sage-5.10.beta4 released

[Jeroen Demeyer]

Dear Sage lovers,

We're releasing Sage 5.10.beta4.

Source archive:

http://boxen.math.washington.edu/home/release/sage-5.10.beta4/sage-5.10.beta4.tar

Upgrade path:

http://boxen.math.washington.edu/home/release/sage-5.10.beta4/sage-5.10.beta4/

The source and upgrade path can also be found on the mirror network
(you might need to wait a while before the mirrors are synchronized):

http://www.sagemath.org/download-latest.html


Please build, test, and report! We'd love to hear about your
experiences with this release.

== Tickets ==

* We closed 156 tickets in this release. For details, see


http://boxen.math.washington.edu/home/release/sage-5.10.beta4/tickets.html

Closed tickets:

#961: sage -standard fails without write permission to $SAGE_LOCAL/tmp
[Reviewed by Jeroen Demeyer]
#3723: alarm() doesn't work with the factor() command [Reviewed by
Jeroen Demeyer]
#5085: fix_fpu for real_roots [Reviewed by Jeroen Demeyer]
#5328: Make the ATLAS rebuild on tolerance incremental (followup to
#1641) [Reviewed by Jeroen Demeyer]
#6535: add environ variables to "sage -pkg" script so don't get OS X
metatfiles [Reviewed by Jeroen Demeyer]
#6897: Migrate Notebook to a WSGI Framework (Django, Pylons,
Werkzeug,...) [Reviewed by Jason Grout]
#6957: $SAGE_DATA/extcode/javascript/jsmath appears to be the same as
$SAGE_LOCAL/notebook/javascript/jsmath [Reviewed by Jeroen Demeyer]
#7518: flint -- hangs computing certain degenerate case xgcd's [Reviewed
by Jeroen Demeyer]
#7698: Delete crap in the HMM spkg [Reviewed by Jeroen Demeyer]
#8556: simple server API broken [Reviewed by Jeroen Demeyer]
#8663: pexpect-2.0 no longer available for download [Reviewed by Jeroen
Demeyer]
#8741: Upgrade Twisted to 11.0 [Reviewed by Jason Grout, Tim Dumol]
#11619: linux kernel 3.0 causes headaches with some python modules
[Reviewed by Jeroen Demeyer]
#11743: Improve `make micro_release` [Reviewed by Jeroen Demeyer]
#11843: Bug in trivial abelian group [Reviewed by Chris Wuthrich]
#14360: Robert Bradshaw: Upgrade patchbot [Reviewed by David Roe, Volker
Braun]
#14492: Simon King: Modular group cohomology, version 2.1.4 [Reviewed by
Volker Braun, Jeroen Demeyer]
#14597: Jean-Pierre Flori: Upgrade GCC optional spkgs [Reviewed by
Jeroen Demeyer]

Merged in sage-5.10.beta4:

#4327: Nicolas Borie, Nicolas M. Thiéry: Refactor and extend root
systems plots [Reviewed by Nicolas M. Thiéry, Nicolas Borie, Travis
Scrimshaw]
#12532: Veronica Suaste: plot3d transformations should take symbolic
vectors [Reviewed by Miguel Marco]
#12832: Jeroen Demeyer: Upgrade cvxopt to 1.1.6 [Reviewed by Volker Braun]
#13213: Vincent Delecroix: Comparisons in quadratic number field
[Reviewed by Burcin Erocal, Volker Braun]
#13724: Nicolas M. Thiéry, Jesus Torrado: Improved support for
relabelled Cartan types [Reviewed by Travis Scrimshaw]
#13836: Andrew Fleckenstein: Fix variable dependence in
PiecewisePolynomial [Reviewed by Burcin Erocal]
#13953: Peter Bruin: (non)archimedian_local_height of a torsion points
always gives 0 [Reviewed by Chris Wuthrich]
#14141: Franco Saliola, Avinash Dalal, Anne Schilling: Implementation of
Knutson-Tao puzzles [Reviewed by Allen Knutson, Liz Beazley, Ed Richmond]
#14473: Nathann Cohen: Old deprecation warnings [Reviewed by Travis
Scrimshaw]
#14532: Nathann Cohen: Symplectic graphs [Reviewed by Frédéric Chapoton]
#14570: R. Andrew Ohana: Cythonize Sage library out of tree [Reviewed by
Jeroen Demeyer]
#14576: Nicolas M. Thiéry: Fix side effect in the affine method of
relabelled cartan types [Reviewed by Anne Schilling]
#14578: John Palmieri: SimplicialComplex chain complex composition not
zero [Reviewed by Volker Braun]
#14583: Darij Grinberg: Permutation('()') and Permutation(''), each in
its own way, fail to return the identity in S_0 [Reviewed by Nathann Cohen]
#14584: Alex Ghitza: trivial doc fixes for symmetric functions [Reviewed
by Mike Hansen]
#14593: Jean-Pierre Flori: Typo in source.rst [Reviewed by Jeroen Demeyer]
#14596: Jeroen Demeyer: Make a new optional spkg for pari's databases
[Reviewed by John Cremona]
#14603: Volker Braun: Remove the FLINT include directory from
module_list.py [Reviewed by Nathann Cohen, Leif Leonhardy, Jeroen Demeyer]
#14606: Jeroen Demeyer: Race condition with GAP workspaces [Reviewed by
Volker Braun]

[Justin C. Walker]

On May 20, 2013, at 13:01 , Jeroen Demeyer wrote:

> Dear Sage lovers,
>
> We're releasing Sage 5.10.beta4.
>
> Source archive:
>
> http://boxen.math.washington.edu/home/release/sage-5.10.beta4/sage-5.10.beta4.tar

Built from scratch on two Mac OS X systems: 10.6.8 (Dual 6-core Xeons) and 10.8.3 (Quad-core Core i7).

On 10.8, the first build blew up while (probably) building GCC-74.7.3.p0. I blew away the whole directory, unpacked Sage again, and reran the build, which completed successfully. The 10.6 build completed w/o problems.

On each system, all tests ('ptestlong') passed!

Justin

--
Justin C. Walker
Curmudgeon at Large
Director
Institute for the Enhancement of the Director's Income
--
Build a man a fire and he'll be warm
for a night.
Set a man on fire and he'll be warm
for the rest of his life.

[leif]

Justin C. Walker wrote:
> On 10.8, the first build blew up while (probably) building GCC-74.7.3.p0.

Presumably some interference with Apple's TimeMachine...


-leif

--
() The ASCII Ribbon Campaign
/\ Help Cure HTML E-Mail

[Justin C. Walker]

On May 20, 2013, at 20:23 , leif wrote:

> Justin C. Walker wrote:
>> On 10.8, the first build blew up while (probably) building GCC-74.7.3.p0.
>
> Presumably some interference with Apple's TimeMachine...

That a known issue? First I've heard of it.

There seems to be no problem on 10.6.8.

I will poke at it a bit more, as time presents.

Thanks!

Justin

--
Justin C. Walker, Curmudgeon at Large
Institute for the Absorption of Federal Funds
--
Democracy is two wolves and a lamb
voting on what to have for lunch.
Liberty is a well-armed lamb contesting
the vote.

[John H Palmieri]

On Monday, May 20, 2013 9:28:44 PM UTC-7, Justin C. Walker wrote:

On May 20, 2013, at 20:23 , leif wrote:

> Justin C. Walker wrote:
>> On 10.8, the first build blew up while (probably) building GCC-74.7.3.p0.
>
> Presumably some interference with Apple's TimeMachine...

That a known issue?  First I've heard of it.

It was a joke, since you made a (I think) typo in your version number for gcc.

--
John

[Justin C. Walker]

Yes it was. A good joke. I'm sorry I missed it. I'm pretty sure I would have enjoyed it. I think I'll go back to bed now.

--
Justin C. Walker, Curmudgeon at Large
Institute for the Absorption of Federal Funds

-----------
My wife 'n kids 'n dogs are gone,
I can't get Jesus on the phone,
But Ol' Milwaukee's Best is my best friend.
-----------

[leif]

Jeroen Demeyer wrote:
> Dear Sage lovers,
>
> We're releasing Sage 5.10.beta4.

Built from scratch w/o problems on Ubuntu 10.04.4 LTS x86 with FSF GCC
4.7.2 (modulo R requiring '-fno-ipa-cp-clone' with '-O3', as usual), and
all tests (ptestlong) passed.

[Samuel Lelièvre]

On a MacBook Pro under Mac OS X 10.7.5, ran 'make' then 'make testlong':

  All tests passed!

However, quitting sage-5.10.beta4 leaves a Python process running.

Samuel

[John H Palmieri]

Is it "sage-cleaner"? That *should* quit automatically after a little while (a minute or two, at the most, I think).

--
John

[leif]

pedro gomes wrote:
> Are you guys planning to update sympy to 0.7.2 in this release?

Doesn't seem anybody attempted to yet; see
http://trac.sagemath.org/sage_trac/ticket/11560#comment:28 .


> If not, what can I do to make it happen?

Open a ticket for it, and advertise it on the sage-devel mailing list.


> 0.7.2 has significant improvements to sympy.

And put the relevant ones into the ticket's description.

[Samuel Lelièvre]

Thank you, it might indeed be sage-cleaner.

With Sage 5.9 it seems to quit immediately,

is there a reason why it's different?

Samuel

2013/5/23 John H Palmieri <jhpalm...@gmail.com>

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[Volker Braun]

http://trac.sagemath.org/14055

[strogdon]

cvxopt fails to install with the subject beta:

running install_lib

copying build/lib.linux-x86_64-2.7/cvxopt/blas.so -> /storage/sage/sage-5.10.beta4/local/lib/python2.7/site-packages/cvxopt

copying build/lib.linux-x86_64-2.7/cvxopt/gsl.so -> /storage/sage/sage-5.10.beta4/local/lib/python2.7/site-packages/cvxopt

copying build/lib.linux-x86_64-2.7/cvxopt/lapack.so -> /storage/sage/sage-5.10.beta4/local/lib/python2.7/site-packages/cvxopt

copying build/lib.linux-x86_64-2.7/cvxopt/umfpack.so -> /storage/sage/sage-5.10.beta4/local/lib/python2.7/site-packages/cvxopt

copying build/lib.linux-x86_64-2.7/cvxopt/misc_solvers.so -> /storage/sage/sage-5.10.beta4/local/lib/python2.7/site-packages/cvxopt

copying build/lib.linux-x86_64-2.7/cvxopt/amd.so -> /storage/sage/sage-5.10.beta4/local/lib/python2.7/site-packages/cvxopt

copying build/lib.linux-x86_64-2.7/cvxopt/glpk.so -> /storage/sage/sage-5.10.beta4/local/lib/python2.7/site-packages/cvxopt

copying build/lib.linux-x86_64-2.7/cvxopt/cholmod.so -> /storage/sage/sage-5.10.beta4/local/lib/python2.7/site-packages/cvxopt

copying build/lib.linux-x86_64-2.7/cvxopt/base.so -> /storage/sage/sage-5.10.beta4/local/lib/python2.7/site-packages/cvxopt

running install_egg_info

Removing /storage/sage/sage-5.10.beta4/local/lib/python2.7/site-packages/cvxopt-1.1.6-py2.7.egg-info

Writing /storage/sage/sage-5.10.beta4/local/lib/python2.7/site-packages/cvxopt-1.1.6-py2.7.egg-info

cp: cannot stat ‘build/html/*’: No such file or directory

real    1m19.564s

user    1m14.357s

sys     0m5.720s

************************************************************************

Error installing package cvxopt-1.1.6.p0

************************************************************************

The build is from within a gentoo-prefix on debian. beta3 built just fine with the same build scenario.

[leif]

> cp: cannot stat �build/html/*�: No such file or directory

>
> real 1m19.564s
> user 1m14.357s
> sys 0m5.720s
> ************************************************************************
> Error installing package cvxopt-1.1.6.p0
> ************************************************************************
>
> The build is from within a gentoo-prefix on debian. beta3 built just
> fine with the same build scenario.

This happens if you have set SAGE_SPKG_INSTALL_DOCS=yes; the HTML doc is
now in src/doc/html/ rather than src/doc/build/html/ (as it used to be
in the previous cvxopt-1.1.5.p0), so that's indeed a regression
(unrelated to gentoo-prefix).


> Merged in sage-5.10.beta4:
>
> ...

> #12832: Jeroen Demeyer: Upgrade cvxopt to 1.1.6 [Reviewed by Volker
> Braun]

[strogdon]

Yes, I did have that variable set.

[leif]

strogdon wrote:
> Yes, I did have that variable set.
>
> On Saturday, May 25, 2013 4:33:40 PM UTC-5, leif wrote:
>
> strogdon wrote:
> > cvxopt fails to install with the subject beta:
> >

> > ...
> >
> > cp: cannot stat �build/html/*�: No such file or directory

> >
> > real 1m19.564s
> > user 1m14.357s
> > sys 0m5.720s
> >
> > ************************************************************************
> > Error installing package cvxopt-1.1.6.p0
> > ************************************************************************
> >
> >
> > The build is from within a gentoo-prefix on debian. beta3 built just
> > fine with the same build scenario.
>
> This happens if you have set SAGE_SPKG_INSTALL_DOCS=yes; the HTML
> doc is
> now in src/doc/html/ rather than src/doc/build/html/ (as it used to be
> in the previous cvxopt-1.1.5.p0), so that's indeed a regression
> (unrelated to gentoo-prefix).

New spkg at #14645 [1] needs review...


-leif

[1] http://trac.sagemath.org/sage_trac/ticket/14645