Maybe this thread helps?
http://seqanswers.com/forums/showthread.php?t=25339
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i have Ubuntu 12.04LTS.
I installed the librairies ia32-libs.
but it's the same problème.
Thankyou
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What flavor of unix/linux are you running?
Here is a relevant thread that will help: http://ubuntuforums.org/showthread.php?t=1624351 See post #3.
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hello,
I have a local installation of newbler but here the error message:
Code:Warning: One or more of the following libraries was not found zlib.i386, libXi.i386, libXtst.i386, libXaw.i386 Without these libraries, 454 Life Sciences software may not run correctly. Consult the product documentation for more information.
could you help me?
thankyou
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Which one is the latest STLinux
I saw this list, but which one should I pick?
Code:stlinux24-host-STLinux_deps-20100401-1.i386.rpm 01-Apr-2010 17:01 4.2K [ ] stlinux24-host-STLinux_deps-20100427-1.i386.rpm 28-Jun-2010 14:56 4.4K [ ] stlinux24-host-STLinux_deps-20110126-1.i386.rpm 26-Jan-2011 11:47 4.4K [ ] stlinux24-host-STLinux_deps-20110331-1.i386.rpm 31-Mar-2011 12:30 4.5K [ ] stlinux24-host-STLinux_deps-20110614-1.i386.rpm 14-Jun-2011 10:40 4.5K [ ] stlinux24-host-STLinux_deps-20111020-1.i386.rpm 20-Oct-2011 11:07 5.7K [ ] stlinux24-host-STLinux_deps-20120508-1.i386.rpm 08-May-2012 14:20 5.7K [ ] stlinux24-host-STLinux_deps-20120731-1.i386.rpm 01-Aug-2012 11:23 6.1K [ ] stlinux24-host-STLinux_deps-20121030-1.i386.rpm 30-Oct-2012 14:41 7.1K [ ] stlinux24-host-STLinux_deps-20130321-1.i386.rpm 21-Mar-2013 14:11 7.1K [ ] stlinux24-host-STLinux_deps-20131122-1.i386.rpm 22-Nov-2013 13:43 7.1K [ ] stlinux24-host-STLinux_deps-20140120-1.i386.rpm 23-Jan-2014 16:04 7.2K
Code:stlinux24-host-STLinux_deps-20140120-1.i386.rpm
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I had the same issue. It's just because /bin/sh is not in the rpm database. To get round this I installed the STLinux "provides" RPM. This populates the database without installing anything and this happens to include /bin/sh:
Information: http://stlinux.com/install/ubuntu
Pick the latest version from here: http://download.stlinux.com/pub/stlinux/2.4/misc/
Simply do a:
Code:rpm -ivh --force-debian stlinux24<version>.rpm
Code:sudo apt-get install ia32-libs sudo ln -s /bin/true /bin/rocks sudo ln -s /usr/bin/lspci /sbin/lspci sudo dpkg-reconfigure dash (select no) sudo ./setup.sh
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Hi brymerr,
I am actually not sure but I think you have not to useHTML Code:sudo ./setup.sh
The link you created for bash did not work for root -- maybe.
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That again looks right. Not sure what to ask you to try next. In case no one from the west coast helps further tonight we can look at this tomorrow.
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Here is what appears:
bryan@bryan-ubuntu:~$ echo $PATH
/usr/lib/lightdm/lightdm:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games
bryan@bryan-ubuntu:~$
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That looks right. I wonder if you have a problem with your $PATH variable (i.e. /bin is not in that path, it seems unlikely).
What is the output of
Code:$ echo $PATH
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I did the following commands:
bryan@bryan-ubuntu:~$ sudo rm /bin/sh
[sudo] password for bryan:
bryan@bryan-ubuntu:~$ sudo ln -s bash /bin/sh
bryan@bryan-ubuntu:~/Desktop/DataAnalysis_2.9_All$ ls -l /bin/sh
lrwxrwxrwx 1 root root 4 Aug 12 19:35 /bin/sh -> bash
I then tried to run setup.sh from Terminal and got the same error.
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Did you try the code in post #5 from the thread that you have linked to? If you did then what do you see when you run the following?
Code:$ ls -l /bin/sh
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Install Newbler 2.9 in Ubuntu
Hey everyone,
I am trying to install the Data_Analysis2.9 package in Ubuntu 13.04. I am very new to Ubuntu and Newbler, but am trying to get this to work.
Here is what I have done so far:
1. Download DataAnalysis_2.9_All_20130530_1559.tgz
2. Extract the *.tgz file to a folder on my desktop called "DataAnalysis_2.9_All"
3. Open terminal, and runCode:sudo apt-get install ia32-libs
PHP Code:sudo ln -s /bin/true /bin/rocks
5. TypeCode:sudo apt-get install alien
PHP Code:ln -l /bin/sh
PHP Code:lrwxrwxrwx 1 root root 4 Aug 12 18:29 /bin/sh -> bash
PHP Code:sudo ./setup.sh
Code:Installation started at 08/12/2013 06:45:41 PM User: uid=0(root) gid=0(root) groups=0(root) Hostname: bryan-ubuntu ============================= [06:45:41 PM] cd /home/bryan/Desktop/DataAnalysis_2.9_All; md5sum -c checksum_inst ./setup.sh: OK ./README: OK ./packages/gsNewbler-2.9-1.x86_64.rpm: OK ./packages/amplicons_CLI_2.9.i686.tgz: OK ./packages/jre-linux-i586-oracle-2.9-1.i386.rpm: OK ./packages/gsNewbler-2.9-1.i686.rpm: OK ./packages/gsAssembler-2.9-1.noarch.rpm: OK ./packages/gsSeqTools-2.9-1.x86_64.rpm: OK ./packages/gsAmplicons-2.9-1.noarch.rpm: OK ./packages/gsSeqTools-2.9-1.i686.rpm: OK ./packages/gsMapper-2.9-1.noarch.rpm: OK ============================= ============================= [06:45:42 PM] rpm -U --force /home/bryan/Desktop/DataAnalysis_2.9_All/packages/jre-linux-i586-oracle-2.9-1.i386.rpm rpm: RPM should not be used directly install RPM packages, use Alien instead! rpm: However assuming you know what you are doing... warning: /home/bryan/Desktop/DataAnalysis_2.9_All/packages/jre-linux-i586-oracle-2.9-1.i386.rpm: Header V3 DSA/SHA1 Signature, key ID e50b562c: NOKEY ============================= ============================= [06:45:44 PM] rpm -U --force /home/bryan/Desktop/DataAnalysis_2.9_All/packages/gsSeqTools-2.9-1.x86_64.rpm rpm: RPM should not be used directly install RPM packages, use Alien instead! rpm: However assuming you know what you are doing... warning: /home/bryan/Desktop/DataAnalysis_2.9_All/packages/gsSeqTools-2.9-1.x86_64.rpm: Header V3 DSA/SHA1 Signature, key ID e50b562c: NOKEY error: Failed dependencies: /bin/sh is needed by gsSeqTools-1:2.9-1.x86_64 =============================
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