#4735: Mike Hansen, Karl-Dieter Crisman: Make e^A for A a generic matrix
work [Reviewed by Karl-Dieter Crisman, Mike Hansen]
#8659: Burcin Erocal: another broken square root simplification
[Reviewed by Karl-Dieter Crisman, Mike Hansen]
#8969: Douglas McNeil: problems with maxima inequalities [Reviewed by
Karl-Dieter Crisman]
#9260: Karl-Dieter Crisman: missing pointer in documentation [Reviewed
by Keshav Kini]
#10617: Sebastian Pancratz: Make polynomial over ZZ call FLINT for
composition and evaluation [Reviewed by Tom Boothby, Mike Hansen]
#10795: Rob Beezer: Fix and upgrade double dense matrix QR decomposition
[Reviewed by Martin Raum, Dan Drake]
#11274: Rob Beezer: Cholesky matrix decomposition breaks over the
rationals [Reviewed by Dan Drake]
#11775: Punarbasu Purkayastha: Make pretty_print take multiple arguments
[Reviewed by Keshav Kini, William Stein]
#11793: John Palmieri, Mike Hansen: autogenerate doc directories in
sage-maketest [Reviewed by Mike Hansen, John Palmieri]
#11998: Douglas McNeil: Duplicate legends when plotting partial function
with detect_poles=True [Reviewed by Keshav Kini, Karl-Dieter Crisman]
#12088: Andrey Novoseltsev, Volker Braun: Make use of PALP for different
dimensions [Reviewed by Volker Braun, Andrey Novoseltsev]
#12293: Douglas McNeil: Graph(n) is not documented [Reviewed by Dan Drake]
#12605: Karl-Dieter Crisman: Change the default color of circle and
ellipses, etc. back to be the same shade of blue as for all other
graphics objects [Reviewed by William Stein]
#12688: Rob Beezer: Improve documentation of span method [Reviewed by
Andrey Novoseltsev]
#12693: Douglas McNeil: bug in jordan_form(transformation=true) for
integer matrices [Reviewed by Rob Beezer]
#12746: Mike Hansen: Another coercion problem with QQbar [Reviewed by
Robert Bradshaw]
#12810: Nathann Cohen: Broken links in the documentation of graph/ files
[Reviewed by Karl-Dieter Crisman]
#12862: Stephen Montgomery-Smith: The partition function under FreeBSD
[Reviewed by Mike Hansen]
#12884: John Perry: Fix problems introduced by remove_constraint
functionality in MIP [Reviewed by Nathann Cohen]
#12904: André Apitzsch: colors from rainbow don't work in 3d plots
[Reviewed by Karl-Dieter Crisman]
#12933: Nathann Cohen: Speedup in
DiGraph.stronly_connected_components_digraph [Reviewed by David Coudert]
#12968: Mike Hansen: round of symbolic expression (precision issue due
to RR) [Reviewed by Burcin Erocal, Karl-Dieter Crisman]
#12982: Nathann Cohen: McGeeGraph, Tutte12Cage, TutteCoxeterGraph,
WagnerGraph [Reviewed by Keshav Kini]
#12993: Darij Grinberg, Anne Schilling: Bug in computing the rank
function a poset [Reviewed by Christian Stump, Franco Saliola]
#13005: R. Andrew Ohana: "maximum recursion depth exceeded" when doing
change_ring(RR) on an elliptic curve [Reviewed by William Stein]
#13011: William Stein: several optional tests fail in the
sage/mathematica interface with mathematica 8.0 [Reviewed by Mike
Hansen, Volker Braun]
#13012: Andrey Novoseltsev: MatrixSpace is too eager to construct zero
matrices [Reviewed by William Stein]
#13019: Nathann Cohen: longest_path broken for digraphs [Reviewed by
Mike Hansen]
#13045: Rob Beezer: Deprecate cholesky_decomposition() in favor of
cholesky() [Reviewed by Dan Drake]
#13057: John Palmieri: introspection is slow and causes a significant
memory leak [Reviewed by Keshav Kini]
#13091: Jason Grout: Bug in graph tensor_product [Reviewed by David Coudert]
#13105: William Stein: fix some copyright headers in c_lib [Reviewed by
Keshav Kini]
Abteilung "Systemanalyse, Prognose und Regelung"
Fraunhofer Institut f r Techno- und Wirtschaftsmathematik (ITWM)
Fraunhofer-Platz 1
67663 Kaiserslautern
> #4735: Mike Hansen, Karl-Dieter Crisman: Make e^A for A a generic matrix
> work [Reviewed by Karl-Dieter Crisman, Mike Hansen]
> #8659: Burcin Erocal: another broken square root simplification
> [Reviewed by Karl-Dieter Crisman, Mike Hansen]
> #8969: Douglas McNeil: problems with maxima inequalities [Reviewed by
> Karl-Dieter Crisman]
> #9260: Karl-Dieter Crisman: missing pointer in documentation [Reviewed
> by Keshav Kini]
> #10617: Sebastian Pancratz: Make polynomial over ZZ call FLINT for
> composition and evaluation [Reviewed by Tom Boothby, Mike Hansen]
> #10795: Rob Beezer: Fix and upgrade double dense matrix QR decomposition
> [Reviewed by Martin Raum, Dan Drake]
> #11274: Rob Beezer: Cholesky matrix decomposition breaks over the
> rationals [Reviewed by Dan Drake]
> #11775: Punarbasu Purkayastha: Make pretty_print take multiple arguments
> [Reviewed by Keshav Kini, William Stein]
> #11793: John Palmieri, Mike Hansen: autogenerate doc directories in
> sage-maketest [Reviewed by Mike Hansen, John Palmieri]
> #11998: Douglas McNeil: Duplicate legends when plotting partial function
> with detect_poles=True [Reviewed by Keshav Kini, Karl-Dieter Crisman]
> #12088: Andrey Novoseltsev, Volker Braun: Make use of PALP for different
> dimensions [Reviewed by Volker Braun, Andrey Novoseltsev]
> #12293: Douglas McNeil: Graph(n) is not documented [Reviewed by Dan Drake]
> #12605: Karl-Dieter Crisman: Change the default color of circle and
> ellipses, etc. back to be the same shade of blue as for all other
> graphics objects [Reviewed by William Stein]
> #12688: Rob Beezer: Improve documentation of span method [Reviewed by
> Andrey Novoseltsev]
> #12693: Douglas McNeil: bug in jordan_form(transformation=true) for
> integer matrices [Reviewed by Rob Beezer]
> #12746: Mike Hansen: Another coercion problem with QQbar [Reviewed by
> Robert Bradshaw]
> #12810: Nathann Cohen: Broken links in the documentation of graph/ files
> [Reviewed by Karl-Dieter Crisman]
> #12862: Stephen Montgomery-Smith: The partition function under FreeBSD
> [Reviewed by Mike Hansen]
> #12884: John Perry: Fix problems introduced by remove_constraint
> functionality in MIP [Reviewed by Nathann Cohen]
> #12904: André Apitzsch: colors from rainbow don't work in 3d plots
> [Reviewed by Karl-Dieter Crisman]
> #12933: Nathann Cohen: Speedup in
> DiGraph.stronly_connected_components_digraph [Reviewed by David Coudert]
> #12968: Mike Hansen: round of symbolic expression (precision issue due
> to RR) [Reviewed by Burcin Erocal, Karl-Dieter Crisman]
> #12982: Nathann Cohen: McGeeGraph, Tutte12Cage, TutteCoxeterGraph,
> WagnerGraph [Reviewed by Keshav Kini]
> #12993: Darij Grinberg, Anne Schilling: Bug in computing the rank
> function a poset [Reviewed by Christian Stump, Franco Saliola]
> #13005: R. Andrew Ohana: "maximum recursion depth exceeded" when doing
> change_ring(RR) on an elliptic curve [Reviewed by William Stein]
> #13011: William Stein: several optional tests fail in the
> sage/mathematica interface with mathematica 8.0 [Reviewed by Mike
> Hansen, Volker Braun]
> #13012: Andrey Novoseltsev: MatrixSpace is too eager to construct zero
> matrices [Reviewed by William Stein]
> #13019: Nathann Cohen: longest_path broken for digraphs [Reviewed by
> Mike Hansen]
> #13045: Rob Beezer: Deprecate cholesky_decomposition() in favor of
> cholesky() [Reviewed by Dan Drake]
> #13057: John Palmieri: introspection is slow and causes a significant
> memory leak [Reviewed by Keshav Kini]
> #13091: Jason Grout: Bug in graph tensor_product [Reviewed by David Coudert]
> #13105: William Stein: fix some copyright headers in c_lib [Reviewed by
> Keshav Kini]
On Tuesday, June 19, 2012 5:49:54 AM UTC-7, Jeroen Demeyer wrote:
> Dear Sage lovers,
> We're releasing Sage 5.1.beta5.
On both sage.math and OS X Lion (both of which build the gcc spkg), mpir fails self-tests the first time it's built (pre-gcc). Same failure on both platforms:
Test dwarf2_gen64_test: O +0-1/1 0% ** O: dwarf64_pathname did not match object file! FAIL: modules/dbgfmts/dwarf2/tests/gen64/dwarf2_gen64_test.sh
I'm trying again, just testing mpir the second time through...
> On Tuesday, June 19, 2012 5:49:54 AM UTC-7, Jeroen Demeyer wrote:
> Dear Sage lovers,
> We're releasing Sage 5.1.beta5.
> On both sage.math and OS X Lion (both of which build the gcc spkg), mpir
> fails self-tests the first time it's built (pre-gcc). Same failure on
> both platforms
On Tuesday, June 19, 2012 11:29:57 AM UTC-7, Jeroen Demeyer wrote:
> On 2012-06-19 20:27, John H Palmieri wrote:
> > On Tuesday, June 19, 2012 5:49:54 AM UTC-7, Jeroen Demeyer wrote:
> > Dear Sage lovers,
> > We're releasing Sage 5.1.beta5.
> > On both sage.math and OS X Lion (both of which build the gcc spkg), mpir > > fails self-tests the first time it's built (pre-gcc). Same failure on > > both platforms > This is a known bug in yasm.
Does this mean that '!mpir' should be added to the default value of SAGE_CHECK_PACKAGES?
On Tuesday, June 19, 2012 11:57:26 AM UTC-7, Jeroen Demeyer wrote:
> On 2012-06-19 20:54, John H Palmieri wrote: > > Does this mean that '!mpir' should be added to the default value of > > SAGE_CHECK_PACKAGES? > Maybe, but upgrading MPIR would also solve the problem.
Is there a ticket for upgrading MPIR? (I couldn't find one.) It should have, as a stopgap, adding '!mpir' to SAGE_CHECK_PACKAGES.
The failure appears to be the same as JohnP reported.
In my case, the installed Xcode version is 4.3.2 (4E2002).
Justin
--
Justin C. Walker, Curmudgeon at Large
Institute for the Absorption of Federal Funds
-----------
If it weren't for carbon-14, I wouldn't date at all.
-----------
On Jun 19, 2012, at 14:04 , John H Palmieri wrote:
> On Tuesday, June 19, 2012 5:49:54 AM UTC-7, Jeroen Demeyer wrote:
> Dear Sage lovers,
> We're releasing Sage 5.1.beta5.
> On OS X Lion with the latest Xcode, a doctest failure:
Just checking: is this 10.7.4, with Xcode 4.3.3?
Thanks.
Justin
--
Justin C. Walker, Curmudgeon-At-Large
Director
Institute for the Enhancement of the Director's Income
--------
"Weaseling out of things is what separates us from the animals.
Well, except the weasel."
- Homer J Simpson
--------
On Tuesday, June 19, 2012 5:49:54 AM UTC-7, Jeroen Demeyer wrote:
> Dear Sage lovers,
> We're releasing Sage 5.1.beta5.
On sage.math, built successfully. For whatever reason, the docbuild took a ridiculous amount of time: I noticed it was still going 3 hours after finishing compiling everything! So I hit ctrl-c, deleted the partial output from the docbuilding process, applied the patches from #6495, and built the docs in half an hour. (After #6495 it shouldn't even take this long, but maybe sage.math was heavily loaded, or the disk was being very slow, or something. I built in /scratch, which seems pretty slow, at least some of the time.) Then all tests passed.
On Tuesday, June 19, 2012 8:00:18 PM UTC-7, John H Palmieri wrote:
> On Tuesday, June 19, 2012 5:49:54 AM UTC-7, Jeroen Demeyer wrote:
>> Dear Sage lovers,
>> We're releasing Sage 5.1.beta5.
> On sage.math, built successfully. For whatever reason, the docbuild took a > ridiculous amount of time: I noticed it was still going 3 hours after > finishing compiling everything! So I hit ctrl-c, deleted the partial output > from the docbuilding process, applied the patches from #6495, and built the > docs in half an hour. (After #6495 it shouldn't even take this long, but > maybe sage.math was heavily loaded, or the disk was being very slow, or > something. I built in /scratch, which seems pretty slow, at least some of > the time.) Then all tests passed.
Regarding time required to build the docs: if you set the environment variable SAGE_DOC_JSMATH to "yes", then the documentation builds much more quickly. That was one of the delays on sage.math: this variable was unset. When I set it, with the patches from #6495, docbuilding took about 7 minutes. For another illustration, on an OS X machine, it takes about 2 minutes to build the tutorial with SAGE_DOC_JSMATH unset, and it takes about 10 seconds with it set to "yes".
(By the way, when we switch to MathJax, this variable will still be recognized, as will a new variable SAGE_DOC_MATHJAX.)
Should we change the default in the Makefile to use jsMath to build the docs? It seems like a good idea to me.
I ran it with the verbose option and got (only the relevant part is listed):
Trying:
R = ModularFormsRing(Gamma0(Integer(3)))###line 751:_sage_ >>>
R = ModularFormsRing(Gamma0(3))
Expecting nothing
ok
Trying:
R.cuspidal_submodule_q_expansion_basis(Integer(20))###line
752:_sage_ >>> R.cuspidal_submodule_q_expansion_basis(20)
Expecting:
[q - 8532*q^6 - 88442*q^7 + O(q^8), q^2 + 207*q^6 + 24516*q^7 +
O(q^8), q^3 + 456*q^6 + O(q^8), q^4 - 135*q^6 - 926*q^7 + O(q^8), q^5
+ 18*q^6 + 135*q^7 + O(q^8)]
ok
Trying:
A=R.cuspidal_submodule_q_expansion_basis(Integer(80),
prec=Integer(30))###line 759:_sage_ >>>
A=R.cuspidal_submodule_q_expansion_basis(80, prec=30)
Expecting nothing
ok
Trying:
B=R.modular_forms_of_weight(Integer(80)).cuspidal_submodule().q_expansion_b asis(prec=Integer(30))
# long time (20s)###line 760:_sage_ >>>
B=R.modular_forms_of_weight(80).cuspidal_submodule().q_expansion_basis(prec =30)
# long time (20s)
Expecting nothing
/opt/sage-5.1.beta5/local/lib/libcsage.so(print_backtrace+0x31)[0x7fbfca974 207]
/opt/sage-5.1.beta5/local/lib/libcsage.so(sigdie+0x14)[0x7fbfca974239]
/opt/sage-5.1.beta5/local/lib/libcsage.so(sage_signal_handler+0x216)[0x7fbf ca973e16]
/lib/libpthread.so.0(+0xf140)[0x7fbfcca9b140]
/opt/sage-5.1.beta5/local/lib/libatlas.so(ATL_dJIK52x52x52TN52x52x0_a1_b0+0 xac)[0x7fbfc125849c]
------------------------------------------------------------------------
Unhandled SIGSEGV: A segmentation fault occurred in Sage.
This probably occurred because a *compiled* component of Sage has a bug
in it and is not properly wrapped with sig_on(), sig_off(). You might
want to run Sage under gdb with 'sage -gdb' to debug this.
Sage will now terminate.
------------------------------------------------------------------------
The doctested process was killed by signal 11
[12.4 s]
As fate would have it, this is precisely one of the corners of the
Sage code base that I'm most interested in...
-- Best,
Alex
--
Alex Ghitza -- Lecturer in Mathematics -- The University of Melbourne
http://aghitza.org
This looks to be the previously-seen problem on other RDF-matrix methods with non-unique (or non-predictable) eigenvectors from 1-dimensional eigenspaces. Normalizing the first entry of eigenvector to be positive should cure the problem, but the doctest won't be so pretty anymore.
Do we need to back out the offending #10795 or should a fix go up on the new #13140? Looks like the latter to me.
Built without problems on Arch Linux x64 (Linux timdumol-laptop-linux
3.4.3-1-ARCH #1 SMP PREEMPT Mon Jun 18 08:28:29 CEST 2012 x86_64 GNU/Linux).
Had the following test failure:
**********************************************************************
File "/opt/sage/devel/sage/sage/tests/cmdline.py", line 314:
sage: err
Expected:
''
Got:
'WARNING: Configuration file ipythonrc not found. Ignoring
request.\n------------------------------------------------------------\nTra ceback
(most recent call last):\n File
"/opt/sage/local/lib/python/site-packages/IPython/ConfigLoader.py", line
66, in load\n fname = filefind(fname,incpath)\n File
"/opt/sage/local/lib/python/site-packages/IPython/genutils.py", line 554,
in filefind\n \' not found in current or supplied directories:\' +
`alt_dirs`\nIOError: File\'ipythonrc\' not found in current or supplied
directories:u\'/home/timdumol/.ipython\'\n\nWARNING: Problems loading
configuration file \'ipythonrc\'\nStarting with default -bare bones-
configuration.\n'
**********************************************************************
Seems the warning needs to be suppressed/ignored in the test.
On Tue, Jun 19, 2012 at 8:49 PM, Jeroen Demeyer <jdeme...@cage.ugent.be>wrote:
> #4735: Mike Hansen, Karl-Dieter Crisman: Make e^A for A a generic matrix
> work [Reviewed by Karl-Dieter Crisman, Mike Hansen]
> #8659: Burcin Erocal: another broken square root simplification
> [Reviewed by Karl-Dieter Crisman, Mike Hansen]
> #8969: Douglas McNeil: problems with maxima inequalities [Reviewed by
> Karl-Dieter Crisman]
> #9260: Karl-Dieter Crisman: missing pointer in documentation [Reviewed
> by Keshav Kini]
> #10617: Sebastian Pancratz: Make polynomial over ZZ call FLINT for
> composition and evaluation [Reviewed by Tom Boothby, Mike Hansen]
> #10795: Rob Beezer: Fix and upgrade double dense matrix QR decomposition
> [Reviewed by Martin Raum, Dan Drake]
> #11274: Rob Beezer: Cholesky matrix decomposition breaks over the
> rationals [Reviewed by Dan Drake]
> #11775: Punarbasu Purkayastha: Make pretty_print take multiple arguments
> [Reviewed by Keshav Kini, William Stein]
> #11793: John Palmieri, Mike Hansen: autogenerate doc directories in
> sage-maketest [Reviewed by Mike Hansen, John Palmieri]
> #11998: Douglas McNeil: Duplicate legends when plotting partial function
> with detect_poles=True [Reviewed by Keshav Kini, Karl-Dieter Crisman]
> #12088: Andrey Novoseltsev, Volker Braun: Make use of PALP for different
> dimensions [Reviewed by Volker Braun, Andrey Novoseltsev]
> #12293: Douglas McNeil: Graph(n) is not documented [Reviewed by Dan Drake]
> #12605: Karl-Dieter Crisman: Change the default color of circle and
> ellipses, etc. back to be the same shade of blue as for all other
> graphics objects [Reviewed by William Stein]
> #12688: Rob Beezer: Improve documentation of span method [Reviewed by
> Andrey Novoseltsev]
> #12693: Douglas McNeil: bug in jordan_form(transformation=true) for
> integer matrices [Reviewed by Rob Beezer]
> #12746: Mike Hansen: Another coercion problem with QQbar [Reviewed by
> Robert Bradshaw]
> #12810: Nathann Cohen: Broken links in the documentation of graph/ files
> [Reviewed by Karl-Dieter Crisman]
> #12862: Stephen Montgomery-Smith: The partition function under FreeBSD
> [Reviewed by Mike Hansen]
> #12884: John Perry: Fix problems introduced by remove_constraint
> functionality in MIP [Reviewed by Nathann Cohen]
> #12904: André Apitzsch: colors from rainbow don't work in 3d plots
> [Reviewed by Karl-Dieter Crisman]
> #12933: Nathann Cohen: Speedup in
> DiGraph.stronly_connected_components_digraph [Reviewed by David Coudert]
> #12968: Mike Hansen: round of symbolic expression (precision issue due
> to RR) [Reviewed by Burcin Erocal, Karl-Dieter Crisman]
> #12982: Nathann Cohen: McGeeGraph, Tutte12Cage, TutteCoxeterGraph,
> WagnerGraph [Reviewed by Keshav Kini]
> #12993: Darij Grinberg, Anne Schilling: Bug in computing the rank
> function a poset [Reviewed by Christian Stump, Franco Saliola]
> #13005: R. Andrew Ohana: "maximum recursion depth exceeded" when doing
> change_ring(RR) on an elliptic curve [Reviewed by William Stein]
> #13011: William Stein: several optional tests fail in the
> sage/mathematica interface with mathematica 8.0 [Reviewed by Mike
> Hansen, Volker Braun]
> #13012: Andrey Novoseltsev: MatrixSpace is too eager to construct zero
> matrices [Reviewed by William Stein]
> #13019: Nathann Cohen: longest_path broken for digraphs [Reviewed by
> Mike Hansen]
> #13045: Rob Beezer: Deprecate cholesky_decomposition() in favor of
> cholesky() [Reviewed by Dan Drake]
> #13057: John Palmieri: introspection is slow and causes a significant
> memory leak [Reviewed by Keshav Kini]
> #13091: Jason Grout: Bug in graph tensor_product [Reviewed by David
> Coudert]
> #13105: William Stein: fix some copyright headers in c_lib [Reviewed by
> Keshav Kini]
> --
> You received this message because you are subscribed to the Google Groups
> "sage-release" group.
> To post to this group, send email to sage-release@googlegroups.com.
> To unsubscribe from this group, send email to
> sage-release+unsubscribe@googlegroups.com.
> For more options, visit this group at
> http://groups.google.com/group/sage-release?hl=en.
I guess you have ipython-0.12 configuration files, but we ship only ipython-0.10 which is not compatible. This is all going to be changed in ipython-0.12, so its probably useless to track this down. But let us know if the issue persists once we update to ipython-0.12.
On Saturday, June 23, 2012 4:41:28 PM UTC+1, Tim Joseph Dumol wrote:
> Built without problems on Arch Linux x64 (Linux timdumol-laptop-linux > 3.4.3-1-ARCH #1 SMP PREEMPT Mon Jun 18 08:28:29 CEST 2012 x86_64 GNU/Linux).
> Had the following test failure:
> ********************************************************************** > File "/opt/sage/devel/sage/sage/tests/cmdline.py", line 314: > sage: err > Expected: > '' > Got: > 'WARNING: Configuration file ipythonrc not found. Ignoring > request.\n------------------------------------------------------------\nTra ceback > (most recent call last):\n File > "/opt/sage/local/lib/python/site-packages/IPython/ConfigLoader.py", line > 66, in load\n fname = filefind(fname,incpath)\n File > "/opt/sage/local/lib/python/site-packages/IPython/genutils.py", line 554, > in filefind\n \' not found in current or supplied directories:\' + > `alt_dirs`\nIOError: File\'ipythonrc\' not found in current or supplied > directories:u\'/home/timdumol/.ipython\'\n\nWARNING: Problems loading > configuration file \'ipythonrc\'\nStarting with default -bare bones- > configuration.\n' > **********************************************************************
> Seems the warning needs to be suppressed/ignored in the test.
