Difference between revisions of "Strongly Absorbing Samples"

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For samples with moderate absorption, peak intensities are still attenuated, but it is less dependent on scattering angle. Most refinement software packages can correct for this effect (or it can be incorporated in the refined atomic thermal parameters). For samples with low absorption, this effect is negligible and can be ignored.
For samples with moderate absorption, peak intensities are still attenuated, but it is less dependent on scattering angle. Most refinement software packages can correct for this effect (or it can be incorporated in the refined atomic thermal parameters). For samples with low absorption, this effect is negligible and can be ignored.


The total absorption of any sample can be calculated before a measurement. It is a function of the sample composition, packed sample density, capillary radius, and the x-ray wavelength. One first determines the absorption for the composition and x-ray wavelength (μ), then calculates the total absorption (mu*r) for the actual sample to be measured using the capillary radius (r), sample density and packing fraction.
The total absorption of any sample can be calculated before a measurement. It is a function of the sample composition, packed sample density, capillary radius, and the x-ray wavelength. One first determines the absorption for the composition and x-ray wavelength (μ), then calculates the total absorption (μ*r) for the actual sample to be measured using the capillary radius (r), sample density and packing fraction.


=== 11-BM Mail-In Samples ===
===Guidelines for 11-BM Mail-In Samples===


For its mail-in program, 11-BM uses a wavelength of ~ 0.41 Å (30 keV), and the standard supplied capillary tubes have a radius of 0.04 cm (~0.8 mm diameter).
For its mail-in program, 11-BM uses a wavelength of ~ 0.41 Å (30 keV), and the standard supplied capillary tubes have a radius of 0.04 cm (~0.8 mm diameter).  Larger capillary tubes are now also  [https://wiki-ext.aps.anl.gov/ug11bm/index.php/Mail-In_Bases available].


Use the convenient Absorb web utilty to estimate sample absorption:
Use the convenient Absorb web utilty to estimate sample absorption:
http://11bm.xor.aps.anl.gov/absorb/absorb.php
http://11bm.xor.aps.anl.gov/absorb/absorb.php


===Guidelines===
==== Range of μ*r values ====


The experimental implications for a range of sample absorption values (μ×r) are given below:
The experimental implications for a range of sample absorption values (μ*r) are given below:
* &mu;*r < 0.1 : Very negligible absorption
* &mu;*r < 0.1 : Very negligible absorption
* 0.1 < &mu;*r < 0.5: Low - no absorption correction needed
* 0.1 < &mu;*r < 0.5: Low - no absorption correction needed
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* &mu;*r > 2.5 : Absorption is too large - consider an alternative sample preparation (see below)
* &mu;*r > 2.5 : Absorption is too large - consider an alternative sample preparation (see below)


To decrease the &mu;*r of a highly absorbing sample, one must lower its effective packed density or reduce its radius. One trick is to mix the powder of your absorbing sample with a low density and amorphous material (no extra Bragg peaks!). Good candidates for this dilution method include silica (SiO2 glass) powder (you can grind it by hand using a mortar and pestle) or amorphous boron.
=== Preparation methods to lower absorption ===


An absorbing powder sample could also be loaded into a smaller diameter capillary, which is then inserted into the standard 11-BM Kapton tube.
To decrease the &mu;*r of a highly absorbing sample, one must lower its effective packed density or reduce its radius.
Be sure to record the relative amounts of sample and dilution material to determine the average composition of your mixed powder. Once the mixed powder sample is loaded in a capillary, you can determine the actual packed density by measuring the total weight (minus the empty capillary) and volume of the packed sample (packed length * &pi; * r2).
 
====Dilution====
One trick is dilute your sample by mixing with a lower density and amorphous material (no extra Bragg peaks!) to lower the overall absorption. Good candidates for this dilution method include silica (SiO2 glass) powder (you can grind it by hand using a mortar and pestle) or amorphous boron.
 
====Nested Capillary====
An absorbing powder sample could also be loaded into a [https://wiki-ext.aps.anl.gov/ug11bm/index.php/Supplies_and_Tools smaller diameter capillary], which is then inserted into the standard 11-BM Kapton tube.
 
Be sure to record the relative amounts of sample and dilution material to determine the average composition of your mixed powder. Once the mixed powder sample is loaded in a capillary, you can determine the actual packed density by measuring the total weight (minus the empty capillary) and volume of the packed sample (packed length * &pi; * r<sup>2</sup>).
 
Read our [https://wiki-ext.aps.anl.gov/ug11bm/index.php/Nesting_Glass/Quartz_Capillaries_in_Kapton_Tubes guidelines on nesting capillaries]
 
====Coated Capillary====
In extreme cases for samples with very high absorption one might consider coating the *inside* of the Kapton capillary with a layer of sample powder mixed with a silicone grease.  Or coating the outside of a smaller diameter nested capillary.  The sample powder must be *inside* the supplied Kapton tube for mail-in samples. 
 
Using this approach you essentially end up with a hollow tube of sample powder.  This gives a good sized sample target with good powder averaging statistics, but without the absorption problems of a solid sample.
 
'''NOTE 1''':  this works for scans at room temperature and below (grease will become viscous at higher temperatures).
 
'''NOTE 2''':  do not use some random grease you find in the lab.  Dow Corning #4 silicone grease is good. Other silicone greases may also work. Bad choices include Vaseline and other high vacuum greases. These greases contain an crystalline phase which will add peaks to the sample diffraction pattern. See an example of this plotted here for different greases measured at 11-BM (click for larger image).
 
[[Image:GreasePlots.png|100px|GreasePlots.png]]
 
If in doubt, check the grease on your lab XRD machine first.
 
====More Information====
* Wiki page on [https://wiki-ext.aps.anl.gov/ug11bm/index.php/X-ray_Absorption_and_Fluorescence X-ray_Absorption and Fluorescence]
* Chapter on X-ray absorption in the [http://it.iucr.org/Cb/ch6o3v0001/ International Tables for Crystallography (2006). Vol. C, Chapter 6.3].


Please contact 11-BM staff if you have questions about sample preparation for highly absorbing materials
Please contact 11-BM staff if you have questions about sample preparation for highly absorbing materials
Additional information about x-ray absorption can be found in the International Tables for Crystallography (2006). Vol. C, Chapter 6.3. [X-ray absorption].


An (severe) example illustrating how sample x-ray absorption can impact the quality of your 11-BM powder diffraction data is shown here.
===Examples===
====Visual Example ====
An example illustrating how (severe!) sample x-ray absorption can impact the quality of your 11-BM powder diffraction data is shown below.
(click for larger image)


[[Image:absorptionexample.png|200px|absorptionexample.png]]


===Examples===
====Numeric Examples ====


Example absorption calculations using Absorb web utility are shown below.
Example absorption calculations using Absorb web utility are shown below.
----
'''Example #1'''
Sample composition: C12H22O11 (Sucrose)
Use default Absorb web utility values 0.41 Å, 0.4 mm, 0.6 packing fraction
Chemical Formula: C12H22O11 (theoretical density ~ 1.6 g/cm3)
Absorb web utility estimates &mu; = 0.08 cm-1
Total &mu;*r = 0.01
'''Comments''': ''absorption is completely negligible, ignore. Note: samples with extremely low absorption may also be weakly scattering. In these cases, a larger diameter capillary may improve the counting statistics. Contact beamline staff if you have questions.
'''''


Example #1
----
Sample composition: C12H22O11 (Sucrose)
'''Example #2'''
Use default Absorb web utility values 0.41 Å, 0.4 mm, 0.6 packing fraction
Sample composition: Co3O4
Chemical Formula: C12H22O11 (theoretical density ~ 1.6 g/cm3)
Use default Absorb web utility values 0.41 Å, 0.4 mm, 0.6 packing fraction
Absorb web utility estimates Mu = 0.08 cm-1
Chemical Formula: Co3O4 (theoretical density ~ 6.11 g/cm3)
Total mu×r = 0.01
Absorb web utility estimates &mu; = 20.95 cm-1 (estimated density ~ 5.7 g/cm3)
» absorption is completely negligible, ignore. Note: samples with extremely low absorption may also be weakly scattering. In these cases, a larger diameter capillary may improve the counting statistics. Contact beamline staff if you have questions.
Total &mu;*r = 0.84
'''Comments''': ''absorption is in normal range, &mu;*r less than 1.0 - no problem for this experiment
'''''


Example #2
----
Sample composition: Co3O4
'''Example #3'''
Use default Absorb web utility values 0.41 Å, 0.4 mm, 0.6 packing fraction
Sample composition: BaZr0.5Ti0.5O3
Chemical Formula: Co3O4 (theoretical density ~ 6.11 g/cm3)
Use default Absorb web utility values 0.41 Å, 0.4 mm, 0.6 packing fraction
Absorb web utility estimates Mu = 20.95 cm-1 (estimated density ~ 5.7 g/cm3)
Chemical Formula: BaZr0.5Ti0.5O3 (theoretical density ~ ?? g/cm3)
Total mu×r = 0.84
Absorb web utility estimates &mu; = 47.54 cm-1 (estimated density ~ 8.468 g/cm3)
» absorption is in normal range, mu×r less than 1.0 - no problem for this experiment
Total &mu;*r = 1.90
'''Comments''': ''noticeable absorption, but can be used for analysis with an absorption correction term.
'''''


Example #3
----
Sample composition: BaZr0.5Ti0.5O33
'''Example #4'''
Use default Absorb web utility values 0.41 Å, 0.4 mm, 0.6 packing fraction
Sample composition: PbZrO3
Chemical Formula: BaZr0.5Ti0.5O3 (theoretical density ~ ?? g/cm3)
Use default Absorb web utility values 0.41 Å, 0.4 mm, 0.6 packing fraction
Absorb web utility estimates Mu = 47.54 cm-1 (estimated density ~ 8.468 g/cm3)
Chemical Formula: PbZrO3 (theoretical density ~ 9.8 g/cm3)  
Total mu×r = 1.90
Absorb web utility estimates &mu; = 158.50 cm-1 (estimated density ~ 11.2 g/cm3)
» noticeable absorption, but can be used for analysis with an absorption correction term.
Total &mu;*r = 6.34
'''Comments''': ''absorption is too large (&mu;*r > 5.0), alternative sample preparations are needed (silica dilution etc).
'''''


Example #4
----
Sample composition: PbZrO33
'''Example #5'''
Use default Absorb web utility values 0.41 Å, 0.4 mm, 0.6 packing fraction
Sample composition: Eu11Cd6Sb12
Chemical Formula: PbZrO3 (theoretical density ~ 9.8 g/cm3)
Use default Absorb web utility values 0.41 Å, 0.4 mm, 0.6 packing fraction
Absorb web utility estimates Mu = 158.50 cm-1 (estimated density ~ 11.2 g/cm3)
Chemical Formula: Eu11Cd6Sb12 (theoretical density ~ 9.8 g/cm3)  
Total mu×r = 6.34
Absorb web utility estimates &mu; = 191 cm-1 (estimated density ~ 21.8 g/cm3)
» absorption is too large (mu×r > 5.0), alternative sample preparations are needed (silica dilution etc).
Total &mu;*r = 7.64
'''Comments''': ''extreme absorption!, alternative sample preparations are needed such as dilution + smaller capillaries and/or a hollow coated capillary approach described above.
'''''
----

Latest revision as of 22:56, 29 April 2013

Background

Considerations for strongly absorbing samples are discussed below.

11-BM uses transmission (Debye-Scherrer) geometry, therefore sample x-ray absorption (μ) must be considered. Absorption is not normally a problem for most users - the high energy beam (~ 30 keV) is easily able to penetrate these samples. However, absorption can be an issue for materials containing a large fraction of high-Z elements.

A highly absorbing sample will result in a transmission powder pattern with attenuated diffraction peak intensities, especially at low 2 θ angles (the sample is absorbing both the incoming and diffracted x-rays). It may not be possible to analyze these data in any meaningful way.

For samples with moderate absorption, peak intensities are still attenuated, but it is less dependent on scattering angle. Most refinement software packages can correct for this effect (or it can be incorporated in the refined atomic thermal parameters). For samples with low absorption, this effect is negligible and can be ignored.

The total absorption of any sample can be calculated before a measurement. It is a function of the sample composition, packed sample density, capillary radius, and the x-ray wavelength. One first determines the absorption for the composition and x-ray wavelength (μ), then calculates the total absorption (μ*r) for the actual sample to be measured using the capillary radius (r), sample density and packing fraction.

Guidelines for 11-BM Mail-In Samples

For its mail-in program, 11-BM uses a wavelength of ~ 0.41 Å (30 keV), and the standard supplied capillary tubes have a radius of 0.04 cm (~0.8 mm diameter). Larger capillary tubes are now also available.

Use the convenient Absorb web utilty to estimate sample absorption: http://11bm.xor.aps.anl.gov/absorb/absorb.php

Range of μ*r values

The experimental implications for a range of sample absorption values (μ*r) are given below:

  • μ*r < 0.1 : Very negligible absorption
  • 0.1 < μ*r < 0.5: Low - no absorption correction needed
  • 0.5 < μ*r < 1.0: Normal - correction may be needed for precise thermal parameters
  • 1.0 < μ*r < 2.5: High - absorption correction recommended for analysis
  • μ*r > 2.5 : Absorption is too large - consider an alternative sample preparation (see below)

Preparation methods to lower absorption

To decrease the μ*r of a highly absorbing sample, one must lower its effective packed density or reduce its radius.

Dilution

One trick is dilute your sample by mixing with a lower density and amorphous material (no extra Bragg peaks!) to lower the overall absorption. Good candidates for this dilution method include silica (SiO2 glass) powder (you can grind it by hand using a mortar and pestle) or amorphous boron.

Nested Capillary

An absorbing powder sample could also be loaded into a smaller diameter capillary, which is then inserted into the standard 11-BM Kapton tube.

Be sure to record the relative amounts of sample and dilution material to determine the average composition of your mixed powder. Once the mixed powder sample is loaded in a capillary, you can determine the actual packed density by measuring the total weight (minus the empty capillary) and volume of the packed sample (packed length * π * r2).

Read our guidelines on nesting capillaries

Coated Capillary

In extreme cases for samples with very high absorption one might consider coating the *inside* of the Kapton capillary with a layer of sample powder mixed with a silicone grease. Or coating the outside of a smaller diameter nested capillary. The sample powder must be *inside* the supplied Kapton tube for mail-in samples.

Using this approach you essentially end up with a hollow tube of sample powder. This gives a good sized sample target with good powder averaging statistics, but without the absorption problems of a solid sample.

NOTE 1: this works for scans at room temperature and below (grease will become viscous at higher temperatures).

NOTE 2: do not use some random grease you find in the lab. Dow Corning #4 silicone grease is good. Other silicone greases may also work. Bad choices include Vaseline and other high vacuum greases. These greases contain an crystalline phase which will add peaks to the sample diffraction pattern. See an example of this plotted here for different greases measured at 11-BM (click for larger image).

GreasePlots.png

If in doubt, check the grease on your lab XRD machine first.

More Information

Please contact 11-BM staff if you have questions about sample preparation for highly absorbing materials

Examples

Visual Example

An example illustrating how (severe!) sample x-ray absorption can impact the quality of your 11-BM powder diffraction data is shown below. (click for larger image)

absorptionexample.png

Numeric Examples

Example absorption calculations using Absorb web utility are shown below.

Example #1 

Sample composition: C12H22O11 (Sucrose)
Use default Absorb web utility values 0.41 Å, 0.4 mm, 0.6 packing fraction
Chemical Formula: C12H22O11 (theoretical density ~ 1.6 g/cm3)
Absorb web utility estimates μ = 0.08 cm-1
Total μ*r = 0.01

Comments: absorption is completely negligible, ignore. Note: samples with extremely low absorption may also be weakly scattering. In these cases, a larger diameter capillary may improve the counting statistics. Contact beamline staff if you have questions.


Example #2 

Sample composition: Co3O4
Use default Absorb web utility values 0.41 Å, 0.4 mm, 0.6 packing fraction
Chemical Formula: Co3O4 (theoretical density ~ 6.11 g/cm3)
Absorb web utility estimates μ = 20.95 cm-1 (estimated density ~ 5.7 g/cm3)
Total μ*r = 0.84

Comments: absorption is in normal range, μ*r less than 1.0 - no problem for this experiment


Example #3 

Sample composition: BaZr0.5Ti0.5O3
Use default Absorb web utility values 0.41 Å, 0.4 mm, 0.6 packing fraction
Chemical Formula: BaZr0.5Ti0.5O3 (theoretical density ~ ?? g/cm3)
Absorb web utility estimates μ = 47.54 cm-1 (estimated density ~ 8.468 g/cm3)
Total μ*r = 1.90

Comments: noticeable absorption, but can be used for analysis with an absorption correction term.


Example #4 

Sample composition: PbZrO3
Use default Absorb web utility values 0.41 Å, 0.4 mm, 0.6 packing fraction
Chemical Formula: PbZrO3 (theoretical density ~ 9.8 g/cm3) 
Absorb web utility estimates μ = 158.50 cm-1 (estimated density ~ 11.2 g/cm3)
Total μ*r = 6.34

Comments: absorption is too large (μ*r > 5.0), alternative sample preparations are needed (silica dilution etc).


Example #5 

Sample composition: Eu11Cd6Sb12
Use default Absorb web utility values 0.41 Å, 0.4 mm, 0.6 packing fraction
Chemical Formula: Eu11Cd6Sb12 (theoretical density ~ 9.8 g/cm3) 
Absorb web utility estimates μ = 191 cm-1 (estimated density ~ 21.8 g/cm3)
Total μ*r = 7.64

Comments: extreme absorption!, alternative sample preparations are needed such as dilution + smaller capillaries and/or a hollow coated capillary approach described above.

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