[sage-support] Re: Issues of Sage 6.9 for Mac OS X 10.10

[Dima Pasechnik]

Hi,
this is a typical error caused by an attempt to use an executable for a 
higher end CPU.
What is the CPU of your computer?

I guess we need a build for Core2 Duo...

Cheers,
Dima

On Saturday, 7 November 2015 07:47:23 UTC, Yoshihiro Sato wrote:
>
> I tried to install Sage 6.9 for Mac OS X 10.10. However it does not 
> work.The log is as follows. 
> I hope it will be updated. 
> Thanks, 
> Y.Sato
>
> $ sage
> ┌┐
> │ SageMath Version 6.9, Release Date: 2015-10-10 │
> │ Type "notebook()" for the browser-based notebook interface.│
> │ Type "help()" for help.│
> └┘
> The Sage installation tree has moved
> from /Users/buildslave-sage/slave/sage_git/build
>   to /Applications/Sage-6.9.app/Contents/Resources/sage
> Updating various hardcoded paths...
> (Please wait at most a few minutes.)
> DO NOT INTERRUPT THIS.
> Done updating paths.
> 
> Unhandled SIGILL: An illegal instruction 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().
> Sage will now terminate.
> 
> /usr/local/bin/sage: line 2:  3829 Illegal instruction: 4  $SAGE_ROOT/sage 
> $@
> $
>

-- 
You received this message because you are subscribed to the Google Groups 
"sage-support" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-support+unsubscr...@googlegroups.com.
To post to this group, send email to sage-support@googlegroups.com.
Visit this group at http://groups.google.com/group/sage-support.
For more options, visit https://groups.google.com/d/optout.

Re: [sage-support] Re: Octave and R plots in sagecell

[William Stein]

On Sat, Nov 7, 2015 at 4:22 PM, Nils Bruin  wrote:
> On Friday, November 6, 2015 at 2:59:56 PM UTC-8, Andrey Novoseltsev wrote:
>>
>> My understanding is that (unlike for R) we do not try to do anything for
>> Octave plotting, so everything is "default". Plotting commands in Octave use
>> either gnuplot or OpenGL, but it seems that in our setup only gnuplot is
>> available. How extractly it is used I don't know, but my guess is that
>> Octave creates some input file and then passes it to "gnuplot" and you have
>> an option to change the name of the called binary and supply some options to
>> it. For whatever reason, default options result in just ASCII plot in
>> SageMathCell and SageNB. When I try to add explicit commands for saving in a
>> particular format I am just getting the same ASCII plot one more time and
>> some warnings. Starting Octave from a local terminal allows me to open plots
>> in a new window, while saving files works but still shows warning about
>> missing things. It would be nice if someone who knows Octave and gnuplot
>> figured out what do we need to do to get some plots and no warnings - I am
>> stopping for now.
>>
> I don't know either very much, but I have succeeded on my local octave (on
> Fedora) to produce some plots in files via essentially this code:
>
> https://sagecell.sagemath.org/?z=eJxLy0wvLUrVMNRRKssszkzKSVXSUcpPS1PS5OUqLi1K0yhITcwuBnESy1ITi0HqwCJ6BXnpIDUAiBwTdA===octave
>
> figure(1,"visible","off")
> surf(peaks)
> saveas(1,"peaks.png")
>
> (saving to peak.pdf works too).
>
> I did install "transfig" (a part of xfig), as well as "pstoedit".
>
> Turning the "visible" off ensures that you don't get the silly ascii art.
>
> Other remarks:
>
> I do need to run octave with "DISPLAY" unset. Otherwise it seems to want to
> use the graphics windows things, and from there any attempt to saving the
> graphics leads to a segfault [which has significantly diminished my trust in
> octave, or at least its fedora packaging]. Even with "visible" off, I wasn't
> getting saved graphics (but no segfaults either).
>
> It would be great if we could get basic octave graphics support running on
> sagecell. I think plenty of matlab-centric courses could make excellent use
> of it.

A basic test case -- which fails horribly in SageMathCloud (in both
worksheets *and* the command line) :

sage: octave.eval("x = -10:0.1:10;\nplot (x, sin (x));")

So thanks for posting your suggestions, which help a lot.  SMC Ticket:

https://github.com/sagemathinc/smc/issues/238

William

>
> --
> You received this message because you are subscribed to the Google Groups
> "sage-support" group.
> To unsubscribe from this group and stop receiving emails from it, send an
> email to sage-support+unsubscr...@googlegroups.com.
> To post to this group, send email to sage-support@googlegroups.com.
> Visit this group at http://groups.google.com/group/sage-support.
> For more options, visit https://groups.google.com/d/optout.



-- 
William (http://wstein.org)

-- 
You received this message because you are subscribed to the Google Groups 
"sage-support" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-support+unsubscr...@googlegroups.com.
To post to this group, send email to sage-support@googlegroups.com.
Visit this group at http://groups.google.com/group/sage-support.
For more options, visit https://groups.google.com/d/optout.

[sage-support] Re: How to save the output of view locally (and not open the output)?

[John H Palmieri]

On Saturday, November 7, 2015 at 1:34:49 PM UTC-8, slabbe wrote:
>
> This opens a pdf:
>
> sage: g = graphs.PetersenGraph()
> sage: s = latex(g)
> sage: view(s, tightpage=True)
>
> But is there a way to just save that pdf file locally and not open it?
>

Until you quite the Sage session, the file should be saved some place like 
.sage/temp/HOSTNAME/9348/sage.pdf   (9348 is some random number). So if you 
don't mind having it open, it is available. I thought there was another way 
to do this, but I can't find a simple one. You can do:

   sage: from sage.misc.latex import _latex_file_
   sage: t = _latex_file_(s)   # the contents of the file to be run through 
LaTeX

Or even better, mimic the effects of tightpage=True:

   sage: t = _latex_file_(s, 
extra_preamble='\\usepackage[tightpage,active]{preview}\\PreviewEnvironment{page}',
math_left='\\begin{page}$', math_right='$\\end{page}')

Then save to a file and run PDFLaTeX on it:

sage: file = "/home/palmieri/my_file.tex"
sage: O = open(file, 'w')
sage: O.write(t)
sage: O.close
sage: from sage.misc.latex import _run_latex_
sage: _run_latex_(file)

-- 
John

-- 
You received this message because you are subscribed to the Google Groups 
"sage-support" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-support+unsubscr...@googlegroups.com.
To post to this group, send email to sage-support@googlegroups.com.
Visit this group at http://groups.google.com/group/sage-support.
For more options, visit https://groups.google.com/d/optout.

[sage-support] Re: Octave and R plots in sagecell

[Nils Bruin]

On Friday, November 6, 2015 at 2:59:56 PM UTC-8, Andrey Novoseltsev wrote:
>
> My understanding is that (unlike for R) we do not try to do anything for 
> Octave plotting, so everything is "default". Plotting commands in Octave 
> use either gnuplot or OpenGL, but it seems that in our setup only gnuplot 
> is available. How extractly it is used I don't know, but my guess is that 
> Octave creates some input file and then passes it to "gnuplot" and you have 
> an option to change the name of the called binary and supply some options 
> to it. For whatever reason, default options result in just ASCII plot in 
> SageMathCell and SageNB. When I try to add explicit commands for saving in 
> a particular format I am just getting the same ASCII plot one more time and 
> some warnings. Starting Octave from a local terminal allows me to open 
> plots in a new window, while saving files works but still shows warning 
> about missing things. It would be nice if someone who knows Octave and 
> gnuplot figured out what do we need to do to get some plots and no warnings 
> - I am stopping for now.
>
> I don't know either very much, but I have succeeded on my local octave (on 
Fedora) to produce some plots in files via essentially this code:

https://sagecell.sagemath.org/?z=eJxLy0wvLUrVMNRRKssszkzKSVXSUcpPS1PS5OUqLi1K0yhITcwuBnESy1ITi0HqwCJ6BXnpIDUAiBwTdA===octave
 


figure(1,"visible","off")
surf(peaks)
saveas(1,"peaks.png")

(saving to peak.pdf works too).

I did install "transfig" (a part of xfig), as well as "pstoedit". 

Turning the "visible" off ensures that you don't get the silly ascii art.

Other remarks:

I do need to run octave with "DISPLAY" unset. Otherwise it seems to want to 
use the graphics windows things, and from there any attempt to saving the 
graphics leads to a segfault [which has significantly diminished my trust 
in octave, or at least its fedora packaging]. Even with "visible" off, I 
wasn't getting saved graphics (but no segfaults either).

It would be great if we could get basic octave graphics support running on 
sagecell. I think plenty of matlab-centric courses could make excellent use 
of it.

-- 
You received this message because you are subscribed to the Google Groups 
"sage-support" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-support+unsubscr...@googlegroups.com.
To post to this group, send email to sage-support@googlegroups.com.
Visit this group at http://groups.google.com/group/sage-support.
For more options, visit https://groups.google.com/d/optout.

[sage-support] Building sage / error message

[beta333]

Plattform:  Samsung Series 5 Notebook
Operating System:  Ubuntu 10.04 LTS
Version of sage:  SageMath Version 6.9, Release Date: 2015-10-10 


GETTING STARTED
---

This README.txt contains build instructions for Sage. If you downloaded
a binary, you do not need to do anything; just execute:

./sage

-
I got the following result:

Traceback (most recent call last):
  File "/home/rsom/sage1/sage-6.9-i686-Linux/src/bin/sage-ipython", line 8, 
in 
from sage.repl.readline_extra_commands import *
ImportError: 
/home/rsom/sage1/sage-6.9-i686-Linux/local/lib/python2.7/site-packages/sage/repl/readline_extra_commands.so:
 
wrong ELF class: ELFCLASS32

-- 
You received this message because you are subscribed to the Google Groups 
"sage-support" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-support+unsubscr...@googlegroups.com.
To post to this group, send email to sage-support@googlegroups.com.
Visit this group at http://groups.google.com/group/sage-support.
For more options, visit https://groups.google.com/d/optout.

[sage-support] How to install Sagemath 6.9 in VMware workstation 12

[anga]

Can you point me to instructions on how to install Sagemath 6.9 in VMware 
workstation 12 on Windows 7, 64-bit?

In addition, I have the following specific questions.
1. Is the underlying OS CentOS? Is it 32-bit or 64-bit?
2. How does one reach the command prompt for installing VMware tools and 
deleting VirtualBox additions as described in 
http://trac.sagemath.org/ticket/13068?

Thanks

-- 
You received this message because you are subscribed to the Google Groups 
"sage-support" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-support+unsubscr...@googlegroups.com.
To post to this group, send email to sage-support@googlegroups.com.
Visit this group at http://groups.google.com/group/sage-support.
For more options, visit https://groups.google.com/d/optout.

[sage-support] Builduing sage

[beta333]

GETTING STARTED
---

This README.txt contains build instructions for Sage. If you downloaded
a binary, you do not need to do anything; just execute:

./sage

-
I got the following result:

Traceback (most recent call last):
  File "/home/rsom/sage1/sage-6.9-i686-Linux/src/bin/sage-ipython", line 8, 
in 
from sage.repl.readline_extra_commands import *
ImportError: 
/home/rsom/sage1/sage-6.9-i686-Linux/local/lib/python2.7/site-packages/sage/repl/readline_extra_commands.so:
 
wrong ELF class: ELFCLASS32

-- 
You received this message because you are subscribed to the Google Groups 
"sage-support" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-support+unsubscr...@googlegroups.com.
To post to this group, send email to sage-support@googlegroups.com.
Visit this group at http://groups.google.com/group/sage-support.
For more options, visit https://groups.google.com/d/optout.

[sage-support] minimization errors with hypergeometric functions

[Yukikaze Yuto]

I have some problems with minimization with multivariables AND 
hypergeometric
functions in Sage while I'm translating my physics problem code into sage.

When I try

minimize(x^2+y^2,[0.1,0.1],algorithm="default")

it obviously works: (0.0,0.0)

The minimization for hypergeometric functions seems to work as

minimize(hypergeometric([1],[1],x) + x^2, [0.1],algorithm="default")

But, the next one does not work. Do you have any suggestion for an 
alternative way to evaluate the minimum?

minimize(hypergeometric([1],[1],x) + x^2 + y^2, 
[0.1,0.1],algorithm="default")

It shows the following error:
File 
"/projects/sage/sage-6.9/local/lib/python2.7/site-packages/smc_sagews/sage_server.py",
 
line 905, in execute
exec compile(block+'\n', '', 'single') in namespace, locals
  File "", line 1, in 
  File 
"/projects/sage/sage-6.9/local/lib/python2.7/site-packages/sage/numerical/optimize.py",
 
line 327, in minimize
min= optimize.fmin_bfgs(f, [float(_) for _ in x0],fprime=gradient, 
**args)
  File 
"/projects/sage/sage-6.9/local/lib/python2.7/site-packages/scipy/optimize/optimize.py",
 
line 777, in fmin_bfgs
res = _minimize_bfgs(f, x0, args, fprime, callback=callback, **opts)
  File 
"/projects/sage/sage-6.9/local/lib/python2.7/site-packages/scipy/optimize/optimize.py",
 
line 832, in _minimize_bfgs
gfk = myfprime(x0)
  File 
"/projects/sage/sage-6.9/local/lib/python2.7/site-packages/scipy/optimize/optimize.py",
 
line 281, in function_wrapper
return function(*(wrapper_args + args))
  File 
"/projects/sage/sage-6.9/local/lib/python2.7/site-packages/sage/numerical/optimize.py",
 
line 319, in 
gradient=lambda p: scipy.array([ a(*p) for a in 
fast_gradient_functions])
  File "sage/ext/interpreters/wrapper_rdf.pyx", line 80, in 
sage.ext.interpreters.wrapper_rdf.Wrapper_rdf.__call__ 
(/projects/sage/sage-6.9/src/build/cythonized/sage/ext/interpreters/wrapper_rdf.c:1746)
return self._domain(interp_rdf(c_args
  File "sage/symbolic/expression.pyx", line 4821, in 
sage.symbolic.expression.Expression.__call__ 
(/projects/sage/sage-6.9/src/build/cythonized/sage/symbolic/expression.cpp:27873)
return self._parent._call_element_(self, *args, **kwds)
  File "sage/symbolic/ring.pyx", line 796, in 
sage.symbolic.ring.SymbolicRing._call_element_ 
(/projects/sage/sage-6.9/src/build/cythonized/sage/symbolic/ring.cpp:9827)
raise ValueError("the number of arguments must be less than or equal to 
%s"%len(vars))
ValueError: the number of arguments must be less than or equal to 1

-- 
You received this message because you are subscribed to the Google Groups 
"sage-support" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-support+unsubscr...@googlegroups.com.
To post to this group, send email to sage-support@googlegroups.com.
Visit this group at http://groups.google.com/group/sage-support.
For more options, visit https://groups.google.com/d/optout.

[sage-support] Installation using VMare Workstation on Windows 7 64-bit

[anga]

Is there an guide for installing Sagemath 6.9 using VMware workstation 12 
on Windows 7 64-bit?

In addition, have a few questions.

1. What is the underlying OS? CentOS? 3-bit or 64-bit?
2. How to access the command prompt?
Needed to remove Virtual box guest additions and to install VMware tools, 
as in http://trac.sagemath.org/ticket/13068

Thanks


-- 
You received this message because you are subscribed to the Google Groups 
"sage-support" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-support+unsubscr...@googlegroups.com.
To post to this group, send email to sage-support@googlegroups.com.
Visit this group at http://groups.google.com/group/sage-support.
For more options, visit https://groups.google.com/d/optout.

[sage-support] Cutting, merging and visualizing trees

[Rodrigo]

Hi. I would like to implement an algorithm that clips (rooted, ordered) 
trees at certain points and then reconnect them at different points. I have 
done it already using python alone, but I was hoping to do it in Sage to 
make the visualization and debugging easier. Perhaps I should even redo the 
whole thing using Sage tools from the beginning to avoid reinventing the 
wheel going forward :) Could anyone please point me to the most appropriate 
tools? Thanks!


-- 
You received this message because you are subscribed to the Google Groups 
"sage-support" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-support+unsubscr...@googlegroups.com.
To post to this group, send email to sage-support@googlegroups.com.
Visit this group at http://groups.google.com/group/sage-support.
For more options, visit https://groups.google.com/d/optout.

Re: [sage-support] Installation using VMare Workstation on Windows 7 64-bit

[Jori Mäntysalo]

On Sat, 7 Nov 2015, anga wrote:

Is there an guide for installing Sagemath 6.9 using VMware workstation 
12 on Windows 7 64-bit?


Did you try? .ova -file should work with VMware products; it is not a 
VirtualBox specific but a common format to export virtual machines. See 
https://en.wikipedia.org/wiki/Open_Virtualization_Format .



2. How to access the command prompt?


See http://wiki.sagemath.org/SageAppliance#Using_the_Sage_shell . You need 
to know what is your "host key" on virtual machine manager.


--
Jori Mäntysalo

[sage-support] Re: minimization errors with hypergeometric functions

[Nils Bruin]

On Saturday, November 7, 2015 at 7:27:45 PM UTC-8, Yukikaze Yuto wrote:
>
> But, the next one does not work. Do you have any suggestion for an 
> alternative way to evaluate the minimum?
>
> minimize(hypergeometric([1],[1],x) + x^2 + y^2, 
> [0.1,0.1],algorithm="default")
>
> It shows the following error:
> ValueError: the number of arguments must be less than or equal to 1
>
 
The error seems to indicate something goes wrong with how the 
multidimensional input gets passed around. It would be good if that got 
checked out. As a workaround, perhaps use this:

minimize(lambda (x,y):hypergeometric([1],[1],x) + y^2, 
[0.1,0.1],algorithm="default")

-- 
You received this message because you are subscribed to the Google Groups 
"sage-support" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-support+unsubscr...@googlegroups.com.
To post to this group, send email to sage-support@googlegroups.com.
Visit this group at http://groups.google.com/group/sage-support.
For more options, visit https://groups.google.com/d/optout.

[sage-support] Re: Builduing sage

[Volker Braun]

You downloaded the 32-bit binary, but your os is 64-bit.



On Saturday, November 7, 2015 at 7:27:37 PM UTC-8, beta333 wrote:
>
> GETTING STARTED
> ---
>
> This README.txt contains build instructions for Sage. If you downloaded
> a binary, you do not need to do anything; just execute:
>
> ./sage
>
> -
> I got the following result:
>
> Traceback (most recent call last):
>   File "/home/rsom/sage1/sage-6.9-i686-Linux/src/bin/sage-ipython", line 
> 8, in 
> from sage.repl.readline_extra_commands import *
> ImportError: 
> /home/rsom/sage1/sage-6.9-i686-Linux/local/lib/python2.7/site-packages/sage/repl/readline_extra_commands.so:
>  
> wrong ELF class: ELFCLASS32
>
>

-- 
You received this message because you are subscribed to the Google Groups 
"sage-support" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-support+unsubscr...@googlegroups.com.
To post to this group, send email to sage-support@googlegroups.com.
Visit this group at http://groups.google.com/group/sage-support.
For more options, visit https://groups.google.com/d/optout.

[sage-support] "Factoring" cartesian product of posets

[Jori Mäntysalo]

Can Sage "factor" a poset, i.e. given poset P compute P1 and P2 such that 
P is isomorphic to P1.product(P2)?


There is a module for that on undirected graphs: 
http://doc.sagemath.org/html/en/reference/graphs/sage/graphs/graph_decompositions/graph_products.html 
. However, how to differentiate situations where P1 might be Poset({0:[1, 
2]}) or Poset({0: [1], 1: [2]})? They have isomorphic cover relations 
graph.


--
Jori Mäntysalo

[sage-support] Re: Cutting, merging and visualizing trees

[Nathann Cohen]

Hello Rodrigo,

Sage has a Graph class that might help you in what you plan, but from your 
message I was not able to guess if you needed 'more' than just a graph 
class.

Turns out that we are many here to deal with graph/trees, but we do so in 
different ways. My trees are not rooted and not ordered, while 
combinatorialists here may have something closer to what you need. Have you 
taken a look at those pages?

http://doc.sagemath.org/html/en/reference/combinat/sage/combinat/enumerated_sets.html#trees
http://doc.sagemath.org/html/en/reference/graphs/index.html#sage-graphs

Maybe they will tell you where exactly yuo need to look in order to 
translate your code into Sage code.

Have fuun,

Nathann

On Sunday, November 8, 2015 at 4:27:46 AM UTC+1, Rodrigo wrote:
>
> Hi. I would like to implement an algorithm that clips (rooted, ordered) 
> trees at certain points and then reconnect them at different points. I have 
> done it already using python alone, but I was hoping to do it in Sage to 
> make the visualization and debugging easier. Perhaps I should even redo the 
> whole thing using Sage tools from the beginning to avoid reinventing the 
> wheel going forward :) Could anyone please point me to the most appropriate 
> tools? Thanks!
>
>
>

-- 
You received this message because you are subscribed to the Google Groups 
"sage-support" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-support+unsubscr...@googlegroups.com.
To post to this group, send email to sage-support@googlegroups.com.
Visit this group at http://groups.google.com/group/sage-support.
For more options, visit https://groups.google.com/d/optout.