Re: [Jmol-developers] Jmol file formats

2003-12-09 Thread timothy driscoll
at 3.06p EDT on 2003 December 09 Tuesday Miguel Howard said: > > in any case, what file formats does Jmol plan to support? > Tim, > > The following is a collection of random statements about the current > status of Jmol/CDK file support and integration: > [...] > > We need to get these issues wo

[Jmol-developers] Jmol file formats

2003-12-09 Thread Miguel Howard
> in any case, what file formats does Jmol plan to support? Tim, The following is a collection of random statements about the current status of Jmol/CDK file support and integration: The development version of Jmol has an interface called the 'JmolModelAdapter'. This interface separates the file

[Jmol-developers] Re: [Jmol-users] hbonds in Jmol

2003-12-09 Thread timothy driscoll
at 10.40a EDT on 2003 December 09 Tuesday Peter Murray-Rust said: > At 10:20 09/12/2003 +0100, Miguel Howard wrote: > > > > And better formats. > > > >Formats like ... CML for example ... :-) > > The crystallographic community has designed mmCIF for this purpose. CML can > be used for proteins

Re: [Jmol-developers] Re: [Jmol-users] hbonds in Jmol

2003-12-09 Thread Peter Murray-Rust
At 10:20 09/12/2003 +0100, Miguel Howard wrote: > And better formats. Formats like ... CML for example ... :-) The crystallographic community has designed mmCIF for this purpose. CML can be used for proteins but some of its support is limited although I am getting requests to add PDB-like field

Re: [Jmol-developers] Re: [Jmol-users] hbonds in Jmol

2003-12-09 Thread Miguel Howard
> And better formats. Formats like ... CML for example ... :-) Miguel --- This SF.net email is sponsored by: IBM Linux Tutorials. Become an expert in LINUX or just sharpen your skills. Sign up for IBM's Free Linux Tutorials. Learn everyt

Re: [Jmol-developers] Re: [Jmol-users] hbonds in Jmol

2003-12-09 Thread Peter Murray-Rust
At 20:41 08/12/2003 +0100, Miguel Howard wrote: Peter, As you know, .pdb files normally don't contain either hydrogens or bond order. Yes. NMR structures sometimes contain *some* hydrogens. XRay ones normally don. Therefore, when you see a C-O you don't know if it is a C=O or a C-O-H Yes. It's a