iptables -A OUTPUT -s ${n} -j ACCEPT /sbin/iptables -D OUTPUT -s ${n} -j ACCEPT done mybox(root) foo# time ./test.sh real 1m38.839s user 0m0.100s sys 1m38.724s Appriciate any help. Cheers!

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