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Questions and answers => General discussions (Q&As) => Topic started by: feixu on August 19, 2011, 04:06:23 pm

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Title: 3DNA setup at Linux
Post by: feixu on August 19, 2011, 04:06:23 pm

HI! Xiangjun:
I downloaded and unzipped 3DNA in Linux version. I went to /X3DNA/bin/ and run x3dna_setup, it gave me error message

feixu@homestar:~/X3DNA/bin$ x3dna_setup
x3dna_setup: command not found

I checked the mode of the directories. They are executable.
feixu@homestar:~/X3DNA$ ls -l
total 24
drwx------  2 feixu feixu 4096 2008-08-06 18:56 bin
drwx------  5 feixu feixu 4096 2008-08-06 18:56 config
drwx------  2 feixu feixu 4096 2008-10-14 01:39 doc
drwx------  7 feixu feixu 4096 2008-08-06 18:20 examples
drwx------ 58 feixu feixu 4096 2008-08-06 18:20 fiber
drwx------  9 feixu feixu 4096 2008-08-06 18:20 NP_Recipes

And the OS system is UBUNTU 11.04

Could you please think of the solution?

Thanks a lot!

Fei

Title: Re: 3DNA setup at Linux
Post by: xiangjun on August 19, 2011, 09:02:54 pm

Quote

feixu@homestar:~/X3DNA/bin$ x3dna_setup
x3dna_setup: command not found

Try "[mono:4e0k1qpw][red:4e0k1qpw]./x3dna_setup[/red:4e0k1qpw][/mono:4e0k1qpw]". It appears that you do not have "[mono:4e0k1qpw]./[/mono:4e0k1qpw]" (your current directory) in your command search path.

HTH,

Xiang-Jun

Title: Re: 3DNA setup at Linux
Post by: Lira on September 01, 2011, 07:37:27 pm

Hi Xiang-Jun Lu,

in your forum I saw a problem with setup script for X3DNA.


"Error Running X3DNA_setup script

by corgan » Mon Feb 01, 2010 3:50 pm

Hello,

I am trying to install 3DNA on my Windows XP machine. I downloaded the Cygwin binary and followed the instructions... when I get to the intruction that says type "x3dna_setup" nothing happens. I then try to run it as a perl script and I get the following error messag:
"C:Documents and SettingsusernameDesktopX3DNAbin>perl.exe x3dna_setup
Use of uninitialized value $_[0] in substitution (s///) at C:/Perl/lib/File/Base
name.pm line 338.
fileparse(): need a valid pathname at x3dna_setup line 13"

Any help would be greatly appreciated!

-Corgan
corgan Posts: 2Joined: Mon Feb 01, 2010 2:23 pm"


# I added the next lines to my .bashrc

export SHELL="/bin/bash"
export X3DNA=/home/lira/x3dna
export PATH=/home/lira/x3dna/bin:$PATH

/lira  #  is my directory and

/x3dna # directory where is allocated the program

running under Cygwin

It works.

Bye.

Lira

Funded by the NIH R24GM153869 grant on X3DNA-DSSR, an NIGMS National Resource for Structural Bioinformatics of Nucleic Acids

Created and maintained by Dr. Xiang-Jun Lu, Department of Biological Sciences, Columbia University