Hi, Thomas, thanks for checking that and responding quickly. I also found out the meaning of the option myself. At the moment, I write some post-processing scripts to cope with that issue.
best, Hongbo On Tue, Aug 19, 2014 at 4:05 PM, Thomas Holder < thomas.hol...@schrodinger.com> wrote: > Hi Hongbo, > > you are right that the website and the implementation don't match, thanks > for pointing that out. This was a feature request from a paying PyMOL > sponsor, which often means that we put the feature only (or first) in > Incentive PyMOL. But thinking about it, this is a rather small change and > probably not worth to keep as a distinguishing feature. I'll port it to > open-source today. > > To clarify the issue with duplicated connect record. This is an unofficial > PDB feature to store the bond order and is supported by several > applications that read PDB files, but may break PDB file loading in other > applications which don't support it. PyMOL always wrote duplicated connect > records and the new setting allows you to switch that off. > > Cheers, > Thomas > > On 18 Aug 2014, at 15:04, Hongbo Zhu 朱宏博 <hongbo.zhu...@gmail.com> wrote: > > Hi, > > > > I am using PyMOL 1.7 open source version in Ubuntu 14.04. > > I wanted to try a new setting pdb_conect_nodup in pymol 1.7. > > It is listed as new features available for both "Open Source and > Incentive" at: > > http://pymol.org/features#v1.7 > > > > when I set it to on, I got: > > > > "Setting-Warning: not supported in open-source version of PyMOL" > > > > though the setting could be successfully set (get pdb_conect_nodup). > > > > After saving a test PDB files, I still see duplicate CONECT lines in the > PDB file generated by PyMOL. So I guess the feature is indeed missing in > open source version. > > > > Should the feature be made available to open source version users? > > cheers, > > Hongbo > > -- > Thomas Holder > PyMOL Developer > Schrödinger, Inc. > >
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