[Ifeffit] Differences between fluorescence and transmission of the same sample
Ditty Dixon
ditty.dixon at gmail.com
Fri May 14 09:40:31 CDT 2010
---------- Forwarded message ----------
From: Ditty Dixon <ditty.dixon at gmail.com>
Date: Fri, May 14, 2010 at 4:35 PM
Subject: Re: Ifeffit Digest, Vol 87, Issue 18
To: ifeffit at millenia.cars.aps.anl.gov
Hello Carlo,
Thank you so much.
We already tried with other catalyst like RuSe and CoSe. What was more
exiting for me was the similarity between the data for anode pellet, cathode
removed, and fluo data(attachment).
Actually we want to generate exact conditions in a Direct Methanol fuel cell
(methanol crossover and starvation), so we still like to keep both pt system
there.
Thank you once again,
Ditty
On Fri, May 14, 2010 at 3:09 PM,
<ifeffit-request at millenia.cars.aps.anl.gov>wrote:
> Send Ifeffit mailing list submissions to
> ifeffit at millenia.cars.aps.anl.gov
>
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> or, via email, send a message with subject or body 'help' to
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> When replying, please edit your Subject line so it is more specific
> than "Re: Contents of Ifeffit digest..."
>
>
> Today's Topics:
>
> 1. Re: fitting (Iztok Ar?on)
> 2. Re: Differences between fluorescence and transmission of the
> same sample (Carlo Segre)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Fri, 14 May 2010 08:59:20 +0200
> From: Iztok Ar?on <iztok.arcon at ung.si>
> To: XAFS Analysis using Ifeffit <ifeffit at millenia.cars.aps.anl.gov>
> Subject: Re: [Ifeffit] fitting
> Message-ID: <4BECF4C8.2090302 at ung.si>
> Content-Type: text/plain; charset="iso-8859-2"; Format="flowed"
>
> Dear Mohamed,
>
> There is an example of CeO2 EXAFS analysis, taking into account
> background problems,
> in the following paper:
> *J. Pade?nik Gomil?ek, I. Kozjek-?kofic, N. Bukovec, A. Kodre
> */X-ray absorption study of CeO2 and Ce/V mixed oxide thin films
> obtained by sol-gel deposition. /*
> *Thin solid films, vol. 446, issue 1, (2004) 117-123.
> regards
> Iztok Arcon
>
> mohamed sobhy wrote:
>
> > Dear all
> > I am trying to use artemis to do fitting to CeO2. But really I cant
> > get the right way to do that.
> > During the fitting, I am using amp as set and change in N degeneracy
> > of the path. attached is the best fit i got but it still not good and
> > the chi-square is 41.109065479
> > so can you suggest me what to do
> >
> > thanks
> >
> > Mohamed
> >
> >
> >------------------------------------------------------------------------
> >
> >_______________________________________________
> >Ifeffit mailing list
> >Ifeffit at millenia.cars.aps.anl.gov
> >http://millenia.cars.aps.anl.gov/mailman/listinfo/ifeffit
> >
> >
>
>
> --
> Iztok Arcon
> University of Nova Gorica
> Vipavska 13, POB 301
> 5001 Nova Gorica, Slovenia
>
> tel: +386 5 331 5227
> fax: +386 5 331 5240
> e-mail: iztok.arcon at ung.si
> http://www.ung.si/~arcon <http://www.ung.si/%7Earcon>
> http://www.ung.si/~arcon/xas <http://www.ung.si/%7Earcon/xas>
>
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> ------------------------------
>
> Message: 2
> Date: Fri, 14 May 2010 08:09:47 -0500 (CDT)
> From: Carlo Segre <segre at iit.edu>
> To: XAFS Analysis using Ifeffit <ifeffit at millenia.cars.aps.anl.gov>
> Subject: Re: [Ifeffit] Differences between fluorescence and
> transmission of the same sample
> Message-ID: <alpine.DEB.2.00.1005140759280.2689 at hydride.iit.edu>
> Content-Type: TEXT/PLAIN; charset=US-ASCII; format=flowed
>
>
> Hello Ditty:
>
> The problem you have can be solved by not using platinum on both sides.
> in our group, we just use Pd on the side we are not interested in for a
> particular experiment, be it anode [0-2] or cathode[3]. As for the
> qustion about the difference in the two sides in fluorescence mode. It is
> likely that there is a difference but given that the MEA probably uses a
> polymer such as nafion means that it is realativley transparent to
> fluorescence at the Pt L-alpha energy. This means that you have both
> sides present in the fluorescence, just to different degrees. i am sure
> that it is possible to get some kind of notion of the difference using
> such a mixed signal but I don't think you can really do much quantitative
> analysis. If you add the fact that the "back" side fluorescence is
> screened differently than the "front" side because of flow channel
> geometry and other such obstacles, it becomes a very difficult problem.
> The question you need to ask yourself is whether it is absolutely
> necessary to have Pt on both electrodes or whether you can draw the
> conclusions you want by using a less ideal electrode material on the sid
> you are not studying. This is the approach we have taken.
>
> Cheers,
>
> Carlo
>
>
> [0] R. Viswanathan, G. Hou, R. Liu, S.R. Bare, F. Modica, G. Mickelson,
> C.U. Segre, N.E. Leyarovska, T. Chikyow and E.S. Smotkin, J. Phys. Chem. B
> 106, 3458 (2002).
>
> [1] S. Stoupin, E-H. Chung, S. Chattopadhyay, C.U. Segre and E.S. Smotkin,
> J. Phys. Chem. B 110, 9932 (2006).
>
> [2] S. Stoupin, H. Rivera, Z. Li, C.U. Segre, C. Korzeniewski, D.J.
> Casadonte, H. Inoue and E.S. Smotkin, Phys. Chem. Chem. Phys. 10,
> 6430-6437 (2008).
>
> [3] Q. Jia, E.A. Lewis, E.S. Smotkin, and C.U. Segre, J. Phys. Conf.
> Series 190, 012157 (2009)
>
> On Fri, 14 May 2010, Ditty Dixon wrote:
>
> > Hello ifeffit users,
> >
> > I am working in the area of In-situ XAS analysis of Fuel cell catalyst.
> The
> > heart of the fuel cell, MEA(membrane electrode assembly) consist of
> nafion
> > membrane and the catalyst sprayed on both sides which act as Cathode and
> > Anode(the whole max thickness 1mm). I have a system where Platinum is a
> > common metal catalyst for both anode and cathode, with anode made of
> alloy
> > of Pt and Ru(nano) ,and Cathode pure Pt(both 2mg/cm2 metal loading).
> >
> > An In-situ transmission XAS measurements on such a system gives no
> > information as the transmission signal will contain both Pt signal from
> > anode and cathode and two different process taking place oxidation and
> > reduction. So we deal with the situation by removing the catalyst from
> one
> > side.
> >
> > But when we did our measurements in fluorescence(without removing any
> > catalyst) we got two different signals when we turned the cell 180
> degree.
> > If the anode was facing the fluo detector we got characteristic signal
> for
> > Pt/Ru alloy(dampening in FT) and when cathode was facing, that of pure
> Pt.
> > Is this a solution to separate the signals from anode and cathode without
> > removing any catalyst?. I have attached the file for the fluorescence
> > measurements for my MEA.
> >
> > Thanks in Advance,
> >
> > Ditty
> >
> >
> >
> > On Wed, May 5, 2010 at 5:43 PM,
> > <ifeffit-request at millenia.cars.aps.anl.gov>wrote:
> >
> >> Send Ifeffit mailing list submissions to
> >> ifeffit at millenia.cars.aps.anl.gov
> >>
> >> To subscribe or unsubscribe via the World Wide Web, visit
> >> http://millenia.cars.aps.anl.gov/mailman/listinfo/ifeffit
> >> or, via email, send a message with subject or body 'help' to
> >> ifeffit-request at millenia.cars.aps.anl.gov
> >>
> >> You can reach the person managing the list at
> >> ifeffit-owner at millenia.cars.aps.anl.gov
> >>
> >> When replying, please edit your Subject line so it is more specific
> >> than "Re: Contents of Ifeffit digest..."
> >>
> >>
> >> Today's Topics:
> >>
> >> 1. Re: Differences between fluorescence and transmission of the
> >> same sample (Bruce Ravel)
> >> 2. Re: Ifeffit Digest, Vol 87, Issue 4 (Bruce Ravel)
> >> 3. Differences between fluorescence and transmission of the same
> >> sample (Andrew Campos)
> >> 4. Re: Differences between fluorescence and transmission of the
> >> same sample (Ditty Dixon)
> >>
> >>
> >> ----------------------------------------------------------------------
> >>
> >> Message: 1
> >> Date: Wed, 5 May 2010 10:30:18 -0400
> >> From: Bruce Ravel <bravel at bnl.gov>
> >> To: XAFS Analysis using Ifeffit <ifeffit at millenia.cars.aps.anl.gov>
> >> Subject: Re: [Ifeffit] Differences between fluorescence and
> >> transmission of the same sample
> >> Message-ID: <201005051030.18579.bravel at bnl.gov>
> >> Content-Type: Text/Plain; charset="iso-8859-15"
> >>
> >> Andrew,
> >>
> >> I suspect that you are seeing what Grant refers to in his tutorials as
> >> "leakage". That is, your transmission data appears to my eye to be
> >> what happens when you have a wide spread in sample thickness under the
> >> beam, ranging from gaps to very thick particles.
> >>
> >> If you go to
> >>
> >> http://gbxafs.iit.edu/training/tutorials.html
> >>
> >> And follow the link to the "Sample preparation" presentation, the
> >> effect of leakage is shown on slide 16.
> >>
> >> On the following slide, Grant points out that this thickness effect
> >> always reduces amplitudes. That is the case above the edge for your
> >> data. And if you normalize data distorted in that way, you end up
> >> with an artificially enhanced pre-edge peak, again as in your data.
> >>
> >> My US$0.02,
> >> B
> >>
> >>
> >> On Wednesday 05 May 2010 09:55:16 am Andrew Campos wrote:
> >>> Hi everyone,
> >>>
> >>> My lab mates are running in-situ H2 reduction of Cobalt/SiO2 catalysts
> >>> using the Co K-edge and are obtaining differences between the
> >>> fluorescence and transmission signals. The in-situ cell does have
> >>> quite a bit of sample thickness (2-3 mm approx) and I was wondering if
> >>> the fluorescence signal only has a penetration depth of a few
> >>> micrometers. If this is the case that would explain it where the side
> >>> that is further away from the heating element is more oxidized than
> >>> the rest of the sample.
> >>>
> >>> Has anyone run into this problem before? We're using the basic
> >>> furnace/cryostat unit (in-situ cell manufactured by the exafsco) and a
> >>> 13 element fluorescence detector (germanium diode).
> >>>
> >>> I appreciate any insight into the issue, I have attached a
> >>> fluorescence and transmission spectrum collected at the same time
> >>> where the transmission and fluorescence are in the .prj file.
> >>>
> >>> Thanks so much!
> >>> Andrew
> >>>
> >>
> >> --
> >>
> >> Bruce Ravel ------------------------------------ bravel at bnl.gov
> >>
> >> National Institute of Standards and Technology
> >> Synchrotron Methods Group at NSLS --- Beamlines U7A, X24A, X23A2
> >> Building 535A
> >> Upton NY, 11973
> >>
> >> My homepage: http://xafs.org/BruceRavel
> >> EXAFS software: http://cars9.uchicago.edu/~ravel/software/exafs/<http://cars9.uchicago.edu/%7Eravel/software/exafs/>
> <http://cars9.uchicago.edu/%7Eravel/software/exafs/>
> >>
> >>
> >> ------------------------------
> >>
> >> Message: 2
> >> Date: Wed, 5 May 2010 10:39:14 -0400
> >> From: Bruce Ravel <bravel at bnl.gov>
> >> To: XAFS Analysis using Ifeffit <ifeffit at millenia.cars.aps.anl.gov>
> >> Subject: Re: [Ifeffit] Ifeffit Digest, Vol 87, Issue 4
> >> Message-ID: <201005051039.14501.bravel at bnl.gov>
> >> Content-Type: Text/Plain; charset="iso-8859-1"
> >>
> >> On Wednesday 05 May 2010 07:56:47 am baran yildirim wrote:
> >>> My problem is similar; I am trying to simulate a doped crystal
> >>> (different than chp 10 in Atemis doc, this time impurity atom is
> >>> subjected to XAS) and the host is similar to inverse-spinel type:
> >>> include both tetrahedral and octahedral sites in its structure. The
> >>> dopant may settle in tetrahedral or octahedral sites.
> >>
> >> Indeed. Similar enough that you also should read the paper by Scott
> >> Calvin that I suggested to Maria Elena.
> >>
> >>> 1- I managed to simulate the doped structure as changing the FEFF inp
> >>> file manually (first I run Atoms as if impurity ions settle in all
> >>> sites and then keep it in 0 potential and change the 1st potential
> >>> with the original atom) and did it for both sites, thus i have 2 batch
> >>> of paths and then fit it. It seems it works (Question: Do you think
> >>> what i am doing is logical? or any other suggestion? )
> >>
> >> I think that's a good approach.
> >>
> >> Question 15 at
> >>
> >> http://cars9.uchicago.edu/ifeffit/FAQ/FeffitModeling
> >>
> >> gives a bit more information. The link to the page authored by Scott
> >> is quite useful.
> >>
> >>
> >>> 2- But problems do not end :) Another problem is impurity ion may
> >>> take different valences: it can be trivalent or divalent. In FEFF 9.0
> >>> i found kinda solution using ION command, it doesnt do what i
> >>> exactly want but i can get some idea on what happens if the charge
> >>> distribution changes. But unfortunately, i cant try it in ARTEMIS
> >>> since i can not install FEFF 9.0 in ARTEMIS. As far as i understood
> >>> the program structure is changed completely. But I didnt give up :)I
> >>> generated the chi file in FEFF 9.0 and load it in ARTEMIS and continue
> >>> to analyze but the results are not promising. (Question: Is there any
> >>> way to run it together? and any suggestion in changing the valance? )
> >>
> >> Artemis does not support Feff9 at this time.
> >>
> >> I actually have not played around with Feff9 yet, myself, so I won't
> >> be able to help with the rest. Perhaps one of the Seattlites can help
> >> ....
> >>
> >> B
> >>
> >>
> >> --
> >>
> >> Bruce Ravel ------------------------------------ bravel at bnl.gov
> >>
> >> National Institute of Standards and Technology
> >> Synchrotron Methods Group at NSLS --- Beamlines U7A, X24A, X23A2
> >> Building 535A
> >> Upton NY, 11973
> >>
> >> My homepage: http://xafs.org/BruceRavel
> >> EXAFS software: http://cars9.uchicago.edu/~ravel/software/exafs/<http://cars9.uchicago.edu/%7Eravel/software/exafs/>
> <http://cars9.uchicago.edu/%7Eravel/software/exafs/>
> >>
> >>
> >> ------------------------------
> >>
> >> Message: 3
> >> Date: Wed, 5 May 2010 11:24:16 -0400
> >> From: Andrew Campos <acampo2 at tigers.lsu.edu>
> >> To: ifeffit at millenia.cars.aps.anl.gov
> >> Subject: [Ifeffit] Differences between fluorescence and transmission
> >> of the same sample
> >> Message-ID:
> >> <z2md94177571005050824k8abda3a0n708eaada202fdc6e at mail.gmail.com>
> >> Content-Type: text/plain; charset="iso-8859-1"
> >>
> >> Dr. Ravel,
> >>
> >> Thanks so much for the link and the advice! I appreciate it greatly. I
> >> will advise my lab mates as such and may have to only use the
> >> fluorescence data if that is indeed the case.
> >>
> >> I also included the file where the lower temperature is included and
> >> you might come to the same conclusion. The samples that I ran were
> >> pre-sieved, and the ones included in the .prj file aren't so that
> >> should be pursued prior to running the experiment. If they crush the
> >> particle and sieve the sample, I think that we can be more certain
> >> that this is not the case. This was very helpful!
> >>
> >> Andrew
> >> -------------- next part --------------
> >> A non-text attachment was scrubbed...
> >> Name: Fluorescence and transmission.prj
> >> Type: application/octet-stream
> >> Size: 13112 bytes
> >> Desc: not available
> >> URL: <
> >>
> http://millenia.cars.aps.anl.gov/pipermail/ifeffit/attachments/20100505/d4d81d96/attachment-0001.obj
> >>>
> >>
> >> ------------------------------
> >>
> >> Message: 4
> >> Date: Wed, 5 May 2010 17:42:59 +0200
> >> From: Ditty Dixon <ditty.dixon at gmail.com>
> >> To: ifeffit at millenia.cars.aps.anl.gov
> >> Subject: Re: [Ifeffit] Differences between fluorescence and
> >> transmission of the same sample
> >> Message-ID:
> >> <j2j6d89d2891005050842y193522e0i5deed33ab905627f at mail.gmail.com>
> >> Content-Type: text/plain; charset="iso-8859-1"
> >>
> >> Hello Andrew,
> >>
> >> We have similar situation in our fuel cell in-situ measurements, our
> >> membrane electrode assembly having a thickness approx 1mm is usually
> coated
> >> with Pt/C on one side(Cathode), and PtRu/C(alloy) on the other
> side(anode).
> >> We usually get a pronounced signal of the sample facing the fluorescence
> >> detector. For eg in our case if the Anode is facing the fluorescence
> >> detector we get a lower white line and a splitting in the FT which is
> >> characteristic of the Pt/Ru alloy nanoparticles and the transmission
> signal
> >> is completely different.
> >>
> >> Best Wishes,
> >>
> >> Ditty
> >>
> >>
> >>
> >> On Wed, May 5, 2010 at 3:55 PM,
> >> <ifeffit-request at millenia.cars.aps.anl.gov>wrote:
> >>
> >>> Send Ifeffit mailing list submissions to
> >>> ifeffit at millenia.cars.aps.anl.gov
> >>>
> >>> To subscribe or unsubscribe via the World Wide Web, visit
> >>> http://millenia.cars.aps.anl.gov/mailman/listinfo/ifeffit
> >>> or, via email, send a message with subject or body 'help' to
> >>> ifeffit-request at millenia.cars.aps.anl.gov
> >>>
> >>> You can reach the person managing the list at
> >>> ifeffit-owner at millenia.cars.aps.anl.gov
> >>>
> >>> When replying, please edit your Subject line so it is more specific
> >>> than "Re: Contents of Ifeffit digest..."
> >>>
> >>>
> >>> Today's Topics:
> >>>
> >>> 1. Re: Ifeffit Digest, Vol 87, Issue 4 (baran yildirim)
> >>> 2. Differences between fluorescence and transmission of the same
> >>> sample (Andrew Campos)
> >>>
> >>>
> >>> ----------------------------------------------------------------------
> >>>
> >>> Message: 1
> >>> Date: Wed, 5 May 2010 14:56:47 +0300
> >>> From: baran yildirim <yildirimbaran at gmail.com>
> >>> To: ifeffit at millenia.cars.aps.anl.gov
> >>> Subject: Re: [Ifeffit] Ifeffit Digest, Vol 87, Issue 4
> >>> Message-ID: <C5C497A1-0207-4F6E-9167-3840543BC7E9 at gmail.com>
> >>> Content-Type: text/plain; charset=US-ASCII; format=flowed; delsp=yes
> >>>
> >>> Dear IFEFFIT researchers,
> >>>
> >>> My problem is similar; I am trying to simulate a doped crystal
> >>> (different than chp 10 in Atemis doc, this time impurity atom is
> >>> subjected to XAS) and the host is similar to inverse-spinel type:
> >>> include both tetrahedral and octahedral sites in its structure. The
> >>> dopant may settle in tetrahedral or octahedral sites.
> >>> 1- I managed to simulate the doped structure as changing the FEFF inp
> >>> file manually (first I run Atoms as if impurity ions settle in all
> >>> sites and then keep it in 0 potential and change the 1st potential
> >>> with the original atom) and did it for both sites, thus i have 2 batch
> >>> of paths and then fit it. It seems it works (Question: Do you think
> >>> what i am doing is logical? or any other suggestion? )
> >>> 2- But problems do not end :) Another problem is impurity ion may
> >>> take different valences: it can be trivalent or divalent. In FEFF 9.0
> >>> i found kinda solution using ION command, it doesnt do what i
> >>> exactly want but i can get some idea on what happens if the charge
> >>> distribution changes. But unfortunately, i cant try it in ARTEMIS
> >>> since i can not install FEFF 9.0 in ARTEMIS. As far as i understood
> >>> the program structure is changed completely. But I didnt give up :)I
> >>> generated the chi file in FEFF 9.0 and load it in ARTEMIS and continue
> >>> to analyze but the results are not promising. (Question: Is there any
> >>> way to run it together? and any suggestion in changing the valance? )
> >>> 3-Final problem "The concentration of the dopant in the structure". I
> >>> tried to change the occupancy, there is no option in "feff inp" but
> >>> just SO2 parameter, i changed the SO2 parameters as suggested in
> >>> previous mail, although I can not guess the SO2 parameter changing
> >>> with the occupancy. The results are not satisfactory, initial trial
> >>> with just one octa & one tetra configuration seems more logical. Again
> >>> i didnt give up; I generated another crude solution: there are 30
> >>> sites in unit cell and %10 concentration means doping in 3 sites, so
> >>> i generated 2 octa 1 tetra batch of paths(and vice versa) and tried to
> >>> merge&fit it. But still no success and then i gave up !! (Question:
> >>> Any help?? )
> >>> 4- Extra problem regarding FEFF 9.0. I change the paths dat file
> >>> manually and unclick the paths box and give arbitrary feff inp file. I
> >>> thought it has a modular structure and all modules read the previous
> >>> file as an input, so whatever i give as a feff inp the final graph is
> >>> the result of paths.dat is my assumption right?
> >>>
> >>>
> >>> Thanks in advance for your help
> >>> Regards,
> >>> baran
> >>>
> >>>
> >>> On May 4, 2010, at 8:00 PM, ifeffit-request at millenia.cars.aps.anl.gov
> >>> wrote:
> >>>
> >>>> Send Ifeffit mailing list submissions to
> >>>> ifeffit at millenia.cars.aps.anl.gov
> >>>>
> >>>> To subscribe or unsubscribe via the World Wide Web, visit
> >>>> http://millenia.cars.aps.anl.gov/mailman/listinfo/ifeffit
> >>>> or, via email, send a message with subject or body 'help' to
> >>>> ifeffit-request at millenia.cars.aps.anl.gov
> >>>>
> >>>> You can reach the person managing the list at
> >>>> ifeffit-owner at millenia.cars.aps.anl.gov
> >>>>
> >>>> When replying, please edit your Subject line so it is more specific
> >>>> than "Re: Contents of Ifeffit digest..."
> >>>>
> >>>>
> >>>> Today's Topics:
> >>>>
> >>>> 1. Re: fitting simultaneously two different K-edges (Matt Newville)
> >>>> 2. S02 parameter (Enzo Liotti)
> >>>> 3. Re: S02 parameter (Bruce Ravel)
> >>>> 4. expected network outage to millenia.cars.aps.anl.gov
> >>>> (Matt Newville)
> >>>>
> >>>>
> >>>> ----------------------------------------------------------------------
> >>>>
> >>>> Message: 1
> >>>> Date: Mon, 3 May 2010 20:47:02 -0500
> >>>> From: Matt Newville <newville at cars.uchicago.edu>
> >>>> To: XAFS Analysis using Ifeffit <ifeffit at millenia.cars.aps.anl.gov>
> >>>> Subject: Re: [Ifeffit] fitting simultaneously two different K-edges
> >>>> Message-ID:
> >>>> <p2tb8522e3d1005031847g176e6685k2c078e39a247135b at mail.gmail.com
> >
> >>>> Content-Type: text/plain; charset=UTF-8
> >>>>
> >>>> Dear Maria,
> >>>>
> >>>> If you haven't already done so, I would suggest that you begin by
> >>>> separately fitting the data for each edge on each sample. This will
> >>>> give you a good understanding of the local structure around each metal
> >>>> ion. Once you have this intimacy with the structural models, you
> >>>> will be able to tell what might be constrained between the two
> >>>> different metal atoms. Once you get to that point, getting the
> >>>> software to combine the fits will not seem very hard ;).
> >>>>
> >>>>
> >>>> --Matt
> >>>>
> >>>>
> >>>> 2010/5/1 Mar?a Elena Montero Cabrera <elena.montero at cimav.edu.mx>:
> >>>>> Dear friends, Sam Webb, Bruce Ravel or any other,
> >>>>>
> >>>>> I have XAFS measurements, performed at SSRL at room temperature, of
> >>>>> three
> >>>>> compounds. All compounds have multielemental character and I have K-
> >>>>> edge
> >>>>> XAFS of two elements in each compound. It is desirable to make
> >>>>> IFEFFIT
> >>>>> fitting of both edges simultaneously. In all cases random solution of
> >>>>> competing elements is assumed, but there are ferroelectricity,
> >>>>> superconductivity or magnetic behaviors that are desirable to be
> >>>>> explained.
> >>>>> In each case, XAFS would confirm or reject the random character of
> >>>>> the
> >>>>> solution. I am not such an expert for resolving by myself how to fit
> >>>>> together two edges using Artemis software. I'll present each case
> >>>>> in the
> >>>>> following:
> >>>>>
> >>>>> 1. rutheno-cuprate (Ru1-xNbx)Sr2Eu1.4 Ce0.6Cu2O10+? compounds
> >>>>> series was
> >>>>> studied in both Ru and Nb K-edges. Changes in interatomic distances
> >>>>> that
> >>>>> could be obtained by EXAFS would tell something about oxygen
> >>>>> octahedra
> >>>>> around Ru and Nb.
> >>>>>
> >>>>> 2. g-Fe1-xCrxO3 maghemite for x=0.25, 0.5 and 0.75 was investigated
> >>>>> by XAFS
> >>>>> in both Fe and Cr K-edges. Possible distortion of oxygen octahedra
> >>>>> around
> >>>>> both Fe(III) and Cr(III) cations would tell something about not
> >>>>> confirmed
> >>>>> ferroelectricity.
> >>>>>
> >>>>> 3. LaFeNiTiO3 has been confirmed to display magnetic behavior and was
> >>>>> studied by its Fe and Ti K-edges. Interatomic distances that could be
> >>>>> obtained by EXAFS are interesting for checking possible preferential
> >>>>> occupation of sites by Fe or Ti atoms.
> >>>>>
> >>>>> Would any of you, please, suggest how to use Artemis or Sixpack for
> >>>>> solving
> >>>>> these problems?
> >>>>>
> >>>>> Sincerely yours
> >>>>>
> >>>>> --
> >>>>> Mar?a Elena
> >>>>>
> >>>>> Dra. Mar?a Elena Montero Cabrera
> >>>>> Departamento de Medio Ambiente y Energ?a
> >>>>> Centro de Investigaci?n en Materiales Avanzados (CIMAV)
> >>>>> Miguel de Cervantes 120, Compl. Ind. Chihuahua
> >>>>> Chihuahua CP 31109, Chih. M?xico
> >>>>> Tel (614) 4391123
> >>>>>
> >>>>> _______________________________________________
> >>>>> Ifeffit mailing list
> >>>>> Ifeffit at millenia.cars.aps.anl.gov
> >>>>> http://millenia.cars.aps.anl.gov/mailman/listinfo/ifeffit
> >>>>>
> >>>>>
> >>>>
> >>>>
> >>>> ------------------------------
> >>>>
> >>>> Message: 2
> >>>> Date: Tue, 4 May 2010 12:09:33 +0100
> >>>> From: Enzo Liotti <E.Liotti at lboro.ac.uk>
> >>>> To: "ifeffit at millenia.cars.aps.anl.gov"
> >>>> <ifeffit at millenia.cars.aps.anl.gov>
> >>>> Subject: [Ifeffit] S02 parameter
> >>>> Message-ID:
> >>>> <
> >>>
> 225D20E4A8281F4E9DCFE465D9B75D0B102BCF75D3 at STAFFMBX-1.lunet.lboro.ac.uk
> >>>>>
> >>>>
> >>>> Content-Type: text/plain; charset="us-ascii"
> >>>>
> >>>> Hello,
> >>>>
> >>>> I'm trying to use EXAFS to study the intermetallics present in a
> >>>> complex Al alloy.
> >>>> The three main phases present in the alloy are Al3Ti, Al13Cr2 and
> >>>> Al13Fe4. The first is tetragonal and the other two are monoclinic.
> >>>>
> >>>> To create the theoretical model in Artemis I inserted in Atoms the
> >>>> crystallographic informations available in literature and I run it
> >>>> and FEFF. Since in the monoclinic structure the absorbing atom
> >>>> occupies more than one position I created as many FEFF calculations
> >>>> as the number of positions of the Absorbing atom changing every time
> >>>> the core atom in the Atoms page.
> >>>>
> >>>> My question now regards the S02 parameter (path amplitude), how do I
> >>>> model it when I've got more than one FEFF calculation for a single
> >>>> compound? and how do I do when I have more than one compound with
> >>>> more than one FEFF calculation each ones (for example if I have a
> >>>> mixture of two similar intermetallics like Al3Ti and Al11Ti5 )?
> >>>>
> >>>>
> >>>> Best regards
> >>>>
> >>>> Enzo
> >>>>
> >>>> ------------------------------
> >>>>
> >>>> Message: 3
> >>>> Date: Tue, 4 May 2010 09:09:31 -0400
> >>>> From: Bruce Ravel <bravel at bnl.gov>
> >>>> To: XAFS Analysis using Ifeffit <ifeffit at millenia.cars.aps.anl.gov>
> >>>> Subject: Re: [Ifeffit] S02 parameter
> >>>> Message-ID: <201005040909.31674.bravel at bnl.gov>
> >>>> Content-Type: Text/Plain; charset="iso-8859-1"
> >>>>
> >>>> On Tuesday 04 May 2010 07:09:33 am Enzo Liotti wrote:
> >>>>> Hello,
> >>>>>
> >>>>> I'm trying to use EXAFS to study the intermetallics present in a
> >>>>> complex Al
> >>>>> alloy. The three main phases present in the alloy are Al3Ti,
> >>>>> Al13Cr2 and
> >>>>> Al13Fe4. The first is tetragonal and the other two are monoclinic.
> >>>>>
> >>>>> To create the theoretical model in Artemis I inserted in Atoms the
> >>>>> crystallographic informations available in literature and I run it
> >>>>> and
> >>>>> FEFF. Since in the monoclinic structure the absorbing atom occupies
> >>>>> more
> >>>>> than one position I created as many FEFF calculations as the number
> >>>>> of
> >>>>> positions of the Absorbing atom changing every time the core atom
> >>>>> in the
> >>>>> Atoms page.
> >>>>>
> >>>>> My question now regards the S02 parameter (path amplitude), how do
> >>>>> I model
> >>>>> it when I've got more than one FEFF calculation for a single
> >>>>> compound? and
> >>>>> how do I do when I have more than one compound with more than one
> >>>>> FEFF
> >>>>> calculation each ones (for example if I have a mixture of two similar
> >>>>> intermetallics like Al3Ti and Al11Ti5 )?
> >>>>
> >>>>
> >>>> As a purely practical matter (without any consideration of physics or
> >>>> of how the theory works), there are two options. You either make them
> >>>> all the same or you don't make them all the same.
> >>>>
> >>>> That's not a very profound answer, I admit, but if you start to
> >>>> scratch the surface, you'll eventually find a way to think about this
> >>>> sort of question.
> >>>>
> >>>> In purely statistical terms, you are asking whether or not to add more
> >>>> parameters. In this case, as in every case, that is a simple enough
> >>>> thing to test. Try making a fit with all S02 parameters the same,
> >>>> then try making a fit with two or more being different. If the fit is
> >>>> improved in the sense of the reduced chi-square being significantly
> >>>> smaller, then you may have improved the quality of the fit. Another
> >>>> way to state this question is: "Do the data support the evaluation of
> >>>> more than one such parameter?" A question of the "do the data support
> >>>> support" variety is always easy to answer -- you just try it and see.
> >>>>
> >>>> Of course, these are not arbitrary parameters -- they have specific
> >>>> meaning. In the case of S02, this parameter is a measure of the
> >>>> non-unity overlap of the electronic states of the absorbing atom
> >>>> before and after the creation of the core-hole. That is, it is
> >>>> somehow a measure of the relaxation of the electrons in the presence
> >>>> of the core hole. As such, we expect S02 to be a number around, but
> >>>> smaller than, 1.
> >>>>
> >>>> However, there are a lot of things that effect the amplitude in an
> >>>> EXAFS analysis. Problems with the sample, with the linearity of the
> >>>> detectors, with the processing of the data, or even with the theory
> >>>> can all contribute to the evaluation of the EXAFS amplitude. All
> >>>> those effects are difficult or impossible to distinguish from the
> >>>> physical S02 in a statistical sense. Thus, your measure of S02 in
> >>>> EXAFS analysis includes the effect of relaxation in the presence of a
> >>>> core-hole, but it also includes all those others issues that may or
> >>>> may not exist in your data.
> >>>>
> >>>> For many years, the concept of "chemical transferability" has been
> >>>> currency in the EXAFS community. That is, we presume that for
> >>>> properly created and measured samples of the same absorber and edge,
> >>>> the S02 value for one such sample can be used in teh analysis of
> >>>> another. Stated another way, S02 is a property of the species of the
> >>>> absorber. Some years ago, Frank Bridges and his group published such
> >>>> a survey. Recent work from John Rehr's group has elaborated on this,
> >>>> demonstrating that S02 is, in the strictest sense, neither
> >>>> transferable nor constant in energy. However, these effects are small
> >>>> such that chemical transferability remains a useful and defensible
> >>>> practice in many EXAFS analyses.
> >>>>
> >>>> So, back to your question -- how do you deal with S02 in a mixed
> >>>> compound or in a compound with multiple crystallographic sites? Or,
> >>>> more generally, how do you deal with S02 when you have to run Feff
> >>>> more than once to perform a single fit?
> >>>>
> >>>> Well ... you either make them all the same or you don't make them all
> >>>> the same.
> >>>>
> >>>> Regardless of how you proceed, you need to verify that your choice is
> >>>> statistically defensible. More importantly, if you introduce more
> >>>> than one such parameter, you need to be able justify that decision in
> >>>> terms of the physics or chemistry. In the case of a mixed compound,
> >>>> you need to be able to explain why the amplitudes for the species in
> >>>> the mixture should be different. If you have no such physical or
> >>>> chemical explanation, then you have to ask yourself if the parameter
> >>>> you added was not just a "fudge factor" that made the fit better
> >>>> numerically without adding meaning to your results.
> >>>>
> >>>> Fortunately, Artemis makes it relatively easy to tie parameter values
> >>>> together and to allow them to float separately. (Pro tip: Use def
> >>>> parameters.)
> >>>>
> >>>> As a general practice, I would start with a single S02 and see how the
> >>>> fit goes. If it goes well, I might declare victory and move on. If
> >>>> it goes poorly, I might consider introducing other S02 parameters,
> >>>> taking care that I can defend the choice statistically and physically.
> >>>>
> >>>> HTH,
> >>>> B
> >>>>
> >>>>
> >>>> --
> >>>>
> >>>> Bruce Ravel ------------------------------------ bravel at bnl.gov
> >>>>
> >>>> National Institute of Standards and Technology
> >>>> Synchrotron Methods Group at NSLS --- Beamlines U7A, X24A, X23A2
> >>>> Building 535A
> >>>> Upton NY, 11973
> >>>>
> >>>> My homepage: http://xafs.org/BruceRavel
> >>>> EXAFS software: http://cars9.uchicago.edu/~ravel/software/exafs/<http://cars9.uchicago.edu/%7Eravel/software/exafs/>
> <http://cars9.uchicago.edu/%7Eravel/software/exafs/>
> >> <http://cars9.uchicago.edu/%7Eravel/software/exafs/>
> >>>>
> >>>>
> >>>> ------------------------------
> >>>>
> >>>> Message: 4
> >>>> Date: Tue, 4 May 2010 10:17:35 -0500
> >>>> From: Matt Newville <newville at cars.uchicago.edu>
> >>>> To: XAFS Analysis using Ifeffit <ifeffit at millenia.cars.aps.anl.gov>
> >>>> Subject: [Ifeffit] expected network outage to
> >>>> millenia.cars.aps.anl.gov
> >>>> Message-ID:
> >>>> <o2lb8522e3d1005040817nfe57bac2m5f1955ed35fc3356 at mail.gmail.com
> >
> >>>> Content-Type: text/plain; charset=ISO-8859-1
> >>>>
> >>>> Hi Folks,
> >>>>
> >>>> The APS networking people will be doing some hardware work next week
> >>>> which means that millenia.cars.aps.anl.gov will be inaccessible to
> the
> >>>> outside world May 10,11,12, and 17. Because of this, xafs.org, the
> >>>> Ifeffit wiki, and this mailing list will all appear to be down on
> >>>> these days.
> >>>>
> >>>> --Matt
> >>>>
> >>>>
> >>>> ------------------------------
> >>>>
> >>>> _______________________________________________
> >>>> Ifeffit mailing list
> >>>> Ifeffit at millenia.cars.aps.anl.gov
> >>>> http://millenia.cars.aps.anl.gov/mailman/listinfo/ifeffit
> >>>>
> >>>>
> >>>> End of Ifeffit Digest, Vol 87, Issue 4
> >>>> **************************************
> >>>
> >>>
> >>>
> >>> ------------------------------
> >>>
> >>> Message: 2
> >>> Date: Wed, 5 May 2010 09:55:16 -0400
> >>> From: Andrew Campos <acampo2 at tigers.lsu.edu>
> >>> To: ifeffit at millenia.cars.aps.anl.gov
> >>> Subject: [Ifeffit] Differences between fluorescence and transmission
> >>> of the same sample
> >>> Message-ID:
> >>> <x2gd94177571005050655teffb1ea9xea56a0fdf31ba585 at mail.gmail.com
> >
> >>> Content-Type: text/plain; charset="iso-8859-1"
> >>>
> >>> Hi everyone,
> >>>
> >>> My lab mates are running in-situ H2 reduction of Cobalt/SiO2 catalysts
> >>> using the Co K-edge and are obtaining differences between the
> >>> fluorescence and transmission signals. The in-situ cell does have
> >>> quite a bit of sample thickness (2-3 mm approx) and I was wondering if
> >>> the fluorescence signal only has a penetration depth of a few
> >>> micrometers. If this is the case that would explain it where the side
> >>> that is further away from the heating element is more oxidized than
> >>> the rest of the sample.
> >>>
> >>> Has anyone run into this problem before? We're using the basic
> >>> furnace/cryostat unit (in-situ cell manufactured by the exafsco) and a
> >>> 13 element fluorescence detector (germanium diode).
> >>>
> >>> I appreciate any insight into the issue, I have attached a
> >>> fluorescence and transmission spectrum collected at the same time
> >>> where the transmission and fluorescence are in the .prj file.
> >>>
> >>> Thanks so much!
> >>> Andrew
> >>> -------------- next part --------------
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> >>> Name: Fluorescence and transmission.prj
> >>> Type: application/octet-stream
> >>> Size: 7244 bytes
> >>> Desc: not available
> >>> URL: <
> >>>
> >>
> http://millenia.cars.aps.anl.gov/pipermail/ifeffit/attachments/20100505/bb37469e/attachment.obj
> >>>>
> >>>
> >>> ------------------------------
> >>>
> >>> _______________________________________________
> >>> Ifeffit mailing list
> >>> Ifeffit at millenia.cars.aps.anl.gov
> >>> http://millenia.cars.aps.anl.gov/mailman/listinfo/ifeffit
> >>>
> >>>
> >>> End of Ifeffit Digest, Vol 87, Issue 5
> >>> **************************************
> >>>
> >>
> >>
> >>
> >> --
> >> Ditty Dixon
> >> Institut f?r Materialwissenschaft
> >> Technische Universit?t Darmstadt
> >> Petersenstr. 23
> >> 64287 Darmstadt
> >> Ph 00496151165498
> >> -------------- next part --------------
> >> An HTML attachment was scrubbed...
> >> URL: <
> >>
> http://millenia.cars.aps.anl.gov/pipermail/ifeffit/attachments/20100505/bee2d9dd/attachment.htm
> >>>
> >>
> >> ------------------------------
> >>
> >> _______________________________________________
> >> Ifeffit mailing list
> >> Ifeffit at millenia.cars.aps.anl.gov
> >> http://millenia.cars.aps.anl.gov/mailman/listinfo/ifeffit
> >>
> >>
> >> End of Ifeffit Digest, Vol 87, Issue 6
> >> **************************************
> >>
> >
> >
> >
> >
>
> --
> Carlo U. Segre -- Professor of Physics
> Associate Dean for Graduate Admissions, Graduate College
> Illinois Institute of Technology
> Voice: 312.567.3498 Fax: 312.567.3494
> segre at iit.edu http://www.iit.edu/~segre <http://www.iit.edu/%7Esegre>
> segre at debian.org
>
>
> ------------------------------
>
> _______________________________________________
> Ifeffit mailing list
> Ifeffit at millenia.cars.aps.anl.gov
> http://millenia.cars.aps.anl.gov/mailman/listinfo/ifeffit
>
>
> End of Ifeffit Digest, Vol 87, Issue 18
> ***************************************
>
--
Ditty Dixon
Institut für Materialwissenschaft
Technische Universität Darmstadt
Petersenstr. 23
64287 Darmstadt
Ph 00496151165498
--
Ditty Dixon
Institut für Materialwissenschaft
Technische Universität Darmstadt
Petersenstr. 23
64287 Darmstadt
Ph 00496151165498
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