Author: edaxblog

Looking At A Grain!

Sia Afshari, Global Marketing Manager, EDAX

November seems to be the month when the industry tries to squeeze in as many events as possible before the winter arrives. I have had the opportunity to attend a few events and missed others, however, I want to share with you how much I enjoyed ICOTOM18*!

ICOTOM (International Conference on Texture of Materials) is an international conference held every three years and this year it took place in St. George, Utah, the gateway to Zion National Park.

This was the first time I have ever attended ICOTOM which is, for the most part, a highly technical conference, which deals with the material properties that can be detected and analyzed by Electron Backscatter Diffraction (EBSD) and other diffraction techniques. What stood out to me this year were the depth and degree of technical presentations made at this conference, especially from industry contributors. The presentations were up to date, data driven, and as scientifically sound as any I have ever seen in the past 25 years of attending more than my share of technical conferences.


The industrial adaptation of technology is not new since X-ray diffraction has been utilized for over half a century to evaluate texture properties of crystalline materials. At ICOTOM I was most impressed by the current ‘out of the laboratory’ role of microanalysis, and especially EBSD, for the evaluation of anisotropic materials for quality enhancement.

The embracing of the microanalysis as a tool for product enhancement means that we equipment producers need to develop new and improved systems and software for EBSD applications that will address these industrial requirements. It is essential that all technology providers recognize the evolving market requirements as they develop, so that they can stay relevant and supply current needs. If they can’t do this, then manufacturing entities will find their own solutions!

*In the interests of full disclosure, I should say that EDAX was a sponsor of ICOTOM18 and that my colleagues were part of the organizing committee.

Looking at the World of Microanalysis in Color

Tara Nylese, Global Applications Manager, EDAX

Several years ago, I was talking to a customer, who asked whether we could change the color scheme of the EDAX TEAM™ software. He said was that it was hard for him to tell the difference between the spectrum background and the cursor. I replied, “Well, the cursor is a lime green and the background is more like a gray-gre…..Oh, wait, you’re colorblind, aren’t you?” Surely enough he was, and while I can’t “see” his perspective, I can listen to and respect it. Thus, the motivation of this blog is to let our customers know that we in Applications listen to them and take their needs seriously.

In this specific case, I am happy to report that we just recently received feedback on the new EDAX APEX™ software, and one comment was that the user really liked the “contrast” of the red spectrum on the white background – see the image below.

More generally, it is one main goal of the EDAX Applications team to make sure that we capture the “real world” customer feedback and incorporate it as much as possible into future product enhancements, bug fixes and new generations of products. Each of our Worldwide Apps team members can talk to upwards of ten customers a week. These conversations are usually in interactions such as support calls, training sessions and demos. At each opportunity, we hear tremendously valuable real-world customer perspective, and very often we learn what we can’t “see” ourselves. Often, if I’m asked to share my thoughts, my words are just a colorful patchwork of years of customer ideas all melded into a microscopy amalgam.

Customer perspective is so important, in fact, that it is a cornerstone of the EDAX App Lab Mission Statement. A few years ago, I compiled about three pages of descriptions of what people thought of when they thought of Apps, and then condensed them down into the following statement that hangs on our HQ App Lab walls.

The EDAX US App Lab uses technical expertise and creativity plus a strong focus on understanding the needs of our internal and external customers to drive excellence in innovative analytical solutions. The applications group supports company-wide efforts to provide real-life value and benefits to our customers which differentiate our products in materials analysis.

Now to get back to the colors which are available for maps in our software. One of the lesser known functions is the ability to select and edit your color palette:

Using this option, you can choose from a 40-color palette, seen here. Remember to click on the element in the periodic chart first, then select your color.

Since I brought up the topic of colorblindness, I’ll also use a colorblind app that simulates how a Red/Green colorblind person sees the world (or our color palette).

Note the green color of O and P, and see how closely it compares to the yellow color of the lanthanide/actinide series!

Finally, to summarize the Applications message: to our current customers – thank you for sharing your thoughts; to all our applications team colleagues – thank you for gathering so much wide-ranging information and promoting the importance of it internally, and to all our future customers – when you chose EDAX, you’re choosing to join a dynamic microanalysis company, which strives to develop the most meaningful features and functions to meet your microanalysis needs.

Aimless Wanderin’ – Need a Map?

Dr. Stuart Wright, Senior Scientist, EDAX

In interacting with Rudy Wenk of the University of California Berkeley to get his take on the word “texture” as it pertains to preferred orientation reminds me of some other terminologies with orientation maps that Rudy helped me with several years ago.

Map reconstructed form EBSD data showing the crystal orientation parallel to the sample surface normal

Joe Michael of Sandia National Lab has commented to me a couple of times his objection to the term “IPF map”. As you may know, the term is commonly used to describe a color map reconstructed from OIM data where the color denotes the crystallographic axis aligned with the sample normal as shown below. Joe points out that the term “orientation map” or “crystal direction map” or something similar would be much more appropriate and he is absolutely right.

The reason behind the name “IPF map”, is that I hi-jacked some of my code for drawing inverse pole figures (IPFs) as a basis to start writing the code to create the color-coded maps. Thus, we started using the term internally (it was TSL at the time – prior to EDAX purchasing TSL) and then it leaked out publicly and the name stuck – my apologies to Joe. We later added the ability to color the microstructure based on the crystal direction aligned with any specified sample direction as shown below.

Orientation maps showing the crystal directions aligned with the normal, rolling and transverse directions at the surface of a rolled aluminum sheet.

The idea for this map was germinated from a paper I saw presented by David Dingley where a continuous color coding schemed was devised by assigning red, green and blue to the three axes of Rodrigues-Frank space: D. J. Dingley, A. Day, and A. Bewick (1991) “Application of Microtexture Determination using EBSD to Non Cubic Crystals”, Textures and Microstructures, 14-18, 91-96. In this case, the microstructure had been digitized and a single orientation measured for each grain using EBSD. Unfortunately, I only have gray scale images of these results.

SEM micrograph of nickel, grain orientations in Rodrigues-Frank space and orientation map based on color Rodrigues vector coloring scheme. Source: Link labeled “Full-Text PDF” at www.hindawi.com/archive/1991/631843/abs/

IPF map of recrystallized grains in grain oriented silicon steel from Y. Inokuti, C. Maeda and Y. Ito (1987) “Computer color mapping of configuration of goss grains after an intermediate annealing in grain oriented silicon steel.” Transactions of the Iron and Steel Institute of Japan 27, 139-144.
Source: Link labeled “Full Text PDF button’ at www.jstage.jst.go.jp/article/isijinternational1966/27/4/27_4_302/_article

We didn’t realize it at the time; but, an approach based on the crystallographic direction had already been done in Japan. In this work, the stereographic unit triangle (i.e. an inverse pole figure) was used in a continues color coding scheme were red is assigned to the <110> direction, blue to <111> and yellow to <100> and then points lying between these three corners of the stereographic triangle are combinations of these three colors. This color coding was used to shade grains in digitized maps of the microstructure according to their orientation. Y. Inokuti, C. Maeda and Y. Ito (1986) “Observation of Generation of Secondary Nuclei in a Grain Oriented Silicon Steel Sheet Illustrated by Computer Color Mapping”, Journal of the Japan Institute of Metals, 50, 874-8. The images published in this paper received awards in 1986 by the Japanese Institute of Metals and TMS.

AVA map and pole figure from a quartz sample from “Gries am Brenner” in the Austrian alps south of Innsbruck. The pole figure is for the c-axis. (B. Sander (1950) Einführung in die Gefügekunde der Geologischen Körper: Zweiter Teil Die Korngefüge. Springer-Vienna)
Source: In the last chapter (Back Matter) in the Table of Contents there is a link labeled “>> Download PDF” at link.springer.com/book/10.1007%2F978-3-7091-7759-4

I thought these were the first colored orientation maps constructed until Rudy later corrected me (not the first, nor certainly the last time). He sent me some examples of mappings of orientation onto a microstructure by “hatching” or coloring a pole figure and then using those patterns or colors to shade the microstructure as traced from micrographs. H.-R. Wenk (1965) “Gefügestudie an Quarzknauern und -lagen der Tessiner Kulmination”, Schweiz. Mineralogische und Petrographische Mitteilungen, 45, 467-515 and even earlier in B. Sander (1950) Einführung in die Gefügekunde Springer Verlag. 402-409 . Sanders entitled this type of mapping and analysis as AVA (Achsenvertilungsanalyse auf Deutsch or Axis Distribution Analysis in English).

Such maps were forerunners to the “IPF maps” of today (you could actually call them “PF maps”) to which we are so familiar with. It turns out our wanderin’s in A Search for Structure (Cyril Stanley Smith, 1991, MIT Press) have actually not been “aimless” at all but have helped us gain real insight into that etymologically challenged world of microstructure.

How to Increase Your Materials Characterization Knowledge with EDAX

Sue Arnell, Marketing Communications Manager, EDAX

The EDAX Applications and Product Management teams have been very busy offering free ‘continuing education’ workshops in September and October – with a great global response from our partners and customers.

At the end of September, Applications Specialist Shawn Wallace and Electron Backscatter Diffraction (EBSD) Product Manager Matt Nowell joined 6 additional speakers at a ‘Short Lecture Workshop for EBSD’, sponsored by EDAX at the Center for Electron Microscopy and Analysis (CEMAS) at The Ohio State University. The participants attended sessions ranging from ‘EBSD Introduction and Optimization of Collection Parameters for Advanced Application’ to ‘The Dictionary Approach to EBSD: Advances in Highly-Deformed and Fine-Grained Materials’.

Feedback on this workshop included the following comments, “This was a great learning opportunity after working with my lab’s EDAX systems for a couple of months”; “I like the diversity in the public and the talks.  I was very pleased with the overall structure and outcome”; and “Great! Very helpful.”

Matt Nowell presents at the ‘Short Lecture Workshop for EBSD’ at CEMAS, OSU.

In mid-October, EBSD Applications Specialist, Dr. Rene de Kloe traveled to India for a series of workshops on EBSD at the Indian Institute of Science (Bangalore), the International Advanced Research Center (Hyderabad), and the Indian Institute of Technology (Mumbai). Topics discussed at the sessions included:

• Effects of measurement and processing parameters on EBSD
• The application of EBSD to routine material characterization
• Defining resolution in EBSD analysis
• Three Dimensional EBSD analysis – temporal and spatial
• Advanced data averaging tools for improved EDS and EBSD mapping – NPAR™
• Microstructural Imaging using an Electron Backscatter Diffraction Detector – PRIAS™
• Transmission EBSD from low to high resolution

Dr. René de Kloe presents at one of three recent workshops in India.

According to our National Sales Manager in India, Arjun Dalvi, “We conducted this seminar at different sites and I would like to share that the response from all our attendees was very good. They were all eager to get the training from Dr. René and to take part in very interactive Q and A sessions, in which many analysis issues were solved.”

Global Applications Manager Tara Nylese was at the Robert A. Pritzker Science Center in Chicago, IL last week to give a presentation on “Materials Characterization with Microscopy and Microanalysis” for the Illinois Institute of Technology. “In this lecture, we started with a basic introduction to electron microscopy, and then dived deeper into the fundamentals of X-ray microanalysis. We explored both the basics of X-ray excitation, and how to evaluate peaks in an X-ray spectrum. From there, we looked at applied examples such as composition variation in alloys, chemical mapping of components of pharmaceutical tablets, and some fascinating underlying elemental surprises in biological materials.”

Finally, today we have 50 participants at the Geological Museum in Cambridge, MA for a training workshop given by Dr. Jens Rafaelsen and sponsored by Harvard University on “Taking TEAM™ EDS Software to the Next Level” * Presentation topics include:

• Basic operation of the TEAM™ EDS Analysis package
• How to get the most out of TEAM™ EDS Analysis
• Advanced training
• Tips and Tricks using TEAM™ EDS Analysis

Dr. Jens Rafaelsen presents at the Harvard workshop.

Here at EDAX, we are keen to provide our customers, potential customers, and partners with opportunities to improve their knowledge and polish their skills using the techniques, which are central to the EDAX product portfolio.  Our EDS, EBSD, WDS and XRF experts enjoy helping with regular training sessions, webinars, and workshops. If you would like to be included, please check for upcoming webinarsworkshops, and training sessions at www.edax.com.

*A video of these workshop sessions will be available from EDAX in the coming weeks.

My Fossil Background

Dr. René de Kloe, Applications Specialist, EDAX

Call me old-fashioned, but when I want to relax I always try to go outdoors, away from computers and electronic gadgets. So when I go on vacation with my family we look for quiet places where we can go hiking and if possible we visit places with interesting rocks that contain fossils. Last summer I spent my summer vacation with my family in the Hunsrück in Germany. The hills close to where we stayed consisted of shales. These are strongly laminated rocks that have been formed by heating and compaction of finegrained sediments, mostly clay, that have been deposited under water in a marine environment. These rocks are perfect for the occurrence of fossils. When an organism dies and falls on such a bed of clay and is covered by a successive stack of mud layers, it can be beautifully preserved. The small grains and airtight seal of the mud can give a very good preservation such that the shape of the plant or animal can be found millions of years later as a highly detailed fossil. Perhaps the most famous occurrence of such fossil-bearing shale is the Burgess shale in British Columbia, Canada which is renowned for the preservation of soft tissue of long-extinct creatures. The Hunsrück region in Germany may not be that spectacular, but it is a lot closer to home for me and here also beautiful fossils have been found.

Figure 1. Crinoid or sea lily fossil found in the  waste heap of the Marienstollen in Weiden, Germany.

Figure 2. Detail of sulphide crystals.

Figure 3. Example of a complete crinoid fossil (not from the Hunsrück area). Source https://commons.wikimedia.org/wiki/File:Fossile-seelilie.jpg

So, when we would go hiking during our stay we just had to pack a hammer in our backpack to see if we would be lucky enough to find something spectacular of our own. What we found were fragments of a sea lily or crinoid embedded in the rock (Figures 1,3) and as is typical for fossils from the area, much of the fossilised remains had been replaced by shiny sulphide crystals (Figure 2). Locally it is said that the sulphides are pyrite. FeS2. So of course, once back home I could not resist putting a small fragment of our find in the SEM to confirm the mineral using EDS and EBSD. The cross section that had broken off the fossil showed smooth fracture surfaces which looked promising for analysis (Figure 4). EDS was easy and quickly showed that the sulphide grains were not iron sulphide, but instead copper bearing chalcopyrite. Getting EBSD results was a bit trickier because although EBSD bands were often visible, shadows cast by the irregular surface confuse the band detection (Figure 5).

Figure 4. Cross section of shale with smooth sulphide grains along the fracture surface.

Figure 5. EBSD patterns collected from the fracture surface. Indexing was done after manual band selection. Surface irregularities are emphasized by the projected shadows.

Now the trick is getting these patterns indexed and here I do like computers doing the work for me. Of course, you can manually indicate the bands and get the orientations of individual patterns, but that will not be very helpful for a map. The problem with a fracture surface is that the substrate has a variable tilt with respect to the EBSD detector. Parts of the sample might be blocking the path to the EBSD detector which complicates the EBSD background processing.

The EDAX EBSD software has many functions to help you out of such tight spots when analyzing challenging samples. For example, in addition to the standard background subtraction that is applied to routine EBSD mapping there is a library of background processing routines available. These routines can be helpful if your specimen is not a “typical” flat, well-polished EBSD sample. This library allows you to create your own recipe of image processing routines to optimize the band detection on patterns with deviating intensity gradients or incomplete patterns due to shadowing.

The standard background polishing uses an averaged EBSD pattern of more than ~25 grains such that the individual bands are blended out. This produces a fixed intensity gradient that we use to remove the background from all the patterns in the analysis area. When the actual intensity gradient shifts due to surface irregularities it is not enough to just use such a fixed average background. In that case you will need to add a dynamic background calculation method to smooth out the resulting intensity variations.

This is illustrated in the EBSD mapping of the fossil in Figure 6. The first EBSD mapping of the fossil using standard background subtraction only showed those parts of the grains that happened to be close to the optimal orientation for normal EBSD. When the surface was pointing in another direction, the pattern intensity had shifted too much for successful indexing. Reindexing the map with optimised background processing tripled the indexable area on the fracture surface.

Figure 6. Analysis of the fracture surface in the fossil. -1- PRIAS center image showing the smooth sulphide grains, -2- Superimposed EDS maps of O(green), Al(blue), S(magenta), and Fe(orange) -3- EBSD IPF on IQ maps with standard background processing, -4- original IPF map, -5- EBSD IPF on IQ maps with optimized background processing, -6- IPF map with optimized background.

In addition to the pattern enhancements also the band detection itself can be tuned to look at specific areas of the patterns. Surface shadowing mainly obscures the bottom part of the pattern, so when you shift the focus of the band detection to the upper half of the pattern you can maximize the number of detected bands and minimize the disturbing effects of the edges of the shadowed area. It is unavoidable to pick up a false band or two when you have a shadow, but when there are still 7-9 correct bands detected as well, indexing is not a problem.

Figure 7. Band detection on shadowed EBSD pattern. Band detection in the Hough transform is focused at the upper half of the pattern to allow detection of sufficient number of bands for correct indexing.

In the images below are a few suggestions of background processing recipes that can be useful for a variety of applications.

Of course, you can also create your own recipe of image processing options such that perhaps you will be able to extract some previously unrecognized details from your materials.

A Bit of Background Information

Dr. Jens Rafaelsen, Applications Engineer, EDAX

Any EDS spectrum will have two distinct components; the characteristic peaks that originate from transitions between the states of the atoms in the sample and the background (Bremsstrahlung) which comes from continuum radiation emitted from electrons being slowed down as they move through the sample. The figure below shows a carbon coated galena sample (PbS) where the background is below the dark blue line while the characteristic peaks are above.

Carbon coated galena sample (PbS) where the bacground is below the dark blue line while the characteristic peaks are above.

Some people consider the background an artefact and something to be removed from the spectrum (either through electronics filtering or by subtracting it) but in the TEAM™ software we apply a model based on Kramer’s law that looks as follows:Formulawhere E is the photon energy, N(E) the number of photons, ε(E) the detector efficiency, A(E) the sample self-absorption, E0 the incident beam energy, and a, b, c are fit parameters¹.

This means that the background is tied to the sample composition and detector characteristic and that you can actually use the background shape and fit/misfit as a troubleshooting tool. Often if you have a bad background, it’s because the sample doesn’t meet the model requirements or the data fed to the model is incorrect. The example below shows the galena spectrum where the model has been fed two different tilt conditions and an overshoot of the background can easily be seen with the incorrect 45 degrees tilt. So, if the background is off in the low energy range, it could be an indication that the surface the spectrum came from was tilted, in which case the quant model will lose accuracy (unless it’s fed the correct tilt value).


This of course means that if your background is off, you can easily spend a long time figuring out what went wrong and why, although it often doesn’t matter too much. To get rid of this complexity we have included a different approach in our APEX™ software that is meant for the entry level user. Instead of doing a full model calculation we apply a Statistics-sensitive Non-linear Iterative Peak-clipping (SNIP) routine². This means that you will always get a good background fit though you lose some of the additional information you get from the Bremsstrahlung model. The images below show part of the difference where the full model includes the steps in the background caused by sample self-absorption while the SNIP filter returns a flat background.

So, which one is better? Well, it depends on where the question is coming from. As a scientist, I would always choose a model where the individual components can be addressed individually and if something looks strange, there will be a physical reason for it. But I also understand that a lot of people are not interested in the details and “just want something that works”. Both the Bremsstrahlung model and the SNIP filter will produce good results as shown in the table below that compares the quantification numbers from the galena sample.

Table

While there’s a slight difference between the two models, the variation is well within what is expected based on statistics and especially considering that the sample is a bit oxidized (as can be seen from the oxygen peak in the spectrum). But the complexity of the SNIP background is significantly reduced relative to the full model and there’s no user input, making it the better choice for the novice analyst of infrequent user.

¹ F. Eggert, Microchim Acta 155, 129–136 (2006), DOI 10.1007/s00604-006-0530-0
² C.G. RYAN et al, Nuclear Instruments and Methods in Physics Research 934 (1988) 396-402

Thoughts from a Summer Intern

Kylie Simpson, Summer Intern 2017, EDAX

This summer at EDAX, I have had the opportunity not only to build upon the skills that I acquired here last summer and throughout my academic year, but also to acquire new skills enabling me to better understand energy dispersive spectroscopy (EDS), materials science, and applied physics. Having access to state-of-the-art microscopes, detectors, and literature has certainly played a large role in my take-away from this summer, but the most valuable aspect of my time at EDAX is the expertise of those around me. Working with the applications team provided me with the opportunity to work alongside the different groups, including the engineering, sales and marketing, and technical support groups, as well as with customers via demos, training courses, and webinars. Not to mention the plethora of knowledge within the applications team itself. The willingness of other EDAX employees not only to help me, but also to explain and teach me how to solve the problems I encountered was extremely helpful.

The major projects I worked on this summer were compiling a user manual for the EDAX APEX™ software, collecting data for a steel library, and tuning a PID system for the thermoelectric cooler used in EDAX detectors. Creating a user manual for APEX™ enabled me to fully understand the software and describe it in a clear and useful way for our customers. I used LaTeX™ software to compile the manual, which exposed me to a very powerful typesetting tool while optimizing the layout and accessibility of the manual. Because I was not involved in the design of APEX™, I was able to write the user manual from the perspective of a new user. As a student and a newer user of EDAX software, I have recognized how useful APEX™ is for beginners and hope that the user manual will help to complement its value.

The EDAX APEX™ User Manual.

Figure 1: The EDAX APEX™ User Manual.

The steel library project that I worked on was very interesting because I compiled data that will simplify and aid customers working with steel samples. I collected spectra for nearly 100 steel standards and compared the quant results to the known values to confirm the accuracy of the data. This data will soon be available for purchase by customers who would like to compare the spectra from unknown samples to those of known standards using the spectrum match feature.

Me using one of our scopes to collect data.

Figure 2: Me using one of our scopes to collect data.

Additionally, I was able to work with the engineering team to tune a PID system for the thermoelectric cooler inside all EDAX detectors. The module of each detector must reach a set point temperature in a set period of time and remain stable. By making small changes to the parameters and determining their impact, I ran tests over several weeks to optimize the cooling of the detector. These parameters will be used in future development of EDAX detectors, enabling them to work even more accurately.

Figure 3: The PID system I worked with and me.

Overall, my experience at EDAX has been very positive, providing me with the skills and knowledge to succeed and excel in both academics and my career.