Dear XAFS community: I am fitting Hg L3-edge EXAFS of what I think are mercury sulfide nanoparticles. I fit Fourier filtered 1st shell Hg-to-Sulfur pair correlations for 5 spectra and obtain interatomic distances (r) that are 0.2 angstroms shorter than a cubic HgS(s) (i.e., metacinnabar) and Hg-to-S coordination numbers (N) that range from 2.6 to 3.0 (compared to N = 4 for metacinnabar). Delta_E0 values are less than a few eV, so I think the r's are not 'incorrect' as far as these preliminary fits are based on harmonic atomic vibrations/Gaussian pair-distribution functions. What intrigues me most about these data is that the fitted N's are consistent with the average 1st-shell Hg-S coordinations of 1 to 2 nm HgS clusters obtained by isotropically truncating the metacinnabar crystal lattice. In one case, I can also fit first-nearest Hg neighbors in the first shell, and this N is also consistent with a 1 nm HgS cluster. My objective is to scrutinize the tentative conclusion that the mercury sulfides in the samples consist of 1 to 2 nm subunits (within a larger aggregate, as determined by DLS). For instance, while the fitted N's are consistent with nanoclusters, the assumption of a metacinnabar lattice to estimate N of nanoclusters is undermined by the shorter interatomic distances fitted to the data. This got me reading the work of Manceau and Combes from the late 1980s and Frenkel et al. (2001) J. Phys. Chem. B. In Frenkel's paper (p. 12691), they describe that they used a "third cumulant" to account for anharmonic corrections, but I'm not sure how exactly this is implemented. It is something that you request in a feff.inp file, or is it a path parameter for IFEFFIT to include in its calculations? I am using Artemis on Mac OS X 10.6 (thanks to iXAFS 2.1.1 beta!!) to execute FEFF 7 calculations and fit my data. I noticed parameters called "3rd" and "4th" in the path dialog; is "3rd" the same parameter as, for example, the sigma_sub_i_superscript_(3) term in eqn (2) of Frenkel et al. (2001)? Thanks for reading this lengthy note... Aaron Branch of Regional Research, Water Resources U.S. Geological Survey Office (650) 329-5474 Lab (650) 329-4069 Fax (650) 329-4463 345 Middlefield Road, Mail Stop 466 Menlo Park, California 94025 http://profile.usgs.gov/aslowey
Hi Aaron, I find a nearest-neighbor third cumulant is frequently a useful parameter for nanoscale materials. It's not just the anharmonicity of individual bonds, it's also the anharmonicity of the distribution of environments. In other words, in nanoscale materials there are core atoms and surface atoms, atoms one monolayer below the surface, and so on. (Or, in your case, read "interface" for "surface.") The atoms on the surface may very well have interatomic distances a bit different from those further in, and that distribution is often not symmetric, for essentially the same reason that thermal vibrations are not symmetric: it's energetically more favorable to stretch a bond from equilibrium than to compress it by the same amount. To use a third cumulant in Artemis, go to the Paths menu and check "extended path parameters." The path dialogs will then include a blank for "3rd," which is the third cumulant in the literature. It is then used like any other path parameter. (Or, of course, you can access it through IFEFFIT scripts, again using "3rd.") --Scott Calvin Sarah Lawrence College On Mar 26, 2010, at 1:13 PM, Aaron Slowey wrote:
Dear XAFS community:
I am fitting Hg L3-edge EXAFS of what I think are mercury sulfide nanoparticles. I fit Fourier filtered 1st shell Hg-to-Sulfur pair correlations for 5 spectra and obtain interatomic distances (r) that are 0.2 angstroms shorter than a cubic HgS(s) (i.e., metacinnabar) and Hg-to-S coordination numbers (N) that range from 2.6 to 3.0 (compared to N = 4 for metacinnabar). Delta_E0 values are less than a few eV, so I think the r's are not 'incorrect' as far as these preliminary fits are based on harmonic atomic vibrations/Gaussian pair-distribution functions.
What intrigues me most about these data is that the fitted N's are consistent with the average 1st-shell Hg-S coordinations of 1 to 2 nm HgS clusters obtained by isotropically truncating the metacinnabar crystal lattice. In one case, I can also fit first- nearest Hg neighbors in the first shell, and this N is also consistent with a 1 nm HgS cluster.
My objective is to scrutinize the tentative conclusion that the mercury sulfides in the samples consist of 1 to 2 nm subunits (within a larger aggregate, as determined by DLS). For instance, while the fitted N's are consistent with nanoclusters, the assumption of a metacinnabar lattice to estimate N of nanoclusters is undermined by the shorter interatomic distances fitted to the data. This got me reading the work of Manceau and Combes from the late 1980s and Frenkel et al. (2001) J. Phys. Chem. B. In Frenkel's paper (p. 12691), they describe that they used a "third cumulant" to account for anharmonic corrections, but I'm not sure how exactly this is implemented.
It is something that you request in a feff.inp file, or is it a path parameter for IFEFFIT to include in its calculations?
I am using Artemis on Mac OS X 10.6 (thanks to iXAFS 2.1.1 beta!!) to execute FEFF 7 calculations and fit my data. I noticed parameters called "3rd" and "4th" in the path dialog; is "3rd" the same parameter as, for example, the sigma_sub_i_superscript_(3) term in eqn (2) of Frenkel et al. (2001)?
Thanks for reading this lengthy note...
Aaron
In fact, an article (attached) about such surface-induced disorder and its effect on EXAFS analysis of nanoparticles just came out today, written by another Aaron... Anatoly ________________________________ From: ifeffit-bounces@millenia.cars.aps.anl.gov on behalf of Scott Calvin Sent: Fri 3/26/2010 1:25 PM To: XAFS Analysis using Ifeffit Subject: Re: [Ifeffit] Anharmonic correction Hi Aaron, I find a nearest-neighbor third cumulant is frequently a useful parameter for nanoscale materials. It's not just the anharmonicity of individual bonds, it's also the anharmonicity of the distribution of environments. In other words, in nanoscale materials there are core atoms and surface atoms, atoms one monolayer below the surface, and so on. (Or, in your case, read "interface" for "surface.") The atoms on the surface may very well have interatomic distances a bit different from those further in, and that distribution is often not symmetric, for essentially the same reason that thermal vibrations are not symmetric: it's energetically more favorable to stretch a bond from equilibrium than to compress it by the same amount. To use a third cumulant in Artemis, go to the Paths menu and check "extended path parameters." The path dialogs will then include a blank for "3rd," which is the third cumulant in the literature. It is then used like any other path parameter. (Or, of course, you can access it through IFEFFIT scripts, again using "3rd.") --Scott Calvin Sarah Lawrence College On Mar 26, 2010, at 1:13 PM, Aaron Slowey wrote:
Dear XAFS community:
I am fitting Hg L3-edge EXAFS of what I think are mercury sulfide nanoparticles. I fit Fourier filtered 1st shell Hg-to-Sulfur pair correlations for 5 spectra and obtain interatomic distances (r) that are 0.2 angstroms shorter than a cubic HgS(s) (i.e., metacinnabar) and Hg-to-S coordination numbers (N) that range from 2.6 to 3.0 (compared to N = 4 for metacinnabar). Delta_E0 values are less than a few eV, so I think the r's are not 'incorrect' as far as these preliminary fits are based on harmonic atomic vibrations/Gaussian pair-distribution functions.
What intrigues me most about these data is that the fitted N's are consistent with the average 1st-shell Hg-S coordinations of 1 to 2 nm HgS clusters obtained by isotropically truncating the metacinnabar crystal lattice. In one case, I can also fit first- nearest Hg neighbors in the first shell, and this N is also consistent with a 1 nm HgS cluster.
My objective is to scrutinize the tentative conclusion that the mercury sulfides in the samples consist of 1 to 2 nm subunits (within a larger aggregate, as determined by DLS). For instance, while the fitted N's are consistent with nanoclusters, the assumption of a metacinnabar lattice to estimate N of nanoclusters is undermined by the shorter interatomic distances fitted to the data. This got me reading the work of Manceau and Combes from the late 1980s and Frenkel et al. (2001) J. Phys. Chem. B. In Frenkel's paper (p. 12691), they describe that they used a "third cumulant" to account for anharmonic corrections, but I'm not sure how exactly this is implemented.
It is something that you request in a feff.inp file, or is it a path parameter for IFEFFIT to include in its calculations?
I am using Artemis on Mac OS X 10.6 (thanks to iXAFS 2.1.1 beta!!) to execute FEFF 7 calculations and fit my data. I noticed parameters called "3rd" and "4th" in the path dialog; is "3rd" the same parameter as, for example, the sigma_sub_i_superscript_(3) term in eqn (2) of Frenkel et al. (2001)?
Thanks for reading this lengthy note...
Aaron
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participants (3)
-
Aaron Slowey -
Frenkel, Anatoly -
Scott Calvin