[Chimera-users] where is "Save each fit when doing multiple alignments" button

Elaine Meng meng at cgl.ucsf.edu
Tue Apr 7 08:48:00 PDT 2015


Dear Yeping Sun,
We did not write this tutorial, and I am not aware of any such option. As I said before, I thought it would save each fit anyway (without this option) so my guess is you could ignore that sentence and continue to get the results.   But that is a guess.  We cannot thoroughly explain tutorials that we didn't write!
Best,
Elaine
----------
Elaine C. Meng, Ph.D. 
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco



On Apr 7, 2015, at 6:51 AM, "sunyeping" <sunyeping at aliyun.com> wrote:

> Dear  Elaine,
> 
> I have read the link provide. However  the "Fitting Options" section and the  last paragraph of "Fittint models to segments" tutorial still tells us to  "check the button to the left of Save each fit when doing multiple alignments". I cannot find this botton and so cannot follow this tutorial. Could you just tell me in this GroEL example how to align the structure to multiple regions and get the last figure of this tutorial?
> 
> Best regards, 
> 
> Yeping Sun
> 
> Institute of Microbiology, Chinese Academy of Sciencesalign
> 
> 
> ------------------------------------------------------------------
> From:Elaine Meng <meng at cgl.ucsf.edu>
> Send Time:2015年4月7日(星期二) 07:19
> To:孙业平 <sunyeping at aliyun.com>
> Cc:Mailing List <chimera-users at cgl.ucsf.edu>
> Subject:Re: [Chimera-users] where is "Save each fit when doing multiple alignments" button
> 
> P.S. I see that NCMI has newer Segger documentation at
> 
> <https://sites.google.com/site/electronmicroscopyportal/tools/segger/user-guide>
> 
> I'll add this link to the Chimera documentation.
> Elaine
> 
> 
> On Apr 5, 2015, at 10:34 AM, Elaine Meng <meng at cgl.ucsf.edu> wrote:
> 
> > Dear Yepin Sun,
> > I don’t know of any such option either, so I’m just guessing that the tutorial at NCMI is slightly out of date. However, I believe the “Fit to Segments” tool will already list all the fits, subject to any clustering options you might also have checked, so you would not need such an option anyway.
> > Best,
> > Elaine
> > -----
> > Elaine C. Meng, Ph.D. 
> > UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
> > Department of Pharmaceutical Chemistry
> > University of California, San Francisco
> > 
> > On Apr 5, 2015, at 7:33 AM, sunyeping <sunyeping at aliyun.com> wrote:
> > 
> >> Dear all,
> >> I am studying the chimera tutorial "fitting to segments" of Segger segmentation tutorials from Greg Pintilie at NCMI (http://ncmi.bcm.edu/ncmi/software/segger/docs_fitting). In the last paragraph, the tutorial states that to align the structure to multiple regions, one needs to check the "Save each fit when doing multiple alignments" button. But where is this button? I cannot find it in the "Fit to Segments", "Segment Map" or other dialogue boxes. Could you tell me where I can find it?
> >> Best regard,
> >> Yeping Sun
> >> Institute of Microbiology, Chinese Academy of Sciences
> >
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