Re: [Ifeffit] Fitting EXAFS simulation to experimental

2014-05-29 Thread Scott Calvin
Hi Carl, I'm not sure what level you were asking your question from. Bruce provided an answer to one interpretation of the question. If the question is, however, has anyone written an automated script that allows the user to choose parameters given to ATOMS as fitting parameters for all space

Re: [Ifeffit] Fitting EXAFS simulation to experimental

2014-05-29 Thread Anatoly I Frenkel
Yes, it is possible to vary atomic positions in the fitting process and evaluate their effect on the fit, or just use them as adjustable parameters in the fit as any other fitting variables. This process was historically started by Yizhak Yacoby (see papers from his group in the 1990s), who

Re: [Ifeffit] Fitting EXAFS simulation to experimental

2014-05-29 Thread Matt Newville
Hi All, As Scott, Bruce, Anatoly have said, it is certainly possible to map certain crystallographic distortions to local structure, and so predict the effect on EXAFS, and model EXAFS in terms of those distortions. But to be clear for the original question, EXAFS is inherently a local structure

Re: [Ifeffit] Fitting EXAFS simulation to experimental

2014-05-29 Thread Matthew Marcus
I wonder if what he was asking about is an automated way of mapping the position parameters for a given space group, that is, fractional atomic coordinates as listed in a .cif, onto the various path distances. As it is now, it's impractically hard to do it except for very simple cases. Maybe

Re: [Ifeffit] Fitting EXAFS simulation to experimental

2014-05-29 Thread Scott Calvin
Dear Carl, The short answer is yes, but it takes a little bit of effort. One method is to actually figure out how stretching the c-axis impacts the lengths of each path geometrically, and then use the functions determine to express the delr's of each path in terms of the change in c. This

Re: [Ifeffit] Fitting EXAFS simulation to experimental

2014-05-29 Thread Matt Newville
Hi Matthew, On Thu, May 29, 2014 at 11:18 AM, Matthew Marcus mamar...@lbl.gov wrote: I wonder if what he was asking about is an automated way of mapping the position parameters for a given space group, that is, fractional atomic coordinates as listed in a .cif, onto the various path

Re: [Ifeffit] Fitting EXAFS simulation to experimental

2014-05-29 Thread Carl Brozek
Hi Scott, Thanks a lot for the insight. It seems like it'll take a bit of work, but I'm happy to hear it's doable. best, Carl On Thu, May 29, 2014 at 12:54 PM, Scott Calvin scal...@sarahlawrence.eduwrote: Dear Carl, The short answer is yes, but it takes a little bit of effort. One method