Re: [Ifeffit] Cu K edge XANES stds

[Simon James]

Hi Drew,

Thank you for your swift reply. Apologies for the delay in my response but I 
was dragged in to other matters.

Appreciate the data and ref. Regarding the sanity check I have collected some 
spatially resolved Cu XANES “maps” of cultured cells and some of the standards 
I collected during the run are horribly compromised for unclear reasons and I 
just wanted some clean data to reference while I work on cleaning up (to the 
degree possible) my standards.

Thanks again.

Cheers,

Simon


Simon James PhD
Senior Research Officer
NHMRC-ARC Dementia Research Development Fellow

Melbourne Dementia Research Centre
University of Melbourne
The Florey Institute of Neuroscience and Mental Health

Web: www.florey.edu.au<http://www.florey.edu.au>


On 28 Feb 2019, at 2:51 am, Latta, Drew E 
mailto:drew-la...@uiowa.edu>> wrote:

Hi Simon,

Since you are just looking for a sanity check (on what??) here are some Cu-S 
standards for you. They were published in DOI: 10.1021/es304736y.

The Cu-cys sample is not a pure phase, but probably a mixture of 
cysteine/cystine. But it is likely mostly Cu(I). Further discussion is 
available in the SI of the paper above.

The file is from an old, old version of Athena (0.8x)... hopefully it works for 
you.

Best,

Drew Latta
==
Drew E. Latta, Ph.D.
Asst. Research Scientist

The University of Iowa
Civil and Environmental Engineering/IIHR
4105 Seamans Center
Iowa City, IA 52242

Ph. 319-936-0034
email. drew-la...@uiowa.edu<mailto:drew-la...@uiowa.edu>
==



-Original Message-
From: Ifeffit [mailto:ifeffit-boun...@millenia.cars.aps.anl.gov] On Behalf Of 
Simon James
Sent: Tuesday, February 26, 2019 3:18 PM
To: Ifeffit@millenia.cars.aps.anl.gov<mailto:Ifeffit@millenia.cars.aps.anl.gov>
Subject: [Ifeffit] Cu K edge XANES stds

Hi mailing list,

I am hoping someone is willing to share their Cu K-edge XANES spectra from 
biological Cu thiol complexes. I’m particularly interested in Cu(I/II)-GSH, 
Cu(I/II)-Cys or similar. I need a sanity check on some fluorescence data I am 
wrangling.

Can anyone help?

Best regards,

Simon


This mail was composed on the move via my phone. Apologies for any typos.

Florey Institute of Neuroscience and a Mental Health Melbourne Brain Centre
30 Royal Pde
Parkville, 3052 VIC


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[Ifeffit] Cu K edge XANES stds

[Simon James]

Hi mailing list,

I am hoping someone is willing to share their Cu K-edge XANES spectra from 
biological Cu thiol complexes. I’m particularly interested in Cu(I/II)-GSH, 
Cu(I/II)-Cys or similar. I need a sanity check on some fluorescence data I am 
wrangling.

Can anyone help?

Best regards,

Simon


This mail was composed on the move via my phone. Apologies for any typos.

Florey Institute of Neuroscience and a Mental Health
Melbourne Brain Centre
30 Royal Pde
Parkville, 3052 VIC


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[Ifeffit] Does anyone have XAS from Cu(I)-GSH and/or Cu(I)-cys

[Simon James]

Hi mailing list,

I am hoping someone can help me sanity check some XAS spectra I recorded. I 
have [Cu(I)cys], [Cu(I)GSH] spectra (recorded in fluorescence) and would be 
eternally grateful if anyone is prepared to share any of their data on these or 
similar compounds? I am really only interested in the edge but more data is 
always more data.

Happy to discuss offline if preferred.

Happy XAS'ing

Best regards,

Simon



Simon James
Senior Research Officer
NHMRC-ARC Dementia Research Development Fellow

Melbourne Dementia Research Centre
University of Melbourne
The Florey Institute of Neuroscience and Mental Health

Office: +61 (3) 9035 6420
Mob: +61 (4) 3811 0982
Web: www.florey.edu.au<http://www.florey.edu.au>
simon.ja...@florey.edu.au<mailto:simon.ja...@florey.edu.au>

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Re: [Ifeffit] EXAFS of wine

[Simon James]

Thanks for sharing. Looks like pretty usable data.

-Saj



Simon James PhD
Senior Research Officer
NHMRC-ARC Dementia Research Development Fellow

Molecular Gerontology Laboratory

Melbourne Dementia Research Centre
University of Melbourne
The Florey Institute of Neuroscience and Mental Health

Kenneth Myer Building
30 Royal Parade
PARKVILLE VIC 3052, Australia

Office: +61 (3) 9035 6420
Mob: +61 (4) 3811 0982
Web: www.florey.edu.au<http://www.florey.edu.au>
simon.ja...@florey.edu.au<mailto:simon.ja...@florey.edu.au>

On 2 Nov 2018, at 10:11 am, Leandro Acu 
mailto:acu...@yahoo.com.ar>> wrote:

I want one! Nothing better for a long synchrotron night!

Enviado desde Yahoo Mail para 
Android<https://go.onelink.me/107872968?pid=InProduct=Global_Internal_YGrowth_AndroidEmailSig__AndroidUsers_wl=ym_sub1=Internal_sub2=Global_YGrowth_sub3=EmailSignature>

El jue., 1 de nov. de 2018 a la(s) 19:37, Anatoly Frenkel
mailto:anatoly.fren...@stonybrook.edu>> 
escribió:
I thought this mailing list is an appropriate venue to post a picture of the 
bottle of wine I bought yesterday in a store on Long Island.


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Re: [Ifeffit] using the mail list archive for mac install

[Simon James]

Hi all,

I must admit that couldn’t cut it in terms of wrangling MacPorts and opted to 
run a windows virtual machine on my Mac and use Demeter in on the virtual 
machine.

This can be somewhat awkward but for the most part I’ve found this to work well 
enough.

Cheers,

Simon


This mail was composed on the move via my phone. Apologies for any typos.

Florey Institute of Neuroscience and a Mental Health
Melbourne Brain Centre
30 Royal Pde
Parkville, 3052 VIC

Office:   +61 3 9035 4260
Mobile: + 61 4 3811 0982


On 11 Jul 2018, at 4:17 pm, Schindler Karl-Michael 
mailto:karl-michael.schind...@web.de>> wrote:



> Am 11.07.2018 um 00:44 schrieb Matt Newville 
> mailto:newvi...@cars.uchicago.edu>>:
>
> Hi Joel,
>
>> I ran into the problem that some people seem to have with Demeter on mac 
>> while
>> upgrading to High Sierra. I found a fix on this mail list, but…
>
> Yeah, Demeter on MacOS is a continuing challenge. Even when it can be 
> installed, parts of the GUI interaction are pretty buggy (I believe this must 
> be due to wxPerl on Mac). MacPorts seems to need a fair amount of attention 
> and expects the end user to know Unix command line tools well enough to be 
> able to run updates and understand and react to error messages. For sure, it 
> is a useful resource for developers, but it seems like it is not really 
> designed for deploying end-user software.
>
> ​Still​, I don't know of a better alternative for getting Demeter working on 
> MacOS. I've tried many of the alternatives, and wxPerl seems to be a real 
> stumbling block for all of them.
>
>> 1) I can’t download Template.pm from the archive (bin 
>> file that uncompresses to cpgz file
>> that uncompresses back to a bin file…)
>
> I think that the advice from Luke and Bruce back in April was to try to find 
> and install version 1.47 of Text::Template. You might find this at
> https://metacpan.org/source/MSCHOUT/Text-Template-1.47/lib/Text
>
> and try unpacking and installing that. There may be a way to specify 
> particular versions with the "cpan" program, but I do not know how to do it. 
> I don't think we want "install old version of some library" to be a long term 
> solution (this will break other things eventually), but it might work for you.
>
>> 2) Matt mentions that he installed 0.9.26 from macports, but I see only 
>> 0.9.25 (stable & develop).
>
> To clarify, in April I updated MacPorts to the latest versions, installed the 
> packages for Demeter 0.9.25. Then I installed Demeter 0.9.26 from source code 
> on top of that. That might also work​, but it's probably more work than most 
> folks would want to do.​
>
> ​Cheers,​
>
> —Matt

Just to let you know: For other reasons, I am using fink instead of MacPorts on 
my Mac and I tried to create a package description with that for larch, but got 
stuck with some of the wx… stuff. However, sooner or later, I will have another 
go at it. Fink has a similar barrier as macPorts, as both need an installation 
of Xcode. At least, there is a GUI for the installation of packages.

Michael Schindler
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Re: [Ifeffit] ifeffit on Mac OS X: fink package

[Simon James]

Hi Michael,

Many thanks I’ll let you know how I go.

Cheers,

Simon



> On 4 Oct 2016, at 9:39 AM, Karl-Michael Schindler 
>  wrote:
> 
> Hi all.
> 
> I just want to announce that ifeffit is now available as package with fink. 
> All you need for using ifeffit is the command:
> 
> fink install ifeffit
> 
> I know that xraylarch is to be used as successor and i am working on it as 
> well as on demeter, but i did not manage to build it so far.
> 
> Michael.
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