#11634 closed enhancement (fixed)
Base Polyhedron on PPL (by default)
Reported by: | vbraun | Owned by: | mhampton |
---|---|---|---|
Priority: | major | Milestone: | sage-5.0 |
Component: | geometry | Keywords: | |
Cc: | novoselt, dimpase | Merged in: | sage-5.0.beta10 |
Authors: | Volker Braun | Reviewers: | Marshall Hampton, David Loeffler, Andrey Novoseltsev |
Report Upstream: | N/A | Work issues: | |
Branch: | Commit: | ||
Dependencies: | #12159, #11429 | Stopgaps: |
Description (last modified by )
Rewrite the Polyhedron
class to allow different backends for the computation and make PPL the default for polyhedra over QQ
.
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Attachments (6)
Change History (43)
comment:1 Changed 8 years ago by
- Description modified (diff)
- Status changed from new to needs_review
comment:2 Changed 8 years ago by
- Cc novoselt added
- Description modified (diff)
Changed 8 years ago by
comment:3 Changed 8 years ago by
- Description modified (diff)
I've added pickling support to PPL, this is now part of this ticket.
comment:4 Changed 8 years ago by
- Dependencies set to #12159
Through the triangulation of polytopes, this depends on #12159
comment:5 Changed 8 years ago by
Volker, I'll try to review this this week if I can. If I forget feel free to ping me about it.
comment:6 Changed 8 years ago by
I'm having trouble applying your patches, it looks like this also depends on #11429.
comment:7 Changed 8 years ago by
- Dependencies changed from #12159 to #12159, #11429
Yes, that one needs to be reviewed as well.
comment:8 Changed 8 years ago by
comment:9 Changed 8 years ago by
I have the following patches applied on top of sage-4.8.alpha6 without problems:
[vbraun@volker-laptop-two hg]$ hg qseries trac_11429_native_enumeration_of_lattice_polytope_points.patch trac_11429_cythonize_lattice_points.patch trac_11429_fix_doctests.patch trac_12159_separate_triangulation_file.patch trac_12159_placing_triangulation.patch trac_12159_normal_cone.patch trac_11634_refactor_polyhedron.patch trac_11634_pickling_for_PPL.patch trac_11634_ppl_backend.patch
The patches might not apply cleanly older sage versions.
comment:10 Changed 8 years ago by
Thanks; I was working with an unoffical sage-4.8.rc1, I will switch to 4.8.alpha6 and try again in case that is the problem.
comment:11 follow-up: ↓ 12 Changed 8 years ago by
OK, I got it working now. Clearly PPL is much faster on some of my test examples, wow.
comment:12 in reply to: ↑ 11 Changed 8 years ago by
Replying to mhampton:
OK, I got it working now. Clearly PPL is much faster on some of my test examples, wow.
Oh yeah, working with toric varieties got much better once most basic operations were switched to PPL!
I am also the offending reviewer on #11429, dropping off the radar half-way. Will try to remedy it shortly, without forgetting #11599.
comment:13 Changed 8 years ago by
- Cc dimpase added
comment:14 Changed 8 years ago by
For sage-5.0.beta1, the numerial noise fix from #9958 changes one line of polyhedra.py, which causes trac_11634_refactor_polyhedron.patch to fail to apply.
5866c5866 < 0.8 --- > 0.8000...
comment:15 Changed 8 years ago by
- Status changed from needs_review to needs_info
I'm a little confused by the above numerical noise issue. After changing so that the patch would apply, the doctest failed. If I switch it to
sage: filled_poly.axes_width() 0.8...
then it works. I'm not sure if the "0.800..." makes sense on some other system or not.
Apart from that I think this all looks good. There is one other doctest failure in integral_points.pyx resulting from the Python switch to 2.7, line 688 needs to be changed to
OverflowError: Python int too large to convert to C long
instead of
OverflowError: long int too large to convert to int
With those changes I would be happy to give a positive review.
I haven't looked at #11429 and #12159 by themselves, but it would be nice to get this ticket into sage-5.0. I don't have a lot of time in the coming weeks but if Andrey can't review those I would try to check them out too.
comment:16 Changed 8 years ago by
I already fixed the OverflowError
error message in #11429. What output do you get for
filled_poly.axes_width()
the doctest works for me with 0.8
.
comment:17 Changed 8 years ago by
PS: #11429 is already reviewed ;-)
comment:18 Changed 8 years ago by
comment:19 Changed 8 years ago by
The way I understad it, #9958 changes the float printing to do the fuzzy zero automatically so its no longer necessary to add ellipsis.
comment:20 Changed 8 years ago by
OK, I guess its fine to change it back to a 0.8 then.
comment:21 Changed 8 years ago by
- Status changed from needs_info to needs_review
Updated patch for sage-5.0.beta4. I'm switching this back to "needs review" unless you think I haven't given enough info yet ;-)
comment:22 Changed 8 years ago by
Apply trac_11634_refactor_polyhedron.patch, trac_11634_pickling_for_PPL.patch, trac_11634_ppl_backend.patch
(for the patchbot)
comment:23 Changed 8 years ago by
Apply trac_11634_refactor_polyhedron.patch,trac_11634_pickling_for_PPL.patch,trac_11634_ppl_backend.patch
(for the patchbot, which is still not getting it)
comment:24 Changed 8 years ago by
Apply trac_11634_refactor_polyhedron.patch trac_11634_pickling_for_PPL.patch trac_11634_ppl_backend.patch
(it still doesn't seem to pick up the 2nd patch in the series)
comment:25 Changed 8 years ago by
Apply trac_11634_refactor_polyhedron.patch trac_11634_pickling_for_ppl.patch trac_11634_ppl_backend.patch
comment:26 Changed 8 years ago by
- Description modified (diff)
I couldn't get the patchbot to apply the three patches. Also, there seems to now be a consensus that code lines with trailing whitespace are a Bad Thing. So I've done a single qfolded patch which is equivalent to Volker's three patches but with all trailing whitespace removed.
Apply trac_11634-folded.patch
comment:27 Changed 8 years ago by
- Reviewers set to Marshall Hampton, David Loeffler
- Status changed from needs_review to positive_review
comment:28 Changed 8 years ago by
Thanks David, that made things simpler for me to look at. Volker, my apologies for taking so long on reviewing this. I think this should be a great addition to sage-5.0.
comment:29 Changed 8 years ago by
- Description modified (diff)
comment:30 Changed 8 years ago by
I am not entirely sure if something is wrong on my end, but when I apply the following patches to Sage-5.0.beta8
novoselt@sage ~/sage/devel/sage-main $ hg qapplied trac_11599_no_circular_imports.patch trac_11599_homset_new_coercion_model.patch trac_11599_rename_morphisms.patch trac_11599_toric_morphisms.patch trac_11599_reviewer.patch trac_11599_remove_class_suffix.patch trac_11599_remaining_fixes.patch trac_11599_numerical_noise.patch trac_12159_separate_triangulation_file.patch trac_12159_placing_triangulation.patch trac_12159_normal_cone.patch trac_11634-folded.patch
I get after trying to start Sage
---------------------------------------------------------------------- | Sage Version 5.0.beta8, Release Date: 2012-03-13 | | Type notebook() for the GUI, and license() for information. | ---------------------------------------------------------------------- ********************************************************************** * * * Warning: this is a prerelease version, and it may be unstable. * * * ********************************************************************** /home/novoselt/sage-5.0.beta8/local/lib/python2.7/site-packages/sage/combinat/root_system/associahedron.py:22: DeprecationWarning: (Since Sage Version 4.8) The module sage.geometry.polyhedra has been removed, use sage.geometry.polyhedron instead. from sage.geometry.polyhedra import Polyhedron --------------------------------------------------------------------------- TypeError Traceback (most recent call last) /home/novoselt/sage-5.0.beta8/local/lib/python2.7/site-packages/IPython/ipmaker.pyc in force_import(modname, force_reload) 61 reload(sys.modules[modname]) 62 else: ---> 63 __import__(modname) 64 65 /home/novoselt/sage-5.0.beta8/local/bin/ipy_profile_sage.py in <module>() 5 preparser(True) 6 ----> 7 import sage.all_cmdline 8 sage.all_cmdline._init_cmdline(globals()) 9 /home/novoselt/sage-5.0.beta8/local/lib/python2.7/site-packages/sage/all_cmdline.py in <module>() 12 try: 13 ---> 14 from sage.all import * 15 from sage.calculus.predefined import x 16 preparser(on=True) /home/novoselt/sage-5.0.beta8/local/lib/python2.7/site-packages/sage/all.py in <module>() 80 from sage.modules.all import * 81 from sage.monoids.all import * ---> 82 from sage.algebras.all import * 83 from sage.modular.all import * 84 from sage.schemes.all import * /home/novoselt/sage-5.0.beta8/local/lib/python2.7/site-packages/sage/algebras/all.py in <module>() 34 from group_algebra_new import GroupAlgebra 35 ---> 36 from iwahori_hecke_algebra import IwahoriHeckeAlgebraT 37 from affine_nil_temperley_lieb import AffineNilTemperleyLiebTypeA 38 from nil_coxeter_algebra import NilCoxeterAlgebra /home/novoselt/sage-5.0.beta8/local/lib/python2.7/site-packages/sage/algebras/iwahori_hecke_algebra.py in <module>() 10 #***************************************************************************** 11 from sage.categories.all import AlgebrasWithBasis, FiniteDimensionalAlgebrasWithBasis, CoxeterGroups ---> 12 import sage.combinat.root_system.cartan_type 13 from sage.combinat.root_system.weyl_group import WeylGroup 14 from sage.combinat.family import Family /home/novoselt/sage-5.0.beta8/local/lib/python2.7/site-packages/sage/combinat/root_system/__init__.py in <module>() 11 import type_G 12 ---> 13 import all 14 15 /home/novoselt/sage-5.0.beta8/local/lib/python2.7/site-packages/sage/combinat/root_system/all.py in <module>() ----> 1 2 3 from associahedron import Associahedron 4 from cartan_type import CartanType 5 from dynkin_diagram import DynkinDiagram, dynkin_diagram 6 from cartan_matrix import cartan_matrix 7 from coxeter_matrix import coxeter_matrix /home/novoselt/sage-5.0.beta8/local/lib/python2.7/site-packages/sage/combinat/root_system/associahedron.py in <module>() 24 from sage.modules.free_module_element import vector 25 ---> 26 class Associahedron(Polyhedron): 27 r""" 28 The generalized associahedron is a polytopal complex with vertices in one-to-one correspondence TypeError: Error when calling the metaclass bases function() argument 1 must be code, not str Error importing ipy_profile_sage - perhaps you should run %upgrade? WARNING: Loading of ipy_profile_sage failed.
Is it because some new stuff merged in alpha8 uses old polyhedra code and was not converted?
comment:31 Changed 8 years ago by
That must be new stuff that was merged in beta8
comment:32 Changed 8 years ago by
- Status changed from positive_review to needs_work
Needs to be rebased
comment:33 Changed 8 years ago by
I think this must be from http://trac.sagemath.org/sage_trac/ticket/10817
comment:34 Changed 8 years ago by
- Description modified (diff)
- Status changed from needs_work to needs_review
I've added a patch that converts the new !Associahedron class to a PPL-based polyhedron
comment:35 Changed 8 years ago by
- Reviewers changed from Marshall Hampton, David Loeffler to Marshall Hampton, David Loeffler, Andrey Novoseltsev
- Status changed from needs_review to positive_review
Positive review to the new patch!
comment:36 Changed 8 years ago by
- Merged in set to sage-5.0.beta10
- Resolution set to fixed
- Status changed from positive_review to closed
comment:37 Changed 5 years ago by
Question (likely dumb): could the behavior at this ask.sagemath question be related to this change (or #14175)? Thanks!
Initial patch