[sage-combinat-devel] Sage Days 64
Dear All! Dan Bump, Travis Scrimshaw and I are going to organize Sage Days 64 (=2^6 !!) at UC Davis March 17-20, 2015. A preliminary website can be found here http://wiki.sagemath.org/days64 If you are interested in participating, please sign up on the wiki or drop us a line! Hope to see you there, Anne, Dan, Travis -- You received this message because you are subscribed to the Google Groups sage-combinat-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-combinat-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-combinat-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-combinat-devel. For more options, visit https://groups.google.com/d/optout.
Re: [sage-combinat-devel] Sage Days 64
Dear Anne, 2^6 4 Sincerely, Paul Paul-Olivier Dehaye SNF Assistant Professor of Mathematics University of Zurich http://user.math.uzh.ch/dehaye/contact_info.txt On Wed, Sep 10, 2014 at 2:42 AM, Anne Schilling a...@math.ucdavis.edu wrote: Dear All! Dan Bump, Travis Scrimshaw and I are going to organize Sage Days 64 (=2^6 !!) at UC Davis March 17-20, 2015. A preliminary website can be found here http://wiki.sagemath.org/days64 If you are interested in participating, please sign up on the wiki or drop us a line! Hope to see you there, Anne, Dan, Travis -- You received this message because you are subscribed to the Google Groups sage-combinat-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-combinat-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-combinat-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-combinat-devel. For more options, visit https://groups.google.com/d/optout. -- You received this message because you are subscribed to the Google Groups sage-combinat-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-combinat-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-combinat-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-combinat-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] pyopenssl
Hi
I'm running Ubuntu 14.04 and the PPA which is the downloaded binary.
I wanted to enable notebook(secure=True), which prompted me to install
pyopenssl.
sage -i pyopenssl successfully installed but prompted me to make.
make finished without error.
sage now does not start:
0 jan@muizenberg:/var/autofs/misc/home/jan$sage
┌┐
│ Sage Version 6.3, Release Date: 2014-08-10 │
│ Type notebook() for the browser-based notebook interface.│
│ Type help() for help.│
└┘
**
Oops, Sage crashed. We do our best to make it stable, but...
A crash report was automatically generated with the following information:
- A verbatim copy of the crash traceback.
- A copy of your input history during this session.
- Data on your current Sage configuration.
It was left in the file named:
'/var/autofs/misc/home/jan/.sage/ipython-2.1.0/Sage_crash_report.txt'
If you can email this file to the developers, the information in it will
help
them in understanding and correcting the problem.
You can mail it to: sage-support at sage-supp...@googlegroups.com
with the subject 'Sage Crash Report'.
If you want to do it now, the following command will work (under Unix):
mail -s 'Sage Crash Report' sage-supp...@googlegroups.com
/var/autofs/misc/home/jan/.sage/ipython-2.1.0/Sage_crash_report.txt
To ensure accurate tracking of this issue, please file a report about it at:
http://trac.sagemath.org
Hit Enter to quit (your terminal may close):
1 jan@muizenberg:/var/autofs/misc/home/jan$ls
/usr/lib/sagemath/local/lib/libcsage.so
/usr/lib/sagemath/local/lib/libcsage.so
Attached the error file which says cannot find libcsage.so.
Any ideas?
Regards,
Jan
--
.~.
/V\ Jan Groenewald
/( )\www.aims.ac.za
^^-^^
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***
IPython post-mortem report
{'commit_hash': '00199fb',
'commit_source': 'installation',
'default_encoding': 'UTF-8',
'ipython_path': '/usr/lib/sagemath/local/lib/python2.7/site-packages/IPython',
'ipython_version': '2.1.0',
'os_name': 'posix',
'platform': 'Linux-3.13.0-35-generic-x86_64-with-debian-jessie-sid',
'sys_executable': '/usr/lib/sagemath/local/bin/python',
'sys_platform': 'linux2',
'sys_version': '2.7.8 (default, Aug 10 2014, 21:20:38) \n[GCC 4.8.2]'}
***
***
Crash traceback:
---
ImportErrorPython 2.7.8: /usr/lib/sagemath/local/bin/python
Tue Sep 9 08:59:20 2014
A problem occured executing Python code. Here is the sequence of function
calls leading up to the error, with the most recent (innermost) call last.
/usr/lib/sagemath/src/bin/sage-ipython in module()
1 #!/usr/bin/env python
2 # -*- coding: utf-8 -*-
3
4 Sage IPython startup script.
5
6 from sage.repl.interpreter import SageTerminalApp
7
8 # installs the extra readline commands before the IPython
initialization begins.
9 from sage.repl.readline_extra_commands import *
10
11 app = SageTerminalApp.instance()
--- 12 app.initialize()
global app.initialize = bound method SageTerminalApp.initialize of
sage.repl.interpreter.SageTerminalApp object at 0x7fa8a6a75310
13 app.start()
/usr/lib/sagemath/local/lib/python2.7/site-packages/IPython/terminal/ipapp.py
in initialize(self=sage.repl.interpreter.SageTerminalApp object, argv=None)
/usr/lib/sagemath/local/lib/python2.7/site-packages/IPython/config/application.py
in catch_config_error(method=function initialize,
app=sage.repl.interpreter.SageTerminalApp object, *args=(None,), **kwargs={})
77
78
#-
79 # Application class
80
#-
81
82 @decorator
83 def catch_config_error(method, app, *args, **kwargs):
84 Method decorator for catching invalid config
(Trait/ArgumentErrors) during init.
85
86 On a TraitError (generally caused by bad config), this will print
the trait's
Re: [sage-devel] error installing package ppl-1.1
No obvious things in this log. But a careful reading shows that both glpk.h and glpk/glpk.h where found. glpk in sage only ships glpk.h so the other one must come from the system. The output of rpm -ql glpk-dev or would it be glpk-devel would show us what has been detected from the system. But like I said earlier in answering David, fixing it not as obvious as it seems. François On 9/09/2014, at 20:51, 'Paul Mercat' via sage-devel sage-devel@googlegroups.com wrote: Here is the file /home/paul.mercat/sage/local/var/tmp/sage/build/ppl-1.1/src/config.log Paul Le mardi 9 septembre 2014 07:02:11 UTC+2, François a écrit : On 9/09/2014, at 16:32, Dr. David Kirkby (Kirkby Microwave Ltd) drki...@kirkbymicrowave.co.uk wrote: On 9 Sep 2014 00:25, François Bissey francoi...@canterbury.ac.nz wrote: But it is almost certain the system glpk is the problem. If so, given Sage ships glpk, and quite a number of other packages to ensure that we control exactly the versions being linked, then I suspect the ppl package needs modifying to ensure it links against the version of glpk shipped in Sage and not some other version which may be on the system. Although I have not looked at the code; that should be a fairly easy fix. I have looked at the code and unfortunately there is nothing to give a location for glpk in ppl's configure script. We have to make sure CPPFLAGS and LDFLAGS point to the good spot. Francois This email may be confidential and subject to legal privilege, it may not reflect the views of the University of Canterbury, and it is not guaranteed to be virus free. If you are not an intended recipient, please notify the sender immediately and erase all copies of the message and any attachments. Please refer to http://www.canterbury.ac.nz/emaildisclaimer for more information. -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout. config.log This email may be confidential and subject to legal privilege, it may not reflect the views of the University of Canterbury, and it is not guaranteed to be virus free. If you are not an intended recipient, please notify the sender immediately and erase all copies of the message and any attachments. Please refer to http://www.canterbury.ac.nz/emaildisclaimer for more information. -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
Re: [sage-devel] error installing package ppl-1.1
[paul.mercat@octopus ~]$ rpm -ql glpk-dev package glpk-dev is not installed Le mardi 9 septembre 2014 11:03:50 UTC+2, François a écrit : No obvious things in this log. But a careful reading shows that both glpk.h and glpk/glpk.h where found. glpk in sage only ships glpk.h so the other one must come from the system. The output of “rpm -ql glpk-dev” or would it be glpk-devel would show us what has been detected from the system. But like I said earlier in answering David, fixing it not as obvious as it seems. François On 9/09/2014, at 20:51, 'Paul Mercat' via sage-devel sage-...@googlegroups.com javascript: wrote: Here is the file /home/paul.mercat/sage/local/var/tmp/sage/build/ppl-1.1/src/config.log Paul Le mardi 9 septembre 2014 07:02:11 UTC+2, François a écrit : On 9/09/2014, at 16:32, Dr. David Kirkby (Kirkby Microwave Ltd) drki...@kirkbymicrowave.co.uk wrote: On 9 Sep 2014 00:25, François Bissey francoi...@canterbury.ac.nz wrote: But it is almost certain the system glpk is the problem. If so, given Sage ships glpk, and quite a number of other packages to ensure that we control exactly the versions being linked, then I suspect the ppl package needs modifying to ensure it links against the version of glpk shipped in Sage and not some other version which may be on the system. Although I have not looked at the code; that should be a fairly easy fix. I have looked at the code and unfortunately there is nothing to give a location for glpk in ppl’s configure script. We have to make sure CPPFLAGS and LDFLAGS point to the good spot. Francois This email may be confidential and subject to legal privilege, it may not reflect the views of the University of Canterbury, and it is not guaranteed to be virus free. If you are not an intended recipient, please notify the sender immediately and erase all copies of the message and any attachments. Please refer to http://www.canterbury.ac.nz/emaildisclaimer for more information. -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+...@googlegroups.com javascript:. To post to this group, send email to sage-...@googlegroups.com javascript:. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout. config.log This email may be confidential and subject to legal privilege, it may not reflect the views of the University of Canterbury, and it is not guaranteed to be virus free. If you are not an intended recipient, please notify the sender immediately and erase all copies of the message and any attachments. Please refer to http://www.canterbury.ac.nz/emaildisclaimer for more information. -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] Re: pyopenssl
If you used the PPA shouldn't sage -i have failed with a permission error, how come you can write into the Sage install? In any case, IMHO you are best off compiling all of Sage if you want to install (compile) optional packages as well. On Tuesday, September 9, 2014 8:02:08 AM UTC+1, Jan Groenewald wrote: Hi I'm running Ubuntu 14.04 and the PPA which is the downloaded binary. I wanted to enable notebook(secure=True), which prompted me to install pyopenssl. sage -i pyopenssl successfully installed but prompted me to make. make finished without error. sage now does not start: 0 jan@muizenberg:/var/autofs/misc/home/jan$sage ┌┐ │ Sage Version 6.3, Release Date: 2014-08-10 │ │ Type notebook() for the browser-based notebook interface.│ │ Type help() for help.│ └┘ ** Oops, Sage crashed. We do our best to make it stable, but... A crash report was automatically generated with the following information: - A verbatim copy of the crash traceback. - A copy of your input history during this session. - Data on your current Sage configuration. It was left in the file named: '/var/autofs/misc/home/jan/.sage/ipython-2.1.0/Sage_crash_report.txt' If you can email this file to the developers, the information in it will help them in understanding and correcting the problem. You can mail it to: sage-support at sage-s...@googlegroups.com javascript: with the subject 'Sage Crash Report'. If you want to do it now, the following command will work (under Unix): mail -s 'Sage Crash Report' sage-s...@googlegroups.com javascript: /var/autofs/misc/home/jan/.sage/ipython-2.1.0/Sage_crash_report.txt To ensure accurate tracking of this issue, please file a report about it at: http://trac.sagemath.org Hit Enter to quit (your terminal may close): 1 jan@muizenberg:/var/autofs/misc/home/jan$ls /usr/lib/sagemath/local/lib/libcsage.so /usr/lib/sagemath/local/lib/libcsage.so Attached the error file which says cannot find libcsage.so. Any ideas? Regards, Jan -- .~. /V\ Jan Groenewald /( )\www.aims.ac.za ^^-^^ -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
Re: [sage-devel] Re: pyopenssl
Hi I can change the permissions on the PPA folder, these are imaged desktops for labs, and I can always test and reimage on any computer. I have in the past often installed optional packages with the PPA. I will try from source, and see if it persists. Regards, Jan On 9 September 2014 11:39, Volker Braun vbraun.n...@gmail.com wrote: If you used the PPA shouldn't sage -i have failed with a permission error, how come you can write into the Sage install? In any case, IMHO you are best off compiling all of Sage if you want to install (compile) optional packages as well. On Tuesday, September 9, 2014 8:02:08 AM UTC+1, Jan Groenewald wrote: Hi I'm running Ubuntu 14.04 and the PPA which is the downloaded binary. I wanted to enable notebook(secure=True), which prompted me to install pyopenssl. sage -i pyopenssl successfully installed but prompted me to make. make finished without error. sage now does not start: 0 jan@muizenberg:/var/autofs/misc/home/jan$sage ┌┐ │ Sage Version 6.3, Release Date: 2014-08-10 │ │ Type notebook() for the browser-based notebook interface.│ │ Type help() for help.│ └┘ ** Oops, Sage crashed. We do our best to make it stable, but... A crash report was automatically generated with the following information: - A verbatim copy of the crash traceback. - A copy of your input history during this session. - Data on your current Sage configuration. It was left in the file named: '/var/autofs/misc/home/jan/.sage/ipython-2.1.0/Sage_crash_report.txt' If you can email this file to the developers, the information in it will help them in understanding and correcting the problem. You can mail it to: sage-support at sage-s...@googlegroups.com with the subject 'Sage Crash Report'. If you want to do it now, the following command will work (under Unix): mail -s 'Sage Crash Report' sage-s...@googlegroups.com /var/autofs/misc/home/jan/.sage/ipython-2.1.0/Sage_crash_report.txt To ensure accurate tracking of this issue, please file a report about it at: http://trac.sagemath.org Hit Enter to quit (your terminal may close): 1 jan@muizenberg:/var/autofs/misc/home/jan$ls /usr/lib/sagemath/local/lib/libcsage.so /usr/lib/sagemath/local/lib/libcsage.so Attached the error file which says cannot find libcsage.so. Any ideas? Regards, Jan -- .~. /V\ Jan Groenewald /( )\www.aims.ac.za ^^-^^ -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout. -- .~. /V\ Jan Groenewald /( )\www.aims.ac.za ^^-^^ -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] Re: pyopenssl
On Tuesday, September 9, 2014 3:02:08 AM UTC-4, Jan Groenewald wrote: Hi I'm running Ubuntu 14.04 and the PPA which is the downloaded binary. I wanted to enable notebook(secure=True), which prompted me to install pyopenssl. sage -i pyopenssl successfully installed but prompted me to make. I wouldn't be surprised if this was because of the make and not sage -b. And one should be able to use optional packages with the binary. -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] Re: Tracking Citations; How?
On Monday, September 8, 2014 6:32:33 PM UTC+1, Nils Bruin wrote: There is an advantage to a decorator on python-level: If you're happy to configure sage_citation_enabled at start-up (which means it would have to be a command line option or an environment variable), you can make it completely *zero* penalty at runtime, with a little penalty at function definition (import) time: But that doesn't work at the C level, you either compile something in or not. So you can't apply it to the (presumably) speed-critical c(p)def functions, only to plain Python functions where overhead wasn't much of an issue to start with. Also, in terms of user experience it is much preferable to have the citation tracking switchable at runtime. -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
Re: [sage-devel] Re: pyopenssl
Hi Then perhaps this message should be changed? $sage -i pyopenssl ... ... Successfully installed pyopenssl-0.13.p0 Deleting temporary build directory /home/jan/src/sage-6.3/local/var/tmp/sage/build/pyopenssl-0.13.p0 Finished installing pyopenssl-0.13.p0.spkg Warning: it might be needed to update the Sage library before installed packages work: you should run 'make' from $SAGE_ROOT before running Sage. 0 jan@yae-desktop:~/src/sage-6.3$ Regards, Jan On 9 September 2014 14:20, kcrisman kcris...@gmail.com wrote: On Tuesday, September 9, 2014 3:02:08 AM UTC-4, Jan Groenewald wrote: Hi I'm running Ubuntu 14.04 and the PPA which is the downloaded binary. I wanted to enable notebook(secure=True), which prompted me to install pyopenssl. sage -i pyopenssl successfully installed but prompted me to make. I wouldn't be surprised if this was because of the make and not sage -b. And one should be able to use optional packages with the binary. -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout. -- .~. /V\ Jan Groenewald /( )\www.aims.ac.za ^^-^^ -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] Re: Tracking Citations; How?
On Tuesday, September 9, 2014 5:48:59 AM UTC-7, Volker Braun wrote: But that doesn't work at the C level, you either compile something in or not. So you can't apply it to the (presumably) speed-critical c(p)def functions, only to plain Python functions True where overhead wasn't much of an issue to start with. Don't underestimate the importance of reasonable performance at python level. In for instance magma, the first version of a program often has decent performance (at least in my experience), where decent means: I can easily do an example in the range of interest. In sage, I have never had that. You can use cython to get *great* performance, but at the expense of putting in significant work (unwrapping all the convenient sage-layers of things, making sure you avoid category overhead, etc). I think it's important to have decent performance from the get-go, because that often means you don't have to bother putting in 5 extra days of optimizing code to do the example you're interested in. I'm not sure whether the tests involved with this would lead to a significant slow-down, but these things add up. With profiling sage code, I have often noticed that there's not a single bottleneck. It's just death by thousand cuts. It seems to me this might add another cut at python level. In python, looking up a global flag is going to be relatively slow, because, if addressed by its proper name, it involves checking several __dict__s. This adds noticeably to the overhead: sage.misc.sageinspect.cite_enabled = False #just borrowing some spot def citetest(a): pass sage.misc.sageinspect.citetest = citetest #to compare symbol lookup with call overhead def t1(a): if sage.misc.sageinspect.cite_enabled: print cite return 2*a def t2(a): return 2*a def t3(a): sage.misc.sageinspect.citetest(citation) return 2*a sage: %timeit t1(20) 100 loops, best of 3: 675 ns per loop sage: %timeit t2(20) 100 loops, best of 3: 396 ns per loop sage: %timeit t3(20) 100 loops, best of 3: 797 ns per loop Unlike a cdef cite_enabled flag on cython level, testing the flag on python level is quite noticeable. I'd suspect that cythonizing the process would still be comparable, due to the symbol lookup required for finding the cythonized routine. -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] Re: Tracking Citations; How?
On Tuesday, September 9, 2014 4:44:33 PM UTC+1, Nils Bruin wrote:
In python, looking up a global flag is going to be relatively slow,
because, if addressed by its proper name, it involves checking several
__dict__s
Which is why it needs to be a cdef bool as I wrote earlier.
sage: sage: cython(
: cdef bint sage_citation_enabled = False
: cpdef cite():
: if sage_citation_enabled:
: raise NotImplementedError()
: )
sage: def t2(a):
: return 2*a
:
sage: def t4(a):
: cite()
: return 2*a
:
sage: timeit('t2(20)', number=10)
10 loops, best of 3: 360 ns per loop
sage: timeit('t4(20)', number=10)
10 loops, best of 3: 377 ns per loop
Not really noticable any more, especially considering that multiplying-by-2
is a) something that really should be implented in Cython to avoid Python
overhead and b) not something that you would cite anyways.
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Re: [sage-devel] Re: #16577: enable 0-based row/column permutation of matrices
On Fri, Sep 05, 2014 at 05:00:29PM +0200, Nathann Cohen wrote: I just had a quick look at it, and the following looks downright scary: It is one of this code's many wonders. Also, note that : sage: Permutation([1,2,3]) [1, 2, 3] sage: Permutation((1,2,3)) [2, 3, 1] I hate that code. So do I. However this has nothing to do with the ticket at hand which is about how *permutation group elements* act on matrices: Permute the rows and columns of ``self`` by applying the permutation group elements ``row_permutation`` and ``column_permutation`` respectively. I'd like to have feedback on that part. Cheers, Nicolas -- Nicolas M. Thiéry Isil nthi...@users.sf.net http://Nicolas.Thiery.name/ -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] git trac log
I get (git-trac-command at 7e8fb34) $ git trac log 16538 Error: release manager has not merged Trac #16538 $ git trac log 16943 Error: release manager has not merged Trac #16943 $ git trac log 16786 Error: release manager has not merged Trac #16786 Actually, #16538 has been merged in 6.4.beta0, #16943 is closed, but not in a published develop branch, #16786 is needs_review. The error message is given without the usual delay incurred when contacting the trac server: $ time git trac log 16943 Error: release manager has not merged Trac #16943 real0m0.112s user0m0.069s sys 0m0.018s compared to $ time git trac print 16943 ... real0m1.070s user0m0.057s sys 0m0.014s All of the above: Linux Mint 13 Maya, 3.13.0-32-generic #57~precise1-Ubuntu -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] Re: #16577: enable 0-based row/column permutation of matrices
On Fri, Sep 05, 2014 at 07:58:30AM -0700, Dima Pasechnik wrote:
I just had a quick look at it, and the following looks downright scary:
+For backward compatibility, if a permutation group element
+acts on the integers `\{1,\ldots,n\}` or a subset thereof,
+the columns are considered as being numbered from `1`::
+
+sage: G = PermutationGroup(['(1,2,3)(4,5)',
'(1,2,3,4,5)'])
+sage: sigma, tau = G.gens()
+sage: sigma
+(1,2,3)(4,5)
+sage: M = copy(N)
+sage: M.permute_columns(sigma)
+sage: M
+[1 0 1 0 0]
+[2 2 0 0 0]
+[0 3 0 0 3]
+[0 0 0 4 4]
+[0 0 0 5 0]
note that there is an unpleasant ambiguity here:
namely, if, say in this example you take
G = PermutationGroup(['(1,2,3)'])
how one could tell whether it is meant to permute stuff in [0..2], or
in [1..3] ?
Do you mean that one must write G = PermutationGroup(['(0),(1,2,3)'])
for the latter?
I agree it's not great. But do you have a better proposal?
The current situation is a painful source of confusion, and is
actually already ambiguous if one is not reading the specifications
carefully: in your above example, the unwary user may well expect that
he will permute stuff in [1..3].
The ticket only adds a new feature allowing for the natural 0-based
permutations. Otherwise it does not change the current behavior.
Cheers,
Nicolas
--
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http://Nicolas.Thiery.name/
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Re: [sage-devel] Re: [sage-release] You don't really think that Sage has failed, do you? (a comment about it)
Bonjour Bernard, On Wed, Sep 03, 2014 at 12:42:51PM -0700, parisse wrote: I'm reading the european grant project description on https://github.com/sagemath/grant-europe/ and I have no idea whether the software would be free or not. In fact since the project in its current state is asking more than half of the money for software engineers mostly for implementing non mathematical aspects, I'm afraid it would end up developping non-free software around sage, more or less like the SMC. Thanks for pointing this out. No worry, I'll never ever get deeply involved in a grant where not all produced code is open source :-) Cherry on the cake: on that particular call, it's written explicitly that the delivered code (and data! and publications!) shall be open. I'll clarify this on the project page. Cheers, Nicolas -- Nicolas M. Thiéry Isil nthi...@users.sf.net http://Nicolas.Thiery.name/ -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] Re: #16577: enable 0-based row/column permutation of matrices
The ticket only adds a new feature allowing for the natural 0-based permutations. Otherwise it does not change the current behavior. But why shouldn't the current behaviour be deprecated? I think requiring that the domain is 0..n-1 (is possible, with a check) would be much better. Martin -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] Re: git trac log
The git trac log ticket only inspects the log of the current branch (just like git log, except that it understands trac ticket numbers). So you need to be on a sufficiently recent branch if you want the log of these tickets. On Tuesday, September 9, 2014 5:56:28 PM UTC+1, Clemens Heuberger wrote: I get (git-trac-command at 7e8fb34) $ git trac log 16538 Error: release manager has not merged Trac #16538 $ git trac log 16943 Error: release manager has not merged Trac #16943 $ git trac log 16786 Error: release manager has not merged Trac #16786 Actually, #16538 has been merged in 6.4.beta0, #16943 is closed, but not in a published develop branch, #16786 is needs_review. The error message is given without the usual delay incurred when contacting the trac server: $ time git trac log 16943 Error: release manager has not merged Trac #16943 real0m0.112s user0m0.069s sys0m0.018s compared to $ time git trac print 16943 ... real0m1.070s user0m0.057s sys0m0.014s All of the above: Linux Mint 13 Maya, 3.13.0-32-generic #57~precise1-Ubuntu -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] Re: #16577: enable 0-based row/column permutation of matrices
On Tuesday, September 9, 2014 6:07:49 PM UTC+1, Nicolas M. Thiéry wrote: I agree it's not great. But do you have a better proposal? How about being explicit, aka the principle of least astonishment? M.permute_columns(sigma, base=0) with base=1 being the default. In either case an error is raised if the range does not fit. Once we have separate 0-based permutations we can make the default = do the right thing and deprecate the optional parameter. -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] Re: Tracking Citations; How?
On Tuesday, September 9, 2014 8:55:04 AM UTC-7, Volker Braun wrote:
On Tuesday, September 9, 2014 4:44:33 PM UTC+1, Nils Bruin wrote:
In python, looking up a global flag is going to be relatively slow,
because, if addressed by its proper name, it involves checking several
__dict__s
Which is why it needs to be a cdef bool as I wrote earlier.
Yes, but that's not the overhead I referred to. It's the fact that cite
itself would live somewhere deep in the sage namespace and that the
canonical way of referring to it would require several dictionary lookups.
Compare:
cython(
cdef bint sage_citation_enabled = False
cpdef cite():
if sage_citation_enabled:
raise NotImplementedError()
)
sage.misc.sageinspect.cite=cite #borrowing namespace here
def t2(a):
return 2*a
def t4(a):
sage.misc.sageinspect.cite()
return 2*a
sage: sage: timeit('t2(20)', number=1000)
1000 loops, best of 3: 302 ns per loop
sage: sage: timeit('t4(20)', number=1000)
1000 loops, best of 3: 457 ns per loop
On this trivial example it is now quite noticeable. Doing a from
sage.citation import cite would alleviate this quite a bit as you show,
but generally from ... import ... is discouraged in favour of leaving
namespaces intact.
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Re: [sage-devel] Re: #16577: enable 0-based row/column permutation of matrices
On Tue, Sep 09, 2014 at 10:18:29AM -0700, 'Martin R' via sage-devel wrote: But why shouldn't the current behaviour be deprecated? With this ticket I was aiming for a minimal change. If there is a consensus that we eventually want to get rid of using 1-based permutations for row/column matrix operations, yes, I am definitely in favor of deprecating it. Volker's explicit base argument is a good approach for the transition period. Cheers, Nicolas -- Nicolas M. Thiéry Isil nthi...@users.sf.net http://Nicolas.Thiery.name/ -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] Atomic writing in sage-preparse (#16827) needs review
Hello sage-devel, could somebody please review the small patch http://trac.sagemath.org/ticket/16827 It fixes the sage-preparse script, which is called when running a foo.sage file through the command line, to use atomic_write. This avoids race conditions when multiple Sage sessions are run in parallel. I have been using this patch since several weeks for actual research problems, running many Sage sessions in parallel on a multi-core machine and I haven't seen any problems (without the patch, sometimes the preparsed .py file would be empty for example when executed). Thanks, Jeroen. -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
Re: [sage-devel] Re: #16577: enable 0-based row/column permutation of matrices
For the record, I'd rather have both 0 and 1-based permutations act on matrices in the the natural way (as permutations on an ordered set, regardless of how that set is written). So there is no need to get rid of 1-based permutations. However, we need to be able to tell 0- and 1-based permutations apart with certainty before we can fix permute_columns() to do the right thing (TM). On Tuesday, September 9, 2014 9:44:00 PM UTC+1, Nicolas M. Thiéry wrote: With this ticket I was aiming for a minimal change. If there is a consensus that we eventually want to get rid of using 1-based permutations for row/column matrix operations, yes, I am definitely in favor of deprecating it. Volker's explicit base argument is a good approach for the transition period. -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] Memory leak in evaluating polynomials over finite fields
I was dabbling in arithmetic when I noticed that the following leaks memory at about a megabyte per second: F.a = GF(11^2, 'a') R.x, y = F[] while True: _ = x(a, a) Now I would have thought that evaluating polynomials is a fairly common operation, so I'm sure somebody noticed this before? Is there a ticket (I didn't find one)? Notice that it depends on both the givaro backend for finite fields and multi-variate polynomials. def leak(n): import gc gc.collect() old = gc.get_objects() for i in range(n): _ = x(a, a)# leak memory gc.collect() new = gc.get_objects() return len(new) - len(old) always returns 1 so the leak is not in Python objects. -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] Sage Days 64
Dear All! Dan Bump, Travis Scrimshaw and I are going to organize Sage Days 64 (=2^6 !!) at UC Davis March 17-20, 2015. A preliminary website can be found here http://wiki.sagemath.org/days64 If you are interested in participating, please sign up on the wiki or drop us a line! Hope to see you there, Anne, Dan, Travis -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] Re: [sage-combinat-devel] Sage Days 64
Dear Anne, 2^6 4 Sincerely, Paul Paul-Olivier Dehaye SNF Assistant Professor of Mathematics University of Zurich http://user.math.uzh.ch/dehaye/contact_info.txt On Wed, Sep 10, 2014 at 2:42 AM, Anne Schilling a...@math.ucdavis.edu wrote: Dear All! Dan Bump, Travis Scrimshaw and I are going to organize Sage Days 64 (=2^6 !!) at UC Davis March 17-20, 2015. A preliminary website can be found here http://wiki.sagemath.org/days64 If you are interested in participating, please sign up on the wiki or drop us a line! Hope to see you there, Anne, Dan, Travis -- You received this message because you are subscribed to the Google Groups sage-combinat-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-combinat-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-combinat-de...@googlegroups.com. Visit this group at http://groups.google.com/group/sage-combinat-devel. For more options, visit https://groups.google.com/d/optout. -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
[sage-devel] Re: [sage-combinat-devel] Sage Days 64
2^6 4 I didn't know sage-combinat had switched back to pure Python... -- You received this message because you are subscribed to the Google Groups sage-devel group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
