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Specific Process Knowledge/Characterization/XRD/SLSII analysis: Difference between revisions

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'''Licenses''' for the software are floating network licenses, and hence you must close the software when you are not using it. User management and data transfer can be done by connecting to the SQL server (the database) as described in the link above.   
'''Licenses''' for the software are floating network licenses, and hence you must close the software when you are not using it. User management and data transfer can be done by connecting to the SQL server (the database) as described in the link above.   


'''Packages''' available for data treatment are listed below. Each package is named by the measurement type.  
'''Plugins''' available for data treatment are listed below. Each plugin is named by the data treatment type.  


'''Help functions''' included in the program usually give a good overview of the options available when setting up fitting. You can access the relevant help sections by clicking on the small question mark in the pane you want to know more about. The exception is that due to a bug the question-mark-click-for-help function does not work in the software in the cleanroom, but it should work on your computer. If it doesn't, you can find the full help documents on the Cleanroom-drive - ask staff for details.
'''Help functions''' included in the program usually give a good overview of the options available when setting up fitting. In many cases they also explain a bit of the theory applied. You can access the relevant help sections by clicking on the small question mark in the pane you want to know more about. The exception is that in the software in the cleanroom the question marks do not work properly (the computer is running a very early version of SLSII and it seems that the help function was not yet properly integrated). The help function should work on the installation on your computer, but if it doesn't, you can find the full help documents on the Cleanroom Drive and some are also available in LabManager, just follow the links below.


==XRR==
==XRR==
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'''How to analyze XRR data:'''
'''How to analyze XRR data:'''
# Load data:
# Load data
# Configure sample model:
# Configure sample model:
##Set substrate material and initial values.
##Set substrate material and initial values.
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'''How to analyze Rocking Curves:'''
'''How to analyze Rocking Curves:'''
# Load data:
# Load data
# Configure sample model:
# Configure sample model:
##Set substrate material and initial values.
##Set substrate material and initial values.
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==Texture==
==Texture==


The texture plugin is used for Pole Figure analysis and Orientation distribution functions (ODF). However we do not have a license for ODF. To enable Orientation functions to be calculated 2 or more pole figures are needed. The texture plugin has two types of calculations, a Defocusing project and texture calculation. The defocusing project will not be discussed here, as it is not strictly needed for the texture calculation, however the idea with this is to measure on substrate with randomly distributed crystals and subtract this from the oriented texture data.
The texture plugin is used for Pole Figure analysis and Orientation distribution functions (ODF). However we do not have a license for ODF. To enable Orientation functions to be calculated, two or more pole figures are needed. The texture plugin has two types of calculations, a Defocusing project and texture calculation. The defocusing project will not be discussed here, as it is not strictly needed for the texture calculation, however the idea with this is to measure a substrate with randomly distributed crystals and subtract this from the oriented texture data.


A texture calculation processed as follows:
'''A texture calculation is processed as follows:
*Load data:
'''
**Choose one or more pole figure data sets to load.
#Load data:
*Load defocusing project:
##Choose one or more pole figure data sets to load.
**This is only possible if a randomly oriented sample has been measured.
#(Optional) Load defocusing project:
*Configure sample:
##This is only possible if a randomly oriented sample has been measured.
**Set the material and the reflections that have been measured.
#Configure sample:
**Extra reflections and materials can be added by the add reflection and add phase tools.
##Set the material and the reflections that have been measured.
**Also connect the reflections to the correct pole figures.
##Extra reflections and materials can be added by the "add reflection" and "add phase" tools.
**When all materials and reflection is set, press Estimate 2θB, to calculate the 2θ angles.
##Also connect the reflections to the correct pole figures.
*Make pole figure corrections:
##When all materials and reflection is set, press Estimate 2θB, to calculate the 2θ angles.
**Activate and change the settings of the preferred corrections in the right panel.
#Make pole figure corrections:
**Apply the corrections
##Activate and change the settings of the preferred corrections in the right panel.
**To read out the result, click on orientation function at the lower pane.
##Apply the corrections
For more information on how to use the Texture plugin, read the manual by clicking on the ? in the software or from [http://labmanager.dtu.dk/view_binary.php?fileId=4244 LabManager] - requires login.
##To read out the result, click on "orientation function" in the lower pane.
 
For more information on how to use the Texture plugin, read the manual by clicking on the ? in the software or see [http://labmanager.dtu.dk/view_binary.php?fileId=4244 LabManager] - requires login.


==Powder XRD==
==Powder XRD==
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===Basic/Evaluation===
===Basic/Evaluation===
The use of the plugin for basic analysis is as following. The walk-through is written for the RIR Quantification flow; if only Search/Match is wanted the evaluation flow has the same steps except the RIR part:
The walk-through below is written for the RIR Quantification flow. If only Search/Match is wanted the evaluation flow has the same steps except the RIR part.
*Load data:
'''The use of the plugin for basic analysis is as follows: '''
** Data from XRD Powder has to be converted to .asc or .xy before load.
#Load data:
*Peak evaluation:
## Data from XRD Powder has to be converted to .asc or .xy in advance.
**Choose the settings for the peak search and profile fitting
#Peak evaluation:
**Press Run
##Choose the settings for the peak search and profile fitting
*Phase identification:
##Press Run
**To search for the peaks, press Search/Match in the left window.  
#Phase identification:
**One of the best ways to limit the amount of data found is to use the element filter.
##To search for the peaks, press Search/Match in the left window.  
**Material can be set to unknown, not included, included, or include one at least by clicking on the materials several times.
##One of the best ways to limit the amount of data found is to use the element filter.
**When the material filters are set correctly press run to search the database (''see link above on how to add reference spectra to the database from the ICSD)''.
##"Material" can be set to unknown, not included, included, or include one at least by clicking on the materials several times.
**The found candidates are listed in Phase identification window. The candidate with the smallest FOM/F20 is the most likely candidate to be present in the sample.
##When the material filters are set correctly press "run" to search the database (''see link above on how to add reference spectra to the database from the ICSD)''.
**Always use the prior knowledge of the sample to evaluate the outcome of the search.
##The candidates found are listed in Phase identification window. The candidate with the smallest FOM/F20 is the most likely candidate to be present in the sample.
**The found results can be moved to the candidate phase list, for use in RIR quantification.
##Always use the prior knowledge of the sample to evaluate the outcome of the search.
**Press set above the candidate phase list before moving on.
##The identified phases can be moved to the candidate phase list, for use in RIR quantification.
##Press set above the candidate phase list before moving on.
 
===Basic/RIR Quantification===
===Basic/RIR Quantification===
For Reference Intensity Ratio (RIR) chose the RIR Quantification flow, which add the following step to basic evaluation.
For '''Reference Intensity Ratio (RIR) calculations''', choose the RIR Quantification flow, which adds the following step to basic evaluation.
*Configure RIR quantification:
#Configure RIR quantification:
**Chose the Miller indices to user for RIR.
##Chose the Miller indices to user for RIR.
**You can then right click on the dataset below the RIR Quantification window and click chart to see the distribution of the phases.
##You can then right-click on the dataset below the RIR Quantification window and click "chart" to see the distribution of the phases.
 
===Comprehensive Analysis/Crystallite size and strain===
For comprehensive analysis, in the task drop down menu in the flow bar select Comprehensive analysis. Three flows are available here, Crystallite size and strain, Lattice parameter refinement, and Crystallinity.  
For comprehensive analysis, in the task drop down menu in the flow bar select Comprehensive analysis. Three flows are available here, Crystallite size and strain, Lattice parameter refinement, and Crystallinity.  


===Comprehensive Analysis/Crystallite size and strain===
For Crystallite size and strain the first steps are the same as for Search/Match evaluation and the following is added:
For Crystallite size and strain the first steps are the same as for Search/Match evaluation and the following is added.
#Configure size & strain:
*Configure size & strain:
##Select the dataset to analyse.
**Select the dataset to analyse.
##Select or deselect peaks that are to be used or not for the calculation.
**Select or deselect peaks that are to be used or not for the calculation.
##Select the analysis method.
**Select the analysis method.
##Select 'Use e.s.d. for weight factor' (estimated standard deviation).
**Select 'Use e.s.d. for weight factor' (estimated standard deviation).
##Choose if width corrections is to be used.
**Chose if width corrections is to be used.
For more info on these see the manual by clicking ? in the right panel for the plugin (Crystallite Size and Strain, Lattice Parameter Refinement, or %Crystallinity) or in [http://labmanager.dtu.dk/view_binary.php?fileId=4247 LabManager]  - requires login


===Comprehensive Analysis/Lattice parameter refinement===
===Comprehensive Analysis/Lattice parameter refinement===
For Lattice parameter refinement, follow the steps for search and match. After phase identification do the following.
For '''lattice parameter refinement''', follow the steps for search and match. After phase identification do the following.
*Configure lattice parameter refinement:
#Configure lattice parameter refinement:
**Select the dataset to analyse.
##Select the dataset to analyse.
**Select or deselect peaks that are to be used or not for the calculation.
##Select or deselect peaks that are to be used or not for the calculation.
**Select the Angular correction to use.
##Select the angular correction to use.
For more info on these see the manual by clicking ? in the right panel for the plugin (Crystallite Size and Strain, Lattice Parameter Refinement, or %Crystallinity) or in [http://labmanager.dtu.dk/view_binary.php?fileId=4247 LabManager] - requires login


===Comprehensive Analysis/Crystallinity===
===Comprehensive Analysis/Crystallinity===
For crystallinity calculation, follow the steps for search and match. After phase identification the following steps are needed.
For '''crystallinity calculation''', follow the steps for search and match. After phase identification the following steps are needed.
*Confirm crystallinity:
#Confirm crystallinity:
**Decide whether to include background.
##Decide whether to include background.
**Chose if a line should be subtracted from background.
##Choose if a line should be subtracted from the background.
**Select the target crystalline phase.
##Select the target crystalline phase.
For more info on these see the manual by clicking ? in the right panel for the plugin (Crystallite Size and Strain, Lattice Parameter Refinement, or %Crystallinity) or in [http://labmanager.dtu.dk/view_binary.php?fileId=4247 LabManager] - requires login
 
For more info on these steps, see the manual by clicking ? in the right panel for the plugin (Crystallite Size and Strain, Lattice Parameter Refinement, or Crystallinity) or see [http://labmanager.dtu.dk/view_binary.php?fileId=4247 LabManager] - requires login


==Data Visualization==
==Data Visualization==
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==Materials Manager==
==Materials Manager==
The materials manager is used for adding crystal structures and amorphous material parameters for use in data simulation. For some users the compounds are of most interest, as it is in here that you can generate materials like In(x)Ga(1-x)As. Materials not listed can be added by either importing a cif file or defining it by hand. I (Kristian Hagsted) have found the homepage [http://materialsproject.org/#search/materials Materials Project] helpful; see also [http://labadviser.nanolab.dtu.dk/index.php/Specific_Process_Knowledge/Characterization/XRD/XRD_Reference_Data this page] also linked to above on how to look up or add reference spectra from the Inorganic Crystal Structure Database (ICSD) (for DTU users and others with access to the ICSD).
The materials manager is used for adding crystal structures and amorphous material parameters for use in data simulation. For some users the compounds are of most interest, as it is in here that you can generate materials like In(x)Ga(1-x)As. Materials not listed can be added by either importing a cif file or defining it by hand. I (Kristian Hagsted) have found the homepage [http://materialsproject.org/#search/materials Materials Project] helpful. See also [http://labadviser.nanolab.dtu.dk/index.php/Specific_Process_Knowledge/Characterization/XRD/XRD_Reference_Data the page on how to look up or add reference spectra] from the Inorganic Crystal Structure Database (ICSD) (for DTU users and others with access to the ICSD).


We recommend downloading the symmetrized cif file for import. When adding materials please consider if the space group is the correct one. We would also prefer if the elastic stiffness tensor is entered into the software for all materials if available, which they often are on the Materials Project site.
We recommend downloading the symmetrized cif file for import. When adding materials please consider if the space group is the correct one. We would also prefer if the elastic stiffness tensor is entered into the software for all materials if available, which they often are on the Materials Project site.


For information about how to use the plugin please look in section 3.2 in the manual opened by clicking on the ? in the software to right corner or from [http://labmanager.dtu.dk/view_binary.php?fileId=4246 LabManager] - requires login.
For information about how to use the plugin please look in section 3.2 in the manual opened by clicking on the ? in the upper right-hand corner or see [http://labmanager.dtu.dk/view_binary.php?fileId=4246 LabManager] - requires login.