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Deformation simulation results of Capriccio method coupled systems for conducting comparative one- and multidimensional studies on the coupling of the finite element method with particle-based techniques
<p>readme_3Dresults.txt</p> <p><br> <strong>Description</strong>:</p> <p>This readme explains the content and path structure of the results obtained from a<br> deformation test conducted on slightly different MD-FE coupled systems performing the<br> Capriccio method in a three-dimensional space within the associated project thesis [1],<br> published on the following dataset: <a href="https://doi.org/10.5281/zenodo.7924367">https://doi.org/10.5281/zenodo.7924367</a></p> <p>Furthermore, input files and parameters as well as potential tables required to reproduce<br> the obtained data are provided as well.</p> <p>The molecular dynamics (MD) part is executed in LAMMPS and the finite element (FE) method<br> part by a MATLAB script as described in Section 4.1 of [1]. The whole setup of the 3D<br> models is elaborated in Section 4.2 of [1]. A discussion of some results is given in<br> Chapter 6 of [1] in the context of assessing their comparability with the corresponding 1D<br> model.</p> <p><br> <strong>Context</strong>:</p> <p>[1] L. Laubert, "Establishing a framework for conducting comparative one- and<br> multidimensional studies on the coupling of the finite element method with<br> particle-based techniques", Project Thesis, Friedrich-Alexander-Universität<br> Erlangen-Nürnberg (FAU), 2023.</p> <p><br> <strong>Contact</strong>:</p> <p>Lukas Laubert<br> Institute of Applied Mechanics<br> Friedrich-Alexander-Universiät Erlangen-Nürnberg<br> Egerlandstraße 5<br> 91058 Erlangen</p> <p><br> <strong>License</strong>:</p> <p>Creative Commons Attribution Non Commercial 4.0 International</p> <p><br> <strong>Path structure and files</strong>:</p> <p>- The ZIP compressed files each contain a folder containing all simulation files as well as<br> postprocessing variables:<br> * /FE_data/ contains all output files after each FE simulation in each iteration step<br> * /MD_data/ contains all output files after each MD simulation in each iteration step<br> * /input_files/ contains the input FE model "cgps_dpd_c_1_2000.inp", the MD particle<br> configurations "cgps_dpd_c_1_2000.data", the AP particle coordinates <br> "cgps_dpd_c_1_2000.ac" as well as further Abaqus CAE FE files that<br> can be used to adapt the present FE model<br> * /input_parameters/ contains the parameter dataset; "Capriccio.prm" is the main parameter<br> dataset, whose adaptations lead to similar adjustments in the other parameter files<br> * "Capriccio_FEMD_main_meggie_WZ.sh" is a shell script for executing simulations<br> * "job.out" is an output protocol that documents the progress of the simulations<br> * "Job.err" is an error protocol that documents detected errors during the simulations<br> * "log.lammps" logs MD parameter sets<br> * "meta.info" provides version information of used softwares among few other information<br> * "next_job.info" documents the next load step and iteration step that is to be executed<br> when simulation jobs are restarted on the used computation cluser<br> * **_workspace_vars.mat comprises a set of postprocessing variables obtained by executing a<br> postprocessing script provided by Capriccio group</p> <p>- "md_dpd_main-CBpot-writeobs-sandw.in" is an input script that further defines and loads<br> MD simulation parameter</p> <p>- ***_table are potential tables applied during the MD simulations<br> * "Angle_table" lists the angle bending potential<br> * "Bond_table" lists the bond potentials<br> * "Nonbond_table" lists the non-bonded interaction potential</p>
Figure 10 in Checklist of the water mites (Acari, Hydrachnidia) of Korea, with description of one new subgenus and two new species
Figure 10. Photographs ofArrenurus(Truncaturus) sp. near corsicus (E. Angelier, 1951), female, stream in Odaesan NP: A = dorsal shield; B = ventral shield.
Figure 6 in Checklist of the water mites (Acari, Hydrachnidia) of Korea, with description of one new subgenus and two new species
Figure 6. Photographs of dorsal (A, C) and ventral shields (B, D). AB Ljania propinqua Kim & Chung, 1996, male, CR9 (stream in Mudeung Mt). CD Ljania orientalis Tuzovskij, 2012, male, CR11 (stream in Naebyeansan NP).
Figure 7 in Checklist of the water mites (Acari, Hydrachnidia) of Korea, with description of one new subgenus and two new species
Figure 7. Photographs of Woolastookia elongata (Sokolow, 1934), male, CR1, stream Dobong: A = dorsal shield; B = ventral shield; C = IVL5 and 6.
Figure 2 in Checklist of the water mites (Acari, Hydrachnidia) of Korea, with description of one new subgenus and two new species
Figure 2.Atractides gracilis (Sokolow, 1934), male (A, C, E – specimen from CR1; B, D – specimen from CR9): A = coxal field; B = genital field, Vgl1/2 and excretory pore; C = IL5 and 6; D = palp, medial view (P1 lacking); E = palp, lateral view. Scale bars = 100µm.
Figure 5. Photographs. AC in Checklist of the water mites (Acari, Hydrachnidia) of Korea, with description of one new subgenus and two new species
Figure 5. Photographs. AC Albia (Albiella) kseniae n. sp. (AB – holotype, C – paratype; A mounted in Hoyer's medium, C photographed immediately after dissection): A, C = dorsal shield, B = ventral shield.D F Momonia koreana n. sp. holotype: D = idiosoma, dorsal view; E = palp; F = posterior part of venter.
Figure 11 in Checklist of the water mites (Acari, Hydrachnidia) of Korea, with description of one new subgenus and two new species
Figure 11. Photo of the type locality (CR10, pool near stream in Naebyeansan National Park, South Korea) ofAlbia kseniaen. sp. andMomonia koreana n. sp. (Photo V. Pešić).
Figure 8 in Checklist of the water mites (Acari, Hydrachnidia) of Korea, with description of one new subgenus and two new species
Figure 8. Momonia (Orientmomonia) koreana n. sp., male: A = idiosoma, dorsal view; B = idiosoma, ventral view. Scale bar = 100µm.
Figure 9 in Checklist of the water mites (Acari, Hydrachnidia) of Korea, with description of one new subgenus and two new species
Figure 9.Momonia(Orientmomonia)koreana n. sp., male: A = IL46; B = Ileg; C = IL6; D = IVleg; E = claw; FG = palp; H = gnathosoma; I = chelicera. Scale bar = 100µm.
Figure 4 in Checklist of the water mites (Acari, Hydrachnidia) of Korea, with description of one new subgenus and two new species
Figure 4.Albia(Albiella) kseniae n. sp., female, CR10, stream near Silsung temple: A = dorsal shield; B = ventral shield; C = palp. Scale bars = 100µm.
Figure 2. Atractides elburzensis n in Checklist of the water mites (Acari, Hydrachnidia) of Iran: Second supplement and description of one new species
Figure 2. Atractides elburzensis n. sp., holotype male, Kheirud stream; A = idiosoma, dorsal view; B = idiosoma, ventral view; C = palp, medial view; D = I-L-5 and -6. Scale bars = 100µm.
Figure 4 in Checklist of the water mites (Acari, Hydrachnidia) of Iran: Second supplement and description of one new species
Figure 4. Number of water mites from China (Jinet al. 2010), India (Pešić et al. 2010b), Iran (present study), Turkey (Erman et al. 2010), Balkan Peninsula (Pešić et al. 2010a), Montenegro (Pešić et al. 2010a), Bulgaria (Pešić et al. 2010a), Greece (Pešić et al. 2010a), France (Smit & Gerecke 2010), The Netherlands (Smit et al. 2012), Germany (Gerecke & Lehmann 2005), Poland (Biesiadka 1997) and the Baltic countries (Estonia, Latvia and Lithuania - Smitet al. 2010).
Figure 3 in Checklist of the water mites (Acari, Hydrachnidia) of Iran: Second supplement and description of one new species
Figure 3. Sampling site ofAtractides elburzensisn. sp. (Mazandaran Province, Kheirud Kenar forest, stream Kheirud). Photo. V. Pešić
Figure 1 in New subterranean freshwater gastropods of Montenegro (Mollusca: Gastropoda: Hydrobiidae), with description of one new genus and two new species
Figure 1. Iverak spring (Pricelje village, Podgorica). Left (A): spring source with the spring outlet. Right (B): Spring source with deposits emerging from the underground. Photos. V. Pešić
Figure 46. Shell ofBythiospeum demattiai n in New subterranean freshwater gastropods of Montenegro (Mollusca: Gastropoda: Hydrobiidae), with description of one new genus and two new species
Figure 46. Shell ofBythiospeum demattiai n. sp. 4 = holotype, 5 = paratype, 6 = aperture from the lateral view.
Figure 9 in One new species of the family Niphargidae from Bosnia and Herzegovina (Contribution to the Knowledge of the Amphipoda 289)
Figure 9. Niphargus bukovicensis, sp. n., Velika Bukovička špilja Cave, female 13.0 mm: A= telson; B= epimeral plates 1-3; C= uropod 1; D= uropod 2; E= uropod 3. Female 12.0 mm: F= gnathopod 1 propodus, outer face; G= gnathopod 2 propodus, outer face.
Figure 8 in One new species of the family Niphargidae from Bosnia and Herzegovina (Contribution to the Knowledge of the Amphipoda 289)
Figure 8. Niphargus bukovicensis, sp. n., Velika Bukovička špilja Cave, female 13.0 mm: A-B= pereopod 5; C-D= pereopod 6; E-F-G= left pereopod 7; H= dactylus of right pereopod 7.
Figure 6 in One new species of the family Niphargidae from Bosnia and Herzegovina (Contribution to the Knowledge of the Amphipoda 289)
Figure 6. Niphargus bukovicensis, sp. n., Velika Bukovička špilja Cave, male 20.0 mm: A= labrum; B= telson. Male 15.0 mm: C= antenna 2. Female 13.0 mm: D-E= pereopod 3; F-G= pereopod 4.
Figure 5 in One new species of the family Niphargidae from Bosnia and Herzegovina (Contribution to the Knowledge of the Amphipoda 289)
Figure 5. Niphargus bukovicensis, sp. n., Velika Bukovička špilja Cave, male 20.0 mm: A= peduncle of pleopod 1; B= peduncle of pleopod 2; C= peduncle of pleopod 3; D= maxilla 1; E= urosome with uropods 1 -2; F= left uropod 3; G= right uropod 3.
Figure 7 in One new species of the family Niphargidae from Bosnia and Herzegovina (Contribution to the Knowledge of the Amphipoda 289)
Figure 7. Niphargus bukovicensis, sp. n., Velika Bukovička špilja Cave, female 13.0 mm: A-B= left gnathopod 1, outer face; C= right gnathopod 1 propodus, outer face; D-E= gnathopod 2, outer face.
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