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Philippe Pinard, Hendrix Demers and I recently noticed that the x-ray intensities calculated from using a few of the pure element PAR files in the Standard GUI for Penefluor/Fanal were not correct.  This was only the case for the gaseous elements: N, O, F, Ne, Cl, Ar, Kr, Xe and Rn.  Now I don't suppose that many of you actually utilize pure gases as standards, even for your simulations, but we discovered the issue while writing up a paper on the use of alpha factors from Monte Carlo generated intensities

This was because I had assumed the room temperature densities for calculating the material files for these gaseous elements (if we had evolved on Pluto this would not have been an issue!).   :D

The gaseous densities (~10^-3) were problematic because the default "bulk" geometry file (bulk.geo), specifies a thickness of only 0.1 cm or 1 mm. This makes these gaseous pure elements essentially a thin film experiment where some of the incident electrons actually transmit through the specimen geometry resulting in too low a generated x-ray intensity!  Our solution was to simply force the pure gaseous element densities to 1.0 if they were less than 1.0.  Obviously you can modify the densities from the GUI to whatever values you want and re-calculate them, and/or edit the bulk.geo file geometry, if you prefer.

So we re-calculated these gaseous pure elements (N, O, F, Ne, Cl, Ar, Kr, Xe and Rn) and they are now available for download by using the Help | Update menu in either CalcZAF or Probe for EPMA, by checking the Update Penepma Monte Carlo Files as seen here:

Remember, if you haven't updated CalcZAF and/or Probe for EPMA since we switched to secure https connections in August this year, you will need to manually download the CalcZAF.msi and/or ProbeForEPMA.msi installers on this page:

and run the installer manually once.  After this, you can continue to update CalcZAF and/or Probe for EPMA from the Help | Update menu again.

Or you can manually download the file from the various download sites if you prefer and unzip it to your user data folder (usually C:\UserData\Penepma12). The actual pure element PAR files are in the \Penfluor\Pure sub folder.
EPMA Sample Preparation / Re: Epoxy Vacuum Impregnation
« Last post by Ben Buse on September 20, 2018, 02:26:27 am »
On the Edinburgh Ion Probe website, they suggest that epoxy boiling is due to using too high a vacuum, and suggest using a vacuum of 20inHg - 250 Torr
EPMA Sample Preparation / Re: Sample prep for very porous materials (volcanic pumice)
« Last post by Ben Buse on September 20, 2018, 01:59:45 am »
Hi Anne,

Sounds a good method!

They have various sample prep methods on the Univeristy of Edinburgh Ion Probe website


Probe Software Inc / Re: Satisfied Customer!
« Last post by Ben Buse on September 20, 2018, 01:55:07 am »
We been using PFE for a number of years, and the things that mark it out are: the easy to recalibrate using a previous setup, robust statistics (error & det lim), good mapping quantification, and TDI (time dependant intensity correction), and of course John's dedication and continual development of the software
JEOL / Re: JEOL 8230/8530 Network Connections
« Last post by Karsten Goemann on September 19, 2018, 08:12:54 pm »
I've attached an image with the network setup of our 8530F Plus system. We have 4 PCs: 1 for JEOL software, 1 for Thermo Pathfinder EDS, 1 for JEOL xCLent CL, and 1 for Probe Software.

We used to only have 3 PCs, with Thermo and Probe Software sharing a PC, but we had some issues with Thermo on that PC (unrelated to the two sharing the PC) that were probably hardware related. The easiest was to build a new PC for Thermo from scratch and we just kept the existing PC as it was for Probe Software.

All PCs have at least 2 network ports, 1 for external communication (within the university and internet) and one for a dedicated internal network through a Netgear gigabit switch for file sharing, keyboard/mouse sharing, and JEOL EIKS "SEM" communication. The JEOL PC and Probe Software PC each have a third network port connected to the JEOL hub in the console under the desk for microprobe hardware communication. The Thermo PC has a third network port to communicate with the Thermo hardware.

The screen layout, KM sharing etc with photos are shown in this post here:


EPMA Sample Preparation / Sample prep for very porous materials (volcanic pumice)
« Last post by AnneF on September 19, 2018, 01:10:15 pm »

I'm preparing to make an epoxy mount of really porous, fragile pumice fragments and I was wondering if any of you have advice on the best methods to go about it. The last time I tried this, I made a normal epoxy grain mount and then tried to fill in the voids on the exposed pumice with a layer of epoxy under a vacuum, which worked well enough to get data. Is there another method you know of that might work better from the start?

Probe for EPMA / Re: Wish List for PFE Features
« Last post by Ben Buse on September 17, 2018, 06:37:20 am »
Related to Ben's request above we've modified the code to automatically select the proper sample output type (standard vs. unknown) when the user right clicks the selected sample list in the Analyze! window for the "User Specified Output Format" as seen here:

This enables the output of "published" concentration (and variance and difference) values for standards if standard samples were selected.

Thanks for doing that

PictureSnapApp (NEW!) / Re: PictureSnapApp version 1.7.3
« Last post by John Donovan on September 15, 2018, 08:28:48 pm »
Owen Neill also suggested using a red color (in addition to white and black) for text and annotations on the image. For gray scale images this seems to be a good idea.

We also tweaked the code to deal with the fact that the JEOL SEM is actually an anti-cartesian stage orientation- just like the 8900/8200/8500/8230/8530 EPMA instruments.  Anti-cartesian meaning that the upper right of the stage coordinate system is the X/Y *minimum* limit.  That is the opposite of the Cameca stage orientation (Cartesian) which is where the upper right is the maximum X/Y limit.

For some reason we were laboring under the impression that the JEOL SEM stage was cartesian, but it is in fact, anti-cartesian.  We are also assuming that the JEOL TEM stage is also anti-cartesian and uses um units.  Can anyone confirm this?

Anyway, the latest PictureSnapApp 1.7.3 fixes this JEOL SEM stage orientation issue and has the red color option.
Probe for EPMA / Re: PictureSnap Tips and Tricks
« Last post by John Donovan on September 15, 2018, 05:19:45 pm »
Owen Neill was recently running PictureSnapApp on his JEOL SEM (more on this later) and really likes the option to disable the Z axis for stage motion when navigating the sample. This is for when using a three point image calibration (so the image is also calibrated in Z), and the Z axis sample heights vary a lot.

He suggested that I add the same option to the PictureSnap feature in Probe for EPMA. So here it is:

Update PFE from the Help menu.
Probe Software User Forum / Re: Forum Information
« Last post by John Donovan on September 15, 2018, 01:04:40 pm »
Will the Probe Software user forum hit 1 million page views (per year) by the end of this year?

Could be...
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