Opened 5 years ago
Closed 5 years ago
#22683 closed enhancement (fixed)
backend_polymake for Polyhedron
Reported by:  mkoeppe  Owned by:  

Priority:  major  Milestone:  sage8.0 
Component:  geometry  Keywords:  
Cc:  SimonKing, jipilab, vdelecroix, tscrim, yzh  Merged in:  
Authors:  Matthias Koeppe  Reviewers:  Travis Scrimshaw 
Report Upstream:  N/A  Work issues:  
Branch:  6d1774b (Commits, GitHub, GitLab)  Commit:  6d1774b1d460ab8927f127abf4abc36305baf674 
Dependencies:  #22658  Stopgaps: 
Description
Building upon #22658 (Support interface coercion polymake(X)
for Polyhedron
), we provide a backend in backend_polymake.py
that does all Polyhedron
computations using polymake (in particular, the initial computation of the double description).
For quadratic field extensions of the rationals, this backend should be faster than the generic implementation in Python (unless the pexpect overhead dominates).
Change History (23)
comment:1 Changed 5 years ago by
 Branch set to u/mkoeppe/backend_polymake_for_polyhedron
comment:2 Changed 5 years ago by
 Commit set to 2f0e0594a0ce0d0342427f0d75ea1e7e4d9e13b3
comment:3 Changed 5 years ago by
 Dependencies set to #22658
comment:4 Changed 5 years ago by
comment:5 Changed 5 years ago by
 Commit changed from 2f0e0594a0ce0d0342427f0d75ea1e7e4d9e13b3 to 218daca488ac24b80c6cea51b6e06fbf28c7874a
Branch pushed to git repo; I updated commit sha1. New commits:
218daca  Add Polyhedron_polymake

comment:6 Changed 5 years ago by
 Commit changed from 218daca488ac24b80c6cea51b6e06fbf28c7874a to 5ab94a2172c456509036a8dd5e77dbbe692c8635
Branch pushed to git repo; I updated commit sha1. New commits:
5ab94a2  Merge tag '7.6' into t/22683/backend_polymake_for_polyhedron

comment:7 Changed 5 years ago by
 Status changed from new to needs_review
comment:8 Changed 5 years ago by
Two things I see:
def _polymake_
is missing doctests. In
__iter__
, you should use``self``
in the docstrings. You also don't need to have anINPUT:
block since there essentially no input.
Otherwise LGTM modulo the dependency.
comment:9 Changed 5 years ago by
 Commit changed from 5ab94a2172c456509036a8dd5e77dbbe692c8635 to 952b8607c9a4756cf35fe358e2718e33f04bb6b7
comment:10 Changed 5 years ago by
 Reviewers set to Travis Scrimshaw
 Status changed from needs_review to positive_review
Thank you.
comment:11 Changed 5 years ago by
Thanks for reviewing!
comment:12 Changed 5 years ago by
Not a problem; happy to help.
comment:13 Changed 5 years ago by
I suspect this will pass tests on the bots with standalone sage. It gives me trouble in sageongentoo while building the documentation, I am not sure how other distros deal with the doc building. I have the following failure related to this ticket
[discrete_] /dev/shm/portage/scimathematics/sage9999/work/sage9999/srcpython2_7/doc/en/reference/discrete_geometry/sage/geometry/polyhedron/library.rst:11: WARNING: autodoc: failed to import module u'sage.geometry.polyhedron.library'; the following exception was raised: [discrete_] Traceback (most recent call last): [discrete_] File "/dev/shm/portage/scimathematics/sage9999/work/sage9999/srcpython2_7/sage_setup/docbuild/ext/sage_autodoc.py", line 525, in import_object [discrete_] __import__(self.modname) [discrete_] File "/dev/shm/portage/scimathematics/sage9999/work/sage9999/srcpython2_7/build/lib/sage/geometry/polyhedron/library.py", line 75, in <module> [discrete_] from sage.combinat.root_system.associahedron import Associahedron [discrete_] File "/dev/shm/portage/scimathematics/sage9999/work/sage9999/srcpython2_7/build/lib/sage/combinat/root_system/associahedron.py", line 23, in <module> [discrete_] from sage.geometry.polyhedron.parent import Polyhedra_QQ_ppl [discrete_] File "/dev/shm/portage/scimathematics/sage9999/work/sage9999/srcpython2_7/build/lib/sage/geometry/polyhedron/parent.py", line 825, in <module> [discrete_] from sage.geometry.polyhedron.backend_polymake import Polyhedron_polymake [discrete_] File "/dev/shm/portage/scimathematics/sage9999/work/sage9999/srcpython2_7/build/lib/sage/geometry/polyhedron/backend_polymake.py", line 31, in <module> [discrete_] from sage.rings.integer import LCM_list [discrete_] ImportError: cannot import name LCM_list [discrete_] /dev/shm/portage/scimathematics/sage9999/work/sage9999/srcpython2_7/doc/en/reference/discrete_geometry/sage/geometry/polyhedron/parent.rst:11: WARNING: autodoc: failed to import module u'sage.geometry.polyhedron.parent'; the following exception was raised: [discrete_] Traceback (most recent call last): [discrete_] File "/dev/shm/portage/scimathematics/sage9999/work/sage9999/srcpython2_7/sage_setup/docbuild/ext/sage_autodoc.py", line 525, in import_object [discrete_] __import__(self.modname) [discrete_] File "/dev/shm/portage/scimathematics/sage9999/work/sage9999/srcpython2_7/build/lib/sage/geometry/polyhedron/parent.py", line 825, in <module> [discrete_] from sage.geometry.polyhedron.backend_polymake import Polyhedron_polymake [discrete_] File "/dev/shm/portage/scimathematics/sage9999/work/sage9999/srcpython2_7/build/lib/sage/geometry/polyhedron/backend_polymake.py", line 31, in <module> [discrete_] from sage.rings.integer import LCM_list [discrete_] ImportError: cannot import name LCM_list
which itself comes from #22630. Volker is currently testing the ticket so don't touch it now. If it is accepted as is, could we have a follow up to import LCM_list
directly from sage.arith.functions
? Although if I have problems with lazy_import
, I will be fighting symptoms rather than the disease by doing that.
comment:14 followup: ↓ 15 Changed 5 years ago by
 Status changed from positive_review to needs_work
LCM_list
is never called in the code AFAICS. So it should just be as simple as removing the import so this doesn't have to be based on #22630. Which ticket do you mean by "the ticket"?
comment:15 in reply to: ↑ 14 Changed 5 years ago by
 Status changed from needs_work to positive_review
Replying to tscrim:
LCM_list
is never called in the code AFAICS. So it should just be as simple as removing the import so this doesn't have to be based on #22630. Which ticket do you mean by "the ticket"?
This, here, ticket. I am signaling because I need to keep track of these things but I don't want to stop normal progress. Any issue I have, could be dealt with in a follow up ticket. Volker's already merged this ticket in his testing branch and if all goes well we shouldn't prevent the closing of this ticket because of sageongentoo [OK, I would stop it if I thought you did something terrible].
comment:16 Changed 5 years ago by
Followup ticket at #22740.
comment:17 Changed 5 years ago by
 Status changed from positive_review to needs_work
Documentation doesn't build
comment:18 Changed 5 years ago by
 Commit changed from 952b8607c9a4756cf35fe358e2718e33f04bb6b7 to 6d1774b1d460ab8927f127abf4abc36305baf674
Branch pushed to git repo; I updated commit sha1. Last 10 new commits:
b47f6f9  Polyhedron_base._polymake_init_: Add work around for empty polytopes with Polymake 3.0

3b49a54  Polymake: Fix another test whose error message depends on whether we use files

07a1757  Polyhedron_base._polymake_init_: Fix comment

09942e7  coercion tutorial: Update introspection results

19d05f1  Add more 'optional  polymake

cd583e2  Remove one unneccessary 'optional  polymake

7bcc04c  Merge tag '8.0.beta0' into t/22658/polyhedron_methods_using_the_polymake_pexpect_interface

d7d4234  Add '# optional  polymake'

4719102  Merge remotetracking branch 'trac/u/mkoeppe/polyhedron_methods_using_the_polymake_pexpect_interface' into t/22683/backend_polymake_for_polyhedron

6d1774b  Reference manual: Add backend_polymake

comment:19 Changed 5 years ago by
 Status changed from needs_work to needs_review
I've merged in #22740, which was intended to be a followup ticket, hoping that this will fix the doc build problems.
Also merged the updated branch prereq #22658 (which I'll mark as dup), which brings in 8.0.beta0.
And added backend_polymake
to the discrete geometry section of the manual.
Documentation builds for me on this branch.
comment:20 Changed 5 years ago by
 Status changed from needs_review to positive_review
I would have been somewhat surprised if the doc did build on Volker's testing branch given comment:13. Changes LGTM.
comment:21 Changed 5 years ago by
Well, I would have thought you build your branch and the documentation. So, to me it was probably a problem on my side.
comment:22 Changed 5 years ago by
I didn't test it in conjunction with #22630 and didn't notice the conflict.
comment:23 Changed 5 years ago by
 Branch changed from u/mkoeppe/backend_polymake_for_polyhedron to 6d1774b1d460ab8927f127abf4abc36305baf674
 Resolution set to fixed
 Status changed from positive_review to closed
As preparation, I have implemented the
_sage_
method.Last 10 new commits:
Polyhedron_base: Provide _polymake_init_ instead of @cached_method _polymake_
Polyhedron_base._polymake_init_: Pass both representations to polymake, add tests
Add _polymake_init_ for some rings
Polymake: fix typo in docstring
Polyhedron_base._polymake_init_: Support polyhedra over quadratic extensions
Polyhedron_base._polymake_init_: Add test for RDF polyhedra
Matrix, MatrixSpace: Add coercion to polymake interface
Polymake: Fix tests whose error messages changed because we do not use files
PolymakeElement.__iter__: New
PolymakeElement._sage_: Implement for *Vector, *Matrix, QuadraticExtension