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1	-rw-r--r--···0········0········0········4·2025-08-21·09:55:49.000000·debian-binary	1	-rw-r--r--···0········0········0········4·2025-08-21·09:55:49.000000·debian-binary
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1	Package:·yade-doc	1	Package:·yade-doc
2	Source:·yade	2	Source:·yade
3	Version:·2025.2.0-2	3	Version:·2025.2.0-2
4	Architecture:·all	4	Architecture:·all
5	Maintainer:·Debian·Science·Maintainers·<debian-science-maintainers@lists.alioth.debian.org>	5	Maintainer:·Debian·Science·Maintainers·<debian-science-maintainers@lists.alioth.debian.org>
6	Installed-Size:·42585	6	Installed-Size:·42576
7	Depends:·libjs-jquery·(>=·3.6.0),·libjs-sphinxdoc·(>=·8.2),·libjs-mathjax	7	Depends:·libjs-jquery·(>=·3.6.0),·libjs-sphinxdoc·(>=·8.2),·libjs-mathjax
8	Recommends:·yade	8	Recommends:·yade
9	Section:·doc	9	Section:·doc
10	Priority:·optional	10	Priority:·optional
11	Multi-Arch:·foreign	11	Multi-Arch:·foreign
12	Homepage:·https://yade-dem.org/doc/	12	Homepage:·https://yade-dem.org/doc/
13	Description:·Platform·for·discrete·element·modeling.·Documentation	13	Description:·Platform·for·discrete·element·modeling.·Documentation


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84	usr/share/doc/yade/html/_images/horse.png	84	usr/share/doc/yade/html/_images/horse.png
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1	Yade·Documentation·(3rd·ed.)	1	Yade·Documentation·(3rd·ed.)

2	3rd·Edition·based·on·Yade·version·2025.2.0,·N~~ovem~~ber·9,·2026	2	3rd·Edition·based·on·Yade·version·2025.2.0,·October·8,·2025

3	\xcAuthors	3	\xcAuthors
4	•·Václav·Šmilauer·Freelance·consultant·(http://woodem.eu)	4	•·Václav·Šmilauer·Freelance·consultant·(http://woodem.eu)
5	•·Vasileios·Angelidakis·Newcastle·University,·UK	5	•·Vasileios·Angelidakis·Newcastle·University,·UK
6	•·Emanuele·Catalano·Univ.·Grenoble·Alpes,·3SR·lab.	6	•·Emanuele·Catalano·Univ.·Grenoble·Alpes,·3SR·lab.
7	•·Robert·Caulk·Univ.·Grenoble·Alpes,·3SR·lab.	7	•·Robert·Caulk·Univ.·Grenoble·Alpes,·3SR·lab.
8	•·Bruno·Chareyre·Univ.·Grenoble·Alpes,·3SR·lab.	8	•·Bruno·Chareyre·Univ.·Grenoble·Alpes,·3SR·lab.
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115	2.3.16·Other·classes·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·464	115	2.3.16·Other·classes·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·464
116	Yade·modules·reference·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·475	116	Yade·modules·reference·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·475
117	2.4.1·yade.bf·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·475	117	2.4.1·yade.bf·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·475
118	2.4.2·yade.bodiesHandling·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·477	118	2.4.2·yade.bodiesHandling·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·477
119	2.4.3·yade.export·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·478	119	2.4.3·yade.export·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·478
120	2.4.4·yade.geom·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·483	120	2.4.4·yade.geom·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·483
121	2.4.5·yade.gridpfacet·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·487	121	2.4.5·yade.gridpfacet·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·487
122	2.4.6·yade.libVersions·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·491	122	2.4.6·yade.libVersions·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·492
123	2.4.7·yade.linterpolation·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·495	123	2.4.7·yade.linterpolation·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·495
124	2.4.8·yade.log·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·496	124	2.4.8·yade.log·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·496
125	2.4.9·yade.math·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·497	125	2.4.9·yade.math·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·498
126	2.4.10·yade.minieigenHP·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·538	126	2.4.10·yade.minieigenHP·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·538
127	2.4.11·yade.mpy·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·620	127	2.4.11·yade.mpy·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·620
128	2.4.12·yade.pack·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·625	128	2.4.12·yade.pack·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·625
129	2.4.13·yade.plot·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·639	129	2.4.13·yade.plot·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·639
130	2.4.14·yade.polyhedra_utils·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1065	130	2.4.14·yade.polyhedra_utils·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1065
131	2.4.15·yade.post2d·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1065	131	2.4.15·yade.post2d·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1065
132	2.4.16·yade.potential_utils·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1068	132	2.4.16·yade.potential_utils·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1068
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155	3.1.5·Conventions·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1120	155	3.1.5·Conventions·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1120
156	3.1.6·Support·framework·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1125	156	3.1.6·Support·framework·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1125
157	3.1.7·Simulation·framework·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1152	157	3.1.7·Simulation·framework·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1152
158	3.1.8·Runtime·structure·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1158	158	3.1.8·Runtime·structure·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1158
159	3.1.9·Python·framework·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1159	159	3.1.9·Python·framework·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1159
160	3.1.10·Adding·a·new·python/C++·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1161	160	3.1.10·Adding·a·new·python/C++·module·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1161
161	3.1.11·Maintaining·compatibility·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1163	161	3.1.11·Maintaining·compatibility·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1163
162	3.2·Yade·on·GitLab·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1163	162	3.2·Yade·on·GitLab·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1164
163	3.2.1·Fast·checkout·(read-only)·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1163	163	3.2.1·Fast·checkout·(read-only)·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1164
164	3.2.2·Branches·on·GitLab·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1163	164	3.2.2·Branches·on·GitLab·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1164
165	3.2.3·Merge·requests·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1167	165	3.2.3·Merge·requests·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1167
166	3.2.4·Guidelines·for·pushing·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1168	166	3.2.4·Guidelines·for·pushing·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1168
167	4·Theoretical·background·and·extensions	167	4·Theoretical·background·and·extensions
168	1169	168	1169
169	4.1·DEM·formulation·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1169	169	4.1·DEM·formulation·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1169
170	4.2·CFD-DEM·coupled·simulations·with·Yade·and·OpenFOAM·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1169	170	4.2·CFD-DEM·coupled·simulations·with·Yade·and·OpenFOAM·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1169
171	4.2.1·Supported·versions·and·examples·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1169	171	4.2.1·Supported·versions·and·examples·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·.·1169
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516	O.pause();·note·that·O.run()·returns·control·to·Python·and·the·simulation·runs·in·background;·if	516	O.pause();·note·that·O.run()·returns·control·to·Python·and·the·simulation·runs·in·background;·if
517	you·want·to·wait·for·it·to·finish,·use·O.wait().·Fixed·number·of·steps·can·be·run·with·O.run(1000),	517	you·want·to·wait·for·it·to·finish,·use·O.wait().·Fixed·number·of·steps·can·be·run·with·O.run(1000),
518	O.run(1000,True)·will·run·and·wait.·To·stop·at·absolute·step·number,·O.stopAtIter·can·be·set·and	518	O.run(1000,True)·will·run·and·wait.·To·stop·at·absolute·step·number,·O.stopAtIter·can·be·set·and
519	O.run()·called·normally.	519	O.run()·called·normally.
520	Yade·[12]:·O.run()	520	Yade·[12]:·O.run()
521	Yade·[13]:·O.pause()	521	Yade·[13]:·O.pause()
522	Yade·[14]:·O.iter	522	Yade·[14]:·O.iter
523	Out[14]:·1~~659~~	523	Out[14]:·1
524	Yade·[15]:·O.run(100000,True)	524	Yade·[15]:·O.run(100000,True)
525	Yade·[16]:·O.iter	525	Yade·[16]:·O.iter
526	(continues·on·next·page)	526	(continues·on·next·page)

527	4	527	4

528	Chapter·1.·Guided·tour	528	Chapter·1.·Guided·tour

529	\xcYade·Documentation,·Release·3rd·ed.	529	\xcYade·Documentation,·Release·3rd·ed.

530	(continued·from·previous·page)	530	(continued·from·previous·page)

531	Out[16]:·10~~1659~~	531	Out[16]:·100001
532	Yade·[17]:·O.stopAtIter=500000	532	Yade·[17]:·O.stopAtIter=500000
533	Yade·[18]:·O.run()	533	Yade·[18]:·O.run()
534	Yade·[19]:·O.wait()	534	Yade·[19]:·O.wait()
535	Yade·[20]:·O.iter	535	Yade·[20]:·O.iter
536	Out[20]:·500000	536	Out[20]:·500000
537	Saving·and·loading	537	Saving·and·loading
538	Simulation·can·be·saved·at·any·point·to·a·binary·file·(optionaly·compressed·if·the·filename·has·extensions	538	Simulation·can·be·saved·at·any·point·to·a·binary·file·(optionaly·compressed·if·the·filename·has·extensions
Offset 605, 15 lines modified		Offset 605, 15 lines modified
605	To·assure·flexibility·of·software·design,·yade·makes·clear·distinction·of·2·families·of·classes:·data·components·and·functional·components.·The·former·only·store·data·without·providing·functionality,·while	605	To·assure·flexibility·of·software·design,·yade·makes·clear·distinction·of·2·families·of·classes:·data·components·and·functional·components.·The·former·only·store·data·without·providing·functionality,·while
606	the·latter·define·functions·operating·on·the·data.·In·programming,·this·is·known·as·visitor·pattern·(as	606	the·latter·define·functions·operating·on·the·data.·In·programming,·this·is·known·as·visitor·pattern·(as
607	functional·components·“visit”·the·data,·without·being·bound·to·them·explicitly).	607	functional·components·“visit”·the·data,·without·being·bound·to·them·explicitly).
608	Entire·simulation,·i.e.·both·data·and·functions,·are·stored·in·a·single·Scene·object.·It·is·accessible	608	Entire·simulation,·i.e.·both·data·and·functions,·are·stored·in·a·single·Scene·object.·It·is·accessible
609	through·the·Omega·class·in·python·(a·singleton),·which·is·by·default·stored·in·the·O·global·variable:	609	through·the·Omega·class·in·python·(a·singleton),·which·is·by·default·stored·in·the·O·global·variable:
610	Yade·[28]:·O.bodies	610	Yade·[28]:·O.bodies
611	#·some·data·components	611	#·some·data·components
612	Out[28]:·<yade.wrapper.BodyContainer·at·0x7f~~cd84cca~~960>	612	Out[28]:·<yade.wrapper.BodyContainer·at·0x7fe19a5769d0>
613	Yade·[29]:·len(O.bodies)	613	Yade·[29]:·len(O.bodies)
614	Out[29]:·0	614	Out[29]:·0

615	#·there·are·no·bodies·as·of·yet	615	#·there·are·no·bodies·as·of·yet

616	Yade·[30]:·O.engines	616	Yade·[30]:·O.engines
617	Out[30]:·[]	617	Out[30]:·[]
Offset 667, 17 lines modified		Offset 667, 17 lines modified

667	\xcYade·Documentation,·Release·3rd·ed.	667	\xcYade·Documentation,·Release·3rd·ed.

668	(continued·from·previous·page)	668	(continued·from·previous·page)

669	Yade·[32]:·s.shape,·s.state,·s.mat,·s.bound	669	Yade·[32]:·s.shape,·s.state,·s.mat,·s.bound
670	Out[32]:	670	Out[32]:
671	(<Sphere·instance·at·0x30ee2f80>,	671	(<Sphere·instance·at·0x1f021210>,
672	<State·instance·at·0x~~30eb05c~~0>,	672	<State·instance·at·0x1efc7990>,
673	<FrictMat·instance·at·0x~~30ed619~~0>,	673	<FrictMat·instance·at·0x1f020c60>,
674	None)	674	None)
675	Yade·[33]:·s.state.pos	675	Yade·[33]:·s.state.pos
676	Out[33]:·Vector3(0,0,0)	676	Out[33]:·Vector3(0,0,0)
677	Yade·[34]:·s.shape.radius	677	Yade·[34]:·s.shape.radius
678	Out[34]:·1.0	678	Out[34]:·1.0
679	We·see·that·a·sphere·with·material·of·type·FrictMat·(default,·unless·you·provide·another·Material)·and	679	We·see·that·a·sphere·with·material·of·type·FrictMat·(default,·unless·you·provide·another·Material)·and
680	bounding·volume·of·type·Aabb·(axis-aligned·bounding·box)·was·created.·Its·position·is·at·the·origin·and	680	bounding·volume·of·type·Aabb·(axis-aligned·bounding·box)·was·created.·Its·position·is·at·the·origin·and
Offset 745, 35 lines modified		Offset 745, 35 lines modified
745	representing·non-geometrical·features·of·the·interaction;·some·are·computed·from·Materials·of·the	745	representing·non-geometrical·features·of·the·interaction;·some·are·computed·from·Materials·of·the
746	particles·in·contact·using·some·averaging·algorithm·(such·as·contact·stiffness·from·Young’s·moduli	746	particles·in·contact·using·some·averaging·algorithm·(such·as·contact·stiffness·from·Young’s·moduli
747	of·particles),·others·might·be·internal·variables·like·damage.	747	of·particles),·others·might·be·internal·variables·like·damage.

748	Fig.·2:·Examples·of·concrete·classes·that·might·be·used·to·describe·an·Interaction:·IGeom,·GenericSpheresContact,·PolyhedraGeom,·CylScGeom,·IPhys,·NormPhys,·NormShearPhys,·FrictPhys.	748	Fig.·2:·Examples·of·concrete·classes·that·might·be·used·to·describe·an·Interaction:·IGeom,·GenericSpheresContact,·PolyhedraGeom,·CylScGeom,·IPhys,·NormPhys,·NormShearPhys,·FrictPhys.
749	Suppose·now·interactions·have·been·already·created.·We·can·access·them·by·the·id·pair:	749	Suppose·now·interactions·have·been·already·created.·We·can·access·them·by·the·id·pair:
750	Yade·[41]:·O.interactions[0,1]	750	Yade·[41]:·O.interactions[0,1]
751	Out[41]:·<Interaction·instance·at·0x30f2e450>	751	Out[41]:·<Interaction·instance·at·0x1f0048b0>
752	Yade·[42]:·O.interactions[1,0]	752	Yade·[42]:·O.interactions[1,0]
753	#·order·of·ids·is·not·important	753	#·order·of·ids·is·not·important
754	Out[42]:·<Interaction·instance·at·0x30f2e450>	754	Out[42]:·<Interaction·instance·at·0x1f0048b0>
755	Yade·[43]:·i=O.interactions[0,1]	755	Yade·[43]:·i=O.interactions[0,1]
756	(continues·on·next·page)	756	(continues·on·next·page)

757	10	757	10

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Offset 34, 54 lines modified		Offset 34, 54 lines modified
34	..·graphviz::	34	..·graphviz::
35	» :caption:·Inheritance·graph·of·Shape.	35	» :caption:·Inheritance·graph·of·Shape.

36	» digraph·Shape·{	36	» digraph·Shape·{
37	» » rankdir=RL;	37	» » rankdir=RL;
38	» » margin="0.2,0.05";	38	» » margin="0.2,0.05";
39	» » "Shape"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Shape"];	39	» » "Shape"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Shape"];
		40	» » "LevelSet"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.LevelSet"];
		41	» » "LevelSet"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		42	» » "Sphere"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Sphere"];
		43	» » "Sphere"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
40	» » "~~Box~~"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.~~Box~~"];	44	» » "Clump"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Clump"];
41	» » "~~Box~~"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];	45	» » "Clump"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		46	» » "PotentialParticle"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.PotentialParticle"];
		47	» » "PotentialParticle"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
42	» » "Facet"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Facet"];	48	» » "Wall"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Wall"];
43	» » "Facet"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];	49	» » "Wall"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		50	» » "GridConnection"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.GridConnection"];
		51	» » "GridConnection"·->·"Sphere"·[arrowsize=0.5,style="setlinewidth(0.5)"];
44	» » "Subdomain"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Subdomain"];	52	» » "Subdomain"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Subdomain"];
45	» » "Subdomain"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];	53	» » "Subdomain"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
46	» » "~~GridNode~~"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.~~GridNode~~"];	54	» » "Tetra"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Tetra"];
47	» » "~~GridNode~~"·->·"Sphere"·[arrowsize=0.5,style="setlinewidth(0.5)"];	55	» » "Tetra"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
48	» » "ChainedCylinder"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.ChainedCylinder"];	56	» » "ChainedCylinder"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.ChainedCylinder"];
49	» » "ChainedCylinder"·->·"Cylinder"·[arrowsize=0.5,style="setlinewidth(0.5)"];	57	» » "ChainedCylinder"·->·"Cylinder"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		58	» » "GridNode"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.GridNode"];
		59	» » "GridNode"·->·"Sphere"·[arrowsize=0.5,style="setlinewidth(0.5)"];
50	» » "Cylinder"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Cylinder"];	60	» » "Cylinder"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Cylinder"];
51	» » "Cylinder"·->·"Sphere"·[arrowsize=0.5,style="setlinewidth(0.5)"];	61	» » "Cylinder"·->·"Sphere"·[arrowsize=0.5,style="setlinewidth(0.5)"];
52	» » "DeformableElement"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.DeformableElement"];
53	» » "DeformableElement"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
54	» » "W~~all~~"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.W~~all~~"];	62	» » "Box"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Box"];
55	» » "W~~all~~"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];	63	» » "Box"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
56	» » "C~~lump~~"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.C~~lump~~"];	64	» » "Node"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Node"];
57	» » "C~~lump~~"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];	65	» » "Node"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		66	» » "Lin4NodeTetra_Lin4NodeTetra_InteractionElement"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Lin4NodeTetra_Lin4NodeTetra_InteractionElement"];
		67	» » "Lin4NodeTetra_Lin4NodeTetra_InteractionElement"·->·"DeformableCohesiveElement"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		68	» » "FluidDomainBbox"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.FluidDomainBbox"];
		69	» » "FluidDomainBbox"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
58	» » "PFacet"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.PFacet"];	70	» » "PFacet"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.PFacet"];
59	» » "PFacet"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];	71	» » "PFacet"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
60	» » "Lin4NodeTetra"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Lin4NodeTetra"];	72	» » "Lin4NodeTetra"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Lin4NodeTetra"];
61	» » "Lin4NodeTetra"·->·"DeformableElement"·[arrowsize=0.5,style="setlinewidth(0.5)"];	73	» » "Lin4NodeTetra"·->·"DeformableElement"·[arrowsize=0.5,style="setlinewidth(0.5)"];
62	» » "~~Sph~~ere"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.~~Sph~~ere"];	74	» » "DeformableElement"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.DeformableElement"];
63	» » "~~Sph~~ere"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];	75	» » "DeformableElement"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
64	» » "DeformableCohesiveElement"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.DeformableCohesiveElement"];	76	» » "DeformableCohesiveElement"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.DeformableCohesiveElement"];
65	» » "DeformableCohesiveElement"·->·"DeformableElement"·[arrowsize=0.5,style="setlinewidth(0.5)"];	77	» » "DeformableCohesiveElement"·->·"DeformableElement"·[arrowsize=0.5,style="setlinewidth(0.5)"];
66	» » "GridConnection"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.GridConnection"];
67	» » "GridConnection"·->·"Sphere"·[arrowsize=0.5,style="setlinewidth(0.5)"];
68	» » "PotentialParticle"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.PotentialParticle"];
69	» » "PotentialParticle"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
70	» » "FluidDomainBbox"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.FluidDomainBbox"];
71	» » "FluidDomainBbox"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
72	» » "Node"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Node"];
73	» » "Node"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
74	» » "LevelSet"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.LevelSet"];
75	» » "LevelSet"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
76	» » "~~Tetra~~"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.~~Tetra~~"];	78	» » "Facet"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Facet"];
77	» » "~~Tetra~~"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];	79	» » "Facet"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
78	» » "Lin4NodeTetra_Lin4NodeTetra_InteractionElement"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Lin4NodeTetra_Lin4NodeTetra_InteractionElement"];
79	» » "Lin4NodeTetra_Lin4NodeTetra_InteractionElement"·->·"DeformableCohesiveElement"·[arrowsize=0.5,style="setlinewidth(0.5)"];
80	» }	80	» }

81	..·autoclass::·Shape	81	..·autoclass::·Shape
82	» :members:	82	» :members:
83	» :undoc-members:	83	» :undoc-members:
84	» :inherited-members:	84	» :inherited-members:

Offset 195, 22 lines modified		Offset 195, 22 lines modified
195	..·graphviz::	195	..·graphviz::
196	» :caption:·Inheritance·graph·of·State.	196	» :caption:·Inheritance·graph·of·State.

197	» digraph·State·{	197	» digraph·State·{
198	» » rankdir=RL;	198	» » rankdir=RL;
199	» » margin="0.2,0.05";	199	» » margin="0.2,0.05";
200	» » "State"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.State"];	200	» » "State"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.State"];
201	» » "ChainedState"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.ChainedState"];
202	» » "ChainedState"·->·"State"·[arrowsize=0.5,style="setlinewidth(0.5)"];
203	» » "CpmState"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.CpmState"];	201	» » "CpmState"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.CpmState"];
204	» » "CpmState"·->·"State"·[arrowsize=0.5,style="setlinewidth(0.5)"];	202	» » "CpmState"·->·"State"·[arrowsize=0.5,style="setlinewidth(0.5)"];
205	» » "ThermalState"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.ThermalState"];
206	» » "ThermalState"·->·"State"·[arrowsize=0.5,style="setlinewidth(0.5)"];
207	» » "JCFpmState"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.JCFpmState"];	203	» » "JCFpmState"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.JCFpmState"];
208	» » "JCFpmState"·->·"ThermalState"·[arrowsize=0.5,style="setlinewidth(0.5)"];	204	» » "JCFpmState"·->·"ThermalState"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		205	» » "ThermalState"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.ThermalState"];
		206	» » "ThermalState"·->·"State"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		207	» » "ChainedState"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.ChainedState"];
		208	» » "ChainedState"·->·"State"·[arrowsize=0.5,style="setlinewidth(0.5)"];
209	» » "WireState"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.WireState"];	209	» » "WireState"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.WireState"];
210	» » "WireState"·->·"State"·[arrowsize=0.5,style="setlinewidth(0.5)"];	210	» » "WireState"·->·"State"·[arrowsize=0.5,style="setlinewidth(0.5)"];
211	» }	211	» }

212	..·autoclass::·State	212	..·autoclass::·State
213	» :members:	213	» :members:
214	» :undoc-members:	214	» :undoc-members:
Offset 251, 54 lines modified		Offset 251, 54 lines modified
251	..·graphviz::	251	..·graphviz::
252	» :caption:·Inheritance·graph·of·Material.	252	» :caption:·Inheritance·graph·of·Material.

253	» digraph·Material·{	253	» digraph·Material·{
254	» » rankdir=RL;	254	» » rankdir=RL;
255	» » margin="0.2,0.05";	255	» » margin="0.2,0.05";
256	» » "Material"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Material"];	256	» » "Material"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Material"];
257	» » "FrictMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.FrictMat"];	257	» » "LinIsoRayleighDampElastMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.LinIsoRayleighDampElastMat"];
258	» » "FrictMat"·->·"ElastMat"·[arrowsize=0.5,style="setlinewidth(0.5)"];	258	» » "LinIsoRayleighDampElastMat"·->·"LinIsoElastMat"·[arrowsize=0.5,style="setlinewidth(0.5)"];
259	» » "ViscElCapMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.ViscElCapMat"];	259	» » "ViscElCapMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.ViscElCapMat"];
260	» » "ViscElCapMat"·->·"ViscElMat"·[arrowsize=0.5,style="setlinewidth(0.5)"];	260	» » "ViscElCapMat"·->·"ViscElMat"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		261	» » "WireMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.WireMat"];
		262	» » "WireMat"·->·"FrictMat"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		263	» » "FrictViscoMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.FrictViscoMat"];
		264	» » "FrictViscoMat"·->·"FrictMat"·[arrowsize=0.5,style="setlinewidth(0.5)"];
261	» » "LinCohesiveStiffPropDampElastMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.LinCohesiveStiffPropDampElastMat"];	265	» » "LinCohesiveStiffPropDampElastMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.LinCohesiveStiffPropDampElastMat"];
262	» » "LinCohesiveStiffPropDampElastMat"·->·"LinCohesiveElasticMaterial"·[arrowsize=0.5,style="setlinewidth(0.5)"];	266	» » "LinCohesiveStiffPropDampElastMat"·->·"LinCohesiveElasticMaterial"·[arrowsize=0.5,style="setlinewidth(0.5)"];
263	» » "~~LinIso~~ElastMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.~~LinIso~~ElastMat"];	267	» » "ElastMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.ElastMat"];
264	» » "~~LinIso~~ElastMat"·->·"~~DeformableElement~~Material"·[arrowsize=0.5,style="setlinewidth(0.5)"];	268	» » "ElastMat"·->·"Material"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		269	» » "CohFrictMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.CohFrictMat"];
		270	» » "CohFrictMat"·->·"FrictMat"·[arrowsize=0.5,style="setlinewidth(0.5)"];
265	» » "CpmMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.CpmMat"];	271	» » "CpmMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.CpmMat"];
266	» » "CpmMat"·->·"FrictMat"·[arrowsize=0.5,style="setlinewidth(0.5)"];	272	» » "CpmMat"·->·"FrictMat"·[arrowsize=0.5,style="setlinewidth(0.5)"];
267	» » "ViscElMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.ViscElMat"];	273	» » "ViscElMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.ViscElMat"];
268	» » "ViscElMat"·->·"FrictMat"·[arrowsize=0.5,style="setlinewidth(0.5)"];	274	» » "ViscElMat"·->·"FrictMat"·[arrowsize=0.5,style="setlinewidth(0.5)"];
269	» » "LinIso~~RayleighDamp~~ElastMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.LinIso~~RayleighDamp~~ElastMat"];	275	» » "LinIsoElastMat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.LinIsoElastMat"];
270	» » "LinIso~~RayleighDamp~~ElastMat"·->·"~~LinIso~~ElastMat"·[arrowsize=0.5,style="setlinewidth(0.5)"];	276	» » "LinIsoElastMat"·->·"DeformableElementMaterial"·[arrowsize=0.5,style="setlinewidth(0.5)"];
271	» » "~~JCFpm~~Mat"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.~~JCFpm~~Mat"];	277	» » "FrictMatCDM"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.FrictMatCDM"];
272	» » "~~JCFpm~~Mat"·->·"FrictMat"·[arrowsize=0.5,style="setlinewidth(0.5)"];	278	» » "FrictMatCDM"·->·"FrictMat"·[arrowsize=0.5,style="setlinewidth(0.5)"];
273	» » "LinCohesiveElasticMaterial"·[shape="box",fontsize=8,style="setlinewidth(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.LinCohesiveElasticMaterial"];
274	» » "LinCohesiveElasticMaterial"·->·"CohesiveDeformableElementMaterial"·[arrowsize=0.5,style="setlinewidth(0.5)"];
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000977d0:·6e73·6953·7472·6169·6e22·3e5b·315d·3c2f··nsiStrain">[1]</		000977d0:·6e73·6953·7472·6169·6e22·3e5b·315d·3c2f··nsiStrain">[1]</
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00097a30:·3c2f·613e·2c20·3c61·2068·7265·663d·2279··</a>,·<a·href="y		00097a30:·3c2f·613e·2c20·3c61·2068·7265·663d·2279··</a>,·<a·href="y
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00097a60:·6c6c·2e67·6574·466c·7563·7475·6174·696f··ll.getFluctuatio		00097a60:·6c6c·2e67·6574·466c·7563·7475·6174·696f··ll.getFluctuatio
00097a70:·6e56·656c·6f63·6974·7922·3e5b·315d·3c2f··nVelocity">[1]</		00097a70:·6e56·656c·6f63·6974·7922·3e5b·315d·3c2f··nVelocity">[1]</
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00097e00:·2e67·6574·4c61·6772·616e·6769·616e·5374··.getLagrangianSt		00097e00:·2e67·6574·4c61·6772·616e·6769·616e·5374··.getLagrangianSt
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00097e50:·756c·3e0a·2020·2020·2020·2020·3c6c·693e··ul>.········<li>		00097e50:·756c·3e0a·2020·2020·2020·2020·3c6c·693e··ul>.········<li>
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00097ec0:·652e·7772·6170·7065·722e·4365·6c6c·2e67··e.wrapper.Cell.g		00097ec0:·652e·7772·6170·7065·722e·4365·6c6c·2e67··e.wrapper.Cell.g
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00097f40:·6565·6e44·6566·223e·6765·744c·4361·7563··eenDef">getLCauc		00097f40:·6565·6e44·6566·223e·6765·744c·4361·7563··eenDef">getLCauc
00097f50:·6879·4772·6565·6e44·6566·2829·2028·7961··hyGreenDef()·(ya		00097f50:·6879·4772·6565·6e44·6566·2829·2028·7961··hyGreenDef()·(ya
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00097f80:·3c75·6c3e·0a20·2020·2020·2020·203c·6c69··<ul>.········<li		00097f80:·3c75·6c3e·0a20·2020·2020·2020·203c·6c69··<ul>.········<li
00097f90:·3e3c·6120·6872·6566·3d22·7961·6465·2e77··><a·href="yade.w		00097f90:·3e3c·6120·6872·6566·3d22·7961·6465·2e77··><a·href="yade.w
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00097fb0:·3522·3e28·7961·6465·2e77·7261·7070·6572··5">(yade.wrapper		00097fb0:·3322·3e28·7961·6465·2e77·7261·7070·6572··3">(yade.wrapper
00097fc0:·2e43·656c·6c20·6d65·7468·6f64·293c·2f61··.Cell·method)</a		00097fc0:·2e43·656c·6c20·6d65·7468·6f64·293c·2f61··.Cell·method)</a
00097fd0:·3e2c·203c·6120·6872·6566·3d22·7961·6465··>,·<a·href="yade		00097fd0:·3e2c·203c·6120·6872·6566·3d22·7961·6465··>,·<a·href="yade
00097fe0:·2e77·7261·7070·6572·2e68·746d·6c23·7961··.wrapper.html#ya		00097fe0:·2e77·7261·7070·6572·2e68·746d·6c23·7961··.wrapper.html#ya
00097ff0:·6465·2e77·7261·7070·6572·2e43·656c·6c2e··de.wrapper.Cell.		00097ff0:·6465·2e77·7261·7070·6572·2e43·656c·6c2e··de.wrapper.Cell.
00098000:·6765·744c·4361·7563·6879·4772·6565·6e44··getLCauchyGreenD		00098000:·6765·744c·4361·7563·6879·4772·6565·6e44··getLCauchyGreenD
00098010:·6566·223e·5b31·5d3c·2f61·3e0a·3c2f·6c69··ef">[1]</a>.</li		00098010:·6566·223e·5b31·5d3c·2f61·3e0a·3c2f·6c69··ef">[1]</a>.</li
00098020:·3e0a·2020·2020·2020·3c2f·756c·3e3c·2f6c··>.······</ul></l		00098020:·3e0a·2020·2020·2020·3c2f·756c·3e3c·2f6c··>.······</ul></l
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Offset 242, 20 lines modified		Offset 242, 20 lines modified
242	(1000,True)·will·run·and·wait.·To·stop·at·absolute·step·number,·O.stopAtIter	242	(1000,True)·will·run·and·wait.·To·stop·at·absolute·step·number,·O.stopAtIter
243	can·be·set·and·O.run()·called·normally.	243	can·be·set·and·O.run()·called·normally.
244	Yade·[12]:·O.run()	244	Yade·[12]:·O.run()

245	Yade·[13]:·O.pause()	245	Yade·[13]:·O.pause()

246	Yade·[14]:·O.iter	246	Yade·[14]:·O.iter
247	Out[14]:·~~230~~6	247	Out[14]:·1

248	Yade·[15]:·O.run(100000,True)	248	Yade·[15]:·O.run(100000,True)

249	Yade·[16]:·O.iter	249	Yade·[16]:·O.iter
250	Out[16]:·102306	250	Out[16]:·100001

251	Yade·[17]:·O.stopAtIter=500000	251	Yade·[17]:·O.stopAtIter=500000

252	Yade·[18]:·O.run()	252	Yade·[18]:·O.run()

253	Yade·[19]:·O.wait()	253	Yade·[19]:·O.wait()

Offset 334, 15 lines modified		Offset 334, 15 lines modified
334	operating·on·the·data.·In·programming,·this·is·known·as·v\x8vi\x8is\x8si\x8it\x8to\x8or\x8r·pattern·(as	334	operating·on·the·data.·In·programming,·this·is·known·as·v\x8vi\x8is\x8si\x8it\x8to\x8or\x8r·pattern·(as
335	functional·components·“visit”·the·data,·without·being·bound·to·them	335	functional·components·“visit”·the·data,·without·being·bound·to·them
336	explicitly).	336	explicitly).
337	Entire·simulation,·i.e.·both·data·and·functions,·are·stored·in·a·single·Scene	337	Entire·simulation,·i.e.·both·data·and·functions,·are·stored·in·a·single·Scene
338	object.·It·is·accessible·through·the·_\x8O_\x8m_\x8e_\x8g_\x8a·class·in·python·(a·singleton),·which	338	object.·It·is·accessible·through·the·_\x8O_\x8m_\x8e_\x8g_\x8a·class·in·python·(a·singleton),·which
339	is·by·default·stored·in·the·O·global·variable:	339	is·by·default·stored·in·the·O·global·variable:
340	Yade·[28]:·O.bodies·······#·some·data·components	340	Yade·[28]:·O.bodies·······#·some·data·components
341	Out[28]:·<yade.wrapper.BodyContainer·at·0x7f0~~ea0952~~ab0>	341	Out[28]:·<yade.wrapper.BodyContainer·at·0x7fb2128bab20>

342	Yade·[29]:·len(O.bodies)··#·there·are·no·bodies·as·of·yet	342	Yade·[29]:·len(O.bodies)··#·there·are·no·bodies·as·of·yet
343	Out[29]:·0	343	Out[29]:·0

344	Yade·[30]:·O.engines······#·functional·components,·empty·at·the·moment	344	Yade·[30]:·O.engines······#·functional·components,·empty·at·the·moment
345	Out[30]:·[]	345	Out[30]:·[]
346	\x8\x8\x8·D\x8Da\x8at\x8ta\x8a·c\x8co\x8om\x8mp\x8po\x8on\x8ne\x8en\x8nt\x8ts\x8s_\x8?\x8¶·\x8\x8\x8	346	\x8\x8\x8·D\x8Da\x8at\x8ta\x8a·c\x8co\x8om\x8mp\x8po\x8on\x8ne\x8en\x8nt\x8ts\x8s_\x8?\x8¶·\x8\x8\x8
Offset 385, 17 lines modified		Offset 385, 17 lines modified
385	practical;·there·are·utility·functions·defined·to·create·them·with·all	385	practical;·there·are·utility·functions·defined·to·create·them·with·all
386	necessary·ingredients.·For·example,·we·can·create·sphere·particle·using	386	necessary·ingredients.·For·example,·we·can·create·sphere·particle·using
387	_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8s_\x8p_\x8h_\x8e_\x8r_\x8e:	387	_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8s_\x8p_\x8h_\x8e_\x8r_\x8e:
388	Yade·[31]:·s=utils.sphere(center=[0,0,0],radius=1)	388	Yade·[31]:·s=utils.sphere(center=[0,0,0],radius=1)

389	Yade·[32]:·s.shape,·s.state,·s.mat,·s.bound	389	Yade·[32]:·s.shape,·s.state,·s.mat,·s.bound
390	Out[32]:	390	Out[32]:
391	(<Sphere·instance·at·0x4190e890>,	391	(<Sphere·instance·at·0x14163e90>,
392	·<State·instance·at·0x~~415~~b64f0>,	392	·<State·instance·at·0x13fb67e0>,
393	·<FrictMat·instance·at·0x418f7630>,	393	·<FrictMat·instance·at·0x14163780>,
394	·None)	394	·None)

395	Yade·[33]:·s.state.pos	395	Yade·[33]:·s.state.pos
396	Out[33]:·Vector3(0,0,0)	396	Out[33]:·Vector3(0,0,0)

397	Yade·[34]:·s.shape.radius	397	Yade·[34]:·s.shape.radius
398	Out[34]:·1.0	398	Out[34]:·1.0
Offset 471, 29 lines modified		Offset 471, 29 lines modified
471	_\x8[_\x8__\x8i_\x8m_\x8a_\x8g_\x8e_\x8s_\x8/_\x8i_\x8n_\x8t_\x8e_\x8r_\x8a_\x8c_\x8t_\x8i_\x8o_\x8n_\x8-_\x8c_\x8l_\x8a_\x8s_\x8s_\x8e_\x8s_\x8._\x8p_\x8n_\x8g_\x8]	471	_\x8[_\x8__\x8i_\x8m_\x8a_\x8g_\x8e_\x8s_\x8/_\x8i_\x8n_\x8t_\x8e_\x8r_\x8a_\x8c_\x8t_\x8i_\x8o_\x8n_\x8-_\x8c_\x8l_\x8a_\x8s_\x8s_\x8e_\x8s_\x8._\x8p_\x8n_\x8g_\x8]
472	Examples·of·concrete·classes·that·might·be·used·to·describe·an·_\x8I_\x8n_\x8t_\x8e_\x8r_\x8a_\x8c_\x8t_\x8i_\x8o_\x8n:	472	Examples·of·concrete·classes·that·might·be·used·to·describe·an·_\x8I_\x8n_\x8t_\x8e_\x8r_\x8a_\x8c_\x8t_\x8i_\x8o_\x8n:
473	_\x8I_\x8G_\x8e_\x8o_\x8m,·_\x8G_\x8e_\x8n_\x8e_\x8r_\x8i_\x8c_\x8S_\x8p_\x8h_\x8e_\x8r_\x8e_\x8s_\x8C_\x8o_\x8n_\x8t_\x8a_\x8c_\x8t,·_\x8P_\x8o_\x8l_\x8y_\x8h_\x8e_\x8d_\x8r_\x8a_\x8G_\x8e_\x8o_\x8m,·_\x8C_\x8y_\x8l_\x8S_\x8c_\x8G_\x8e_\x8o_\x8m,·_\x8I_\x8P_\x8h_\x8y_\x8s,·_\x8N_\x8o_\x8r_\x8m_\x8P_\x8h_\x8y_\x8s,	473	_\x8I_\x8G_\x8e_\x8o_\x8m,·_\x8G_\x8e_\x8n_\x8e_\x8r_\x8i_\x8c_\x8S_\x8p_\x8h_\x8e_\x8r_\x8e_\x8s_\x8C_\x8o_\x8n_\x8t_\x8a_\x8c_\x8t,·_\x8P_\x8o_\x8l_\x8y_\x8h_\x8e_\x8d_\x8r_\x8a_\x8G_\x8e_\x8o_\x8m,·_\x8C_\x8y_\x8l_\x8S_\x8c_\x8G_\x8e_\x8o_\x8m,·_\x8I_\x8P_\x8h_\x8y_\x8s,·_\x8N_\x8o_\x8r_\x8m_\x8P_\x8h_\x8y_\x8s,
474	_\x8N_\x8o_\x8r_\x8m_\x8S_\x8h_\x8e_\x8a_\x8r_\x8P_\x8h_\x8y_\x8s,·_\x8F_\x8r_\x8i_\x8c_\x8t_\x8P_\x8h_\x8y_\x8s._\x8¶	474	_\x8N_\x8o_\x8r_\x8m_\x8S_\x8h_\x8e_\x8a_\x8r_\x8P_\x8h_\x8y_\x8s,·_\x8F_\x8r_\x8i_\x8c_\x8t_\x8P_\x8h_\x8y_\x8s._\x8¶
475	Suppose·now·interactions·have·been·already·created.·We·can·access·them·by·the	475	Suppose·now·interactions·have·been·already·created.·We·can·access·them·by·the
476	id·pair:	476	id·pair:
477	Yade·[41]:·O.interactions[0,1]	477	Yade·[41]:·O.interactions[0,1]
478	Out[41]:·<Interaction·instance·at·0x41~~932~~4f0>	478	Out[41]:·<Interaction·instance·at·0x1417ce40>

479	Yade·[42]:·O.interactions[1,0]·····#·order·of·ids·is·not·important	479	Yade·[42]:·O.interactions[1,0]·····#·order·of·ids·is·not·important
480	Out[42]:·<Interaction·instance·at·0x41~~932~~4f0>	480	Out[42]:·<Interaction·instance·at·0x1417ce40>

481	Yade·[43]:·i=O.interactions[0,1]	481	Yade·[43]:·i=O.interactions[0,1]

482	Yade·[44]:·i.id1,i.id2	482	Yade·[44]:·i.id1,i.id2
483	Out[44]:·(0,·1)	483	Out[44]:·(0,·1)

484	Yade·[45]:·i.geom	484	Yade·[45]:·i.geom
485	Out[45]:·<ScGeom·instance·at·0x~~415b666~~0>	485	Out[45]:·<ScGeom·instance·at·0x13f49a80>

486	Yade·[46]:·i.phys	486	Yade·[46]:·i.phys
487	Out[46]:·<FrictPhys·instance·at·0x41~~8d85c~~0>	487	Out[46]:·<FrictPhys·instance·at·0x11a8fb10>

488	Yade·[47]:·O.interactions[100,10111]·····#·asking·for·non·existing·interaction	488	Yade·[47]:·O.interactions[100,10111]·····#·asking·for·non·existing·interaction
489	throws·exception	489	throws·exception
490	[0;31m-------------------------------------------------------------------------	490	[0;31m-------------------------------------------------------------------------
491	--\x1b[0m	491	--\x1b[0m
492	[0;31mIndexError\x1b[0m································Traceback·(most·recent·call	492	[0;31mIndexError\x1b[0m································Traceback·(most·recent·call
493	last)	493	last)


Offset 1109, 19 lines modified		Offset 1109, 19 lines modified
1109	<wire>0</wire>	1109	<wire>0</wire>
1110	<highlight>0</highlight>	1110	<highlight>0</highlight>
1111	</px>	1111	</px>
1112	</subD>	1112	</subD>
1113	<tags·class_id="6"·tracking_level="0"·version="0">	1113	<tags·class_id="6"·tracking_level="0"·version="0">
1114	<count>5</count>	1114	<count>5</count>
1115	<item_version>0</item_version>	1115	<item_version>0</item_version>
1116	<item>author=~(pbuilder1@ionos5-amd64)</item>	1116	<item>author=second~user~(pbuilder2@i-capture-the-hostname)</item>
1117	<item>isoTime=20261109T~~133139~~</item>	1117	<item>isoTime=20251008T210642</item>
1118	<item>id=20261109T133139p236050</item>
1119	<item>d.id=20261109T133139p236050</item>
1120	<item>id.d=20261109T~~133139~~p236050</item>	1118	<item>id=20251008T210642p2068901</item>
		1119	<item>d.id=20251008T210642p2068901</item>
		1120	<item>id.d=20251008T210642p2068901</item>
1121	</tags>	1121	</tags>
1122	<engines·class_id="7"·tracking_level="0"·version="0">	1122	<engines·class_id="7"·tracking_level="0"·version="0">
1123	<count>1</count>	1123	<count>1</count>
1124	<item_version>1</item_version>	1124	<item_version>1</item_version>
1125	<item·class_id="8"·tracking_level="0"·version="1">	1125	<item·class_id="8"·tracking_level="0"·version="1">
1126	<px·class_id="10"·class_name="yade::GravityEngine"·tracking_level="1"	1126	<px·class_id="10"·class_name="yade::GravityEngine"·tracking_level="1"
1127	version="0"·object_id="_4">	1127	version="0"·object_id="_4">
Offset 1840, 15 lines modified		Offset 1840, 15 lines modified
1840	Yade·[42]:·ld=LawDispatcher([Law2_ScGeom_CpmPhys_Cpm()])	1840	Yade·[42]:·ld=LawDispatcher([Law2_ScGeom_CpmPhys_Cpm()])

1841	Yade·[43]:·ld.dispMatrix()	1841	Yade·[43]:·ld.dispMatrix()
1842	Out[43]:·{('GenericSpheresContact',·'CpmPhys'):·'Law2_ScGeom_CpmPhys_Cpm'}	1842	Out[43]:·{('GenericSpheresContact',·'CpmPhys'):·'Law2_ScGeom_CpmPhys_Cpm'}

1843	#·see·how·the·entry·for·ScGridCoGeom·will·be·filled·after·this·request	1843	#·see·how·the·entry·for·ScGridCoGeom·will·be·filled·after·this·request
1844	Yade·[44]:·ld.dispFunctor(ScGridCoGeom(),CpmPhys())	1844	Yade·[44]:·ld.dispFunctor(ScGridCoGeom(),CpmPhys())
1845	Out[44]:·<Law2_ScGeom_CpmPhys_Cpm·instance·at·0x~~4190e~~f00>	1845	Out[44]:·<Law2_ScGeom_CpmPhys_Cpm·instance·at·0x13bacf90>

1846	Yade·[45]:·ld.dispMatrix()	1846	Yade·[45]:·ld.dispMatrix()
1847	Out[45]:	1847	Out[45]:
1848	{('GenericSpheresContact',·'CpmPhys'):·'Law2_ScGeom_CpmPhys_Cpm',	1848	{('GenericSpheresContact',·'CpmPhys'):·'Law2_ScGeom_CpmPhys_Cpm',
1849	·('ScGridCoGeom',·'CpmPhys'):·'Law2_ScGeom_CpmPhys_Cpm'}	1849	·('ScGridCoGeom',·'CpmPhys'):·'Law2_ScGeom_CpmPhys_Cpm'}
1850	\x8\x8\x8·O\x8Op\x8pe\x8en\x8nG\x8GL\x8L·f\x8fu\x8un\x8nc\x8ct\x8to\x8or\x8rs\x8s_\x8?\x8¶·\x8\x8\x8	1850	\x8\x8\x8·O\x8Op\x8pe\x8en\x8nG\x8GL\x8L·f\x8fu\x8un\x8nc\x8ct\x8to\x8or\x8rs\x8s_\x8?\x8¶·\x8\x8\x8
1851	OpenGL·rendering·is·being·done·also·by·1D·functors·(dispatched·for·the·type·to	1851	OpenGL·rendering·is·being·done·also·by·1D·functors·(dispatched·for·the·type·to
Offset 1980, 39 lines modified		Offset 1980, 39 lines modified
1980	Yade·[52]:·O.run(50);·O.wait()	1980	Yade·[52]:·O.run(50);·O.wait()

1981	Yade·[53]:·yade.timing.stats()	1981	Yade·[53]:·yade.timing.stats()
1982	Name····················································Count	1982	Name····················································Count
1983	Time············Rel.·time	1983	Time············Rel.·time
1984	-------------------------------------------------------------------------------	1984	-------------------------------------------------------------------------------
1985	------------------------	1985	------------------------
1986	"firstEngine"········································50············~~·65~~.218us	1986	"firstEngine"········································50············127.721us
1987	0.96%	1987	0.44%
1988	InsertionSortCollider································25············~~1906~~.93us	1988	InsertionSortCollider································25···········3642.962us
1989	28.03%	1989	12.41%
1990	InteractionLoop······································50··········~~·322~~8.~~936~~us	1990	InteractionLoop······································50··········19018.025us
1991	47.47%	1991	64.78%
1992	GlobalStiffnessTimeStepper····························2·············~~·27.01~~us	1992	GlobalStiffnessTimeStepper····························2·············50.269us
1993	0.40%	1993	0.17%
1994	TriaxialCompressionEngine····························50···········~~·495~~.~~033~~us	1994	TriaxialCompressionEngine····························50···········1286.887us
1995	7.28%	1995	4.38%
1996	TriaxialStateRecorder·································3···········~~·233~~.~~598~~us	1996	TriaxialStateRecorder·································3···········3586.644us
1997	3.43%	1997	12.22%
1998	NewtonIntegrator·····································50············846.~~007~~us	1998	NewtonIntegrator·····································50···········1644.224us
1999	12.44%	1999	5.60%
2000	··forces·sync··········································50··············9.~~522~~us	2000	··forces·sync··········································50·············27.313us
2001	1.13%	2001	1.66%
2002	··motion·integration···································50···········~~·810~~.~~242~~us	2002	··motion·integration···································50···········1541.514us
2003	95.77%	2003	93.75%
2004	··sync·max·vel·········································50··············4.~~853~~us	2004	··sync·max·vel·········································50·············13.222us
2005	0.57%	2005	0.80%
2006	··terminate············································50··············2.~~674~~us	2006	··terminate············································50··············5.598us
2007	0.32%	2007	0.34%
2008	··TOTAL···············································200···········~~·82~~7.~~291~~us	2008	··TOTAL···············································200···········1587.647us
2009	97.79%	2009	96.56%
2010	TOTAL····························································~~·6802~~.732us	2010	TOTAL····························································29356.732us
2011	100.00%	2011	100.00%
2012	Exec·count·and·time·can·be·accessed·and·manipulated·through·Engine::timingInfo	2012	Exec·count·and·time·can·be·accessed·and·manipulated·through·Engine::timingInfo
2013	from·c++·or·Engine().execCount·and·Engine().execTime·properties·in·Python.	2013	from·c++·or·Engine().execCount·and·Engine().execTime·properties·in·Python.
2014	\x8\x8\x8·I\x8In\x8n-\x8-e\x8en\x8ng\x8gi\x8in\x8ne\x8e·a\x8an\x8nd\x8d·i\x8in\x8n-\x8-f\x8fu\x8un\x8nc\x8ct\x8to\x8or\x8r·t\x8ti\x8im\x8mi\x8in\x8ng\x8g_\x8?\x8¶·\x8\x8\x8	2014	\x8\x8\x8·I\x8In\x8n-\x8-e\x8en\x8ng\x8gi\x8in\x8ne\x8e·a\x8an\x8nd\x8d·i\x8in\x8n-\x8-f\x8fu\x8un\x8nc\x8ct\x8to\x8or\x8r·t\x8ti\x8im\x8mi\x8in\x8ng\x8g_\x8?\x8¶·\x8\x8\x8
2015	Timing·within·engines·(and·functors)·is·based·on·_\x8T_\x8i_\x8m_\x8i_\x8n_\x8g_\x8D_\x8e_\x8l_\x8t_\x8a_\x8s·class·which·is·by	2015	Timing·within·engines·(and·functors)·is·based·on·_\x8T_\x8i_\x8m_\x8i_\x8n_\x8g_\x8D_\x8e_\x8l_\x8t_\x8a_\x8s·class·which·is·by
2016	default·instantiated·in·engines·and·functors·as·Engine::timingDeltas·and	2016	default·instantiated·in·engines·and·functors·as·Engine::timingDeltas·and
2017	Functor::timingDeltas·(_\x8E_\x8n_\x8g_\x8i_\x8n_\x8e_\x8._\x8t_\x8i_\x8m_\x8i_\x8n_\x8g_\x8D_\x8e_\x8l_\x8t_\x8a_\x8s·and·_\x8F_\x8u_\x8n_\x8c_\x8t_\x8o_\x8r_\x8._\x8t_\x8i_\x8m_\x8i_\x8n_\x8g_\x8D_\x8e_\x8l_\x8t_\x8a_\x8s·in·Python).	2017	Functor::timingDeltas·(_\x8E_\x8n_\x8g_\x8i_\x8n_\x8e_\x8._\x8t_\x8i_\x8m_\x8i_\x8n_\x8g_\x8D_\x8e_\x8l_\x8t_\x8a_\x8s·and·_\x8F_\x8u_\x8n_\x8c_\x8t_\x8o_\x8r_\x8._\x8t_\x8i_\x8m_\x8i_\x8n_\x8g_\x8D_\x8e_\x8l_\x8t_\x8a_\x8s·in·Python).


Offset 10102, 15 lines modified		Offset 10102, 15 lines modified
10102	········"dict()·(yade.wrapper.capillaryphys·method)":·[	10102	········"dict()·(yade.wrapper.capillaryphys·method)":·[
10103	············[67,·"yade.wrapper.CapillaryPhys.dict",·false]	10103	············[67,·"yade.wrapper.CapillaryPhys.dict",·false]
10104	········],	10104	········],
10105	········"dict()·(yade.wrapper.capillarystressrecorder·method)":·[	10105	········"dict()·(yade.wrapper.capillarystressrecorder·method)":·[
10106	············[67,·"yade.wrapper.CapillaryStressRecorder.dict",·false]	10106	············[67,·"yade.wrapper.CapillaryStressRecorder.dict",·false]
10107	········],	10107	········],
10108	········"dict()·(yade.wrapper.cell·method)":·[	10108	········"dict()·(yade.wrapper.cell·method)":·[
10109	············[67,·"id149",·false],	10109	············[67,·"id147",·false],
10110	············[67,·"yade.wrapper.Cell.dict",·false]	10110	············[67,·"yade.wrapper.Cell.dict",·false]
10111	········],	10111	········],
10112	········"dict()·(yade.wrapper.centralconstantaccelerationengine·method)":·[	10112	········"dict()·(yade.wrapper.centralconstantaccelerationengine·method)":·[
10113	············[67,·"yade.wrapper.CentralConstantAccelerationEngine.dict",·false]	10113	············[67,·"yade.wrapper.CentralConstantAccelerationEngine.dict",·false]
10114	········],	10114	········],
10115	········"dict()·(yade.wrapper.chainedcylinder·method)":·[	10115	········"dict()·(yade.wrapper.chainedcylinder·method)":·[
10116	············[67,·"yade.wrapper.ChainedCylinder.dict",·false]	10116	············[67,·"yade.wrapper.ChainedCylinder.dict",·false]
Offset 15353, 22 lines modified		Offset 15353, 22 lines modified
15353	········"flipcell()·(in·module·yade._utils)":·[	15353	········"flipcell()·(in·module·yade._utils)":·[
15354	············[66,·"yade._utils.flipCell",·false]	15354	············[66,·"yade._utils.flipCell",·false]
15355	········],	15355	········],
15356	········"flipcell()·(yade.plot.cell·method)":·[	15356	········"flipcell()·(yade.plot.cell·method)":·[
15357	············[60,·"yade.plot.Cell.flipCell",·false]	15357	············[60,·"yade.plot.Cell.flipCell",·false]
15358	········],	15358	········],
15359	········"flipcell()·(yade.wrapper.cell·method)":·[	15359	········"flipcell()·(yade.wrapper.cell·method)":·[
15360	············[67,·"id150",·false],	15360	············[67,·"id148",·false],
15361	············[67,·"yade.wrapper.Cell.flipCell",·false]	15361	············[67,·"yade.wrapper.Cell.flipCell",·false]
15362	········],	15362	········],
15363	········"flipflippable·(yade.plot.cell·property)":·[	15363	········"flipflippable·(yade.plot.cell·property)":·[
15364	············[60,·"yade.plot.Cell.flipFlippable",·false]	15364	············[60,·"yade.plot.Cell.flipFlippable",·false]
15365	········],	15365	········],
15366	········"flipflippable·(yade.wrapper.cell·property)":·[	15366	········"flipflippable·(yade.wrapper.cell·property)":·[
15367	············[67,·"id151",·false],	15367	············[67,·"id149",·false],
15368	············[67,·"yade.wrapper.Cell.flipFlippable",·false]	15368	············[67,·"yade.wrapper.Cell.flipFlippable",·false]
15369	········],	15369	········],
15370	········"floor()·(in·module·yade._math)":·[	15370	········"floor()·(in·module·yade._math)":·[
15371	············[56,·"yade._math.floor",·false]	15371	············[56,·"yade._math.floor",·false]
15372	········],	15372	········],
15373	········"floor()·(yade._math.hp1·method)":·[	15373	········"floor()·(yade._math.hp1·method)":·[
15374	············[56,·"yade._math.HP1.floor",·false]	15374	············[56,·"yade._math.HP1.floor",·false]
Offset 16198, 15 lines modified		Offset 16198, 15 lines modified
16198	········"getdefaultloglevel()·(in·module·yade._log)":·[	16198	········"getdefaultloglevel()·(in·module·yade._log)":·[
16199	············[55,·"yade._log.getDefaultLogLevel",·false]	16199	············[55,·"yade._log.getDefaultLogLevel",·false]
16200	········],	16200	········],
16201	········"getdefgrad()·(yade.plot.cell·method)":·[	16201	········"getdefgrad()·(yade.plot.cell·method)":·[
16202	············[60,·"yade.plot.Cell.getDefGrad",·false]	16202	············[60,·"yade.plot.Cell.getDefGrad",·false]
16203	········],	16203	········],
16204	········"getdefgrad()·(yade.wrapper.cell·method)":·[	16204	········"getdefgrad()·(yade.wrapper.cell·method)":·[
16205	············[67,·"id152",·false],	16205	············[67,·"id150",·false],
16206	············[67,·"yade.wrapper.Cell.getDefGrad",·false]	16206	············[67,·"yade.wrapper.Cell.getDefGrad",·false]
16207	········],	16207	········],
16208	········"getdemangledname()·(in·module·yade._math)":·[	16208	········"getdemangledname()·(in·module·yade._math)":·[
16209	············[56,·"yade._math.getDemangledName",·false]	16209	············[56,·"yade._math.getDemangledName",·false]
16210	········],	16210	········],
16211	········"getdemangledname()·(yade._math.hp1·method)":·[	16211	········"getdemangledname()·(yade._math.hp1·method)":·[
16212	············[56,·"yade._math.HP1.getDemangledName",·false]	16212	············[56,·"yade._math.HP1.getDemangledName",·false]
Offset 16244, 15 lines modified		Offset 16244, 15 lines modified
16244	········"geteigenstorageorders()·(in·module·yade._math)":·[	16244	········"geteigenstorageorders()·(in·module·yade._math)":·[
16245	············[56,·"yade._math.getEigenStorageOrders",·false]	16245	············[56,·"yade._math.getEigenStorageOrders",·false]
16246	········],	16246	········],
16247	········"geteulerianalmansistrain()·(yade.plot.cell·method)":·[	16247	········"geteulerianalmansistrain()·(yade.plot.cell·method)":·[
16248	············[60,·"yade.plot.Cell.getEulerianAlmansiStrain",·false]	16248	············[60,·"yade.plot.Cell.getEulerianAlmansiStrain",·false]
16249	········],	16249	········],
16250	········"geteulerianalmansistrain()·(yade.wrapper.cell·method)":·[	16250	········"geteulerianalmansistrain()·(yade.wrapper.cell·method)":·[
16251	············[67,·"id153",·false],	16251	············[67,·"id151",·false],
16252	············[67,·"yade.wrapper.Cell.getEulerianAlmansiStrain",·false]	16252	············[67,·"yade.wrapper.Cell.getEulerianAlmansiStrain",·false]
16253	········],	16253	········],
16254	········"getfloatdistanceulp()·(in·module·yade._math)":·[	16254	········"getfloatdistanceulp()·(in·module·yade._math)":·[
16255	············[56,·"yade._math.getFloatDistanceULP",·false]	16255	············[56,·"yade._math.getFloatDistanceULP",·false]
16256	········],	16256	········],
16257	········"getfloatdistanceulp()·(yade._math.hp1·method)":·[	16257	········"getfloatdistanceulp()·(yade._math.hp1·method)":·[
16258	············[56,·"yade._math.HP1.getFloatDistanceULP",·false]	16258	············[56,·"yade._math.HP1.getFloatDistanceULP",·false]
Offset 16260, 15 lines modified		Offset 16260, 15 lines modified
16260	········"getfloatdistanceulp()·(yade._math.hp2·method)":·[	16260	········"getfloatdistanceulp()·(yade._math.hp2·method)":·[
16261	············[56,·"yade._math.HP2.getFloatDistanceULP",·false]	16261	············[56,·"yade._math.HP2.getFloatDistanceULP",·false]
16262	········],	16262	········],
16263	········"getfluctuationvelocity()·(yade.plot.cell·method)":·[	16263	········"getfluctuationvelocity()·(yade.plot.cell·method)":·[
16264	············[60,·"yade.plot.Cell.getFluctuationVelocity",·false]	16264	············[60,·"yade.plot.Cell.getFluctuationVelocity",·false]
16265	········],	16265	········],
16266	········"getfluctuationvelocity()·(yade.wrapper.cell·method)":·[	16266	········"getfluctuationvelocity()·(yade.wrapper.cell·method)":·[
16267	············[67,·"id154",·false],	16267	············[67,·"id152",·false],
16268	············[67,·"yade.wrapper.Cell.getFluctuationVelocity",·false]	16268	············[67,·"yade.wrapper.Cell.getFluctuationVelocity",·false]
16269	········],	16269	········],
16270	········"getfluiddomainbbox()·(yade.plot.foamcoupling·method)":·[	16270	········"getfluiddomainbbox()·(yade.plot.foamcoupling·method)":·[
16271	············[60,·"yade.plot.FoamCoupling.getFluidDomainBbox",·false]	16271	············[60,·"yade.plot.FoamCoupling.getFluidDomainBbox",·false]
16272	········],	16272	········],
16273	········"getfluiddomainbbox()·(yade.wrapper.foamcoupling·method)":·[	16273	········"getfluiddomainbbox()·(yade.wrapper.foamcoupling·method)":·[
16274	············[67,·"yade.wrapper.FoamCoupling.getFluidDomainBbox",·false]	16274	············[67,·"yade.wrapper.FoamCoupling.getFluidDomainBbox",·false]
Offset 16285, 29 lines modified		Offset 16285, 29 lines modified
16285	········"getidlist()·(yade.wrapper.foamcoupling·method)":·[	16285	········"getidlist()·(yade.wrapper.foamcoupling·method)":·[
16286	············[67,·"yade.wrapper.FoamCoupling.getIdList",·false]	16286	············[67,·"yade.wrapper.FoamCoupling.getIdList",·false]
16287	········],	16287	········],
16288	········"getlagrangianstrain()·(yade.plot.cell·method)":·[	16288	········"getlagrangianstrain()·(yade.plot.cell·method)":·[
16289	············[60,·"yade.plot.Cell.getLagrangianStrain",·false]	16289	············[60,·"yade.plot.Cell.getLagrangianStrain",·false]
16290	········],	16290	········],
16291	········"getlagrangianstrain()·(yade.wrapper.cell·method)":·[	16291	········"getlagrangianstrain()·(yade.wrapper.cell·method)":·[
16292	············[67,·"id156",·false],	16292	············[67,·"id154",·false],
16293	············[67,·"yade.wrapper.Cell.getLagrangianStrain",·false]	16293	············[67,·"yade.wrapper.Cell.getLagrangianStrain",·false]
16294	········],	16294	········],
16295	········"getlcauchygreendef()·(yade.plot.cell·method)":·[	16295	········"getlcauchygreendef()·(yade.plot.cell·method)":·[
16296	············[60,·"yade.plot.Cell.getLCauchyGreenDef",·false]	16296	············[60,·"yade.plot.Cell.getLCauchyGreenDef",·false]
16297	········],	16297	········],
16298	········"getlcauchygreendef()·(yade.wrapper.cell·method)":·[	16298	········"getlcauchygreendef()·(yade.wrapper.cell·method)":·[
16299	············[67,·"id155",·false],	16299	············[67,·"id153",·false],
16300	············[67,·"yade.wrapper.Cell.getLCauchyGreenDef",·false]	16300	············[67,·"yade.wrapper.Cell.getLCauchyGreenDef",·false]
16301	········],	16301	········],
16302	········"getleftstretch()·(yade.plot.cell·method)":·[	16302	········"getleftstretch()·(yade.plot.cell·method)":·[
16303	············[60,·"yade.plot.Cell.getLeftStretch",·false]	16303	············[60,·"yade.plot.Cell.getLeftStretch",·false]
16304	········],	16304	········],
16305	········"getleftstretch()·(yade.wrapper.cell·method)":·[	16305	········"getleftstretch()·(yade.wrapper.cell·method)":·[
16306	············[67,·"id157",·false],	16306	············[67,·"id155",·false],
16307	············[67,·"yade.wrapper.Cell.getLeftStretch",·false]	16307	············[67,·"yade.wrapper.Cell.getLeftStretch",·false]
16308	········],	16308	········],
16309	········"getlinuxversion()·(in·module·yade.libversions)":·[	16309	········"getlinuxversion()·(in·module·yade.libversions)":·[
16310	············[53,·"yade.libVersions.getLinuxVersion",·false]	16310	············[53,·"yade.libVersions.getLinuxVersion",·false]
16311	········],	16311	········],
16312	········"getmaxlevel()·(in·module·yade._log)":·[	16312	········"getmaxlevel()·(in·module·yade._log)":·[
16313	············[55,·"yade._log.getMaxLevel",·false]	16313	············[55,·"yade._log.getMaxLevel",·false]
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16372	········"getpfacets()·(yade.wrapper.gridnode·method)":·[	16372	········"getpfacets()·(yade.wrapper.gridnode·method)":·[
16373	············[67,·"yade.wrapper.GridNode.getPFacets",·false]	16373	············[67,·"yade.wrapper.GridNode.getPFacets",·false]
16374	········],	16374	········],
16375	········"getpolardecofdefgrad()·(yade.plot.cell·method)":·[	16375	········"getpolardecofdefgrad()·(yade.plot.cell·method)":·[
16376	············[60,·"yade.plot.Cell.getPolarDecOfDefGrad",·false]	16376	············[60,·"yade.plot.Cell.getPolarDecOfDefGrad",·false]
16377	········],	16377	········],
16378	········"getpolardecofdefgrad()·(yade.wrapper.cell·method)":·[	16378	········"getpolardecofdefgrad()·(yade.wrapper.cell·method)":·[
16379	············[67,·"id158",·false],	16379	············[67,·"id156",·false],
16380	············[67,·"yade.wrapper.Cell.getPolarDecOfDefGrad",·false]	16380	············[67,·"yade.wrapper.Cell.getPolarDecOfDefGrad",·false]
16381	········],	16381	········],
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Offset 225, 18 lines modified		Offset 225, 18 lines modified
225	<p>Periodic·boundary·is·a·“boundary”·created·by·using·periodic·(rather·than·infinite)·space.·Such·boundary·is·activated·by·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Omega.periodic">O.periodic=True·</a>,·and·the·space·configuration·is·decribed·by·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Omega.cell">O.cell·</a>.·It·is·well·suited·for·studying·bulk·material·behavior,·as·boundary·effects·are·avoided,·leading·to·smaller·number·of·particles.·On·the·other·hand,·it·might·not·be·suitable·for·studying·localization,·as·any·cell-level·effects·(such·as·shear·bands)·have·to·satisfy·periodicity·as·well.</p>	225	<p>Periodic·boundary·is·a·“boundary”·created·by·using·periodic·(rather·than·infinite)·space.·Such·boundary·is·activated·by·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Omega.periodic">O.periodic=True·</a>,·and·the·space·configuration·is·decribed·by·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Omega.cell">O.cell·</a>.·It·is·well·suited·for·studying·bulk·material·behavior,·as·boundary·effects·are·avoided,·leading·to·smaller·number·of·particles.·On·the·other·hand,·it·might·not·be·suitable·for·studying·localization,·as·any·cell-level·effects·(such·as·shear·bands)·have·to·satisfy·periodicity·as·well.</p>
226	<p>The·periodic·cell·is·described·by·its·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Cell.refSize">reference·size·</a>·of·box·aligned·with·global·axes,·and·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Cell.trsf">current·transformation</a>,·which·can·capture·stretch,·shear·and·rotation.·Deformation·is·prescribed·via·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Cell.velGrad">velocity·gradient</a>,·which·updates·the·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Cell.trsf">transformation</a>·before·the·next·step.·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Cell.homoDeform">Homothetic·deformation</a>·can·smear·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Cell.velGrad">velocity·gradient</a>·accross·the·cell,·making·the·boundary·dissolve·in·the·whole·cell.</p>	226	<p>The·periodic·cell·is·described·by·its·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Cell.refSize">reference·size·</a>·of·box·aligned·with·global·axes,·and·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Cell.trsf">current·transformation</a>,·which·can·capture·stretch,·shear·and·rotation.·Deformation·is·prescribed·via·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Cell.velGrad">velocity·gradient</a>,·which·updates·the·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Cell.trsf">transformation</a>·before·the·next·step.·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Cell.homoDeform">Homothetic·deformation</a>·can·smear·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Cell.velGrad">velocity·gradient</a>·accross·the·cell,·making·the·boundary·dissolve·in·the·whole·cell.</p>
227	<p>Stress·and·strains·can·be·controlled·with·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.PeriTriaxController">PeriTriaxController</a>;·it·is·possible·to·prescribe·mixed·strain/stress·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.PeriTriaxController.goal">goal</a>·state·using·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.PeriTriaxController.stressMask">PeriTriaxController.stressMask</a>.</p>	227	<p>Stress·and·strains·can·be·controlled·with·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.PeriTriaxController">PeriTriaxController</a>;·it·is·possible·to·prescribe·mixed·strain/stress·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.PeriTriaxController.goal">goal</a>·state·using·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.PeriTriaxController.stressMask">PeriTriaxController.stressMask</a>.</p>
228	<p>The·following·creates·periodic·cloud·of·spheres·and·compresses·to·achieve·<span·class="math·notranslate·nohighlight">\(\sigma_x\)</span>=-10·kPa,·<span·class="math·notranslate·nohighlight">\(\sigma_y\)</span>=-10kPa·and·<span·class="math·notranslate·nohighlight">\(\eps_z\)</span>=-0.1.·Since·stress·is·specified·for·<span·class="math·notranslate·nohighlight">\(y\)</span>·and·<span·class="math·notranslate·nohighlight">\(z\)</span>,·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.PeriTriaxController.stressMask">stressMask</a>·is·binary·<code·class="docutils·literal·notranslate"><span·class="pre">0b011</span></code>·(x→1,·y→2,·z→4,·in·decimal·1+2=3).</p>	228	<p>The·following·creates·periodic·cloud·of·spheres·and·compresses·to·achieve·<span·class="math·notranslate·nohighlight">\(\sigma_x\)</span>=-10·kPa,·<span·class="math·notranslate·nohighlight">\(\sigma_y\)</span>=-10kPa·and·<span·class="math·notranslate·nohighlight">\(\eps_z\)</span>=-0.1.·Since·stress·is·specified·for·<span·class="math·notranslate·nohighlight">\(y\)</span>·and·<span·class="math·notranslate·nohighlight">\(z\)</span>,·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.PeriTriaxController.stressMask">stressMask</a>·is·binary·<code·class="docutils·literal·notranslate"><span·class="pre">0b011</span></code>·(x→1,·y→2,·z→4,·in·decimal·1+2=3).</p>
229	<div·class="highlight-ipython·notranslate"><div·class="highlight"><pre><span></span><span·class="gp">Yade·[1]:·</span><span·class="n">sp</span><span·class="o">=</span><span·class="n">pack</span><span·class="o">.</span><span·class="n">SpherePack</span><span·class="p">()</span>	229	<div·class="highlight-ipython·notranslate"><div·class="highlight"><pre><span></span><span·class="gp">Yade·[1]:·</span><span·class="n">sp</span><span·class="o">=</span><span·class="n">pack</span><span·class="o">.</span><span·class="n">SpherePack</span><span·class="p">()</span>

230	<span·class="gp">Yade·[2]:·</span><span·class="n">sp</span><span·class="o">.</span><span·class="n">makeCloud</span><span·class="p">((</span><span·class="mi">1</span><span·class="p">,</span><span·class="mi">1</span><span·class="p">,</span><span·class="mi">1</span><span·class="p">),(</span><span·class="mi">2</span><span·class="p">,</span><span·class="mi">2</span><span·class="p">,</span><span·class="mi">2</span><span·class="p">),</span><span·class="n">rMean</span><span·class="o">=</span><span·class="mf">.16</span><span·class="p">,</span><span·class="n">periodic</span><span·class="o">=</span><span·class="kc">True</span><span·class="p">)</span>	230	<span·class="gp">Yade·[2]:·</span><span·class="n">sp</span><span·class="o">.</span><span·class="n">makeCloud</span><span·class="p">((</span><span·class="mi">1</span><span·class="p">,</span><span·class="mi">1</span><span·class="p">,</span><span·class="mi">1</span><span·class="p">),(</span><span·class="mi">2</span><span·class="p">,</span><span·class="mi">2</span><span·class="p">,</span><span·class="mi">2</span><span·class="p">),</span><span·class="n">rMean</span><span·class="o">=</span><span·class="mf">.16</span><span·class="p">,</span><span·class="n">periodic</span><span·class="o">=</span><span·class="kc">True</span><span·class="p">)</span>
231	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">2</span><span·class="p">]:</span>·<span·class="mi">18</span>	231	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">2</span><span·class="p">]:</span>·<span·class="mi">17</span>

232	<span·class="gp">Yade·[3]:·</span><span·class="n">sp</span><span·class="o">.</span><span·class="n">toSimulation</span><span·class="p">()</span>·············<span·class="c1">#·implicitly·sets·O.periodic=True,·and·O.cell.refSize·to·the·packing·period·size</span>	232	<span·class="gp">Yade·[3]:·</span><span·class="n">sp</span><span·class="o">.</span><span·class="n">toSimulation</span><span·class="p">()</span>·············<span·class="c1">#·implicitly·sets·O.periodic=True,·and·O.cell.refSize·to·the·packing·period·size</span>
233	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">3</span><span·class="p">]:</span>·<span·class="p">[</span><span·class="mi">4</span><span·class="p">,</span>·<span·class="mi">5</span><span·class="p">,</span>·<span·class="mi">6</span><span·class="p">,</span>·<span·class="mi">7</span><span·class="p">,</span>·<span·class="mi">8</span><span·class="p">,</span>·<span·class="mi">9</span><span·class="p">,</span>·<span·class="mi">10</span><span·class="p">,</span>·<span·class="mi">11</span><span·class="p">,</span>·<span·class="mi">12</span><span·class="p">,</span>·<span·class="mi">13</span><span·class="p">,</span>·<span·class="mi">14</span><span·class="p">,</span>·<span·class="mi">15</span><span·class="p">,</span>·<span·class="mi">16</span><span·class="p">,</span>·<span·class="mi">17</span><span·class="p">,</span>·<span·class="mi">18</span><span·class="p">,</span>·<span·class="mi">19</span><span·class="p">,</span>·<span·class="mi">20</span><span·class="p">~~,</span>·<span·class="mi">21</span><span·class="p">~~]</span>	233	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">3</span><span·class="p">]:</span>·<span·class="p">[</span><span·class="mi">4</span><span·class="p">,</span>·<span·class="mi">5</span><span·class="p">,</span>·<span·class="mi">6</span><span·class="p">,</span>·<span·class="mi">7</span><span·class="p">,</span>·<span·class="mi">8</span><span·class="p">,</span>·<span·class="mi">9</span><span·class="p">,</span>·<span·class="mi">10</span><span·class="p">,</span>·<span·class="mi">11</span><span·class="p">,</span>·<span·class="mi">12</span><span·class="p">,</span>·<span·class="mi">13</span><span·class="p">,</span>·<span·class="mi">14</span><span·class="p">,</span>·<span·class="mi">15</span><span·class="p">,</span>·<span·class="mi">16</span><span·class="p">,</span>·<span·class="mi">17</span><span·class="p">,</span>·<span·class="mi">18</span><span·class="p">,</span>·<span·class="mi">19</span><span·class="p">,</span>·<span·class="mi">20</span><span·class="p">]</span>

234	<span·class="gp">Yade·[4]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">engines</span><span·class="o">+=</span><span·class="p">[</span><span·class="n">PeriTriaxController</span><span·class="p">(</span><span·class="n">goal</span><span·class="o">=</span><span·class="p">(</span><span·class="o">-</span><span·class="mf">1e4</span><span·class="p">,</span><span·class="o">-</span><span·class="mf">1e4</span><span·class="p">,</span><span·class="o">-</span><span·class="mf">.1</span><span·class="p">),</span><span·class="n">stressMask</span><span·class="o">=</span><span·class="mb">0b011</span><span·class="p">,</span><span·class="n">maxUnbalanced</span><span·class="o">=</span><span·class="mf">.2</span><span·class="p">,</span><span·class="n">doneHook</span><span·class="o">=</span><span·class="s1">'functionToRunWhenFinished()'</span><span·class="p">)]</span>	234	<span·class="gp">Yade·[4]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">engines</span><span·class="o">+=</span><span·class="p">[</span><span·class="n">PeriTriaxController</span><span·class="p">(</span><span·class="n">goal</span><span·class="o">=</span><span·class="p">(</span><span·class="o">-</span><span·class="mf">1e4</span><span·class="p">,</span><span·class="o">-</span><span·class="mf">1e4</span><span·class="p">,</span><span·class="o">-</span><span·class="mf">.1</span><span·class="p">),</span><span·class="n">stressMask</span><span·class="o">=</span><span·class="mb">0b011</span><span·class="p">,</span><span·class="n">maxUnbalanced</span><span·class="o">=</span><span·class="mf">.2</span><span·class="p">,</span><span·class="n">doneHook</span><span·class="o">=</span><span·class="s1">'functionToRunWhenFinished()'</span><span·class="p">)]</span>
235	</pre></div>	235	</pre></div>
236	</div>	236	</div>
237	<p>When·the·simulation·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Omega.run">runs</a>,·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.PeriTriaxController">PeriTriaxController</a>·takes·over·the·control·and·calls·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.PeriTriaxController.doneHook">doneHook</a>·when·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.PeriTriaxController.goal">goal</a>·is·reached.·A·full·simulation·with·PeriTriaxController·might·look·like·the·following:</p>	237	<p>When·the·simulation·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Omega.run">runs</a>,·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.PeriTriaxController">PeriTriaxController</a>·takes·over·the·control·and·calls·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.PeriTriaxController.doneHook">doneHook</a>·when·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.PeriTriaxController.goal">goal</a>·is·reached.·A·full·simulation·with·PeriTriaxController·might·look·like·the·following:</p>
238	<div·class="highlight-default·notranslate"><div·class="highlight"><pre><span></span><span·class="kn">from</span>·<span·class="nn">yade</span>·<span·class="kn">import</span>·<span·class="n">pack</span><span·class="p">,</span>·<span·class="n">plot</span>	238	<div·class="highlight-default·notranslate"><div·class="highlight"><pre><span></span><span·class="kn">from</span>·<span·class="nn">yade</span>·<span·class="kn">import</span>·<span·class="n">pack</span><span·class="p">,</span>·<span·class="n">plot</span>


Offset 122, 19 lines modified		Offset 122, 19 lines modified
122	The·following·creates·periodic·cloud·of·spheres·and·compresses·to·achieve·\	122	The·following·creates·periodic·cloud·of·spheres·and·compresses·to·achieve·\
123	(\sigma_x\)=-10·kPa,·\(\sigma_y\)=-10kPa·and·\(\eps_z\)=-0.1.·Since·stress·is	123	(\sigma_x\)=-10·kPa,·\(\sigma_y\)=-10kPa·and·\(\eps_z\)=-0.1.·Since·stress·is
124	specified·for·\(y\)·and·\(z\),·_\x8s_\x8t_\x8r_\x8e_\x8s_\x8s_\x8M_\x8a_\x8s_\x8k·is·binary·0b011·(x→1,·y→2,·z→4,·in	124	specified·for·\(y\)·and·\(z\),·_\x8s_\x8t_\x8r_\x8e_\x8s_\x8s_\x8M_\x8a_\x8s_\x8k·is·binary·0b011·(x→1,·y→2,·z→4,·in
125	decimal·1+2=3).	125	decimal·1+2=3).
126	Yade·[1]:·sp=pack.SpherePack()	126	Yade·[1]:·sp=pack.SpherePack()

127	Yade·[2]:·sp.makeCloud((1,1,1),(2,2,2),rMean=.16,periodic=True)	127	Yade·[2]:·sp.makeCloud((1,1,1),(2,2,2),rMean=.16,periodic=True)
128	Out[2]:·18	128	Out[2]:·17

129	Yade·[3]:·sp.toSimulation()·············#·implicitly·sets·O.periodic=True,·and	129	Yade·[3]:·sp.toSimulation()·············#·implicitly·sets·O.periodic=True,·and
130	O.cell.refSize·to·the·packing·period·size	130	O.cell.refSize·to·the·packing·period·size
131	Out[3]:·[4,·5,·6,·7,·8,·9,·10,·11,·12,·13,·14,·15,·16,·17,·18,·19,·20~~,·21~~]	131	Out[3]:·[4,·5,·6,·7,·8,·9,·10,·11,·12,·13,·14,·15,·16,·17,·18,·19,·20]

132	Yade·[4]:·O.engines+=[PeriTriaxController(goal=(-1e4,-	132	Yade·[4]:·O.engines+=[PeriTriaxController(goal=(-1e4,-
133	1e4,-.1),stressMask=0b011,maxUnbalanced=.2,doneHook='functionToRunWhenFinished	133	1e4,-.1),stressMask=0b011,maxUnbalanced=.2,doneHook='functionToRunWhenFinished
134	()')]	134	()')]
135	When·the·simulation·_\x8r_\x8u_\x8n_\x8s,·_\x8P_\x8e_\x8r_\x8i_\x8T_\x8r_\x8i_\x8a_\x8x_\x8C_\x8o_\x8n_\x8t_\x8r_\x8o_\x8l_\x8l_\x8e_\x8r·takes·over·the·control·and·calls	135	When·the·simulation·_\x8r_\x8u_\x8n_\x8s,·_\x8P_\x8e_\x8r_\x8i_\x8T_\x8r_\x8i_\x8a_\x8x_\x8C_\x8o_\x8n_\x8t_\x8r_\x8o_\x8l_\x8l_\x8e_\x8r·takes·over·the·control·and·calls
136	_\x8d_\x8o_\x8n_\x8e_\x8H_\x8o_\x8o_\x8k·when·_\x8g_\x8o_\x8a_\x8l·is·reached.·A·full·simulation·with·PeriTriaxController·might	136	_\x8d_\x8o_\x8n_\x8e_\x8H_\x8o_\x8o_\x8k·when·_\x8g_\x8o_\x8a_\x8l·is·reached.·A·full·simulation·with·PeriTriaxController·might
137	look·like·the·following:	137	look·like·the·following:


Offset 318, 15 lines modified		Offset 318, 15 lines modified
318	_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8w_\x8a_\x8l_\x8l.·The·_\x8u_\x8t_\x8i_\x8l_\x8s·module·is·imported·at·startup·in·such·a·way·that·the	318	_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8w_\x8a_\x8l_\x8l.·The·_\x8u_\x8t_\x8i_\x8l_\x8s·module·is·imported·at·startup·in·such·a·way·that·the
319	utils.·prefix·is·not·necessary·for·accessing·them.	319	utils.·prefix·is·not·necessary·for·accessing·them.
320	Yade·[43]:·s=sphere((0,0,0),radius=1)····#·create·sphere·particle·centered·at	320	Yade·[43]:·s=sphere((0,0,0),radius=1)····#·create·sphere·particle·centered·at
321	(0,0,0)·with·radius=1	321	(0,0,0)·with·radius=1

322	Yade·[44]:·s.shape·······················#·s.shape·describes·the·geometry·of	322	Yade·[44]:·s.shape·······················#·s.shape·describes·the·geometry·of
323	the·particle	323	the·particle
324	Out[44]:·<Sphere·instance·at·0x~~41a9355~~0>	324	Out[44]:·<Sphere·instance·at·0x143289d0>

325	Yade·[45]:·s.shape.radius················#·we·already·know·the·Sphere·class	325	Yade·[45]:·s.shape.radius················#·we·already·know·the·Sphere·class
326	Out[45]:·1.0	326	Out[45]:·1.0

327	Yade·[46]:·s.state.mass,·s.state.inertia·#·inertia·is·computed·from·density·and	327	Yade·[46]:·s.state.mass,·s.state.inertia·#·inertia·is·computed·from·density·and
328	geometry	328	geometry
329	Out[46]:	329	Out[46]:
Offset 340, 15 lines modified		Offset 340, 15 lines modified
340	In·the·last·example,·the·particle·was·fixed·in·space·by·the·fixed=True	340	In·the·last·example,·the·particle·was·fixed·in·space·by·the·fixed=True
341	parameter·to·_\x8s_\x8p_\x8h_\x8e_\x8r_\x8e;·such·a·particle·will·not·move,·creating·a·primitive	341	parameter·to·_\x8s_\x8p_\x8h_\x8e_\x8r_\x8e;·such·a·particle·will·not·move,·creating·a·primitive
342	boundary·condition.	342	boundary·condition.
343	A·particle·object·is·not·yet·part·of·the·simulation;·in·order·to·do·so,·a	343	A·particle·object·is·not·yet·part·of·the·simulation;·in·order·to·do·so,·a
344	special·function·_\x8O_\x8._\x8b_\x8o_\x8d_\x8i_\x8e_\x8s_\x8._\x8a_\x8p_\x8p_\x8e_\x8n_\x8d·(also·see·_\x8O_\x8m_\x8e_\x8g_\x8a_\x8:_\x8:_\x8b_\x8o_\x8d_\x8i_\x8e_\x8s·and·_\x8S_\x8c_\x8e_\x8n_\x8e)·is·called:	344	special·function·_\x8O_\x8._\x8b_\x8o_\x8d_\x8i_\x8e_\x8s_\x8._\x8a_\x8p_\x8p_\x8e_\x8n_\x8d·(also·see·_\x8O_\x8m_\x8e_\x8g_\x8a_\x8:_\x8:_\x8b_\x8o_\x8d_\x8i_\x8e_\x8s·and·_\x8S_\x8c_\x8e_\x8n_\x8e)·is·called:
345	Yade·[49]:·O.bodies.append(s)············#·adds·particle·s·to·the·simulation;	345	Yade·[49]:·O.bodies.append(s)············#·adds·particle·s·to·the·simulation;
346	returns·id·of·the·particle(s)·added	346	returns·id·of·the·particle(s)·added
347	Out[49]:·22	347	Out[49]:·21
348	\x8\x8\x8·P\x8Pa\x8ac\x8ck\x8ks\x8s_\x8?\x8¶·\x8\x8\x8	348	\x8\x8\x8·P\x8Pa\x8ac\x8ck\x8ks\x8s_\x8?\x8¶·\x8\x8\x8
349	There·are·functions·to·generate·a·specific·arrangement·of·particles·in·the·_\x8p_\x8a_\x8c_\x8k	349	There·are·functions·to·generate·a·specific·arrangement·of·particles·in·the·_\x8p_\x8a_\x8c_\x8k
350	module;·for·instance,·cloud·(random·loose·packing)·of·spheres·can·be·generated	350	module;·for·instance,·cloud·(random·loose·packing)·of·spheres·can·be·generated
351	with·the·_\x8p_\x8a_\x8c_\x8k_\x8._\x8S_\x8p_\x8h_\x8e_\x8r_\x8e_\x8P_\x8a_\x8c_\x8k·class:	351	with·the·_\x8p_\x8a_\x8c_\x8k_\x8._\x8S_\x8p_\x8h_\x8e_\x8r_\x8e_\x8P_\x8a_\x8c_\x8k·class:
352	Yade·[50]:·from·yade·import·pack	352	Yade·[50]:·from·yade·import·pack

353	Yade·[51]:·sp=pack.SpherePack()···················#·create·an·empty·cloud;	353	Yade·[51]:·sp=pack.SpherePack()···················#·create·an·empty·cloud;
Offset 357, 45 lines modified		Offset 357, 46 lines modified
357	Yade·[52]:·sp.makeCloud((1,1,1),(2,2,2),rMean=.2)·#·put·spheres·with·defined	357	Yade·[52]:·sp.makeCloud((1,1,1),(2,2,2),rMean=.2)·#·put·spheres·with·defined
358	radius·inside·box·given·by·corners·(1,1,1)·and·(2,2,2)	358	radius·inside·box·given·by·corners·(1,1,1)·and·(2,2,2)
359	Out[52]:·7	359	Out[52]:·7

360	Yade·[53]:·for·c,r·in·sp:·print(c,r)···············#·print·center·and·radius·of	360	Yade·[53]:·for·c,r·in·sp:·print(c,r)···············#·print·center·and·radius·of
361	all·particles·(SpherePack·is·a·sequence·which·can·be·iterated·over)	361	all·particles·(SpherePack·is·a·sequence·which·can·be·iterated·over)
362	···....:	362	···....:
363	Vector3(1.374958821165277456,1.728106437090709768,1.389745188392825348)·0.2
364	Vector3(1.507611231382685268,1.210058319910224389,1.490787259262072562)·0.2
365	Vector3(1.777453263034551867,1.673951411272721179,1.244658414307912242)·0.2
366	Vector3(1.224940176489376586,1.233476029300059063,1.786235683319031597)·0.2
367	Vector3(1.781055651481910473,1.768743545485092161,1.731036719189295914)·0.2
368	Vector3(1.208352112685450841,1.336172009614748468,1.238022480455516661)·0.2
369	Vector3(1.~~339~~2~~08896794~~993109,1.6~~9130~~79~~66481692571~~,1.~~788261~~9~~34986~~8~~7935~~3)·0.2	363	Vector3(1.495256577388909713,1.267279290352586463,1.211100901303826083)·0.2
		364	Vector3(1.303758882511410144,1.730810189543315891,1.64724513675944606)·0.2
		365	Vector3(1.767837535785413694,1.383190462779968044,1.524379404218080492)·0.2
		366	Vector3(1.231299112530180873,1.244209664524434267,1.752462597908854613)·0.2
		367	Vector3(1.758910019947271364,1.774001338675134987,1.788139810527110907)·0.2
		368	Vector3(1.681934588159206934,1.732190148212554348,1.272698126350894299)·0.2
		369	Vector3(1.295977429760335031,1.61949699956603177,1.218248074878041765)·0.2

370	Yade·[54]:·sp.toSimulation()······················#·create·particles·and·add	370	Yade·[54]:·sp.toSimulation()······················#·create·particles·and·add
371	them·to·the·simulation	371	them·to·the·simulation
372	Out[54]:·[23,·24,·25,·26,·27,·28,·29]	372	Out[54]:·[22,·23,·24,·25,·26,·27,·28]
373	\x8\x8\x8·B\x8Bo\x8ou\x8un\x8nd\x8da\x8ar\x8ri\x8ie\x8es\x8s_\x8?\x8¶·\x8\x8\x8	373	\x8\x8\x8·B\x8Bo\x8ou\x8un\x8nd\x8da\x8ar\x8ri\x8ie\x8es\x8s_\x8?\x8¶·\x8\x8\x8
374	_\x8f_\x8a_\x8c_\x8e_\x8t·(triangle·_\x8F_\x8a_\x8c_\x8e_\x8t),·_\x8w_\x8a_\x8l_\x8l·(infinite·axes-aligned·plane·_\x8W_\x8a_\x8l_\x8l)·and·_\x8b_\x8o_\x8x·(finite	374	_\x8f_\x8a_\x8c_\x8e_\x8t·(triangle·_\x8F_\x8a_\x8c_\x8e_\x8t),·_\x8w_\x8a_\x8l_\x8l·(infinite·axes-aligned·plane·_\x8W_\x8a_\x8l_\x8l)·and·_\x8b_\x8o_\x8x·(finite
375	axes-aligned·cuboids·_\x8B_\x8o_\x8x)·geometries·are·typically·used·to·define·boundaries.	375	axes-aligned·cuboids·_\x8B_\x8o_\x8x)·geometries·are·typically·used·to·define·boundaries.
376	For·instance,·a·“floor”·for·the·simulation·can·be·created·like·this:	376	For·instance,·a·“floor”·for·the·simulation·can·be·created·like·this:
377	Yade·[55]:·O.bodies.append(wall(-1,axis=2))	377	Yade·[55]:·O.bodies.append(wall(-1,axis=2))
378	Out[55]:·30	378	Out[55]:·29
379	There·are·other·convenience·functions·(like·_\x8a_\x8a_\x8b_\x8b_\x8W_\x8a_\x8l_\x8l·for·creating·closed·or	379	There·are·other·convenience·functions·(like·_\x8a_\x8a_\x8b_\x8b_\x8W_\x8a_\x8l_\x8l·for·creating·closed·or
380	open·rectangular·box,·or·family·of·_\x8y_\x8m_\x8p_\x8o_\x8r_\x8t·functions)	380	open·rectangular·box,·or·family·of·_\x8y_\x8m_\x8p_\x8o_\x8r_\x8t·functions)
381	\x8\x8\x8\x8·L\x8Lo\x8oo\x8ok\x8k·i\x8in\x8ns\x8si\x8id\x8de\x8e_\x8?\x8¶·\x8\x8\x8\x8	381	\x8\x8\x8\x8·L\x8Lo\x8oo\x8ok\x8k·i\x8in\x8ns\x8si\x8id\x8de\x8e_\x8?\x8¶·\x8\x8\x8\x8
382	The·simulation·can·be·inspected·in·several·ways.·All·data·can·be·accessed·from	382	The·simulation·can·be·inspected·in·several·ways.·All·data·can·be·accessed·from
383	python·directly:	383	python·directly:
384	Yade·[56]:·len(O.bodies)	384	Yade·[56]:·len(O.bodies)
385	Out[56]:·31	385	Out[56]:·30

386	Yade·[57]:·O.bodies[10].shape.radius···#·radius·of·body·#10·(will·give·error·if	386	Yade·[57]:·O.bodies[10].shape.radius···#·radius·of·body·#10·(will·give·error·if
387	not·sphere,·since·only·spheres·have·radius·defined)	387	not·sphere,·since·only·spheres·have·radius·defined)
388	Out[57]:·0.16	388	Out[57]:·0.16

389	Yade·[58]:·O.bodies[12].state.pos······#·position·of·body·#12	389	Yade·[58]:·O.bodies[12].state.pos······#·position·of·body·#12
390	Out[58]:·Vector3~~(1.25136305817503013,1.041137328830429531,1.589160611101410714)~~	390	Out[58]:·Vector3
		391	(1.159636265942415312,1.514356823621163972,1.546421149722589039)
391	Besides·that,·Yade·says·this·at·startup·(the·line·preceding·the·command-line):	392	Besides·that,·Yade·says·this·at·startup·(the·line·preceding·the·command-line):
392	[[·^L·clears·screen,·^U·kills·line.·F12·controller,·F11·3d·view,·F10·both,·F9	393	[[·^L·clears·screen,·^U·kills·line.·F12·controller,·F11·3d·view,·F10·both,·F9
393	generator,·F8·plot.·]]	394	generator,·F8·plot.·]]
394	··Controller	395	··Controller
395	······Pressing·F12·brings·up·a·window·for·controlling·the·simulation.·Although	396	······Pressing·F12·brings·up·a·window·for·controlling·the·simulation.·Although
396	······typically·no·human·intervention·is·done·in·large·simulations·(which·run	397	······typically·no·human·intervention·is·done·in·large·simulations·(which·run
397	······“headless”,·without·any·graphical·interaction),·it·can·be·handy·in·small	398	······“headless”,·without·any·graphical·interaction),·it·can·be·handy·in·small
Offset 412, 16 lines modified		Offset 413, 16 lines modified
412	······C\x8Co\x8on\x8nt\x8tr\x8ro\x8ol\x8ll\x8le\x8er\x8r.·It·shows·(and·updates)·internal·data·of·the·current	413	······C\x8Co\x8on\x8nt\x8tr\x8ro\x8ol\x8ll\x8le\x8er\x8r.·It·shows·(and·updates)·internal·data·of·the·current
413	······simulation.·In·particular,·one·can·have·a·look·at·engines,·particles	414	······simulation.·In·particular,·one·can·have·a·look·at·engines,·particles
414	······(B\x8Bo\x8od\x8di\x8ie\x8es\x8s)·and·interactions·(I\x8In\x8nt\x8te\x8er\x8ra\x8ac\x8ct\x8ti\x8io\x8on\x8ns\x8s).·Clicking·at·each·of·the	415	······(B\x8Bo\x8od\x8di\x8ie\x8es\x8s)·and·interactions·(I\x8In\x8nt\x8te\x8er\x8ra\x8ac\x8ct\x8ti\x8io\x8on\x8ns\x8s).·Clicking·at·each·of·the
415	······attribute·names·links·to·the·appropriate·section·in·the·documentation.	416	······attribute·names·links·to·the·appropriate·section·in·the·documentation.
416	Exercises	417	Exercises
417	···1.·What·is·this·code·going·to·do?	418	···1.·What·is·this·code·going·to·do?
418	······Yade·[59]:·O.bodies.append([sphere((2*i,0,0),1)·for·i·in·range(1,20)])	419	······Yade·[59]:·O.bodies.append([sphere((2*i,0,0),1)·for·i·in·range(1,20)])
419	······Out[59]:·[31,·32,·33,·34,·35,·36,·37,·38,·39,·40,·41,·42,·43,·44,·45~~,·46~~,	420	······Out[59]:·[30,·31,·32,·33,·34,·35,·36,·37,·38,·39,·40,·41,·42,·43,·44,·45,
420	······47,·48,·49]	421	······46,·47,·48]
421	···2.·Create·a·simple·simulation·with·cloud·of·spheres·enclosed·in·the·box	422	···2.·Create·a·simple·simulation·with·cloud·of·spheres·enclosed·in·the·box
422	······(0,0,0)·and·(1,1,1)·with·mean·radius·.1.·(hint:	423	······(0,0,0)·and·(1,1,1)·with·mean·radius·.1.·(hint:
423	······_\x8p_\x8a_\x8c_\x8k_\x8._\x8S_\x8p_\x8h_\x8e_\x8r_\x8e_\x8P_\x8a_\x8c_\x8k_\x8._\x8m_\x8a_\x8k_\x8e_\x8C_\x8l_\x8o_\x8u_\x8d)	424	······_\x8p_\x8a_\x8c_\x8k_\x8._\x8S_\x8p_\x8h_\x8e_\x8r_\x8e_\x8P_\x8a_\x8c_\x8k_\x8._\x8m_\x8a_\x8k_\x8e_\x8C_\x8l_\x8o_\x8u_\x8d)
424	···3.·Enclose·the·cloud·created·above·in·box·with·corners·(0,0,0)·and·(1,1,1);	425	···3.·Enclose·the·cloud·created·above·in·box·with·corners·(0,0,0)·and·(1,1,1);
425	······keep·the·top·of·the·box·open.·(hint:·_\x8a_\x8a_\x8b_\x8b_\x8W_\x8a_\x8l_\x8l;·type·aabbWall?·or	426	······keep·the·top·of·the·box·open.·(hint:·_\x8a_\x8a_\x8b_\x8b_\x8W_\x8a_\x8l_\x8l;·type·aabbWall?·or
426	······aabbWall??·to·get·help·on·the·command·line)	427	······aabbWall??·to·get·help·on·the·command·line)
427	···4.·Open·the·3D·view,·try·zooming·in/out;·position·axes·so·that·\(z\)·is	428	···4.·Open·the·3D·view,·try·zooming·in/out;·position·axes·so·that·\(z\)·is
Offset 442, 18 lines modified		Offset 443, 18 lines modified
442	···....:····NewtonIntegrator(damping=.2,label='newtonCustomLabel')······#	443	···....:····NewtonIntegrator(damping=.2,label='newtonCustomLabel')······#
443	define·a·label·newtonCustomLabel·under·which·we·can·access·this·engine·easily	444	define·a·label·newtonCustomLabel·under·which·we·can·access·this·engine·easily
444	···....:·]	445	···....:·]
445	···....:	446	···....:

446	Yade·[61]:·O.engines	447	Yade·[61]:·O.engines
447	Out[61]:	448	Out[61]:
448	[<ForceResetter·instance·at·0x4~~1b04~~6d0>,	449	[<ForceResetter·instance·at·0x1423b760>,
449	·<InsertionSortCollider·instance·at·0x~~41b~~3~~b70~~0>,	450	·<InsertionSortCollider·instance·at·0x14334dd0>,
450	·<InteractionLoop·instance·at·0x7f~~0e90~~012b80>,	451	·<InteractionLoop·instance·at·0x7fb20c012b80>,
451	·<NewtonIntegrator·instance·at·0x~~3f3d52b~~0>]	452	·<NewtonIntegrator·instance·at·0x1179bc50>]

452	Yade·[62]:·O.engines[-1]==newtonCustomLabel····#·is·it·the·same·object?	453	Yade·[62]:·O.engines[-1]==newtonCustomLabel····#·is·it·the·same·object?
453	Out[62]:·True	454	Out[62]:·True

454	Yade·[63]:·newtonCustomLabel.damping	455	Yade·[63]:·newtonCustomLabel.damping
455	Out[63]:·0.2	456	Out[63]:·0.2
456	Instead·of·typing·everything·into·the·command-line,·one·can·describe·simulation	457	Instead·of·typing·everything·into·the·command-line,·one·can·describe·simulation


Offset 1, 13 lines modified		Offset 1, 13 lines modified
1	drwxr-xr-x···0·root·········(0)·root·········(0)········0·2025-08-21·09:55:49.000000·./	1	drwxr-xr-x···0·root·········(0)·root·········(0)········0·2025-08-21·09:55:49.000000·./
2	drwxr-xr-x···0·root·········(0)·root·········(0)········0·2025-08-21·09:55:49.000000·./usr/	2	drwxr-xr-x···0·root·········(0)·root·········(0)········0·2025-08-21·09:55:49.000000·./usr/
3	drwxr-xr-x···0·root·········(0)·root·········(0)········0·2025-08-21·09:55:49.000000·./usr/share/	3	drwxr-xr-x···0·root·········(0)·root·········(0)········0·2025-08-21·09:55:49.000000·./usr/share/
4	drwxr-xr-x···0·root·········(0)·root·········(0)········0·2025-08-21·09:55:49.000000·./usr/share/doc/	4	drwxr-xr-x···0·root·········(0)·root·········(0)········0·2025-08-21·09:55:49.000000·./usr/share/doc/
5	drwxr-xr-x···0·root·········(0)·root·········(0)········0·2025-08-21·09:55:49.000000·./usr/share/doc/yade/	5	drwxr-xr-x···0·root·········(0)·root·········(0)········0·2025-08-21·09:55:49.000000·./usr/share/doc/yade/
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356	</div>	356	</div>
357	<p>Normal·simulations,·however,·are·run·continuously.·Starting/stopping·the·loop·is·done·by·<code·class="docutils·literal·notranslate"><span·class="pre">O.run()</span></code>·and·<code·class="docutils·literal·notranslate"><span·class="pre">O.pause()</span></code>;·note·that·<code·class="docutils·literal·notranslate"><span·class="pre">O.run()</span></code>·returns·control·to·Python·and·the·simulation·runs·in·background;·if·you·want·to·wait·for·it·to·finish,·use·<code·class="docutils·literal·notranslate"><span·class="pre">O.wait()</span></code>.·Fixed·number·of·steps·can·be·run·with·<code·class="docutils·literal·notranslate"><span·class="pre">O.run(1000)</span></code>,·<code·class="docutils·literal·notranslate"><span·class="pre">O.run(1000,True)</span></code>·will·run·and·wait.·To·stop·at·absolute·step·number,·<code·class="docutils·literal·notranslate"><span·class="pre">O.stopAtIter</span></code>·can·be·set·and·<code·class="docutils·literal·notranslate"><span·class="pre">O.run()</span></code>·called·normally.</p>	357	<p>Normal·simulations,·however,·are·run·continuously.·Starting/stopping·the·loop·is·done·by·<code·class="docutils·literal·notranslate"><span·class="pre">O.run()</span></code>·and·<code·class="docutils·literal·notranslate"><span·class="pre">O.pause()</span></code>;·note·that·<code·class="docutils·literal·notranslate"><span·class="pre">O.run()</span></code>·returns·control·to·Python·and·the·simulation·runs·in·background;·if·you·want·to·wait·for·it·to·finish,·use·<code·class="docutils·literal·notranslate"><span·class="pre">O.wait()</span></code>.·Fixed·number·of·steps·can·be·run·with·<code·class="docutils·literal·notranslate"><span·class="pre">O.run(1000)</span></code>,·<code·class="docutils·literal·notranslate"><span·class="pre">O.run(1000,True)</span></code>·will·run·and·wait.·To·stop·at·absolute·step·number,·<code·class="docutils·literal·notranslate"><span·class="pre">O.stopAtIter</span></code>·can·be·set·and·<code·class="docutils·literal·notranslate"><span·class="pre">O.run()</span></code>·called·normally.</p>
358	<div·class="highlight-ipython·notranslate"><div·class="highlight"><pre><span></span><span·class="gp">Yade·[12]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">run</span><span·class="p">()</span>	358	<div·class="highlight-ipython·notranslate"><div·class="highlight"><pre><span></span><span·class="gp">Yade·[12]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">run</span><span·class="p">()</span>

359	<span·class="gp">Yade·[13]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">pause</span><span·class="p">()</span>	359	<span·class="gp">Yade·[13]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">pause</span><span·class="p">()</span>

360	<span·class="gp">Yade·[14]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">iter</span>	360	<span·class="gp">Yade·[14]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">iter</span>
361	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">14</span><span·class="p">]:</span>·<span·class="mi">~~230~~6</span>	361	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">14</span><span·class="p">]:</span>·<span·class="mi">1</span>

362	<span·class="gp">Yade·[15]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">run</span><span·class="p">(</span><span·class="mi">100000</span><span·class="p">,</span><span·class="kc">True</span><span·class="p">)</span>	362	<span·class="gp">Yade·[15]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">run</span><span·class="p">(</span><span·class="mi">100000</span><span·class="p">,</span><span·class="kc">True</span><span·class="p">)</span>

363	<span·class="gp">Yade·[16]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">iter</span>	363	<span·class="gp">Yade·[16]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">iter</span>
364	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">16</span><span·class="p">]:</span>·<span·class="mi">102306</span>	364	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">16</span><span·class="p">]:</span>·<span·class="mi">100001</span>

365	<span·class="gp">Yade·[17]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">stopAtIter</span><span·class="o">=</span><span·class="mi">500000</span>	365	<span·class="gp">Yade·[17]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">stopAtIter</span><span·class="o">=</span><span·class="mi">500000</span>

366	<span·class="gp">Yade·[18]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">run</span><span·class="p">()</span>	366	<span·class="gp">Yade·[18]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">run</span><span·class="p">()</span>

367	<span·class="gp">Yade·[19]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">wait</span><span·class="p">()</span>	367	<span·class="gp">Yade·[19]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">wait</span><span·class="p">()</span>

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433	<h2>Architecture·overview<a·class="headerlink"·href="#architecture-overview"·title="Link·to·this·heading">¶</a></h2>	433	<h2>Architecture·overview<a·class="headerlink"·href="#architecture-overview"·title="Link·to·this·heading">¶</a></h2>
434	<p>In·the·following,·a·high-level·overview·of·Yade·architecture·will·be·given.·As·many·of·the·features·are·directly·represented·in·simulation·scripts,·which·are·written·in·Python,·being·familiar·with·this·language·will·help·you·follow·the·examples.·For·the·rest,·this·knowledge·is·not·strictly·necessary·and·you·can·ignore·code·examples.</p>	434	<p>In·the·following,·a·high-level·overview·of·Yade·architecture·will·be·given.·As·many·of·the·features·are·directly·represented·in·simulation·scripts,·which·are·written·in·Python,·being·familiar·with·this·language·will·help·you·follow·the·examples.·For·the·rest,·this·knowledge·is·not·strictly·necessary·and·you·can·ignore·code·examples.</p>
435	<section·id="data-and-functions">	435	<section·id="data-and-functions">
436	<h3>Data·and·functions<a·class="headerlink"·href="#data-and-functions"·title="Link·to·this·heading">¶</a></h3>	436	<h3>Data·and·functions<a·class="headerlink"·href="#data-and-functions"·title="Link·to·this·heading">¶</a></h3>
437	<p>To·assure·flexibility·of·software·design,·yade·makes·clear·distinction·of·2·families·of·classes:·<em>data</em>·components·and·<em>functional</em>·components.·The·former·only·store·data·without·providing·functionality,·while·the·latter·define·functions·operating·on·the·data.·In·programming,·this·is·known·as·<em>visitor</em>·pattern·(as·functional·components·“visit”·the·data,·without·being·bound·to·them·explicitly).</p>	437	<p>To·assure·flexibility·of·software·design,·yade·makes·clear·distinction·of·2·families·of·classes:·<em>data</em>·components·and·<em>functional</em>·components.·The·former·only·store·data·without·providing·functionality,·while·the·latter·define·functions·operating·on·the·data.·In·programming,·this·is·known·as·<em>visitor</em>·pattern·(as·functional·components·“visit”·the·data,·without·being·bound·to·them·explicitly).</p>
438	<p>Entire·simulation,·i.e.·both·data·and·functions,·are·stored·in·a·single·<code·class="docutils·literal·notranslate"><span·class="pre">Scene</span></code>·object.·It·is·accessible·through·the·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Omega">Omega</a>·class·in·python·(a·singleton),·which·is·by·default·stored·in·the·<code·class="docutils·literal·notranslate"><span·class="pre">O</span></code>·global·variable:</p>	438	<p>Entire·simulation,·i.e.·both·data·and·functions,·are·stored·in·a·single·<code·class="docutils·literal·notranslate"><span·class="pre">Scene</span></code>·object.·It·is·accessible·through·the·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Omega">Omega</a>·class·in·python·(a·singleton),·which·is·by·default·stored·in·the·<code·class="docutils·literal·notranslate"><span·class="pre">O</span></code>·global·variable:</p>
439	<div·class="highlight-ipython·notranslate"><div·class="highlight"><pre><span></span><span·class="gp">Yade·[28]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">bodies</span>·······<span·class="c1">#·some·data·components</span>	439	<div·class="highlight-ipython·notranslate"><div·class="highlight"><pre><span></span><span·class="gp">Yade·[28]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">bodies</span>·······<span·class="c1">#·some·data·components</span>
440	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">28</span><span·class="p">]:</span>·<span·class="o"><</span><span·class="n">yade</span><span·class="o">.</span><span·class="n">wrapper</span><span·class="o">.</span><span·class="n">BodyContainer</span>·<span·class="n">at</span>·<span·class="mh">0x7f0~~ea0952~~ab0</span><span·class="o">></span>	440	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">28</span><span·class="p">]:</span>·<span·class="o"><</span><span·class="n">yade</span><span·class="o">.</span><span·class="n">wrapper</span><span·class="o">.</span><span·class="n">BodyContainer</span>·<span·class="n">at</span>·<span·class="mh">0x7fb2128bab20</span><span·class="o">></span>

441	<span·class="gp">Yade·[29]:·</span><span·class="nb">len</span><span·class="p">(</span><span·class="n">O</span><span·class="o">.</span><span·class="n">bodies</span><span·class="p">)</span>··<span·class="c1">#·there·are·no·bodies·as·of·yet</span>	441	<span·class="gp">Yade·[29]:·</span><span·class="nb">len</span><span·class="p">(</span><span·class="n">O</span><span·class="o">.</span><span·class="n">bodies</span><span·class="p">)</span>··<span·class="c1">#·there·are·no·bodies·as·of·yet</span>
442	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">29</span><span·class="p">]:</span>·<span·class="mi">0</span>	442	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">29</span><span·class="p">]:</span>·<span·class="mi">0</span>

443	<span·class="gp">Yade·[30]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">engines</span>······<span·class="c1">#·functional·components,·empty·at·the·moment</span>	443	<span·class="gp">Yade·[30]:·</span><span·class="n">O</span><span·class="o">.</span><span·class="n">engines</span>······<span·class="c1">#·functional·components,·empty·at·the·moment</span>
444	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">30</span><span·class="p">]:</span>·<span·class="p">[]</span>	444	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">30</span><span·class="p">]:</span>·<span·class="p">[]</span>
445	</pre></div>	445	</pre></div>
Offset 472, 17 lines modified		Offset 472, 17 lines modified
472	</figure>	472	</figure>


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1	#·Sphinx·inventory·version·2	1	#·Sphinx·inventory·version·2
2	#·Project:·Yade	2	#·Project:·Yade
3	#·Version:·2025.2.0	3	#·Version:·2025.2.0
4	#·The·remainder·of·this·file·is·compressed·using·zlib.	4	#·The·remainder·of·this·file·is·compressed·using·zlib.
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7	#mxK~>A\xf[w+;sg+UeYEk\x1e\x13F`\x1a䡑e\x10Ɗ,DOq\x4凲F

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10	TQ̶He䑴\x8qgKq\x11"ͥ"I-ȷ\x12\x15^:ʕJ\xfH\x0tR6Q\x4WIͣ+M?bg^\x11/\x18\x10Gf`» ܔ"yt$]\x15I\x1caȳ:\x14'\x15\x12\x1aާN,B\y'v#U>V\x8\x176M7G+sB?\x1fV?N4NT~Ŏ[\xe\x8{qZpy=:v\x1e\xdkT茈Vu8\xe\x1cp\xe\x1cp\xe\~~\x11v83\|3VӽBsQs/\x4\x6~~F)N>\G}9GHsy\x1fi\xe>\G\x3}4\x7Hs4>\G&\x3X\xcG}4Hsq\x1fi.#}4\x7Hsy\x1fi\xe@\x1fi.#}9Gc}4>\G}4Hs4\x7Hsy\x1fi>\x1c#͕}9G\x3}9Gc}9G#}4\x7Hs43`~~}4Hsq\x1fi.#́>\GHs4`\x1fi>\x1c*#>\GH\|1» %u}4G~~	8	TQ̶He䑴\x8qgKq\x11"ͥ"I-ȷ\x12\x15^:ʕJ\xfH\x0tR6Q\x4WIͣ+M?bg^\x11/\x18\x10Gf`» ܔ"yt$]\x15I\x1caȳ:\x14'\x15\x12\x1aާN,B\y'v#U>V\x8\x176M7G+sB?\x1fV?N4NT~Ŏ[\xe\x8{qZpy=:v\x1e\xdkT茈Vu8\xe\x1cp\xe\x1cp\xe\\x11v83\|3VӽBsQs/\x4\x6F)N>\G}9GHsy\x1fi\xe>\G\x3}4\x7Hs4>\G&\x3X\xcG}4Hsq\x1fi.#}4\x7Hsy\x1fi\xe@\x1fi.#}9Gc}4>\G}4Hs4\x7Hsy\x1fi>\x1c#͕}9G\x3}9Gc}9G#}4\x7Hs43`}4Hsq\x1fi.#́>\GHs4`\x1fi>\x1c*#>\GH\|1» %u}4G
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12	46d^˨j8R» G]E)׿EG}]"\x12\x8O\x12Ey\x14\xbj-\x10\x17^}lT}vP>_Ӗ%oeRA[>[·u%0}M-\x5\x16\x17\x14\x18\x16\x16Meb4,\x1e%&wy&\x12R\x6sIVSt0U\x4\x7%pI%\x14E.<A\|M_>[+\|\xb\x6Eoh\\x16\x5op-P=Խɖ^\xcW\x5^.Pd\x13\x1b\x17-q_'?_.DT1	10	46d^˨j8R» G]E)׿EG}]"\x12\x8O\x12Ey\x14\xbj-\x10\x17^}lT}vP>_Ӗ%oeRA[>[·u%0}M-\x5\x16\x17\x14\x18\x16\x16Meb4,\x1e%&wy&\x12R\x6sIVSt0U\x4\x7%pI%\x14E.<A\|M_>[+\|\xb\x6Eoh\\x16\x5op-P=Խɖ^\xcW\x5^.Pd\x13\x1b\x17-q_'?_.DT1
13	R\x7U}af׶\x16wwU\x5\x12i0\x1eճ%}e/+2E_>[U}/\x16_\x14^]pwP>[']\x17H56\|V/\x7aZ·"\x't\xcڴP܁.}`yC\x1fOm4yDu<!闈=,YUO\x0&\xdgU\x8d%\x5֛Czd?V]/p\x3\x14@\xb\r<ISn'"\s96#\hs9=#\xs96#\>z?:&ͫV)vGy>G8}!P_p\x1fsDC\x1ct\x10G9P9\|\x11N\xei:\x1ftHS1.=#?b:#~?:#\x18\x4΅tٻeS}\bݜz@\⊜uZ\x14l8%» ބWĤx>p\x1ctL&m\x5x>YY¹>{}-uU-9\x15\x16}y\x7\x16\x8sI~~wV\x18\x10qiK~~	11	R\x7U}af׶\x16wwU\x5\x12i0\x1eճ%}e/+2E_>[U}/\x16_\x14^]pwP>[']\x17H56\|V/\x7aZ·"\x't\xcڴP܁.}`yC\x1fOm4yDu<!闈=,YUO\x0&\xdgU\x8d%\x5֛Czd?V]/p\x3\x14@\xb\r<ISn'"\s96#\hs9=#\xs96#\>z?:&ͫV)vGy>G8}!P_p\x1fsDC\x1ct\x10G9P9\|\x11N\xei:\x1ftHS1.=#?b:#~?:#\x18\x4΅tٻeS}\bݜz@\⊜uZ\x14l8%» ބWĤx>p\x1ctL&m\x5x>YY¹>{}-uU-9\x15\x16}y\x7\x16\x8sIwV\x18\x10qiK
Offset 89, 268 lines modified		Offset 87, 261 lines modified
89	3(9\x5FCC{7J\xdC\x1ca\xf~~X`<Q㐃Ϗi?9:>\x11<1R\x3b׫Uw`<^׿-M\x6;O7R·~zCF\x4D\xf\x18\x3\x7\xcD?\x0~{\x3\xe>?~z·~~P\xd\xbO\xfժ\xf>[\xd;W\x15VO\xf\xflM\x18L\x6\x3C\x1cE8!&\x1c\x56\x1d`\x1d\x1d]$/\x11Dvu\x16\x113r\xb:\xbyhw\x4@VݓKo]Vz`OC}"\x1f\x13*·x\x18OTv» ޡC6R\x36`5f?W?\|gUX4o/^5?	87	3(9\x5FCC{7J\xdC\x1ca\xfX`<Q㐃Ϗi?9:>\x11<1R\x3b׫Uw`<^׿-M\x6;O7R·~zCF\x4D\xf\x18\x3\x7\xcD?\x0~{\x3\xe>?~z·P\xd\xbO\xfժ\xf>[\xd;W\x15VO\xf\xflM\x18L\x6\x3C\x1cE8!&\x1c\x56\x1d`\x1d\x1d]$/\x11Dvu\x16\x113r\xb:\xbyhw\x4@VݓKo]Vz`OC}"\x1f\x13*·x\x18OTv» ޡC6R\x36`5f?W?\|gUX4o/^5?
90	4͆Mj\x1aԘ3's3(sE2\x0"\x18U~a\x5:Ǵj\\x7c3\|I}X\x17Gl\(fgy61I\x1f޻lU=^Y\x15]\x5Ϣ>$dg5A» \x11nm\x4}$\xe\x13"·9\x14\xd4S·\x15fS4@YH+@i\xcvW\xf7Ʊt·U\x13l\x13NW(hf1[f\x7\x1f\xb}#L\x19B:c\x1a0q$Ќ	88	4͆Mj\x1aԘ3's3(sE2\x0"\x18U~a\x5:Ǵj\\x7c3\|I}X\x17Gl\(fgy61I\x1f޻lU=^Y\x15]\x5Ϣ>$dg5A» \x11nm\x4}$\xe\x13"·9\x14\xd4S·\x15fS4@YH+@i\xcvW\xf7Ʊt·U\x13l\x13NW(hf1[f\x7\x1f\xb}#L\x19B:c\x1a0q$Ќ
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92	&\x1a\x182պ\|\x7·	90	&\x1a\x182պ\|\x7·
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		94	\\x4\x168[\x16ä\x1e?VSd\x0\x31#s/2Up̶ʶ>\\x8f[.aqvW7u\x1b\x1cgV-s,͓%ǪZ\x16";\x16JI\x19%ߪ\x7ڐsusLt!W\x13(mm@ܝoWZ͸,6z_YTS\x18r9sN9\x19dzĝ\x1aQ» Z{5u~\x4Rvag͍}?v\x1b9Ү}+\xdlP[]-\>3A\x12r\x1c(W\x391G2\xd\xeK>L\x4"{m\xfuc\xfQw޵\x15ʍ\x15\xe*ʇH
		95	N·}]\x13&-dfpTx\T\x18,][XlqV\x19e!\x1a\x0\x1d+݉;\x18@[\x1aS(\x5\|\x4֯ItyC,X<OƆ3yneډ`rK{AYø\x1a<6H^랜۾m\x7$_6L!\x6\x19g\|&mw7\xd61I\x1d\x18BI\|ܒ\x10S%WFMo=~dR·\x10W]?-6;\xc{J\x18̿]\x15ԳTY{\x19{"Zc\x15TI/X$\x16-P\x1dj'/,\x0*X7o\x16h2c\xd\x1d\x1eK1
		96	y4sG%a\x1aL;Xn%3T{-» \x7)19`mAG?Qb\x8VkuBG˿@\x6k@≽DźUKsd\x1fy{,\|p\x18"j\x4\x174J̑JOoAr+\x3\x7r\xbX\A~t\x30\xe8'/g6D5\;\x15\x18Z<{}5I+\x19LIp<)b.ÄB\x19\x1cY\08;4Y\x4\x1a)_$G\x5{W􌙏Ua@{0?Q׆jJ·?\x18\x11FgNyCX\xeARΖ\x1e\x1aN>\x10$\x3m2L\x8GG$(\x13m\x3-=\x1fA\x1b2\x17<mRLdCzPEgz69ġAgA%ÞD\x1a\xf>\xbw\x1e#0ȉ\xc6Jl0w2\x0b\x1a\xdaWmC\x14F\x10j(VjU\x14^9\x17KG\x7\x1c{\x17lu\x1aH#·i\x1e\x5k8.\x4» \x3OQ!gx\xcO؟·*\x1da\x18\x17[ݽ\iA\x19\x18\xc#Z'\xe\x18,h\x1e\x8~IO}pZ\x30\x13f\x1d*\x3x·3G=܊QO+L\x1fop=lM\x1859<"l\xf\x16\|]\x13\x17CUl֮Wơ=Y=F\x1e&\x6X!\|zM·߇7i\|엶E\xd>)(޿\x16A}⣿镵-\x0\x5:[\x14:{RtIR\x8l2zID6(<N0Fq\x8» &\x0NjoʟL`\x12n\x8t\x1ax&M\x15.EfYV=k\x19L\|˵۠\xf?<\x0Y?\x4+VQtn½f?t79Dݑ_s\x10AT\|/MW-مkW=·eփDLjgH\xfߵ+'8\x6#<z}\x1eAzǩ#Xջ4R\x1d,\x15}ڪ\x3b\x1f+F7OTT\x1fI60\xdD6"&{bMds\xcpb\x11l;\x16\x1b𬭏\xdT2>Ά\|c\xe,"y"Ľ0˒u\x16̬Cc\x4\x1dU\x3-V>3<9J\x1aY'WhV%\x1cD\x7\x16ĂUWŘ/m\xf\|@"R;b\|6Y:\x4$p\q\xdSނWe\x128K^晃м0bi\x11\x1a"/\x5WDnv}n=5w͘C\x16\x13Ni\x12'̒[Gԓ\x6vsN\x1eBl.ֆW2» L>,juvmnK}!&1\x16}ў\x7\_lUhc\xc~\h1ᖜ·ۮ\x1b,¾l{4ێ̶R5v}w\xew\x6Ww>\xfwF6hEc[m5w٦ZEm\xfieȷemeo-\x1aO3R`P0[ڡ0\xef\x18m.7\x6:Tm\x3\x6rjŎ0B\x1a&1Ƶ.ofL<\\xbMe\xcmk4\x3T\x1b-g\x12\|64\xdlH
		97	a\x5\x4gj\x1aݸ\x15\x3\x17?\x11\xeֆ-\x1a\x1d\x1a"\x5
		98	\x15Boh\x1d\x3r\xc\x18\x1c4{jyMlć\x7nU\x1bX\x16\x7\x1dYt'\x17"\x16\x4Q
		99	ډ\x8/13\x17]\x15SR8
		100	k'vw\x85\x13LN;\x1bS\x18"흟~\x1cU» mw'ʠ» ·dZ'\x1c:M$\x1awލ\x1eq\xfd\x1bČmn\x11SI\d0\x4LȌ69\xcf<\x0\xf?mr\xciL\x5ц7\xeL-\x3l\x14h]LQ\x3mi\x14\xd7?U//Af3J7Q\x14d/4\x157K>(\x146:\x16f2(d4\xdY\x12K隌'\x8\=\x6ɶ&(\x1793SW9Vy9\x19r\|2UM·\x4\x7Xଌ={rM,5je·߯$t\x10MPi9f\x1dG7\x13\x1efS\xb0Ys\x19f=}@\x1culH\x13X\|e» q<)\xfA\x0ҽKa1w?RhB\x1cyiWFIIB\xe7u\x7\x1aEԢ/(䱵\x6Xеܪzs=ClTO17s0-\x16\x1e·r]» 6\x6757)\x11*z8p[BP]dXƴKO
		101	\x6\x6\x3@ʹ\xbd\x4\x11`%\x1eύc>~\|L\x1d&\RX1`p~p\x13Vr8OM\x17(\x4\xdj9ϝ\x3b\x1b=v\x3·\xc+\x1dFQ\x18\|\xb?e4\x16e^\x1f:
		102	g?
		103	cv+sm@.{Y\2ȏZ\x8WN\x18
96	\\x4\x168[\x16ä\x1e?VSd\x0\x31#s/2Up̶ʶ>\\x8f[.aqvW7u\x1b\x1cgV-s,͓%ǪZ\x16";\x16JI\x19%ߪ\x7ڐsusLt!W\x13(mm@ܝoWZ͸,6z_YTS\x18r9sN9\x19dzĝ\x1aQ» Z{5u~\x4Rvag͍}?vH_[{_jtKxDK7ZI·If\xbSa$?D$d]tl\x12@FFD=Ե="F\xdzWV(V(+;\x14+\x1f#\x7&8/uNƓQrQa0wesma[ek\x0w.]v'\x0b\x0\x8;򴹳4PP+\xb\x8_Xyr)׍\xdg+x\x13"vXq)a5\x1eym=9}\x1a\xfHvmB\xd2BG\xbϒѕL\b\x1bEod\x1b$mtc:0!G!J.utM{\x7Prg6A!~\x1blw\x19\x1a1\x69\x8*+geÃW\xd2D
97	=\xd\x3B+#\x12_iOH,<[p\x12;N\x6_X\x0o-R\x11oeǸ\x5\x1a:;<Hb\x14(hPK4\x8ҽw·$YKfZL\x13\xeRbrP\xbӃn-Wf\x4\x0\x11.O酎J?\xcԑ׀\x13{uȮ?X
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Offset 1264, 19 lines modified		Offset 1264, 19 lines modified
1264	<span·class="w">»»»»</span><span·class="nt"><wire></span>0<span·class="nt"></wire></span>	1264	<span·class="w">»»»»</span><span·class="nt"><wire></span>0<span·class="nt"></wire></span>
1265	<span·class="w">»»»»</span><span·class="nt"><highlight></span>0<span·class="nt"></highlight></span>	1265	<span·class="w">»»»»</span><span·class="nt"><highlight></span>0<span·class="nt"></highlight></span>
1266	<span·class="w">»»»</span><span·class="nt"></px></span>	1266	<span·class="w">»»»</span><span·class="nt"></px></span>
1267	<span·class="w">»»</span><span·class="nt"></subD></span>	1267	<span·class="w">»»</span><span·class="nt"></subD></span>
1268	<span·class="w">»»</span><span·class="nt"><tags</span><span·class="w">·</span><span·class="na">class_id=</span><span·class="s">"6"</span><span·class="w">·</span><span·class="na">tracking_level=</span><span·class="s">"0"</span><span·class="w">·</span><span·class="na">version=</span><span·class="s">"0"</span><span·class="nt">></span>	1268	<span·class="w">»»</span><span·class="nt"><tags</span><span·class="w">·</span><span·class="na">class_id=</span><span·class="s">"6"</span><span·class="w">·</span><span·class="na">tracking_level=</span><span·class="s">"0"</span><span·class="w">·</span><span·class="na">version=</span><span·class="s">"0"</span><span·class="nt">></span>
1269	<span·class="w">»»»</span><span·class="nt"><count></span>5<span·class="nt"></count></span>	1269	<span·class="w">»»»</span><span·class="nt"><count></span>5<span·class="nt"></count></span>
1270	<span·class="w">»»»</span><span·class="nt"><item_version></span>0<span·class="nt"></item_version></span>	1270	<span·class="w">»»»</span><span·class="nt"><item_version></span>0<span·class="nt"></item_version></span>
1271	<span·class="w">»»»</span><span·class="nt"><item></span>author=~(pbuilder1@ionos5-amd64)<span·class="nt"></item></span>	1271	<span·class="w">»»»</span><span·class="nt"><item></span>author=second~user~(pbuilder2@i-capture-the-hostname)<span·class="nt"></item></span>
1272	<span·class="w">»»»</span><span·class="nt"><item></span>isoTime=20261109T~~133139~~<span·class="nt"></item></span>	1272	<span·class="w">»»»</span><span·class="nt"><item></span>isoTime=20251008T210642<span·class="nt"></item></span>
1273	<span·class="w">»»»</span><span·class="nt"><item></span>id=20261109T~~133139~~p236050<span·class="nt"></item></span>	1273	<span·class="w">»»»</span><span·class="nt"><item></span>id=20251008T210642p2068901<span·class="nt"></item></span>
1274	<span·class="w">»»»</span><span·class="nt"><item></span>d.id=20261109T~~133139~~p236050<span·class="nt"></item></span>	1274	<span·class="w">»»»</span><span·class="nt"><item></span>d.id=20251008T210642p2068901<span·class="nt"></item></span>
1275	<span·class="w">»»»</span><span·class="nt"><item></span>id.d=20261109T~~133139~~p236050<span·class="nt"></item></span>	1275	<span·class="w">»»»</span><span·class="nt"><item></span>id.d=20251008T210642p2068901<span·class="nt"></item></span>
1276	<span·class="w">»»</span><span·class="nt"></tags></span>	1276	<span·class="w">»»</span><span·class="nt"></tags></span>
1277	<span·class="w">»»</span><span·class="nt"><engines</span><span·class="w">·</span><span·class="na">class_id=</span><span·class="s">"7"</span><span·class="w">·</span><span·class="na">tracking_level=</span><span·class="s">"0"</span><span·class="w">·</span><span·class="na">version=</span><span·class="s">"0"</span><span·class="nt">></span>	1277	<span·class="w">»»</span><span·class="nt"><engines</span><span·class="w">·</span><span·class="na">class_id=</span><span·class="s">"7"</span><span·class="w">·</span><span·class="na">tracking_level=</span><span·class="s">"0"</span><span·class="w">·</span><span·class="na">version=</span><span·class="s">"0"</span><span·class="nt">></span>
1278	<span·class="w">»»»</span><span·class="nt"><count></span>1<span·class="nt"></count></span>	1278	<span·class="w">»»»</span><span·class="nt"><count></span>1<span·class="nt"></count></span>
1279	<span·class="w">»»»</span><span·class="nt"><item_version></span>1<span·class="nt"></item_version></span>	1279	<span·class="w">»»»</span><span·class="nt"><item_version></span>1<span·class="nt"></item_version></span>
1280	<span·class="w">»»»</span><span·class="nt"><item</span><span·class="w">·</span><span·class="na">class_id=</span><span·class="s">"8"</span><span·class="w">·</span><span·class="na">tracking_level=</span><span·class="s">"0"</span><span·class="w">·</span><span·class="na">version=</span><span·class="s">"1"</span><span·class="nt">></span>	1280	<span·class="w">»»»</span><span·class="nt"><item</span><span·class="w">·</span><span·class="na">class_id=</span><span·class="s">"8"</span><span·class="w">·</span><span·class="na">tracking_level=</span><span·class="s">"0"</span><span·class="w">·</span><span·class="na">version=</span><span·class="s">"1"</span><span·class="nt">></span>
1281	<span·class="w">»»»»</span><span·class="nt"><px</span><span·class="w">·</span><span·class="na">class_id=</span><span·class="s">"10"</span><span·class="w">·</span><span·class="na">class_name=</span><span·class="s">"yade::GravityEngine"</span><span·class="w">·</span><span·class="na">tracking_level=</span><span·class="s">"1"</span><span·class="w">·</span><span·class="na">version=</span><span·class="s">"0"</span><span·class="w">·</span><span·class="na">object_id=</span><span·class="s">"_4"</span><span·class="nt">></span>	1281	<span·class="w">»»»»</span><span·class="nt"><px</span><span·class="w">·</span><span·class="na">class_id=</span><span·class="s">"10"</span><span·class="w">·</span><span·class="na">class_name=</span><span·class="s">"yade::GravityEngine"</span><span·class="w">·</span><span·class="na">tracking_level=</span><span·class="s">"1"</span><span·class="w">·</span><span·class="na">version=</span><span·class="s">"0"</span><span·class="w">·</span><span·class="na">object_id=</span><span·class="s">"_4"</span><span·class="nt">></span>
1282	<span·class="w">»»»»»</span><span·class="nt"><FieldApplier</span><span·class="w">·</span><span·class="na">class_id=</span><span·class="s">"11"</span><span·class="w">·</span><span·class="na">tracking_level=</span><span·class="s">"1"</span><span·class="w">·</span><span·class="na">version=</span><span·class="s">"0"</span><span·class="w">·</span><span·class="na">object_id=</span><span·class="s">"_5"</span><span·class="nt">></span>	1282	<span·class="w">»»»»»</span><span·class="nt"><FieldApplier</span><span·class="w">·</span><span·class="na">class_id=</span><span·class="s">"11"</span><span·class="w">·</span><span·class="na">tracking_level=</span><span·class="s">"1"</span><span·class="w">·</span><span·class="na">version=</span><span·class="s">"0"</span><span·class="w">·</span><span·class="na">object_id=</span><span·class="s">"_5"</span><span·class="nt">></span>
Offset 1945, 15 lines modified		Offset 1945, 15 lines modified
1945	<div·class="highlight-ipython·notranslate"><div·class="highlight"><pre><span></span><span·class="gp">Yade·[42]:·</span><span·class="n">ld</span><span·class="o">=</span><span·class="n">LawDispatcher</span><span·class="p">([</span><span·class="n">Law2_ScGeom_CpmPhys_Cpm</span><span·class="p">()])</span>	1945	<div·class="highlight-ipython·notranslate"><div·class="highlight"><pre><span></span><span·class="gp">Yade·[42]:·</span><span·class="n">ld</span><span·class="o">=</span><span·class="n">LawDispatcher</span><span·class="p">([</span><span·class="n">Law2_ScGeom_CpmPhys_Cpm</span><span·class="p">()])</span>

1946	<span·class="gp">Yade·[43]:·</span><span·class="n">ld</span><span·class="o">.</span><span·class="n">dispMatrix</span><span·class="p">()</span>	1946	<span·class="gp">Yade·[43]:·</span><span·class="n">ld</span><span·class="o">.</span><span·class="n">dispMatrix</span><span·class="p">()</span>
1947	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">43</span><span·class="p">]:</span>·<span·class="p">{(</span><span·class="s1">'GenericSpheresContact'</span><span·class="p">,</span>·<span·class="s1">'CpmPhys'</span><span·class="p">):</span>·<span·class="s1">'Law2_ScGeom_CpmPhys_Cpm'</span><span·class="p">}</span>	1947	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">43</span><span·class="p">]:</span>·<span·class="p">{(</span><span·class="s1">'GenericSpheresContact'</span><span·class="p">,</span>·<span·class="s1">'CpmPhys'</span><span·class="p">):</span>·<span·class="s1">'Law2_ScGeom_CpmPhys_Cpm'</span><span·class="p">}</span>

1948	<span·class="c">#·see·how·the·entry·for·ScGridCoGeom·will·be·filled·after·this·request</span>	1948	<span·class="c">#·see·how·the·entry·for·ScGridCoGeom·will·be·filled·after·this·request</span>
1949	<span·class="gp">Yade·[44]:·</span><span·class="n">ld</span><span·class="o">.</span><span·class="n">dispFunctor</span><span·class="p">(</span><span·class="n">ScGridCoGeom</span><span·class="p">(),</span><span·class="n">CpmPhys</span><span·class="p">())</span>	1949	<span·class="gp">Yade·[44]:·</span><span·class="n">ld</span><span·class="o">.</span><span·class="n">dispFunctor</span><span·class="p">(</span><span·class="n">ScGridCoGeom</span><span·class="p">(),</span><span·class="n">CpmPhys</span><span·class="p">())</span>
1950	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">44</span><span·class="p">]:</span>·<span·class="o"><</span><span·class="n">Law2_ScGeom_CpmPhys_Cpm</span>·<span·class="n">instance</span>·<span·class="n">at</span>·<span·class="mh">0x~~4190e~~f00</span><span·class="o">></span>	1950	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">44</span><span·class="p">]:</span>·<span·class="o"><</span><span·class="n">Law2_ScGeom_CpmPhys_Cpm</span>·<span·class="n">instance</span>·<span·class="n">at</span>·<span·class="mh">0x13bacf90</span><span·class="o">></span>

1951	<span·class="gp">Yade·[45]:·</span><span·class="n">ld</span><span·class="o">.</span><span·class="n">dispMatrix</span><span·class="p">()</span>	1951	<span·class="gp">Yade·[45]:·</span><span·class="n">ld</span><span·class="o">.</span><span·class="n">dispMatrix</span><span·class="p">()</span>
1952	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">45</span><span·class="p">]:</span>·	1952	<span·class="gr">Out</span><span·class="p">[</span><span·class="mi">45</span><span·class="p">]:</span>·
1953	<span·class="go">{('GenericSpheresContact',·'CpmPhys'):·'Law2_ScGeom_CpmPhys_Cpm',</span>	1953	<span·class="go">{('GenericSpheresContact',·'CpmPhys'):·'Law2_ScGeom_CpmPhys_Cpm',</span>
1954	<span·class="go">·('ScGridCoGeom',·'CpmPhys'):·'Law2_ScGeom_CpmPhys_Cpm'}</span>	1954	<span·class="go">·('ScGridCoGeom',·'CpmPhys'):·'Law2_ScGeom_CpmPhys_Cpm'}</span>
1955	</pre></div>	1955	</pre></div>
1956	</div>	1956	</div>
Offset 2073, 27 lines modified		Offset 2073, 27 lines modified
2073	<span·class="gp">Yade·[51]:·</span><span·class="n">yade</span><span·class="o">.</span><span·class="n">timing</span><span·class="o">.</span><span·class="n">reset</span><span·class="p">()</span>···················<span·class="c1">##·not·necessary·if·used·for·the·first·time</span>	2073	<span·class="gp">Yade·[51]:·</span><span·class="n">yade</span><span·class="o">.</span><span·class="n">timing</span><span·class="o">.</span><span·class="n">reset</span><span·class="p">()</span>···················<span·class="c1">##·not·necessary·if·used·for·the·first·time</span>


Offset 132, 15 lines modified		Offset 132, 15 lines modified
132	module;·to·mention·a·few·of·them,·they·are·_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8s_\x8p_\x8h_\x8e_\x8r_\x8e,·_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8f_\x8a_\x8c_\x8e_\x8t,	132	module;·to·mention·a·few·of·them,·they·are·_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8s_\x8p_\x8h_\x8e_\x8r_\x8e,·_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8f_\x8a_\x8c_\x8e_\x8t,
133	_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8w_\x8a_\x8l_\x8l.	133	_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8w_\x8a_\x8l_\x8l.
134	Yade·[8]:·s=utils.sphere((0,0,0),radius=1)····#·create·sphere·particle·centered	134	Yade·[8]:·s=utils.sphere((0,0,0),radius=1)····#·create·sphere·particle·centered
135	at·(0,0,0)·with·radius=1	135	at·(0,0,0)·with·radius=1

136	Yade·[9]:·s.shape·······················#·s.shape·describes·the·geometry·of·the	136	Yade·[9]:·s.shape·······················#·s.shape·describes·the·geometry·of·the
137	particle	137	particle
138	Out[9]:·<Sphere·instance·at·0x~~41b0ae1~~0>	138	Out[9]:·<Sphere·instance·at·0x14256ca0>

139	Yade·[10]:·s.shape.radius················#·we·already·know·the·Sphere·class	139	Yade·[10]:·s.shape.radius················#·we·already·know·the·Sphere·class
140	Out[10]:·1.0	140	Out[10]:·1.0

141	Yade·[11]:·s.state.mass,·s.state.inertia·#·inertia·is·computed·from·density·and	141	Yade·[11]:·s.state.mass,·s.state.inertia·#·inertia·is·computed·from·density·and
142	geometry	142	geometry
143	Out[11]:	143	Out[11]:
Offset 167, 43 lines modified		Offset 167, 42 lines modified
167	Yade·[15]:·from·yade·import·pack	167	Yade·[15]:·from·yade·import·pack

168	Yade·[16]:·sp=pack.SpherePack()···················#·create·an·empty·cloud;	168	Yade·[16]:·sp=pack.SpherePack()···················#·create·an·empty·cloud;
169	SpherePack·contains·only·geometrical·information	169	SpherePack·contains·only·geometrical·information

170	Yade·[17]:·sp.makeCloud((1,1,1),(2,2,2),rMean=.2)·#·put·spheres·with·defined	170	Yade·[17]:·sp.makeCloud((1,1,1),(2,2,2),rMean=.2)·#·put·spheres·with·defined
171	radius·inside·box·given·by·corners·(1,1,1)·and·(2,2,2)	171	radius·inside·box·given·by·corners·(1,1,1)·and·(2,2,2)
172	Out[17]:·7	172	Out[17]:·6

173	Yade·[18]:·for·c,r·in·sp:·print(c,r)···············#·print·center·and·radius·of	173	Yade·[18]:·for·c,r·in·sp:·print(c,r)···············#·print·center·and·radius·of
174	all·particles·(SpherePack·is·a·sequence·which·can·be·iterated·over)	174	all·particles·(SpherePack·is·a·sequence·which·can·be·iterated·over)
175	···....:	175	···....:
		176	Vector3(1.408804018987269036,1.589845628370299524,1.312119421800189034)·0.2
		177	Vector3(1.548852481838656647,1.576496833311310075,1.74020548473290404)·0.2
		178	Vector3(1.209087246102181767,1.263906932511552172,1.590372822258418584)·0.2
		179	Vector3(1.743711379425391117,1.315162789559639611,1.462172232504633573)·0.2
		180	Vector3(1.772909779005406028,1.777766508354149844,1.438732586315094597)·0.2
		181	Vector3(1.220035661406804861,1.798483934653504868,1.679915255080699943)·0.2
176	Vector3(1.399645318953713691,1.415640717707175478,1.430323583382939967)·0.2
177	Vector3(1.497395317733801079,1.650807767652984204,1.792584252940240708)·0.2
178	Vector3(1.201344163582873437,1.782818975399129702,1.27464669526633978)·0.2
179	Vector3(1.785528251811933531,1.798124185554716759,1.489917692967866358)·0.2
180	Vector3(1.313290246750045576,1.207364175468536027,1.786828590458801935)·0.2
181	Vector3(1.73368285267546085,1.267321330758873987,1.247810815566277265)·0.2
182	Vector3(1.753295593557239185,1.231557672177355123,1.710302683434537618)·0.2

183	Yade·[19]:·sp.toSimulation()······················#·create·particles·and·add	182	Yade·[19]:·sp.toSimulation()······················#·create·particles·and·add
184	them·to·the·simulation	183	them·to·the·simulation
185	Out[19]:·[1,·2,·3,·4,·5,·6~~,·7~~]	184	Out[19]:·[1,·2,·3,·4,·5,·6]
186	\x8\x8\x8\x8\x8·B\x8Bo\x8ou\x8un\x8nd\x8da\x8ar\x8ri\x8ie\x8es\x8s_\x8?\x8¶·\x8\x8\x8\x8\x8	185	\x8\x8\x8\x8\x8·B\x8Bo\x8ou\x8un\x8nd\x8da\x8ar\x8ri\x8ie\x8es\x8s_\x8?\x8¶·\x8\x8\x8\x8\x8
187	_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8f_\x8a_\x8c_\x8e_\x8t·(triangle·_\x8F_\x8a_\x8c_\x8e_\x8t)·and·_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8w_\x8a_\x8l_\x8l·(infinite·axes-aligned·plane·_\x8W_\x8a_\x8l_\x8l)	186	_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8f_\x8a_\x8c_\x8e_\x8t·(triangle·_\x8F_\x8a_\x8c_\x8e_\x8t)·and·_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8w_\x8a_\x8l_\x8l·(infinite·axes-aligned·plane·_\x8W_\x8a_\x8l_\x8l)
188	geometries·are·typically·used·to·define·boundaries.·For·instance,·a·“floor”·for	187	geometries·are·typically·used·to·define·boundaries.·For·instance,·a·“floor”·for
189	the·simulation·can·be·created·like·this:	188	the·simulation·can·be·created·like·this:
190	Yade·[20]:·O.bodies.append(utils.wall(-1,axis=2))	189	Yade·[20]:·O.bodies.append(utils.wall(-1,axis=2))
191	Out[20]:·8	190	Out[20]:·7
192	There·are·other·conveinence·functions·(like·_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8f_\x8a_\x8c_\x8e_\x8t_\x8B_\x8o_\x8x·for·creating·closed	191	There·are·other·conveinence·functions·(like·_\x8u_\x8t_\x8i_\x8l_\x8s_\x8._\x8f_\x8a_\x8c_\x8e_\x8t_\x8B_\x8o_\x8x·for·creating·closed
193	or·open·rectangular·box,·or·family·of·_\x8y_\x8m_\x8p_\x8o_\x8r_\x8t·functions)	192	or·open·rectangular·box,·or·family·of·_\x8y_\x8m_\x8p_\x8o_\x8r_\x8t·functions)
194	\x8\x8\x8\x8\x8·L\x8Lo\x8oo\x8ok\x8k·i\x8in\x8ns\x8si\x8id\x8de\x8e_\x8?\x8¶·\x8\x8\x8\x8\x8	193	\x8\x8\x8\x8\x8·L\x8Lo\x8oo\x8ok\x8k·i\x8in\x8ns\x8si\x8id\x8de\x8e_\x8?\x8¶·\x8\x8\x8\x8\x8
195	The·simulation·can·be·inspected·in·several·ways.·All·data·can·be·accessed·from	194	The·simulation·can·be·inspected·in·several·ways.·All·data·can·be·accessed·from
196	python·directly:	195	python·directly:
197	Yade·[21]:·len(O.bodies)	196	Yade·[21]:·len(O.bodies)
198	Out[21]:·9	197	Out[21]:·8

199	Yade·[22]:·O.bodies[10].shape.radius···#·radius·of·body·#10·(will·give·error·if	198	Yade·[22]:·O.bodies[10].shape.radius···#·radius·of·body·#10·(will·give·error·if
200	not·sphere,·since·only·spheres·have·radius·defined)	199	not·sphere,·since·only·spheres·have·radius·defined)
201	[0;31m-------------------------------------------------------------------------	200	[0;31m-------------------------------------------------------------------------
202	--\x1b[0m	201	--\x1b[0m
203	[0;31mIndexError\x1b[0m································Traceback·(most·recent·call	202	[0;31mIndexError\x1b[0m································Traceback·(most·recent·call
204	last)	203	last)
Offset 263, 18 lines modified		Offset 262, 18 lines modified
263	···....:····NewtonIntegrator(damping=.2,label='newtonCustomLabel')······#	262	···....:····NewtonIntegrator(damping=.2,label='newtonCustomLabel')······#
264	define·a·label·newtonCustomLabel·under·which·we·can·access·this·engine·easily	263	define·a·label·newtonCustomLabel·under·which·we·can·access·this·engine·easily
265	···....:·]	264	···....:·]
266	···....:	265	···....:

267	Yade·[25]:·O.engines	266	Yade·[25]:·O.engines
268	Out[25]:	267	Out[25]:
269	[<ForceResetter·instance·at·0x~~41d1fb~~90>,	268	[<ForceResetter·instance·at·0x14569190>,
270	·<InsertionSortCollider·instance·at·0x41~~d06~~1e0>,	269	·<InsertionSortCollider·instance·at·0x13f21d00>,
271	·<InteractionLoop·instance·at·0x41d~~23d4~~0>,	270	·<InteractionLoop·instance·at·0x14194800>,
272	·<NewtonIntegrator·instance·at·0x~~41d0~~63a0>]	271	·<NewtonIntegrator·instance·at·0x135d6920>]

273	Yade·[26]:·O.engines[-1]==newtonCustomLabel····#·is·it·the·same·object?	272	Yade·[26]:·O.engines[-1]==newtonCustomLabel····#·is·it·the·same·object?
274	Out[26]:·True	273	Out[26]:·True

275	Yade·[27]:·newtonCustomLabel.damping	274	Yade·[27]:·newtonCustomLabel.damping
276	Out[27]:·0.2	275	Out[27]:·0.2
277	Instead·of·typing·everything·into·the·command-line,·one·can·describe·simulation	276	Instead·of·typing·everything·into·the·command-line,·one·can·describe·simulation


Offset 64, 15 lines modified		Offset 64, 15 lines modified
64	Yade·[1]:·len(O.materials)	64	Yade·[1]:·len(O.materials)
65	Out[1]:·0	65	Out[1]:·0

66	Yade·[2]:·idConcrete=O.materials.append(FrictMat	66	Yade·[2]:·idConcrete=O.materials.append(FrictMat
67	(young=30e9,poisson=.2,frictionAngle=.6,label="concrete"))	67	(young=30e9,poisson=.2,frictionAngle=.6,label="concrete"))

68	Yade·[3]:·O.materials[idConcrete]	68	Yade·[3]:·O.materials[idConcrete]
69	Out[3]:·<FrictMat·instance·at·0x~~41d3415~~0>	69	Out[3]:·<FrictMat·instance·at·0x142852a0>

70	#·uses·the·last·defined·material	70	#·uses·the·last·defined·material
71	Yade·[4]:·O.bodies.append(sphere(center=(0,0,0),radius=1))	71	Yade·[4]:·O.bodies.append(sphere(center=(0,0,0),radius=1))
72	Out[4]:·0	72	Out[4]:·0

73	#·material·given·by·id	73	#·material·given·by·id
74	Yade·[5]:·O.bodies.append(sphere((0,0,2),1,material=idConcrete))	74	Yade·[5]:·O.bodies.append(sphere((0,0,2),1,material=idConcrete))
Offset 567, 15 lines modified		Offset 567, 15 lines modified
567	···....:·]	567	···....:·]
568	···....:	568	···....:

569	Yade·[29]:·i=createInteraction(0,1)	569	Yade·[29]:·i=createInteraction(0,1)

570	#·created·by·functors·in·InteractionLoop	570	#·created·by·functors·in·InteractionLoop
571	Yade·[30]:·i.geom,·i.phys	571	Yade·[30]:·i.geom,·i.phys
572	Out[30]:·(<ScGeom·instance·at·0x~~415d04d~~0>,·<FrictPhys·instance·at·0x~~4196439~~0>)	572	Out[30]:·(<ScGeom·instance·at·0x14285310>,·<FrictPhys·instance·at·0x14289020>)
573	This·method·will·be·rather·slow·if·many·interactions·are·to·be·created·(the	573	This·method·will·be·rather·slow·if·many·interactions·are·to·be·created·(the
574	functor·lookup·will·be·repeated·for·each·of·them).·In·such·case,·ask·on·_\x8y_\x8a_\x8d_\x8e_\x8-	574	functor·lookup·will·be·repeated·for·each·of·them).·In·such·case,·ask·on·_\x8y_\x8a_\x8d_\x8e_\x8-
575	_\x8d_\x8e_\x8v_\x8@_\x8l_\x8i_\x8s_\x8t_\x8s_\x8._\x8l_\x8a_\x8u_\x8n_\x8c_\x8h_\x8p_\x8a_\x8d_\x8._\x8n_\x8e_\x8t·to·have·the·_\x8c_\x8r_\x8e_\x8a_\x8t_\x8e_\x8I_\x8n_\x8t_\x8e_\x8r_\x8a_\x8c_\x8t_\x8i_\x8o_\x8n·function·accept·list·of	575	_\x8d_\x8e_\x8v_\x8@_\x8l_\x8i_\x8s_\x8t_\x8s_\x8._\x8l_\x8a_\x8u_\x8n_\x8c_\x8h_\x8p_\x8a_\x8d_\x8._\x8n_\x8e_\x8t·to·have·the·_\x8c_\x8r_\x8e_\x8a_\x8t_\x8e_\x8I_\x8n_\x8t_\x8e_\x8r_\x8a_\x8c_\x8t_\x8i_\x8o_\x8n·function·accept·list·of
576	pairs·id’s·as·well.	576	pairs·id’s·as·well.
577	\x8\x8\x8·A\x8As\x8ss\x8si\x8ig\x8gn\x8ni\x8in\x8ng\x8g·c\x8co\x8oh\x8he\x8es\x8si\x8iv\x8ve\x8e·b\x8bo\x8on\x8nd\x8ds\x8s·(\x8(p\x8po\x8os\x8ss\x8si\x8ib\x8bl\x8ly\x8y·b\x8be\x8et\x8tw\x8we\x8ee\x8en\x8n·d\x8di\x8is\x8st\x8ta\x8an\x8nt\x8t·b\x8bo\x8od\x8di\x8ie\x8es\x8s)\x8)_\x8?\x8¶·\x8\x8\x8	577	\x8\x8\x8·A\x8As\x8ss\x8si\x8ig\x8gn\x8ni\x8in\x8ng\x8g·c\x8co\x8oh\x8he\x8es\x8si\x8iv\x8ve\x8e·b\x8bo\x8on\x8nd\x8ds\x8s·(\x8(p\x8po\x8os\x8ss\x8si\x8ib\x8bl\x8ly\x8y·b\x8be\x8et\x8tw\x8we\x8ee\x8en\x8n·d\x8di\x8is\x8st\x8ta\x8an\x8nt\x8t·b\x8bo\x8od\x8di\x8ie\x8es\x8s)\x8)_\x8?\x8¶·\x8\x8\x8
578	A·particular·case·of·interactions·on·demand·is·when·cohesive·strength·needs·to	578	A·particular·case·of·interactions·on·demand·is·when·cohesive·strength·needs·to
579	be·assigned·to·interactions·when·using	579	be·assigned·to·interactions·when·using
Offset 910, 19 lines modified		Offset 910, 19 lines modified
910	implementation·in·C++·is·different)·mapping·keys·to·labels.·Contrary·to·regular	910	implementation·in·C++·is·different)·mapping·keys·to·labels.·Contrary·to·regular
911	python·dictionaries·that·you·could·create,	911	python·dictionaries·that·you·could·create,
912	····*·O.tags·is·s\x8sa\x8av\x8ve\x8ed\x8d·a\x8an\x8nd\x8d·l\x8lo\x8oa\x8ad\x8de\x8ed\x8d·w\x8wi\x8it\x8th\x8h·s\x8si\x8im\x8mu\x8ul\x8la\x8at\x8ti\x8io\x8on\x8n;	912	····*·O.tags·is·s\x8sa\x8av\x8ve\x8ed\x8d·a\x8an\x8nd\x8d·l\x8lo\x8oa\x8ad\x8de\x8ed\x8d·w\x8wi\x8it\x8th\x8h·s\x8si\x8im\x8mu\x8ul\x8la\x8at\x8ti\x8io\x8on\x8n;
913	····*·O.tags·has·some·values·pre-initialized.	913	····*·O.tags·has·some·values·pre-initialized.
914	After·Yade·startup,·O.tags·contains·the·following:	914	After·Yade·startup,·O.tags·contains·the·following:
915	Yade·[45]:·dict(O.tags)·#·convert·to·real·dictionary	915	Yade·[45]:·dict(O.tags)·#·convert·to·real·dictionary
916	Out[45]:	916	Out[45]:
917	{'author':·'~(pbuilder1@ionos5-amd64)',
918	·'isoTime':·'20261109T133142',
919	·'id':·'20261109T133142p236050',
920	·'d.id':·'20261109T133142p236050',
921	·'~~id.d~~':·'~~20261109T13314~~2p~~236050~~'}	917	{'author':·'second~user~(pbuilder2@i-capture-the-hostname)',
		918	·'isoTime':·'20251008T210650',
		919	·'id':·'20251008T210650p2068901',
		920	·'d.id':·'20251008T210650p2068901',
		921	·'id.d':·'20251008T210650p2068901'}
922	··author	922	··author
923	······Real·name,·username·and·machine·as·obtained·from·your·system·at	923	······Real·name,·username·and·machine·as·obtained·from·your·system·at
924	······simulation·creation	924	······simulation·creation
925	··id	925	··id
926	······Unique·identifier·of·this·Yade·instance·(or·of·the·instance·which·created	926	······Unique·identifier·of·this·Yade·instance·(or·of·the·instance·which·created
927	······a·loaded·simulation).·It·is·composed·of·date,·time·and·process·number.	927	······a·loaded·simulation).·It·is·composed·of·date,·time·and·process·number.
928	······Useful·if·you·run·simulations·in·parallel·and·want·to·avoid·overwriting	928	······Useful·if·you·run·simulations·in·parallel·and·want·to·avoid·overwriting
Offset 1578, 20 lines modified		Offset 1578, 20 lines modified
1578	background	1578	background
1579	colorStyle.setStyle("figureGrey",True)··#·grey·levels·for·everything	1579	colorStyle.setStyle("figureGrey",True)··#·grey·levels·for·everything
1580	These·two·styles·also·have·higher·resolution·for·displaying·the·spheres.·The	1580	These·two·styles·also·have·higher·resolution·for·displaying·the·spheres.·The
1581	style·that·was·used·pre-2024·isold.·The·available·styles·are·listed	1581	style·that·was·used·pre-2024·isold.·The·available·styles·are·listed
1582	incolorStyle.styles:	1582	incolorStyle.styles:
1583	Yade·[70]:·colorStyle.styles	1583	Yade·[70]:·colorStyle.styles
1584	Out[70]:	1584	Out[70]:
1585	{'sand':·<yade.utils.YadeColorStyle·at·0x7f~~0eacc63~~380>,	1585	{'sand':·<yade.utils.YadeColorStyle·at·0x7fb2340fb380>,
1586	·'old':·<yade.utils.YadeColorStyle·at·0x7f~~0eaccc2~~0d0>,	1586	·'old':·<yade.utils.YadeColorStyle·at·0x7fb2341560d0>,
1587	·'figureColor':·<yade.utils.YadeColorStyle·at·0x7f~~0eaccc2~~210>,	1587	·'figureColor':·<yade.utils.YadeColorStyle·at·0x7fb234156210>,
1588	·'figureGrey':·<yade.utils.YadeColorStyle·at·0x7f~~0eacce4~~3e0>,	1588	·'figureGrey':·<yade.utils.YadeColorStyle·at·0x7fb2263083e0>,
1589	·'blue':·<yade.utils.YadeColorStyle·at·0x7f~~0eacce4~~640>,	1589	·'blue':·<yade.utils.YadeColorStyle·at·0x7fb226308640>,
1590	·'screenDisplayLowRes':·<yade.utils.YadeColorStyle·at·0x7f~~0eacc8a~~570>}	1590	·'screenDisplayLowRes':·<yade.utils.YadeColorStyle·at·0x7fb23411e570>}
1591	3D·rendering·is·one·of·several·ways·to·produce·videos·of·simulations:	1591	3D·rendering·is·one·of·several·ways·to·produce·videos·of·simulations:
1592	···1.·Capture·screen·output·(the·3d·rendering·window)·during·the·simulation·−	1592	···1.·Capture·screen·output·(the·3d·rendering·window)·during·the·simulation·−
1593	······there·are·tools·available·for·that·(such·as·_\x8I_\x8s_\x8t_\x8a_\x8n_\x8b_\x8u_\x8l·or·_\x8R_\x8e_\x8c_\x8o_\x8r_\x8d_\x8M_\x8y_\x8D_\x8e_\x8s_\x8k_\x8t_\x8o_\x8p,	1593	······there·are·tools·available·for·that·(such·as·_\x8I_\x8s_\x8t_\x8a_\x8n_\x8b_\x8u_\x8l·or·_\x8R_\x8e_\x8c_\x8o_\x8r_\x8d_\x8M_\x8y_\x8D_\x8e_\x8s_\x8k_\x8t_\x8o_\x8p,
1594	······which·are·also·packaged·for·most·Linux·distributions).·The·output·is	1594	······which·are·also·packaged·for·most·Linux·distributions).·The·output·is
1595	······“what·you·see·is·what·you·get”,·with·all·the·advantages·and	1595	······“what·you·see·is·what·you·get”,·with·all·the·advantages·and
1596	······disadvantages.	1596	······disadvantages.
1597	···2.·Periodic·frame·snapshot·using·_\x8S_\x8n_\x8a_\x8p_\x8s_\x8h_\x8o_\x8t_\x8E_\x8n_\x8g_\x8i_\x8n_\x8e·(see·_\x8e_\x8x_\x8a_\x8m_\x8p_\x8l_\x8e_\x8s_\x8/_\x8t_\x8e_\x8s_\x8t_\x8/_\x8f_\x8o_\x8r_\x8c_\x8e_\x8-	1597	···2.·Periodic·frame·snapshot·using·_\x8S_\x8n_\x8a_\x8p_\x8s_\x8h_\x8o_\x8t_\x8E_\x8n_\x8g_\x8i_\x8n_\x8e·(see·_\x8e_\x8x_\x8a_\x8m_\x8p_\x8l_\x8e_\x8s_\x8/_\x8t_\x8e_\x8s_\x8t_\x8/_\x8f_\x8o_\x8r_\x8c_\x8e_\x8-


Offset 36588, 15 lines modified		Offset 36588, 15 lines modified
36588	<dt·class="sig·sig-object·py"·id="yade.plot.Subdomain.completeSendBodies">	36588	<dt·class="sig·sig-object·py"·id="yade.plot.Subdomain.completeSendBodies">
36589	<span·class="sig-name·descname"><span·class="pre">completeSendBodies</span></span><span·class="sig-paren">(</span><em·class="sig-param"><span·class="n"><span·class="pre">(Subdomain)arg1</span></span></em><span·class="sig-paren">)</span>·<span·class="sig-return"><span·class="sig-return-icon">→</span>·<span·class="sig-return-typehint"><span·class="pre">None</span>·<span·class="pre">:</span></span></span><a·class="headerlink"·href="#yade.plot.Subdomain.completeSendBodies"·title="Link·to·this·definition">¶</a></dt>	36589	<span·class="sig-name·descname"><span·class="pre">completeSendBodies</span></span><span·class="sig-paren">(</span><em·class="sig-param"><span·class="n"><span·class="pre">(Subdomain)arg1</span></span></em><span·class="sig-paren">)</span>·<span·class="sig-return"><span·class="sig-return-icon">→</span>·<span·class="sig-return-typehint"><span·class="pre">None</span>·<span·class="pre">:</span></span></span><a·class="headerlink"·href="#yade.plot.Subdomain.completeSendBodies"·title="Link·to·this·definition">¶</a></dt>
36590	<dd><p>calls·MPI_wait·to·complete·the·non·blocking·sends/recieves.</p>	36590	<dd><p>calls·MPI_wait·to·complete·the·non·blocking·sends/recieves.</p>
36591	</dd></dl>	36591	</dd></dl>

36592	<dl·class="py·method">	36592	<dl·class="py·method">
36593	<dt·class="sig·sig-object·py"·id="yade.plot.Subdomain.countIntsWith">	36593	<dt·class="sig·sig-object·py"·id="yade.plot.Subdomain.countIntsWith">
36594	<span·class="sig-name·descname"><span·class="pre">countIntsWith</span></span><span·class="sig-paren">(</span><em·class="sig-param"><span·class="n"><span·class="pre">(Subdomain)arg1</span></span></em>,·<em·class="sig-param"><span·class="n"><span·class="pre">(int)body</span></span></em>,·<em·class="sig-param"><span·class="n"><span·class="pre">(int)someSubDomain</span></span></em><span·class="optional">[</span>,·<em·class="sig-param"><span·class="n"><span·class="pre">(Scene)someSubDomain=<Scene</span>·<span·class="pre">instance</span>·<span·class="pre">at</span>·<span·class="pre">0x~~3f251e7~~0></span></span></em><span·class="optional">]</span><span·class="sig-paren">)</span>·<span·class="sig-return"><span·class="sig-return-icon">→</span>·<span·class="sig-return-typehint"><span·class="pre">int</span>·<span·class="pre">:</span></span></span><a·class="headerlink"·href="#yade.plot.Subdomain.countIntsWith"·title="Link·to·this·definition">¶</a></dt>	36594	<span·class="sig-name·descname"><span·class="pre">countIntsWith</span></span><span·class="sig-paren">(</span><em·class="sig-param"><span·class="n"><span·class="pre">(Subdomain)arg1</span></span></em>,·<em·class="sig-param"><span·class="n"><span·class="pre">(int)body</span></span></em>,·<em·class="sig-param"><span·class="n"><span·class="pre">(int)someSubDomain</span></span></em><span·class="optional">[</span>,·<em·class="sig-param"><span·class="n"><span·class="pre">(Scene)someSubDomain=<Scene</span>·<span·class="pre">instance</span>·<span·class="pre">at</span>·<span·class="pre">0x11a8db20></span></span></em><span·class="optional">]</span><span·class="sig-paren">)</span>·<span·class="sig-return"><span·class="sig-return-icon">→</span>·<span·class="sig-return-typehint"><span·class="pre">int</span>·<span·class="pre">:</span></span></span><a·class="headerlink"·href="#yade.plot.Subdomain.countIntsWith"·title="Link·to·this·definition">¶</a></dt>
36595	<dd><p>returns·for·a·body·the·count·of·interactions·(real·or·virtual)·with·bodies·from·a·certain·subdomain,·interactions·with·subdomains·excluded.·Third·parameter·(scene·pointer)·can·be·left·to·default·(equivalent·to·O._sceneObj).</p>	36595	<dd><p>returns·for·a·body·the·count·of·interactions·(real·or·virtual)·with·bodies·from·a·certain·subdomain,·interactions·with·subdomains·excluded.·Third·parameter·(scene·pointer)·can·be·left·to·default·(equivalent·to·O._sceneObj).</p>
36596	</dd></dl>	36596	</dd></dl>

36597	<dl·class="py·method">	36597	<dl·class="py·method">
36598	<dt·class="sig·sig-object·py"·id="yade.plot.Subdomain.dict">	36598	<dt·class="sig·sig-object·py"·id="yade.plot.Subdomain.dict">
36599	<span·class="sig-name·descname"><span·class="pre">dict</span></span><span·class="sig-paren">(</span><em·class="sig-param"><span·class="n"><span·class="pre">(Serializable)arg1</span></span></em><span·class="sig-paren">)</span>·<span·class="sig-return"><span·class="sig-return-icon">→</span>·<span·class="sig-return-typehint"><span·class="pre">dict</span>·<span·class="pre">:</span></span></span><a·class="headerlink"·href="#yade.plot.Subdomain.dict"·title="Link·to·this·definition">¶</a></dt>	36599	<span·class="sig-name·descname"><span·class="pre">dict</span></span><span·class="sig-paren">(</span><em·class="sig-param"><span·class="n"><span·class="pre">(Serializable)arg1</span></span></em><span·class="sig-paren">)</span>·<span·class="sig-return"><span·class="sig-return-icon">→</span>·<span·class="sig-return-typehint"><span·class="pre">dict</span>·<span·class="pre">:</span></span></span><a·class="headerlink"·href="#yade.plot.Subdomain.dict"·title="Link·to·this·definition">¶</a></dt>
36600	<dd><p>Return·dictionary·of·attributes.</p>	36600	<dd><p>Return·dictionary·of·attributes.</p>


Offset 17539, 15 lines modified		Offset 17539, 15 lines modified
17539	········p\x8pr\x8ro\x8op\x8pe\x8er\x8rt\x8ty\x8y·color_\x8¶	17539	········p\x8pr\x8ro\x8op\x8pe\x8er\x8rt\x8ty\x8y·color_\x8¶
17540	············Color·for·rendering·(normalized·RGB).	17540	············Color·for·rendering·(normalized·RGB).
17541	········p\x8pr\x8ro\x8op\x8pe\x8er\x8rt\x8ty\x8y·comm_\x8¶	17541	········p\x8pr\x8ro\x8op\x8pe\x8er\x8rt\x8ty\x8y·comm_\x8¶
17542	············Communicator·to·be·used·for·MPI·(converts·mpi4py·comm·<->·c++·comm)	17542	············Communicator·to·be·used·for·MPI·(converts·mpi4py·comm·<->·c++·comm)
17543	········completeSendBodies((\x8(S\x8Su\x8ub\x8bd\x8do\x8om\x8ma\x8ai\x8in\x8n)\x8)a\x8ar\x8rg\x8g1\x81)·→·None·:_\x8¶	17543	········completeSendBodies((\x8(S\x8Su\x8ub\x8bd\x8do\x8om\x8ma\x8ai\x8in\x8n)\x8)a\x8ar\x8rg\x8g1\x81)·→·None·:_\x8¶
17544	············calls·MPI_wait·to·complete·the·non·blocking·sends/recieves.	17544	············calls·MPI_wait·to·complete·the·non·blocking·sends/recieves.
17545	········countIntsWith((\x8(S\x8Su\x8ub\x8bd\x8do\x8om\x8ma\x8ai\x8in\x8n)\x8)a\x8ar\x8rg\x8g1\x81,·(\x8(i\x8in\x8nt\x8t)\x8)b\x8bo\x8od\x8dy\x8y,·(\x8(i\x8in\x8nt\x8t)\x8)s\x8so\x8om\x8me\x8eS\x8Su\x8ub\x8bD\x8Do\x8om\x8ma\x8ai\x8in\x8n[,	17545	········countIntsWith((\x8(S\x8Su\x8ub\x8bd\x8do\x8om\x8ma\x8ai\x8in\x8n)\x8)a\x8ar\x8rg\x8g1\x81,·(\x8(i\x8in\x8nt\x8t)\x8)b\x8bo\x8od\x8dy\x8y,·(\x8(i\x8in\x8nt\x8t)\x8)s\x8so\x8om\x8me\x8eS\x8Su\x8ub\x8bD\x8Do\x8om\x8ma\x8ai\x8in\x8n[,
17546	········(\x8(S\x8Sc\x8ce\x8en\x8ne\x8e)\x8)s\x8so\x8om\x8me\x8eS\x8Su\x8ub\x8bD\x8Do\x8om\x8ma\x8ai\x8in\x8n=\x8=<\x8<S\x8Sc\x8ce\x8en\x8ne\x8e·i\x8in\x8ns\x8st\x8ta\x8an\x8nc\x8ce\x8e·a\x8at\x8t·0\x80x\x8x3.3f.f2.25.51.1e.e7.70\x80>\x8>])·→·int·:_\x8¶	17546	········(\x8(S\x8Sc\x8ce\x8en\x8ne\x8e)\x8)s\x8so\x8om\x8me\x8eS\x8Su\x8ub\x8bD\x8Do\x8om\x8ma\x8ai\x8in\x8n=\x8=<\x8<S\x8Sc\x8ce\x8en\x8ne\x8e·i\x8in\x8ns\x8st\x8ta\x8an\x8nc\x8ce\x8e·a\x8at\x8t·0\x80x\x8x1.11.1a.a8.8d.db.b2.20\x80>\x8>])·→·int·:_\x8¶
17547	············returns·for·a·body·the·count·of·interactions·(real·or·virtual)·with	17547	············returns·for·a·body·the·count·of·interactions·(real·or·virtual)·with
17548	············bodies·from·a·certain·subdomain,·interactions·with·subdomains	17548	············bodies·from·a·certain·subdomain,·interactions·with·subdomains
17549	············excluded.·Third·parameter·(scene·pointer)·can·be·left·to·default	17549	············excluded.·Third·parameter·(scene·pointer)·can·be·left·to·default
17550	············(equivalent·to·O._sceneObj).	17550	············(equivalent·to·O._sceneObj).
17551	········dict((\x8(S\x8Se\x8er\x8ri\x8ia\x8al\x8li\x8iz\x8za\x8ab\x8bl\x8le\x8e)\x8)a\x8ar\x8rg\x8g1\x81)·→·dict·:_\x8¶	17551	········dict((\x8(S\x8Se\x8er\x8ri\x8ia\x8al\x8li\x8iz\x8za\x8ab\x8bl\x8le\x8e)\x8)a\x8ar\x8rg\x8g1\x81)·→·dict·:_\x8¶
17552	············Return·dictionary·of·attributes.	17552	············Return·dictionary·of·attributes.
17553	········dispHierarchy((\x8(S\x8Sh\x8ha\x8ap\x8pe\x8e)\x8)a\x8ar\x8rg\x8g1\x81[,·(\x8(b\x8bo\x8oo\x8ol\x8l)\x8)n\x8na\x8am\x8me\x8es\x8s=\x8=T\x8Tr\x8ru\x8ue\x8e])·→·list·:_\x8¶	17553	········dispHierarchy((\x8(S\x8Sh\x8ha\x8ap\x8pe\x8e)\x8)a\x8ar\x8rg\x8g1\x81[,·(\x8(b\x8bo\x8oo\x8ol\x8l)\x8)n\x8na\x8am\x8me\x8es\x8s=\x8=T\x8Tr\x8ru\x8ue\x8e])·→·list·:_\x8¶


Offset 1257, 15 lines modified		Offset 1257, 15 lines modified
1257	<div·class="math·notranslate·nohighlight">	1257	<div·class="math·notranslate·nohighlight">
1258	\[\sum\frac{1}{2}\left(m_i\vec{v}_i^2+\vec{\omega}(\mat{I}\vec{\omega}^T)\right).\]</div>	1258	\[\sum\frac{1}{2}\left(m_i\vec{v}_i^2+\vec{\omega}(\mat{I}\vec{\omega}^T)\right).\]</div>
1259	<p>For·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Body.aspherical">aspherical</a>·bodies,·necessary·frame·transformations·are·applied·to·the·inertia·tensor·<span·class="math·notranslate·nohighlight">\(\mat{I}\)</span>·as·stored·in·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.State.inertia">state.inertia</a>.</p>	1259	<p>For·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.Body.aspherical">aspherical</a>·bodies,·necessary·frame·transformations·are·applied·to·the·inertia·tensor·<span·class="math·notranslate·nohighlight">\(\mat{I}\)</span>·as·stored·in·<a·class="reference·external"·href="yade.wrapper.html#yade.wrapper.State.inertia">state.inertia</a>.</p>
1260	</dd></dl>	1260	</dd></dl>

1261	<dl·class="py·function">	1261	<dl·class="py·function">
1262	<dt·class="sig·sig-object·py"·id="yade._utils.lsSimpleShape">	1262	<dt·class="sig·sig-object·py"·id="yade._utils.lsSimpleShape">
1263	<span·class="sig-prename·descclassname"><span·class="pre">yade._utils.</span></span><span·class="sig-name·descname"><span·class="pre">lsSimpleShape</span></span><span·class="sig-paren">(</span><em·class="sig-param"><span·class="n"><span·class="pre">(int)shape</span></span></em>,·<em·class="sig-param"><span·class="n"><span·class="pre">(AlignedBox3)aabb</span></span></em><span·class="optional">[</span>,·<em·class="sig-param"><span·class="n"><span·class="pre">(float)step=0.1</span></span></em><span·class="optional">[</span>,·<em·class="sig-param"><span·class="n"><span·class="pre">(float)smearCoeff=1.5</span></span></em><span·class="optional">[</span>,·<em·class="sig-param"><span·class="n"><span·class="pre">(Vector2)epsilons=Vector2(0</span></span></em>,·<em·class="sig-param"><span·class="n"><span·class="pre">0)</span></span></em><span·class="optional">[</span>,·<em·class="sig-param"><span·class="n"><span·class="pre">(Clump)clump=<Clump</span>·<span·class="pre">instance</span>·<span·class="pre">at</span>·<span·class="pre">0x3fe0~~e28~~0></span></span></em><span·class="optional">]</span><span·class="optional">]</span><span·class="optional">]</span><span·class="optional">]</span><span·class="sig-paren">)</span>·<span·class="sig-return"><span·class="sig-return-icon">→</span>·<span·class="sig-return-typehint"><a·class="reference·internal"·href="yade.plot.html#yade.plot.LevelSet"·title="yade.plot.LevelSet"><span·class="pre">LevelSet</span></a></span></span><a·class="headerlink"·href="#yade._utils.lsSimpleShape"·title="Link·to·this·definition">¶</a></dt>	1263	<span·class="sig-prename·descclassname"><span·class="pre">yade._utils.</span></span><span·class="sig-name·descname"><span·class="pre">lsSimpleShape</span></span><span·class="sig-paren">(</span><em·class="sig-param"><span·class="n"><span·class="pre">(int)shape</span></span></em>,·<em·class="sig-param"><span·class="n"><span·class="pre">(AlignedBox3)aabb</span></span></em><span·class="optional">[</span>,·<em·class="sig-param"><span·class="n"><span·class="pre">(float)step=0.1</span></span></em><span·class="optional">[</span>,·<em·class="sig-param"><span·class="n"><span·class="pre">(float)smearCoeff=1.5</span></span></em><span·class="optional">[</span>,·<em·class="sig-param"><span·class="n"><span·class="pre">(Vector2)epsilons=Vector2(0</span></span></em>,·<em·class="sig-param"><span·class="n"><span·class="pre">0)</span></span></em><span·class="optional">[</span>,·<em·class="sig-param"><span·class="n"><span·class="pre">(Clump)clump=<Clump</span>·<span·class="pre">instance</span>·<span·class="pre">at</span>·<span·class="pre">0x11fe6090></span></span></em><span·class="optional">]</span><span·class="optional">]</span><span·class="optional">]</span><span·class="optional">]</span><span·class="sig-paren">)</span>·<span·class="sig-return"><span·class="sig-return-icon">→</span>·<span·class="sig-return-typehint"><a·class="reference·internal"·href="yade.plot.html#yade.plot.LevelSet"·title="yade.plot.LevelSet"><span·class="pre">LevelSet</span></a></span></span><a·class="headerlink"·href="#yade._utils.lsSimpleShape"·title="Link·to·this·definition">¶</a></dt>
1264	<dd><p>Creates·a·LevelSet·shape·among·pre-defined·ones.·Not·intended·to·be·used·directly,·see·levelSetBody()·instead.</p>	1264	<dd><p>Creates·a·LevelSet·shape·among·pre-defined·ones.·Not·intended·to·be·used·directly,·see·levelSetBody()·instead.</p>
1265	<dl·class="field-list·simple">	1265	<dl·class="field-list·simple">
1266	<dt·class="field-odd">Parameters<span·class="colon">:</span></dt>	1266	<dt·class="field-odd">Parameters<span·class="colon">:</span></dt>
1267	<dd·class="field-odd"><ul·class="simple">	1267	<dd·class="field-odd"><ul·class="simple">
1268	<li><p><strong>shape</strong>·(<em>int</em>)·–·a·shape·index·among·supported·choices</p></li>	1268	<li><p><strong>shape</strong>·(<em>int</em>)·–·a·shape·index·among·supported·choices</p></li>
1269	<li><p><strong>aabb</strong>·(<a·class="reference·internal"·href="yade.minieigenHP.html#yade._minieigenHP.AlignedBox3"·title="yade._minieigenHP.AlignedBox3"><em>AlignedBox3</em></a>)·–·the·axis-aligned·surrounding·box·of·the·body</p></li>	1269	<li><p><strong>aabb</strong>·(<a·class="reference·internal"·href="yade.minieigenHP.html#yade._minieigenHP.AlignedBox3"·title="yade._minieigenHP.AlignedBox3"><em>AlignedBox3</em></a>)·–·the·axis-aligned·surrounding·box·of·the·body</p></li>
1270	<li><p><strong>step</strong>·(<a·class="reference·internal"·href="yade.math.html#yade._math.HP2.Real"·title="yade._math.HP2.Real"><em>Real</em></a>)·–·the·LevelSet·grid·step·size</p></li>	1270	<li><p><strong>step</strong>·(<a·class="reference·internal"·href="yade.math.html#yade._math.HP2.Real"·title="yade._math.HP2.Real"><em>Real</em></a>)·–·the·LevelSet·grid·step·size</p></li>


Offset 892, 15 lines modified		Offset 892, 15 lines modified
892	······Compute·overall·kinetic·energy·of·the·simulation·as	892	······Compute·overall·kinetic·energy·of·the·simulation·as
893	······\[\sum\frac{1}{2}\left(m_i\vec{v}_i^2+\vec{\omega}(\mat{I}\vec	893	······\[\sum\frac{1}{2}\left(m_i\vec{v}_i^2+\vec{\omega}(\mat{I}\vec
894	······{\omega}^T)\right).\]	894	······{\omega}^T)\right).\]
895	······For·_\x8a_\x8s_\x8p_\x8h_\x8e_\x8r_\x8i_\x8c_\x8a_\x8l·bodies,·necessary·frame·transformations·are·applied·to·the	895	······For·_\x8a_\x8s_\x8p_\x8h_\x8e_\x8r_\x8i_\x8c_\x8a_\x8l·bodies,·necessary·frame·transformations·are·applied·to·the
896	······inertia·tensor·\(\mat{I}\)·as·stored·in·_\x8s_\x8t_\x8a_\x8t_\x8e_\x8._\x8i_\x8n_\x8e_\x8r_\x8t_\x8i_\x8a.	896	······inertia·tensor·\(\mat{I}\)·as·stored·in·_\x8s_\x8t_\x8a_\x8t_\x8e_\x8._\x8i_\x8n_\x8e_\x8r_\x8t_\x8i_\x8a.
897	··yade._utils.lsSimpleShape((\x8(i\x8in\x8nt\x8t)\x8)s\x8sh\x8ha\x8ap\x8pe\x8e,·(\x8(A\x8Al\x8li\x8ig\x8gn\x8ne\x8ed\x8dB\x8Bo\x8ox\x8x3\x83)\x8)a\x8aa\x8ab\x8bb\x8b[,·(\x8(f\x8fl\x8lo\x8oa\x8at\x8t)\x8)s\x8st\x8te\x8ep\x8p=\x8=0\x80.\x8.1\x81[,	897	··yade._utils.lsSimpleShape((\x8(i\x8in\x8nt\x8t)\x8)s\x8sh\x8ha\x8ap\x8pe\x8e,·(\x8(A\x8Al\x8li\x8ig\x8gn\x8ne\x8ed\x8dB\x8Bo\x8ox\x8x3\x83)\x8)a\x8aa\x8ab\x8bb\x8b[,·(\x8(f\x8fl\x8lo\x8oa\x8at\x8t)\x8)s\x8st\x8te\x8ep\x8p=\x8=0\x80.\x8.1\x81[,
898	··(\x8(f\x8fl\x8lo\x8oa\x8at\x8t)\x8)s\x8sm\x8me\x8ea\x8ar\x8rC\x8Co\x8oe\x8ef\x8ff\x8f=\x8=1\x81.\x8.5\x85[,·(\x8(V\x8Ve\x8ec\x8ct\x8to\x8or\x8r2\x82)\x8)e\x8ep\x8ps\x8si\x8il\x8lo\x8on\x8ns\x8s=\x8=V\x8Ve\x8ec\x8ct\x8to\x8or\x8r2\x82(\x8(0\x80,·0\x80)\x8)[,·(\x8(C\x8Cl\x8lu\x8um\x8mp\x8p)\x8)c\x8cl\x8lu\x8um\x8mp\x8p=\x8=<\x8<C\x8Cl\x8lu\x8um\x8mp\x8p	898	··(\x8(f\x8fl\x8lo\x8oa\x8at\x8t)\x8)s\x8sm\x8me\x8ea\x8ar\x8rC\x8Co\x8oe\x8ef\x8ff\x8f=\x8=1\x81.\x8.5\x85[,·(\x8(V\x8Ve\x8ec\x8ct\x8to\x8or\x8r2\x82)\x8)e\x8ep\x8ps\x8si\x8il\x8lo\x8on\x8ns\x8s=\x8=V\x8Ve\x8ec\x8ct\x8to\x8or\x8r2\x82(\x8(0\x80,·0\x80)\x8)[,·(\x8(C\x8Cl\x8lu\x8um\x8mp\x8p)\x8)c\x8cl\x8lu\x8um\x8mp\x8p=\x8=<\x8<C\x8Cl\x8lu\x8um\x8mp\x8p
899	··i\x8in\x8ns\x8st\x8ta\x8an\x8nc\x8ce\x8e·a\x8at\x8t·0\x80x\x8x3.3f.fe.e0.0e.e2.28.80\x80>\x8>]]]])·→·_\x8L_\x8e_\x8v_\x8e_\x8l_\x8S_\x8e_\x8t_\x8¶	899	··i\x8in\x8ns\x8st\x8ta\x8an\x8nc\x8ce\x8e·a\x8at\x8t·0\x80x\x8x1.11.1f.fe.e6.60.09.90\x80>\x8>]]]])·→·_\x8L_\x8e_\x8v_\x8e_\x8l_\x8S_\x8e_\x8t_\x8¶
900	······Creates·a·LevelSet·shape·among·pre-defined·ones.·Not·intended·to·be·used	900	······Creates·a·LevelSet·shape·among·pre-defined·ones.·Not·intended·to·be·used
901	······directly,·see·levelSetBody()·instead.	901	······directly,·see·levelSetBody()·instead.
902	········Parameters:	902	········Parameters:
903	················*·s\x8sh\x8ha\x8ap\x8pe\x8e·(i\x8in\x8nt\x8t)·–·a·shape·index·among·supported·choices	903	················*·s\x8sh\x8ha\x8ap\x8pe\x8e·(i\x8in\x8nt\x8t)·–·a·shape·index·among·supported·choices
904	················*·a\x8aa\x8ab\x8bb\x8b·(_\x8A\x8A_\x8l\x8l_\x8i\x8i_\x8g\x8g_\x8n\x8n_\x8e\x8e_\x8d\x8d_\x8B\x8B_\x8o\x8o_\x8x\x8x_\x83\x83)·–·the·axis-aligned·surrounding·box·of·the	904	················*·a\x8aa\x8ab\x8bb\x8b·(_\x8A\x8A_\x8l\x8l_\x8i\x8i_\x8g\x8g_\x8n\x8n_\x8e\x8e_\x8d\x8d_\x8B\x8B_\x8o\x8o_\x8x\x8x_\x83\x83)·–·the·axis-aligned·surrounding·box·of·the
905	··················body	905	··················body
906	················*·s\x8st\x8te\x8ep\x8p·(_\x8R\x8R_\x8e\x8e_\x8a\x8a_\x8l\x8l)·–·the·LevelSet·grid·step·size	906	················*·s\x8st\x8te\x8ep\x8p·(_\x8R\x8R_\x8e\x8e_\x8a\x8a_\x8l\x8l)·–·the·LevelSet·grid·step·size


Offset 113, 81 lines modified		Offset 113, 81 lines modified
113	············Update·object·attributes·from·given·dictionary	113	············Update·object·attributes·from·given·dictionary
114	\x8\x8\x8\x8·S\x8Sh\x8ha\x8ap\x8pe\x8e_\x8?\x8¶·\x8\x8\x8\x8	114	\x8\x8\x8\x8·S\x8Sh\x8ha\x8ap\x8pe\x8e_\x8?\x8¶·\x8\x8\x8\x8
115	[digraph·Shape·{	115	[digraph·Shape·{
116	········rankdir=RL;	116	········rankdir=RL;
117	········margin="0.2,0.05";	117	········margin="0.2,0.05";
118	········"Shape"·[shape="box",fontsize=8,style="setlinewidth	118	········"Shape"·[shape="box",fontsize=8,style="setlinewidth
119	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Shape"];	119	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Shape"];
		120	········"LevelSet"·[shape="box",fontsize=8,style="setlinewidth
		121	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.LevelSet"];
		122	········"LevelSet"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		123	········"Sphere"·[shape="box",fontsize=8,style="setlinewidth
		124	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Sphere"];
		125	········"Sphere"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
120	········"~~Box~~"·[shape="box",fontsize=8,style="setlinewidth	126	········"Clump"·[shape="box",fontsize=8,style="setlinewidth
121	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.~~Box~~"];	127	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Clump"];
122	········"~~Box~~"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];	128	········"Clump"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		129	········"PotentialParticle"·[shape="box",fontsize=8,style="setlinewidth
		130	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.PotentialParticle"];
		131	········"PotentialParticle"·->·"Shape"·[arrowsize=0.5,style="setlinewidth
		132	(0.5)"];
123	········"Facet"·[shape="box",fontsize=8,style="setlinewidth	133	········"Wall"·[shape="box",fontsize=8,style="setlinewidth
124	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Facet"];	134	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Wall"];
125	········"Facet"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];	135	········"Wall"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		136	········"GridConnection"·[shape="box",fontsize=8,style="setlinewidth
		137	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.GridConnection"];
		138	········"GridConnection"·->·"Sphere"·[arrowsize=0.5,style="setlinewidth(0.5)"];
126	········"Subdomain"·[shape="box",fontsize=8,style="setlinewidth	139	········"Subdomain"·[shape="box",fontsize=8,style="setlinewidth
127	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Subdomain"];	140	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Subdomain"];
128	········"Subdomain"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];	141	········"Subdomain"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
129	········"~~GridNode~~"·[shape="box",fontsize=8,style="setlinewidth	142	········"Tetra"·[shape="box",fontsize=8,style="setlinewidth
130	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.~~GridNode~~"];	143	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Tetra"];
131	········"~~GridNode~~"·->·"Sphere"·[arrowsize=0.5,style="setlinewidth(0.5)"];	144	········"Tetra"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
132	········"ChainedCylinder"·[shape="box",fontsize=8,style="setlinewidth	145	········"ChainedCylinder"·[shape="box",fontsize=8,style="setlinewidth
133	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.ChainedCylinder"];	146	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.ChainedCylinder"];
134	········"ChainedCylinder"·->·"Cylinder"·[arrowsize=0.5,style="setlinewidth	147	········"ChainedCylinder"·->·"Cylinder"·[arrowsize=0.5,style="setlinewidth
135	(0.5)"];	148	(0.5)"];
		149	········"GridNode"·[shape="box",fontsize=8,style="setlinewidth
		150	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.GridNode"];
		151	········"GridNode"·->·"Sphere"·[arrowsize=0.5,style="setlinewidth(0.5)"];
136	········"Cylinder"·[shape="box",fontsize=8,style="setlinewidth	152	········"Cylinder"·[shape="box",fontsize=8,style="setlinewidth
137	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Cylinder"];	153	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Cylinder"];
138	········"Cylinder"·->·"Sphere"·[arrowsize=0.5,style="setlinewidth(0.5)"];	154	········"Cylinder"·->·"Sphere"·[arrowsize=0.5,style="setlinewidth(0.5)"];
139	········"DeformableElement"·[shape="box",fontsize=8,style="setlinewidth
140	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.DeformableElement"];
141	········"DeformableElement"·->·"Shape"·[arrowsize=0.5,style="setlinewidth
142	(0.5)"];
143	········"W~~all~~"·[shape="box",fontsize=8,style="setlinewidth	155	········"Box"·[shape="box",fontsize=8,style="setlinewidth
144	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.W~~all~~"];	156	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Box"];
145	········"W~~all~~"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];	157	········"Box"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
146	········"C~~lump~~"·[shape="box",fontsize=8,style="setlinewidth	158	········"Node"·[shape="box",fontsize=8,style="setlinewidth
147	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.C~~lump~~"];	159	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Node"];
148	········"C~~lump~~"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];	160	········"Node"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		161	········"Lin4NodeTetra_Lin4NodeTetra_InteractionElement"
		162	[shape="box",fontsize=8,style="setlinewidth
		163	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Lin4NodeTetra_Lin4NodeTetra_InteractionElement"];
		164	········"Lin4NodeTetra_Lin4NodeTetra_InteractionElement"·-
		165	>·"DeformableCohesiveElement"·[arrowsize=0.5,style="setlinewidth(0.5)"];
		166	········"FluidDomainBbox"·[shape="box",fontsize=8,style="setlinewidth
		167	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.FluidDomainBbox"];
		168	········"FluidDomainBbox"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
149	········"PFacet"·[shape="box",fontsize=8,style="setlinewidth	169	········"PFacet"·[shape="box",fontsize=8,style="setlinewidth
150	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.PFacet"];	170	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.PFacet"];
151	········"PFacet"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];	171	········"PFacet"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
152	········"Lin4NodeTetra"·[shape="box",fontsize=8,style="setlinewidth	172	········"Lin4NodeTetra"·[shape="box",fontsize=8,style="setlinewidth
153	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Lin4NodeTetra"];	173	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Lin4NodeTetra"];
154	········"Lin4NodeTetra"·->·"DeformableElement"	174	········"Lin4NodeTetra"·->·"DeformableElement"
155	[arrowsize=0.5,style="setlinewidth(0.5)"];	175	[arrowsize=0.5,style="setlinewidth(0.5)"];
156	········"~~Sph~~ere"·[shape="box",fontsize=8,style="setlinewidth	176	········"DeformableElement"·[shape="box",fontsize=8,style="setlinewidth
157	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.~~Sph~~ere"];	177	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.DeformableElement"];
158	········"~~Sph~~ere"·->·"Shape"·[arrowsize=0.5,style="setlinewidth~~(0.5)"];~~	178	········"DeformableElement"·->·"Shape"·[arrowsize=0.5,style="setlinewidth
		179	(0.5)"];
159	········"DeformableCohesiveElement"·[shape="box",fontsize=8,style="setlinewidth	180	········"DeformableCohesiveElement"·[shape="box",fontsize=8,style="setlinewidth
160	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.DeformableCohesiveElement"];	181	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.DeformableCohesiveElement"];
161	········"DeformableCohesiveElement"·->·"DeformableElement"	182	········"DeformableCohesiveElement"·->·"DeformableElement"
162	[arrowsize=0.5,style="setlinewidth(0.5)"];	183	[arrowsize=0.5,style="setlinewidth(0.5)"];
163	········"GridConnection"·[shape="box",fontsize=8,style="setlinewidth
164	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.GridConnection"];
165	········"GridConnection"·->·"Sphere"·[arrowsize=0.5,style="setlinewidth(0.5)"];
166	········"PotentialParticle"·[shape="box",fontsize=8,style="setlinewidth
167	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.PotentialParticle"];
168	········"PotentialParticle"·->·"Shape"·[arrowsize=0.5,style="setlinewidth
169	(0.5)"];
170	········"FluidDomainBbox"·[shape="box",fontsize=8,style="setlinewidth
171	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.FluidDomainBbox"];
172	········"FluidDomainBbox"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
173	········"Node"·[shape="box",fontsize=8,style="setlinewidth
174	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Node"];
175	········"Node"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
176	········"LevelSet"·[shape="box",fontsize=8,style="setlinewidth
177	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.LevelSet"];
178	········"LevelSet"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
179	········"~~Tetra~~"·[shape="box",fontsize=8,style="setlinewidth	184	········"Facet"·[shape="box",fontsize=8,style="setlinewidth
180	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.~~Tetra~~"];	185	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Facet"];
181	········"~~Tetra~~"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];	186	········"Facet"·->·"Shape"·[arrowsize=0.5,style="setlinewidth(0.5)"];
182	········"Lin4NodeTetra_Lin4NodeTetra_InteractionElement"
183	[shape="box",fontsize=8,style="setlinewidth
184	(0.5),solid",height=0.2,URL="yade.wrapper.html#yade.wrapper.Lin4NodeTetra_Lin4NodeTetra_InteractionElement"];
185	········"Lin4NodeTetra_Lin4NodeTetra_InteractionElement"·-
186	>·"DeformableCohesiveElement"·[arrowsize=0.5,style="setlinewidth(0.5)"];
187	}]	187	}]
188	Inheritance·graph·of·Shape._\x8¶	188	Inheritance·graph·of·Shape._\x8¶
189	··c\x8cl\x8la\x8as\x8ss\x8s·yade.wrapper.Shape(i\x8in\x8nh\x8he\x8er\x8ri\x8it\x8ts\x8s·S\x8Se\x8er\x8ri\x8ia\x8al\x8li\x8iz\x8za\x8ab\x8bl\x8le\x8e)_\x8¶	189	··c\x8cl\x8la\x8as\x8ss\x8s·yade.wrapper.Shape(i\x8in\x8nh\x8he\x8er\x8ri\x8it\x8ts\x8s·S\x8Se\x8er\x8ri\x8ia\x8al\x8li\x8iz\x8za\x8ab\x8bl\x8le\x8e)_\x8¶
190	······Geometry·of·a·body	190	······Geometry·of·a·body
191	········p\x8pr\x8ro\x8op\x8pe\x8er\x8rt\x8ty\x8y·color_\x8¶	191	········p\x8pr\x8ro\x8op\x8pe\x8er\x8rt\x8ty\x8y·color_\x8¶
192	············Color·for·rendering·(normalized·RGB).	192	············Color·for·rendering·(normalized·RGB).
193	········dict((\x8(S\x8Se\x8er\x8ri\x8ia\x8al\x8li\x8iz\x8za\x8ab\x8bl\x8le\x8e)\x8)a\x8ar\x8rg\x8g1\x81)·→·dict·:_\x8¶	193	········dict((\x8(S\x8Se\x8er\x8ri\x8ia\x8al\x8li\x8iz\x8za\x8ab\x8bl\x8le\x8e)\x8)a\x8ar\x8rg\x8g1\x81)·→·dict·:_\x8¶
Offset 921, 15 lines modified		Offset 921, 15 lines modified
921	········p\x8pr\x8ro\x8op\x8pe\x8er\x8rt\x8ty\x8y·color_\x8¶	921	········p\x8pr\x8ro\x8op\x8pe\x8er\x8rt\x8ty\x8y·color_\x8¶
922	············Color·for·rendering·(normalized·RGB).	922	············Color·for·rendering·(normalized·RGB).
923	········p\x8pr\x8ro\x8op\x8pe\x8er\x8rt\x8ty\x8y·comm_\x8¶	923	········p\x8pr\x8ro\x8op\x8pe\x8er\x8rt\x8ty\x8y·comm_\x8¶
924	············Communicator·to·be·used·for·MPI·(converts·mpi4py·comm·<->·c++·comm)	924	············Communicator·to·be·used·for·MPI·(converts·mpi4py·comm·<->·c++·comm)
925	········completeSendBodies((\x8(S\x8Su\x8ub\x8bd\x8do\x8om\x8ma\x8ai\x8in\x8n)\x8)a\x8ar\x8rg\x8g1\x81)·→·None·:_\x8¶	925	········completeSendBodies((\x8(S\x8Su\x8ub\x8bd\x8do\x8om\x8ma\x8ai\x8in\x8n)\x8)a\x8ar\x8rg\x8g1\x81)·→·None·:_\x8¶
926	············calls·MPI_wait·to·complete·the·non·blocking·sends/recieves.	926	············calls·MPI_wait·to·complete·the·non·blocking·sends/recieves.
927	········countIntsWith((\x8(S\x8Su\x8ub\x8bd\x8do\x8om\x8ma\x8ai\x8in\x8n)\x8)a\x8ar\x8rg\x8g1\x81,·(\x8(i\x8in\x8nt\x8t)\x8)b\x8bo\x8od\x8dy\x8y,·(\x8(i\x8in\x8nt\x8t)\x8)s\x8so\x8om\x8me\x8eS\x8Su\x8ub\x8bD\x8Do\x8om\x8ma\x8ai\x8in\x8n[,	927	········countIntsWith((\x8(S\x8Su\x8ub\x8bd\x8do\x8om\x8ma\x8ai\x8in\x8n)\x8)a\x8ar\x8rg\x8g1\x81,·(\x8(i\x8in\x8nt\x8t)\x8)b\x8bo\x8od\x8dy\x8y,·(\x8(i\x8in\x8nt\x8t)\x8)s\x8so\x8om\x8me\x8eS\x8Su\x8ub\x8bD\x8Do\x8om\x8ma\x8ai\x8in\x8n[,
928	········(\x8(S\x8Sc\x8ce\x8en\x8ne\x8e)\x8)s\x8so\x8om\x8me\x8eS\x8Su\x8ub\x8bD\x8Do\x8om\x8ma\x8ai\x8in\x8n=\x8=<\x8<S\x8Sc\x8ce\x8en\x8ne\x8e·i\x8in\x8ns\x8st\x8ta\x8an\x8nc\x8ce\x8e·a\x8at\x8t·0\x80x\x8x3.3f.f2.25.51.1e.e7.70\x80>\x8>])·→·int·:_\x8¶	928	········(\x8(S\x8Sc\x8ce\x8en\x8ne\x8e)\x8)s\x8so\x8om\x8me\x8eS\x8Su\x8ub\x8bD\x8Do\x8om\x8ma\x8ai\x8in\x8n=\x8=<\x8<S\x8Sc\x8ce\x8en\x8ne\x8e·i\x8in\x8ns\x8st\x8ta\x8an\x8nc\x8ce\x8e·a\x8at\x8t·0\x80x\x8x1.11.1a.a8.8d.db.b2.20\x80>\x8>])·→·int·:_\x8¶
929	············returns·for·a·body·the·count·of·interactions·(real·or·virtual)·with	929	············returns·for·a·body·the·count·of·interactions·(real·or·virtual)·with
930	············bodies·from·a·certain·subdomain,·interactions·with·subdomains	930	············bodies·from·a·certain·subdomain,·interactions·with·subdomains
931	············excluded.·Third·parameter·(scene·pointer)·can·be·left·to·default	931	············excluded.·Third·parameter·(scene·pointer)·can·be·left·to·default
932	············(equivalent·to·O._sceneObj).	932	············(equivalent·to·O._sceneObj).
933	········dict((\x8(S\x8Se\x8er\x8ri\x8ia\x8al\x8li\x8iz\x8za\x8ab\x8bl\x8le\x8e)\x8)a\x8ar\x8rg\x8g1\x81)·→·dict·:_\x8¶	933	········dict((\x8(S\x8Se\x8er\x8ri\x8ia\x8al\x8li\x8iz\x8za\x8ab\x8bl\x8le\x8e)\x8)a\x8ar\x8rg\x8g1\x81)·→·dict·:_\x8¶
934	············Return·dictionary·of·attributes.	934	············Return·dictionary·of·attributes.
935	········dispHierarchy((\x8(S\x8Sh\x8ha\x8ap\x8pe\x8e)\x8)a\x8ar\x8rg\x8g1\x81[,·(\x8(b\x8bo\x8oo\x8ol\x8l)\x8)n\x8na\x8am\x8me\x8es\x8s=\x8=T\x8Tr\x8ru\x8ue\x8e])·→·list·:_\x8¶	935	········dispHierarchy((\x8(S\x8Sh\x8ha\x8ap\x8pe\x8e)\x8)a\x8ar\x8rg\x8g1\x81[,·(\x8(b\x8bo\x8oo\x8ol\x8l)\x8)n\x8na\x8am\x8me\x8es\x8s=\x8=T\x8Tr\x8ru\x8ue\x8e])·→·list·:_\x8¶
Offset 1079, 27 lines modified		Offset 1079, 27 lines modified
1079	············renderer).	1079	············renderer).
1080	\x8\x8\x8\x8·S\x8St\x8ta\x8at\x8te\x8e_\x8?\x8¶·\x8\x8\x8\x8	1080	\x8\x8\x8\x8·S\x8St\x8ta\x8at\x8te\x8e_\x8?\x8¶·\x8\x8\x8\x8
1081	[digraph·State·{	1081	[digraph·State·{
1082	········rankdir=RL;	1082	········rankdir=RL;
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Offset 1, 23 lines modified		Offset 1, 23 lines modified
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Offset 1, 5 lines modified		Offset 1, 5 lines modified
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