Hi Peter,
Thanks for the info. I'd better go check whether my code assumes insertion
codes are not digits.
Cheers,
Robbie
> Date: Wed, 5 Dec 2012 17:57:58 +
> From: pkel...@globalphasing.com
> Subject: Re: [ccp4bb] thanks god for pdbset
> To: CCP4BB@JISCMAIL.AC.UK
>
lem at all. In practice, as Ed pointed out, it is a big mess.
Cheers,
Robbie
> -Original Message-
> From: Ian Tickle [mailto:ianj...@gmail.com]
> Sent: Wednesday, December 05, 2012 17:26
> To: Robbie Joosten
> Cc: CCP4BB@JISCMAIL.AC.UK
> Subject: Re: [ccp4bb] thanks god
On Wed, 2012-12-05 at 17:02 +0100, Robbie Joosten wrote:
> Does 128A come before or after 128?
Robbie,
shouldn't it simply depend on which residue record comes first in the
pdb file?
Ed.
--
Oh, suddenly throwing a giraffe into a volcano to make water is crazy?
Hi Robbie,
On Wed, 2012-12-05 at 17:02 +0100, Robbie Joosten wrote:
> Hi Ian,
>
> It's easy to forget about LINK records and such when dealing with the
> coordinates (I recently had to fix a bug in my own code for that).
> The problem with insertion codes is that they are very poorly defined in
Perhaps switching to mmCIF gets rid of the problem.
>
> Cheers,
> Robbie
>
> > -Original Message-
> > From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of
> > Ian Tickle
> > Sent: Wednesday, December 05, 2012 16:39
> > To: CCP4BB@JISCMAI
obbie
> -Original Message-
> From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of
> Ian Tickle
> Sent: Wednesday, December 05, 2012 16:39
> To: CCP4BB@JISCMAIL.AC.UK
> Subject: Re: [ccp4bb] thanks god for pdbset
>
> The last time I tried the pdbse
The last time I tried the pdbset renumber command because of issues with
insertion codes in certain programs, it failed to also renumber the LINK,
SSBOND & CISPEP records. Needless to say, thanking god (or even God) was
not my first thought! (more along the lines of "why can't software
developers
not god & I don't think I wrote that bit!
Phil
On 5 Dec 2012, at 15:06, Ed Pozharski wrote:
> Francois,
>
> I did not realize Phil Evans is god (perhaps a minor one as he did not
> yet earn a capital G).
>
> I do concur that insertion code is evil. I had to re-refine an old
> antibody structu
Francois,
I did not realize Phil Evans is god (perhaps a minor one as he did not
yet earn a capital G).
I do concur that insertion code is evil. I had to re-refine an old
antibody structure recently and it messes up coot sequence window and
breaks refmac bond restraints. Evil, evil,.evil.
Chee
Especially the renumber command that changes
residue insertion codes into an increment of
the impacted residue numbers.
Regards,
F.
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