On Strong Scaling and Open Source Tools for Analyzing Atom Probe Tomography Data

<p>This repository contains supplemental results to the paper &quot;On Strong Scaling and Open Source Tools<br> for Analyzing Atom Probe Tomography Data&quot;.</p> <p>Specifically, the input parameter and result files from all synthetic benchmark studies.<br> The results file for all synthetic specimen benchmark studies are available from the<br> authors upon serious request.</p> <p><strong>The repository content is as follows:</strong></p> <p><strong>Real world data:<br> Three triplets of *.tar.gz archive files document the settings and analysis files for the real world case studies</strong><br> 3013902 is the incipient specimen,<br> 2763207 the intermediate specimen, and<br> 3345501 the mature specimen.</p> <p><strong>Scripts.zip</strong><br> Contains all batch scripts we used for performing the analyses as a queue</p> <p><strong>Synthetic data:</strong></p> <p><strong>APTCrystallography.zip</strong><br> Contains all results from the benchmarking of the reimplemented Vicente Araullo-Peters et al. method</p> <p><strong>FullVolumeTessellation.zip</strong><br> Contains all results from the benchmarking of the Voro++ Voronoi volume tessellation method except for the HDF5/XDMF volume tessellation files of the 200 and 2000 million ion datasets</p> <p><strong>TwoPointStatistics.zip</strong><br> Contains all results from benchmarking the computing of 2-point spatial statistics</p> <p><strong>TipSurfaceDescrSpatialStatistics.zip</strong><br> Contains all results from benchmarking the alpha shape computation, descriptive spatial statistics, and clustering analyses</p> <p><strong>PARAPROBE.Results.2Mio.tar.gz<br> PARAPROBE.Results.20Mio.tar.gz</strong><br> <strong>PARAPROBE.Results.200Mio.tar.gz</strong><br> Contains all settings files and some results from benchmarking the hybrid implementation.</p> <p><strong>Unpack the individual repositories using tar through Linux console as follows:</strong><br> tar -xvf &lt;archivename&gt;&nbsp;&nbsp;&nbsp;<br> where &lt;archivename&gt; is a placeholder for the respective tar gz compressed archives within the ZIP file.<br> Alternatively WinRAR can be used on a Windows system.</p> <p><strong>We would kindly like to ask you to use the following repository<br> to access source code of PARAPROBE in the future:</strong></p> <p><strong>https://gitlab.mpcdf.mpg.de/mpie-aptfim-toolbox/paraprobe<br> https://paraprobe-toolbox.readthedocs.io/en/latest/</strong><br> <br> <strong>Only above repository will be updated in the future! </strong><br> <strong>Only there new code additions and bugfixes are posted!<br> The examples folder of this repository contains a folder examples/tasks/paper14 which shows how<br> to run a workflow of paraprobe tools from this above repository to run analyses akin as reported in this paper.</strong></p> <p>Recommendations and bug reports to M. K&uuml;hbach are appreciated! Happy APT analyzing!</p> <p>------------------------------------------------------------------------------------------------------------------------------------------------------------------------<br> <strong>The PARAPROBE source code version we used for analyzing the synthetic and real world APT<br> specimens in the paper used an earlier development version of the PARAPROBE tool, the source code</strong><br> <strong>is here:</strong></p> <p>PARAPROBE_20190117_VersionUsedForPaper.zip</p> <p>https://github.com/mkuehbach/PARAPROBE<br> https://paraprobe.readthedocs.io/en/latest/</p> <p>&nbsp;</p>