. You can also use Word to search and replace the linefeeds.
Good luck with this very retro problem.
Cheers,
Robbie
Date: Mon, 26 Sep 2011 17:07:50 -0600
From: xtald...@gmail.com
Subject: Re: [ccp4bb] Superpose, SSM
To: CCP4BB@JISCMAIL.AC.UK
I think something in your workflow
Hi Matthias
Thank you for your report.
This is a genuine bug, lsqkab puts \015\015\012 in the end of line instead of
\015\012
We will try to fix it.
Andrey
On 26 Sep 2011, at 20:42, Matthias Zebisch wrote:
Dear CCP4 users,
I am using the ccp4i version 6.2.0 under windows 7. I've come
CCP4BB@JISCMAIL.AC.UK wrote: -
To: CCP4BB@JISCMAIL.AC.UK
From: Robbie Joosten
Sent by: CCP4 bulletin board
Date: 27-09-2011 05:22
Subject: Re: [ccp4bb] Superpose, SSM
One would assume that Windows software would read DOS/Windows type text
files...
Open the file in Wordpad. Unlike Notepad
: 27-09-2011 05:22
Subject: Re: [ccp4bb] Superpose, SSM
One would assume that Windows software would read DOS/Windows type text
files...
Open the file in Wordpad. Unlike Notepad, it is able to work with Windows and
Unix type text files. If you edit something and save the file
Dear CCP4 users,
I am using the ccp4i version 6.2.0 under windows 7. I've come across a
problem with superpose.
The outputfile appears to have additional line feeds (see picture)
which, however are not seen in the windows notepad.
The structure can also be opened in coot and pymol. However, it
On Mon, 2011-09-26 at 20:42 +0100, Matthias Zebisch wrote:
However, it is not
possible to use it within CCP4, eg. for a subsequent superposition.
What do you mean by that? Do you get an error when you use the
superpose output pdb with some other program?
--
I'd jump in myself, if I
I vaguely recall notepad doing something wacky with files in certain
cases...why don't you get the excellent text editor NoteTab Light
[sic] (I use it all the time--free and works great), then take a look
at your files and see whether MS notepad altered the files.
JPK
On Mon, Sep 26, 2011 at
Hi again,
Thanks for your quick replies but I think I made myself not clear. here
is what I'm doing:
1) superpose proteinA.pdb onto proteinB.pdb : works, but gives out
proteinA_lsq1.pdb with extra empty lines (not the anisou lines ;o) )
2) superpose proteinA_lsq1.pdb onto proteinC.pdb :
The outputfile appears to have additional line feeds (see picture) which,
however are not seen in the windows notepad.
What application ARE the extra lines seen in?
Sounds like a problem with different newline conventions-
CR vs LF vs CRLF -
although I shouldn't have thought extra carriage
2011 17:07:50 -0600
From: xtald...@gmail.com
Subject: Re: [ccp4bb] Superpose, SSM
To: CCP4BB@JISCMAIL.AC.UK
I think something in your workflow is inserting dos line feeds (\n\r or \r\n,
I can't remember which).
If I have guessed correctly, you want to remove those \rs before proceeding
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