Alaa,
Regarding the programs you mentioned, you are supposed to run the
executables "tleap" and "xleap", not "teleap" and "xaleap".
For running these executables, you need to know their path. "No such
file or directory" means that you've tried to execute a file that does
not exist.
Do you you set the AMBERHOME environment variable? Did you compile
AmberTools yourself? Is $AMBERHOME/bin in your PATH?
If you are not sure about these questions, maybe reading a basic
introduction to the command line and especially bash would be a good
idea. After a quick search, I've found these:
http://www.tuxfiles.org/linuxhelp/shell.html
http://www.howtogeek.com/67469/the-beginners-guide-to-shell-scripting-the-basics/
http://vic.gedris.org/Manual-ShellIntro/1.2/ShellIntro.pdf
Maybe a real Linux environment would make more sense in your case
instead of running cygwin on Windows. If you like to keep Windows as
your host operating system, you could think about running a real Linux
distribution in a virtual machine (using for example VMware Player or
VirtualBox).
Best regards,
Jan-Philip
On 10/20/2011 10:40 AM, Dr. Alaa El-Din A. Abdel-Gawad wrote:
>
> Hi all
> yes, it is a shell program. But I imagine I sholud go through either teleap (terminal prompt) or xaleap (graphical interface) or antechamber and so on. unfortunately, although I am setting up cygwin/X, I can not go through Xaleap (I guess it is an Xenvironment path problem but I can't catch). I tried to start as follows for the tutorial 1
> bash: /home/Host/amber11/exe/antechamber:
> I got "No such file or directory"
>
> what I have do?
> thank you
>
> alaa
>
>
>
>
>
>
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>
>
>
>> Date: Tue, 18 Oct 2011 08:08:15 -0400
>> From: case.biomaps.rutgers.edu
>> To: amber.ambermd.org
>> Subject: Re: [AMBER] AmberTools-1.5 installation
>>
>> On Tue, Oct 18, 2011, Dr. Alaa El-Din A. Abdel-Gawad wrote:
>>>
>>> The all installed programs are in the folder called bin. When I click
>>> teleap I get a window for calculation. For Xeleap or sleap, I got a
>>> snapshot and a massage contains "open stackdump file" and the following
>>> code nimbers
>>>
>>> for antechamber, click antechamber icon recall nothing. please, what I
>>> have missed?
>>
>> You are not supposed to use the mouse to start any of these programs; the
>> codes are designed to be run from a terminal (shell), by typing the name of
>> the commands (along with other arguments) on the command line.
>>
>> ...good luck....dac
>>
>>
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>
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Received on Thu Oct 20 2011 - 04:00:02 PDT
