Opened 5 months ago
Closed 4 months ago
#28176 closed defect (fixed)
Fix few bugs in ClusterAlgebra discovered while working on #26771
Reported by: | etn40ff | Owned by: | |
---|---|---|---|
Priority: | major | Milestone: | sage-8.9 |
Component: | algebra | Keywords: | ClusterAlgebras |
Cc: | tscrim, gmoose05, stumpc5, gh-EBanaian, drupel, gh-kelleye | Merged in: | |
Authors: | Salvatore Stella | Reviewers: | Elizabeth Kelley |
Report Upstream: | N/A | Work issues: | |
Branch: | 6d7ce8d (Commits) | Commit: | 6d7ce8d1b8408c96cfe9c14af796a4899c49b5eb |
Dependencies: | Stopgaps: |
Description (last modified by )
As pointed out by the people at #26771, ClusterAlgebra
has few bugs.
- Default arguments do not play nicely with
UniqueRepresentation
sage: A1 = ClusterAlgebra(['A',2]) sage: A2 = ClusterAlgebra(['A',2], cluster_variable_prefix='x') sage: A1 is A2 False
mutate_initial
keeps the same variable names; In theory this is not a problem but may create confusion. For example suppose we are looking at the Grassmannian of planes in a 4 dimensional vector space. Then the associate cluster algebra is
sage: A = ClusterAlgebra( matrix(5,[0,1,-1,1,-1]), cluster_variable_names=['p13'], coefficient_names=['p12','p23','p34','p41'], scalars=QQbar); A A Cluster Algebra with cluster variable p13 and coefficients p12, p23, p34, p41 over Algebraic Field
Swapping out
p13
from the initial seed should givep24
or, at the very least *not*p13
. Gettingp24
requires some understanding of what the ring in question really is that goes beyond the scope of this class. Currently we get
sage: A.mutate_initial(0) A Cluster Algebra with cluster variable p13 and coefficients p12, p23, p34, p41 over Algebraic Field
mutate_initial
does not compute all the required F-polynomials and it does not enforce the fact that they are not rational expressions
sage: A1 = ClusterAlgebra(['A',[2,1],1]) sage: A2 = A1.mutate_initial([0,1,0]) sage: len(A2.g_vectors_so_far()) == len(A2.F_polynomials_so_far()) False sage: all(parent(f) == A2._U for f in A2.F_polynomials_so_far()) False
- finally
mutate_initial
does not enforce the fact that initial g-vectors belong to the initial cluster but rather prepend the performed mutation sequence to all the paths already known.
sage: A2.find_g_vector((0,0,1)) [0, 1, 0]
This, while technically not false, may generate confusion.
_mutated_F
is doing/
rather than//
resulting in slower computations and parent issues.
This ticket deals with all these issues.
Change History (15)
comment:1 Changed 5 months ago by
- Branch set to u/etn40ff/28176
- Cc tscrim gmoose05 stumpc5 gh-EBanaian drupel gh-kelleye added
- Commit set to d3cd59d86bf16c8414d36cdf5d95d2c5abd7d07f
- Component changed from PLEASE CHANGE to algebra
- Status changed from new to needs_review
comment:2 Changed 5 months ago by
bot is not happy:
sage -t --long src/sage/algebras/cluster_algebra.py # Tab character found
comment:3 Changed 5 months ago by
- Description modified (diff)
Oops. Fixed, sorry Frédéric!
With the occasion I also got some dramatic speedup in mutate_initial
by not
mutating F-polynomials a quadratic number of times.
Also I changed a division into a polynomial division in _mutated_F
; this
enforces F-polynomials to live in the correct ambient and yields a decent
speedup in mutate
.
comment:4 Changed 5 months ago by
- Commit changed from d3cd59d86bf16c8414d36cdf5d95d2c5abd7d07f to 33f4fdd891df6f513ff28406e69f64fd66e96dde
comment:5 follow-up: ↓ 7 Changed 5 months ago by
doc does not build
+[dochtml] OSError: /home/chapoton/sage/local/lib/python2.7/site-packages/sage/algebras/cluster_algebra.py:docstring of sage.algebras.cluster_algebra.ClusterAlgebra.mutate_initial:4: WARNING: Content block expected for the "WARNING" directive; none found. +Makefile:2036: recipe for target 'doc-html' failed
and missing :: here
+ A faster example without recomputing F-polynomials
comment:6 Changed 5 months ago by
- Commit changed from 33f4fdd891df6f513ff28406e69f64fd66e96dde to 0b22eb7ba0443036aef930c61c3356c5e3d8e48a
Branch pushed to git repo; I updated commit sha1. New commits:
0b22eb7 | Doctest
|
comment:7 in reply to: ↑ 5 ; follow-up: ↓ 8 Changed 5 months ago by
Replying to chapoton:
doc does not build
+[dochtml] OSError: /home/chapoton/sage/local/lib/python2.7/site-packages/sage/algebras/cluster_algebra.py:docstring of sage.algebras.cluster_algebra.ClusterAlgebra.mutate_initial:4: WARNING: Content block expected for the "WARNING" directive; none found.
I have never seen this before, is it just a missing indentation? In case it is fixed now.
comment:8 in reply to: ↑ 7 Changed 5 months ago by
Replying to etn40ff:
Replying to chapoton:
doc does not build
+[dochtml] OSError: /home/chapoton/sage/local/lib/python2.7/site-packages/sage/algebras/cluster_algebra.py:docstring of sage.algebras.cluster_algebra.ClusterAlgebra.mutate_initial:4: WARNING: Content block expected for the "WARNING" directive; none found.I have never seen this before, is it just a missing indentation? In case it is fixed now.
Yes, that is correct.
comment:9 Changed 5 months ago by
- Branch changed from u/etn40ff/28176 to u/gmoose05/28176
comment:10 Changed 5 months ago by
- Commit changed from 0b22eb7ba0443036aef930c61c3356c5e3d8e48a to dccaa2c92a02a9435751c7696ca81b0dd42c2254
Branch pushed to git repo; I updated commit sha1. New commits:
dccaa2c | B to B0 in class_call and added a few doctests
|
comment:11 Changed 5 months ago by
It would be helpful to have a comment explaining a little bit about how lines 1285 - 1287 work; without explanation, understanding it takes some non-trivial thought.
comment:12 Changed 5 months ago by
- Branch changed from u/gmoose05/28176 to public/28176
- Commit changed from dccaa2c92a02a9435751c7696ca81b0dd42c2254 to 6d7ce8d1b8408c96cfe9c14af796a4899c49b5eb
comment:13 Changed 5 months ago by
- Reviewers set to gh-kelleye
- Status changed from needs_review to positive_review
All the changes (and additional comments, thank you!) look good to me.
comment:14 Changed 5 months ago by
- Reviewers changed from gh-kelleye to Elizabeth Kelley
comment:15 Changed 4 months ago by
- Branch changed from public/28176 to 6d7ce8d1b8408c96cfe9c14af796a4899c49b5eb
- Resolution set to fixed
- Status changed from positive_review to closed
New commits:
Fix 28176