Tools to transform primitive cell orientation

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Discussion Overview

The discussion revolves around the tools and methods available for transforming the orientation of a primitive cell in crystallography. Participants explore various software options and seek assistance with practical applications and functionalities.

Discussion Character

  • Technical explanation
  • Debate/contested
  • Experimental/applied

Main Points Raised

  • One participant inquires about tools for user-supplied 3D rotations of primitive cells to achieve a desired orientation.
  • Another participant suggests that linear algebra is the fundamental method for such transformations.
  • A different participant expresses the need for ready-made tools that simplify the process, indicating that manual manipulation of matrices can be error-prone.
  • VESTA is proposed as a potential tool for changing the orientation of primitive cells.
  • A participant shares their experience with VESTA, noting that attempts to change the orientation did not result in changes to atomic positions, and seeks clarification on possible mistakes made during the process.
  • There is a mention of the Bilbao crystallography software and a specific inquiry about the use of the Structure Utility CELLTRAN.

Areas of Agreement / Disagreement

Participants do not reach a consensus on the effectiveness of VESTA for this task, as experiences vary. There are multiple competing views regarding the best tools and methods for transforming primitive cell orientations.

Contextual Notes

Limitations include potential misunderstandings of software functionalities, lack of detailed instructions on using specific tools, and the dependence on user expertise in linear algebra for manual transformations.

bsmile
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In case the orientation of a primitive cell is not what I want, is there tools to do a user-supplied 3D rotation to bring the primitive cell to the preferential orientation and output the new coordinates? Thanks,
 
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Yes, it is called linear algebra :-)
 
Dude, thanks for your response anyway. Everybody learned linear algebra and I know it pretty well. For these well-developed topics and industry-like ab initio calculation, there should be ready tools existing to free individuals from detailed manipulation of matrices and close attention to avoid errors.

DrDu said:
Yes, it is called linear algebra :-)
 
Maybe VESTA can do this.
 
I tried VESTA, and dragged the primitive cell to different orientations, and then output the structure to files, but found no change in the atomic positions. Maybe I did something wrong, if anybody knows how to do so with VESTA and let me know where I did anything wrong, I would be really appreciated!
 

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