Hi,
just to be sure I was clear...
I suppose you load your pdb into leap using the command:
$AMBERHOME/bin/tleap -f tleap.in
where in your tleap.in file you have the command
a=loadpdb x.pdb
written inside, right?
what happens to me quite often is that the file "tleap.in"
itself become unreadable (and you receive "sintax error"
messages)...not the .pdb file.
so you could try to edit your tleap.in file in linux and
just "add a space and remove the space and save"...after
that it should work.
if this is not useful for you, I am sorry but I don't
think I can be useful in any manner... :-(
just try
bye
giovanni
On Tue, 1 Nov 2011 15:17:38 +0400
James Starlight <jmsstarlight.gmail.com> wrote:
> Pavan, hello!
>
> I've already tried to do that but it didnt work :(
> I could not load any pdb's (even from example subdir
>from amber tools)
>
> James
>
> 2011/11/1 Pavan Giovanni <giovanni.pavan.supsi.ch>
>
>> Dear James,
>> this happened to me quite often...it could be a
>>formatting
>> error if you have modified the file in Windows and then
>> you move it in linux via ssh or scp.
>> just try to do that:
>> edit the file in linux, make any modification (write a
>> letter and delete it) and save again the file in linux.
>> It should work.
>> bye
>> giovanni
>>
>> On Tue, 1 Nov 2011 03:44:07 -0700
>> James Starlight <jmsstarlight.gmail.com> wrote:
>> > Dear Amber Users!
>> >
>> > I have some problem with loading pdb files in the
>>XLEAP
>> >software.
>> >
>> > I've tried to load different pdb files but in any
>>cases
>> >I've obtained
>> > ERROR: Syntax error
>> >
>> > What I've done wrong ?
>> >
>> > James
>> > _______________________________________________
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>> > AMBER.ambermd.org
>> > http://lists.ambermd.org/mailman/listinfo/amber
>>
>>
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Received on Tue Nov 01 2011 - 05:00:06 PDT
