Re: Ifeffit Digest, Vol 20, Issue 22
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Today's Topics:
1. RE: Artimis (Matt Newville) 2. RE: Artimis (Scott Calvin)
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Message: 1 Date: Sat, 23 Oct 2004 13:46:12 -0500 (CDT) From: Matt Newville
Subject: RE: [Ifeffit] Artimis To: XAFS Analysis using Ifeffit Message-ID: Content-Type: TEXT/PLAIN; charset=US-ASCII I did encounter that "No absorbing atom (ipot=0) defined" error sometimes, but I run Artemis only after I have feff calculations done.
I don't understand whether Feff ran to completion or not. Are you saying that you made a successful run of Feff (including real output files) but that Artemis still failed to read this calculation? That seems pretty strange.
By the way, I use FEFF8.
For Feff8, I believe you need to be much more careful about line endings. It's not able to use Windows line-endings on unixes, for example.
But also: why would you use Feff8 for EXAFS analysis, as with artemis?? Feff8 is a XANES code. As far as I know, it does not give any improvements for EXAFS.
--Matt
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Message: 2 Date: Sun, 24 Oct 2004 11:23:03 -0400 From: Scott Calvin
Subject: RE: [Ifeffit] Artimis To: XAFS Analysis using Ifeffit Cc: SCalvin@slc.edu Message-ID: Content-Type: text/plain; charset="us-ascii" ; format="flowed" But also: why would you use Feff8 for EXAFS analysis, as with artemis?? Feff8 is a XANES code. As far as I know, it does not give any improvements for EXAFS.
FEFF8 does give at least one improvement for EXAFS, which I've used on occasion: the self-consistent field calculation can be used to give an improved estimate of E0 prior to fitting.
--Scott Calvin Sarah Lawrence College
I agree with Scott: SCF calculation gives more reliable estimate of E0 because the Fermi level is more accurate. It makes that, when several atomic species are involved, you only need in principle one E0 for fitting (I have verified this point, at least for the case I'm presently working on).
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End of Ifeffit Digest, Vol 20, Issue 22 ***************************************
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But also: why would you use Feff8 for EXAFS analysis, as with artemis?? Feff8 is a XANES code. As far as I know, it does not give any improvements for EXAFS.
FEFF8 does give at least one improvement for EXAFS, which I've used on occasion: the self-consistent field calculation can be used to give an improved estimate of E0 prior to fitting.
--Scott Calvin Sarah Lawrence College
I agree with Scott: SCF calculation gives more reliable estimate of E0 because the Fermi level is more accurate. It makes that, when several atomic species are involved, you only need in principle one E0 for fitting (I have verified this point, at least for the case I'm presently working on).
This is an interesting question. Way back when, when Feff8 was being developed, there was some discussion about how big an effect self-consistency would have on the e0 parameters used in exafs analysis. To my knowledge, no one has really done a systematic survey of this effect in a variety of systems (i.e. well-ordered, highly disordered, metallic, covalent, ionic, and so on). It seems like a good thing for some one to work on and publish, so that we have a better basis for conversations like this one. B
I tend to agree with Scott that a SCF E0 may be important in EXAFS fits, since changes in E0 give phase errors, leading to distance errors of order [delta R/R] = [delta E0/ E_max]. Thus for a 1000 eV data range a 1 eV error in E0 gives a .003 Ang error in a 3 Ang bond length. However, I don't disagree with Matt's view that FEFF8 is not significantly better for EXAFS than FEFF6. The reason is that the SCF potentials in FEFF8 typically yield E0 with an accuracy of 1-2 eV, while FEFF6 is typically off by over 3 eV. Such a difference is thus marginal for EXAFS analysis. However, it could be important in complex systems where the FEFF6 estimate is very far off. I often try to align the edge spectra calculated with FEFF8 with experiment to improve on the E0. Both FEFF6 and 8 estimates tend to be high, due in FEFF8 to the muffin-tin potential and limited basis set, and in FEFF6 to the electron gas model. These numbers are obviously case dependent. In systems with band gaps, even very small errors in the charge counts (in the SCF procedure) give big errors in the Fermi energy! In my view improvements in both the SCF potentials (especially muffin tin corrections) and the self energy are needed. Efforts along these lines are in progress here at UW. Systematic studies of all these effects would be useful. In the past both Matt and I have done number of comparisons of FEFF6, 7 and 8 e.g., on test cases e.g., Cu, Ag and Au. More would be desirable. John Rehr
participants (3)
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Bruce Ravel
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John J. Rehr
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Michel Jaouen