Re: [Ifeffit] Effect of gradual thickness variation in beam

2016-01-29 Thread Jason Gaudet
nd mu(E) reproducibility as a function of slit width. While a bit of a bother, it's still worth it to keep our sample prep simple and inexpensive. Thanks, Jason On Thu, Jan 28, 2016 at 9:12 AM, Bruce Ravel <bra...@bnl.gov> wrote: > On 01/27/2016 07:05 PM, Jason Gaudet wrote: > >> I'm plan

[Ifeffit] Effect of gradual thickness variation in beam

2016-01-27 Thread Jason Gaudet
Sample cell Hi all, I'm planning on some transmission-mode XAS with smaller than usual sample tubes. I'm realizing I might be in danger of creating excessive non-uniformity in my samples by having the beam size on the same order of magnitude as the sample tube radius. For example, let's say I

Re: [Ifeffit] Data being overwritten in Artemis history window

2015-03-15 Thread Jason Gaudet
Some of us are blessed with Fourier eyes, others with QFS memory. :) Honestly, I remembered because the event gave me an aversion to ever using QFS in a large Artemis project, and when I saw a similar issue on the list I recalled why I avoid QFS. I think in the changelog you mentioned whatever

Re: [Ifeffit] Regarding a fit for Fe(OTf)2

2014-12-03 Thread Jason Gaudet
Hi Pushkar, Do you have a reliable source that tells you what Fe-O and Fe-S bond distances and coordination your iron triflate should have? I'm not familiar with iron triflate but I was under the impression Fe was coordinated to the sulfonate through an oxygen? And if so, even if your sample

Re: [Ifeffit] Regarding a fit for Fe(OTf)2

2014-12-03 Thread Jason Gaudet
PM, Jason Gaudet jason.r.gau...@gmail.com wrote: Hi Pushkar, Do you have a reliable source that tells you what Fe-O and Fe-S bond distances and coordination your iron triflate should have? I'm not familiar with iron triflate but I was under the impression Fe was coordinated to the sulfonate

Re: [Ifeffit] Can the degeneracy (N) in Artemis be a variable?

2014-07-26 Thread Jason Gaudet
I assume you mean you can't assign a [variable] to N. It's a quirk of FEFF that the value of N for a path must be a number (perhaps even an integer?) but amplitude may be any number or a variable. For that reason it's typical (or at least common practice in my experience) to leave N as 1 and

Re: [Ifeffit] LCF

2013-11-07 Thread Jason Gaudet
It depends how you want to set up your guess-def-set parameters. For argument I'll describe a system of BCC Mo metal and MoO3, where you want to determine what fraction of Mo is in each. My usual method is just to set each path as N=1, SO2=amp_O for Mo-O, and N=1, SO2=amp_Mo for Mo-Mo. Then, in

Re: [Ifeffit] linear combination fitting

2013-11-06 Thread Jason Gaudet
Hi Qingyu, Each Mo absorber contributes to the spectrum equally, so if you think you have a good analysis that indicates x% of Mo scatterers are most similar to Li2MoO3 and 100-x% are most similar to MoO3, those are simply atomic percentages. All you have to do is convert the atomic% to mass%

Re: [Ifeffit] Peak assignment and ionization potential with FEFF

2013-09-13 Thread Jason Gaudet
Hi Ross, The impression I get from this question (and it might be wrong) is that you're very new to XAS and you're asking a question about a particular tool for x-ray absorption spectroscopy prior to understanding what an x-ray absorption spectrum actually is. If that's the case, this mailing

[Ifeffit] Disable duplicate data group check

2013-06-21 Thread Jason Gaudet
Hi all, Not a bug this time, but a feature that occasionally frustrates me. Artemis does a sanity check prior to fitting, and if it detects a project has two instances of the same Athena data group, it will refuse to fit the new data. IME this is not a particularly helpful warning, and a major

Re: [Ifeffit] generating high res figures

2013-03-26 Thread Jason Gaudet
And to do this, use the Artemis Plot dialog box to generate the chart you want (e.g. the data and fit in magnitude R-space), click the Save Next Plot to File button at the very bottom of the dialog box, and click the correct plot button at the top (e.g. R). This lets you save the plot as an ASCII

Re: [Ifeffit] plotting

2013-03-26 Thread Jason Gaudet
This list of alternatives is pretty near exhaustive: http://alternativeto.net/software/originlab/ Although I personally use Origin. On Tue, Mar 26, 2013 at 5:07 PM, Scott Calvin scal...@sarahlawrence.eduwrote: Hi Eva, Personally, I'm pretty happy with Pro Fit. It's a commercial product

Re: [Ifeffit] Different R-factor values

2013-01-25 Thread Jason Gaudet
Hi Chris, Might be helpful also to link to the archived thread you're talking about. http://millenia.cars.aps.anl.gov/pipermail/ifeffit/2006-June/007048.html Bruce might have to correct me on this, but if I remember right there were individual-data-set R-factor and chi-square calculations at

Re: [Ifeffit] references

2013-01-22 Thread Jason Gaudet
Hi Soma! Google S02 transferability site:http://millenia.cars.aps.anl.gov/; and you'll find lots of messages on the subject if you haven't already. There's a post from Bruce on May 4 2010 where he writes: Recent work from John Rehr's group has elaborated on this, demonstrating that S02 is, in

Re: [Ifeffit] Determining errors in R_fit

2012-11-16 Thread Jason Gaudet
Since R_eff is constant, surely all you need to do is multiply R_eff by the uncertainty in alpha? That will be the uncertainty in delta_R and R_fit. The program is only giving you statistically-derived uncertainty for the values it fits; the user needs to determine how to propagate or otherwise

Re: [Ifeffit] Demeter will not start without admin permissions

2012-09-17 Thread Jason Gaudet
Thanks Matt, this was helpful in directing my troubleshooting. Somehow, the problem seemed to resolve itself today without my intervention. So I'm again stumped, but I'm stumped with a perfectly functional version of Demter again. Maybe recent Java updates changed something, or some other

Re: [Ifeffit] How to write feff.inp file for CO adsorbed Cu?

2012-09-06 Thread Jason Gaudet
Tian, Thanks for these articles, although I think they (kind of) confirm what I was saying before. As you say, the Phys Rev article was taken at the O K edge, not the Cu K edge, so of course it's going to probe O-C-Cu structure much more effectively than using a Cu absorber. (Although that's

[Ifeffit] Demeter will not start without admin permissions

2012-08-31 Thread Jason Gaudet
Hi all, I came across another Demeter startup issue that seems different from the mingw and perl conflicts previously discussed, and I'm pretty stumped. System: Demeter 0.9.10 on Windows 7 32bit Issue: All Demeter apps (dathena.bat, dartemis.bat, etc.) will no longer run as a user. Apps will

Re: [Ifeffit] Importing data to Athena crashes on WinXP

2012-08-13 Thread Jason Gaudet
Hi Bradley, I'm using 0.9.10 on Win7 and I'm seeing the same thing. The problem might be related to initializing the plot window with the Athena: Column Selection dialog when the file being read has a large number of columns. I can load this file into an already-existing project without a

Re: [Ifeffit] AuPd CIF

2012-02-23 Thread Jason Gaudet
I don't think the CIF can be described any way other than as fractional occupancy of the Au (or Pd) site, which ATOMS is not designed for. For Au L3 fitting of FCC alloys like this I would usually use ATOMS to make a FEFF input file for Au, substitute every scatterer in the FEFF input with Pd,

[Ifeffit] PdO reference

2011-11-03 Thread Jason Gaudet
Hello! I've recently written an atoms input file for palladium (II) oxide (PdO) that fits well to some experimental data. Unfortunately, I do not have access to a PdO reference to validate the structure. We will probably run PdO on the same beamline in the near future, but until then it'd be

Re: [Ifeffit] PdO reference

2011-11-03 Thread Jason Gaudet
Excellent, thanks! On Thu, Nov 3, 2011 at 1:35 PM, David Sprouster sprous...@gmail.com wrote: Jason: The famous Lytle database actually has a couple of PdO sample spectra (link below). I think they can also be opened in the newest version of Athena as-well.

Re: [Ifeffit] atoms.inp files

2010-05-10 Thread Jason Gaudet
/mailman/listinfo/ifeffit -- Jason Gaudet Environmental Catalysis and Nanomaterials Laboratory Department of Chemical Engineering Virginia Tech 147B Randolph Hall Blacksburg, VA 24061 540-231-9371 jgau...@vt.edu ___ Ifeffit mailing list Ifeffit

Re: [Ifeffit] Fwd: Mg k-edge and Athena Questions

2009-10-08 Thread Jason Gaudet
that there are beamlines at the ALS that can do XAS in that energy range. Examples from even farther afield would inlcude the Lucia beamline at Soleil and beamline 8 at the Thai synchrotron. Perhaps some of the folks on this mailing list can suggest some other options for that energy range. -- Jason

Re: [Ifeffit] 8 coordination crystal

2009-09-15 Thread Jason Gaudet
http://millenia.cars.aps.anl.gov/mailman/listinfo/ifeffit -- Jason Gaudet Environmental Catalysis and Nanomaterials Laboratory Department of Chemical Engineering Virginia Tech 147B Randolph Hall Blacksburg, VA 24061 540-231-9371 jgau...@vt.edu