Michael Kömm | 22 Oct 15:16 2014
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Athena does not React after 2-4 steps

Dear Bruce and dear mailing list,

Athena stops working after doing a maximum of four steps (f.e. removing 
points, import data,...) when running on my PC with Windows 8. It either 
says "not responding" or just shuts down. Whenever Athena shuts down the 
errors in the .txt in the directory of the project differs. But it 
always looks like this:

          line 0: warning: Skipping unreadable file 
"C:\Users\Michael\AppData\Roaming\demeter\stash\gp_leqfnhqh"
          line 0: No data in plot

only the file name changes. But there's never a file with that name in 
that directory.

Sometimes there is as well a window opened that says: gnuplot.exe is not 
working anymore.
I've deleted the Roaming\demeter folder but it didn't end the troubles.

Hope there is a way to end this problem.

Sincerely yours

Michael Koemm

PS: There is also one of my projects in the attachment.

         line 0: warning: Skipping unreadable file "C:\Users\Michael\AppData\Roaming\demeter\stash\gp_leqfnhqh"
(Continue reading)

Kurinji Krishnamoorthy | 21 Oct 05:31 2014

Artemis closes when I try to open a project file or import data

Hi,
Artemis had been working well on my laptop for a while. But today when I attempted to open a saved project file ( with a *.fpj extension), the program tried to open it for a while but then ultimately closed without any error messages. A similar thing occurred when I tried to import an Athena data file into Artemis. I was wondering if anybody had any idea how to fix this problem?

Thanks,
Kurinji 
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Samson Vallerie Ann | 20 Oct 17:08 2014
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Importing data to Athena


Hi Bruce,
I have some trouble importing data to Athena even if it's just ordinary column text file. I have attached two
sample data. These are processed data from full-field XANES images. Basically I select a region in the
image then write/output the total intensity of that region in a text file and I just iterate over several
images. I have tried deleting out the headers, putting back the headers, padding some 0's in the energy
column, checking some plugins, but to no avail. Your tips, advice is badly needed. 

Many thanks,
Vallerie    
Attachment (test3.dat): application/octet-stream, 714 bytes
Attachment (Area2.dat): application/octet-stream, 1196 bytes
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multiple absorber atoms

Hello,

This is my first message to the list so I expect to do it right.

I need to generate a path list for EXAFS fitting within ifeffit, based on a crystalline structure that has two different crystallographic positions for the absorber atom (edge K of Mo). Is there any way to do this? 

I would appreciate any information you could give me.

Thanks in advance

Jesus
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Ke Yuan | 16 Oct 15:37 2014
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XAFS Analysis using Ifeffit

Hello Drew,

Thanks for your suggestions. I just checked my original data without normalization. The edge step is about 0.7 (see pic attached). I did the measurement in fluorescence mode at APS, beamline 12-BMB. What do you think about this pic?

For the sample preparation, I think I need to mix UO2 with some other materials to dilute it. Do you have any suggestions on the matrix materials?


Best,
Ke
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Ke Yuan | 16 Oct 15:35 2014
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(no subject)

Hello Pushkar,

I think the peak value of the first derivative and the zero value of the second derivative does the same thing. My sec deriv is very noisy so it's easy for my to pick the peak value of the 1st deriv instead.

I would suggest you to watch the video from Bruce which explained HOW TO PICK Rbkg at:


Click the Athena: Data processing II

Actually all the other video lectures are very helpful, too!

Best,
Ke

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Ke Yuan | 15 Oct 17:27 2014
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Ke

Hello Sin Yuen,

Thanks for forwarding me that study materials on E0.

I use Athena to find the highest peak on the fist derivative of the spectra and pick that value as E0. I think I did not put E0 above this value. I will try to put it on the high energy side to see what will happen.

Tks!
Ke

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Ke Yuan | 15 Oct 17:19 2014
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Ke

Hi Bruce,

Thanks for your comments! I studied Shelly's paper and found my data does looks different, especially the first peak at 1.9 A, seems it splits into two in my case.

I prepared this sample by pressing UO2 powder into a hole (2mm deep), which might have significant self-absorption effect, because it's not dilute and thin. Do you think this will change the peak amplitude?

Best,
Ke


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Gaspard Jean-Pierre | 15 Oct 17:00 2014
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iXAFS & xQuartz


Hi all,
On a MacBook under OS X.8.5, I downloaded iXAFS and xQuartz.
I start xQuartz. When I try to start iXAFS, it requests X11 that is
obviously active, I see it. However iXAFS says : "X11 is not installed".
I am missing something but I do not know what.
Regards

JP
Leon Clarke | 15 Oct 16:21 2014
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Possible bug in Athena during alignment

I’d like to report a possible bug within Athena.

 

Last week I collected Br K-edge data at the APS and have experienced an issue with Athena during data alignment. The beamline energy required calibration and so I did the following data processing steps, in this order:

 

1.       Completed pre- and post-edge corrections, using windows relative to the actual Br K-edge energy, on the raw data exported from the beamline. (In other words these windows were not energy offsets relative to the actual measured edge position).

2.       Used the flatten post-edge feature within Athena.

3.       ‘Calibrated’ (Normalised is a better term really) the first derivative of a NaBr measurement to the Br K-edge energy using the calibrate drop-down option. This resulted in the requirement for a -17.39 eV energy offset.

4.       Tried to align all of the sample data to the NaBr ‘standard’ using the align drop-down option.

 

The issue I have had is with step #4. When I aligned, for several samples the XAFS (XANES) plots went wrong. It seems that Athena was not transforming the pre- and post-edge windows correctly for such a large energy shift, i.e. didn’t shift these to lower energies by 17.39 eV, and I think this is a bug within Athena.

 

I hope the above makes sense; I can provide an Athena project file, if required.

 

Many thanks, Leon

 

 

-----

Dr Leon J. Clarke

Senior Lecturer in Environmental Analytical Chemistry

Division of Chemistry and Environmental Sciences

School of Science and the Environment

Faculty of Science and Engineering

Manchester Metropolitan University

John Dalton East

Oxford Road

Manchester

M1 5GD

 

E-mail: l.clarke <at> mmu.ac.uk

WWW: http://www.sste.mmu.ac.uk/

Tel: +44 (0)161 247 1412

 

"Before acting on this email or opening any attachments you should read the Manchester Metropolitan University email disclaimer available on its website http://www.mmu.ac.uk/emaildisclaimer "
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Ke Yuan | 14 Oct 20:14 2014
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Warning "e0 is greater than 10"

Hello Feff community,

I am practicing on using Artemis to fit a UO2 XAFS data I measured. The parameters I used can be found from the pic attached. The Artemis project file is also attached.

I have been getting this "e0 greater than 10" warning on many of my fittings. Will picking a slightly different E0 change the result much? Any suggestions on how to improve this fitting?

Thanks!
Ke

--
Ke Yuan

PhD Candidate
Department of Earth and Environmental Sciences
1100 North University Ave
3021 C.C Little
University of Michigan, Ann Arbor
MI 48109-1005
Attachment (artemis_UO2 fitting practice.fpj): application/octet-stream, 1457 KiB
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