[sage-combinat-devel] help wanted with braid groups
I have been working on an implementation of braid groups for sage (together with free and finitely presented groups). So far i have a preliminary version (see ticket #12339). It is still not feature complete and also very slow compared to cbraid[1], for example, but it is usable. In order to speed it up, i want to interface cbraid directly. But i have no experience at all with c++ or python interfaces to external libraries. Please can someone help me with it? For example, i would need to write a function that takes an integer n and a list of integers l (that represents a braid of n strands), and uses cbraid to compute the left normal form. I have tried to do it directly with ctypes, but i only got error messages. Thanks in advance. [1]http://code.google.com/p/cbraid/ -- You received this message because you are subscribed to the Google Groups sage-combinat-devel group. To post to this group, send email to sage-combinat-devel@googlegroups.com. To unsubscribe from this group, send email to sage-combinat-devel+unsubscr...@googlegroups.com. For more options, visit this group at http://groups.google.com/group/sage-combinat-devel?hl=en.
[sage-combinat-devel] testing new symmetric function functionality
Hey SFA users...
I've been working on a patch to change how symmetric functions are used in
the future. I will be deprecating some common functions soon on the sage
combinat queue and we will try to get this into sage in an upcoming
version. Starting soon: SFAxxx where xxx in {Schur, Monomial, Homogeneous,
Elementary, Power} will not be the way to access these functions.
Old notation:
sage: s = SFASchur(QQ)
sage: h = SFAHomogeneous(QQ)
sage: e = SFAElementary(QQ)
...
The new notation will be:
sage: SF = SymmetricFunctions(QQ)
sage: s = SF.schur() # or .s()
sage: h = SF.homogeneous() # or .h()
sage: e = SF.elementary() # or .e()
sage: p = SF.power() # or .p()
sage: m = SF.monomial() # or .m()
Moreover, LLT polynomials, Hall-Littlewood, Jack and Macdonald symmetric
functions have all been moved into SymmetricFunctions(R).
sage: Mac = SF.macdonald()
gives an error because q and t are not in the ring! (this is different
behavior than before where the q and t were added to the base ring)
New notation:
sage: SF = SymmetricFunctions(QQ['q','t'].fraction_field())
sage: Mac = SF.macdonald()
sage: MP = Mac.P() # or .Q() or .J() or .H() or .Ht()
sage: HL = SF.hall_littlewood()
sage: HLP = HL.P() # or .Q() or .Qp()
sage: Jack = SF.jack()
sage: JP = Jack.P() # or .Q() or .Qp() or .J()
sage: LLT = SF.llt(2) # 2 is the level here which needs to be specified
sage: HS = LLT.hspin() # .hcospin()
The real improvements are behind the scenes. Your field can be more
general than before and your q and t parameters should be something in that
field.
sage: SF = SymmetricFunctions(QQ['x','y'].fraction_field()); (x,y) =
SF.base_ring().gens()
sage: MPxy = SF.macdonald(q=x,t=y).P()
sage: MPy5 = SF.macdonald(q=y,t=5).P()
sage: MPy5(MPxy[2,1])
Other changes include bringing .omega_qt(), .scalar_qt() and .nabla() to
all bases and adding q=value, t=value as optional parameters.
I could use some help testing. If you use symmetric functions and notice
any bad behavior please pass along odd doc tests.
If you want functionality does not seem to be part of these changes, please
feel free to add your two cents.
-Mike
--
You received this message because you are subscribed to the Google Groups
sage-combinat-devel group.
To view this discussion on the web visit
https://groups.google.com/d/msg/sage-combinat-devel/-/O1XqNR_bbLUJ.
To post to this group, send email to sage-combinat-devel@googlegroups.com.
To unsubscribe from this group, send email to
sage-combinat-devel+unsubscr...@googlegroups.com.
For more options, visit this group at
http://groups.google.com/group/sage-combinat-devel?hl=en.
[sage-combinat-devel] Re: testing new symmetric function functionality
Hi,
I should add that one thing that should really be tested in addition to
behavior is *speed*!
With these changes there might be potential slow-down from previous
versions.
We don't want this to happen. I've tested a bit, but this is one thing
that is even more difficult to identify than a bad doc test.
If there is some functionality that you use in particular I am asking for
testers who are willing to run heavy computations with and without the
patch applied to try to identify where the changes I have made may have
slowed things down. The changes I have made with the classical bases are
minor, but with Hall-Littlewood, Jacks, Macdonald and LLT had their caches
shaken up a bit. Please let me know if you notice slow downs (or
improvements).
-Mike
On Thursday, 7 June 2012 12:26:15 UTC-4, Mike Zabrocki wrote:
Hey SFA users...
I've been working on a patch to change how symmetric functions are used in
the future. I will be deprecating some common functions soon on the sage
combinat queue and we will try to get this into sage in an upcoming
version. Starting soon: SFAxxx where xxx in {Schur, Monomial, Homogeneous,
Elementary, Power} will not be the way to access these functions.
Old notation:
sage: s = SFASchur(QQ)
sage: h = SFAHomogeneous(QQ)
sage: e = SFAElementary(QQ)
...
The new notation will be:
sage: SF = SymmetricFunctions(QQ)
sage: s = SF.schur() # or .s()
sage: h = SF.homogeneous() # or .h()
sage: e = SF.elementary() # or .e()
sage: p = SF.power() # or .p()
sage: m = SF.monomial() # or .m()
Moreover, LLT polynomials, Hall-Littlewood, Jack and Macdonald symmetric
functions have all been moved into SymmetricFunctions(R).
sage: Mac = SF.macdonald()
gives an error because q and t are not in the ring! (this is different
behavior than before where the q and t were added to the base ring)
New notation:
sage: SF = SymmetricFunctions(QQ['q','t'].fraction_field())
sage: Mac = SF.macdonald()
sage: MP = Mac.P() # or .Q() or .J() or .H() or .Ht()
sage: HL = SF.hall_littlewood()
sage: HLP = HL.P() # or .Q() or .Qp()
sage: Jack = SF.jack()
sage: JP = Jack.P() # or .Q() or .Qp() or .J()
sage: LLT = SF.llt(2) # 2 is the level here which needs to be specified
sage: HS = LLT.hspin() # .hcospin()
The real improvements are behind the scenes. Your field can be more
general than before and your q and t parameters should be something in that
field.
sage: SF = SymmetricFunctions(QQ['x','y'].fraction_field()); (x,y) =
SF.base_ring().gens()
sage: MPxy = SF.macdonald(q=x,t=y).P()
sage: MPy5 = SF.macdonald(q=y,t=5).P()
sage: MPy5(MPxy[2,1])
Other changes include bringing .omega_qt(), .scalar_qt() and .nabla() to
all bases and adding q=value, t=value as optional parameters.
I could use some help testing. If you use symmetric functions and notice
any bad behavior please pass along odd doc tests.
If you want functionality does not seem to be part of these changes,
please feel free to add your two cents.
-Mike
--
You received this message because you are subscribed to the Google Groups
sage-combinat-devel group.
To view this discussion on the web visit
https://groups.google.com/d/msg/sage-combinat-devel/-/BL6LbzXBo6wJ.
To post to this group, send email to sage-combinat-devel@googlegroups.com.
To unsubscribe from this group, send email to
sage-combinat-devel+unsubscr...@googlegroups.com.
For more options, visit this group at
http://groups.google.com/group/sage-combinat-devel?hl=en.
Re: [sage-combinat-devel] testing new symmetric function functionality
On Thu, Jun 7, 2012 at 12:26 PM, Mike Zabrocki mike.zabro...@gmail.com wrote:
Hey SFA users...
I've been working on a patch to change how symmetric functions are used in
the future. I will be deprecating some common functions soon on the sage
combinat queue and we will try to get this into sage in an upcoming version.
Starting soon: SFAxxx where xxx in {Schur, Monomial, Homogeneous,
Elementary, Power} will not be the way to access these functions.
Old notation:
sage: s = SFASchur(QQ)
sage: h = SFAHomogeneous(QQ)
sage: e = SFAElementary(QQ)
...
The new notation will be:
sage: SF = SymmetricFunctions(QQ)
sage: s = SF.schur() # or .s()
sage: h = SF.homogeneous() # or .h()
sage: e = SF.elementary() # or .e()
sage: p = SF.power() # or .p()
sage: m = SF.monomial() # or .m()
Let me also point out that you can define s, h, e, p, and m in one
line with the command:
sage: SF.inject_shorthands()
Moreover, LLT polynomials, Hall-Littlewood, Jack and Macdonald symmetric
functions have all been moved into SymmetricFunctions(R).
sage: Mac = SF.macdonald()
gives an error because q and t are not in the ring! (this is different
behavior than before where the q and t were added to the base ring)
Why can't SF.macdonald() just return the appropriate thing?
If you really are going to do this, then you need to improve the error message:
ValueError: parameter q must be in the base ring
Perhaps we can include in the error message the command that would
produce what the user wants?
Franco
--
New notation:
sage: SF = SymmetricFunctions(QQ['q','t'].fraction_field())
sage: Mac = SF.macdonald()
sage: MP = Mac.P() # or .Q() or .J() or .H() or .Ht()
sage: HL = SF.hall_littlewood()
sage: HLP = HL.P() # or .Q() or .Qp()
sage: Jack = SF.jack()
sage: JP = Jack.P() # or .Q() or .Qp() or .J()
sage: LLT = SF.llt(2) # 2 is the level here which needs to be specified
sage: HS = LLT.hspin() # .hcospin()
The real improvements are behind the scenes. Your field can be more general
than before and your q and t parameters should be something in that field.
sage: SF = SymmetricFunctions(QQ['x','y'].fraction_field()); (x,y) =
SF.base_ring().gens()
sage: MPxy = SF.macdonald(q=x,t=y).P()
sage: MPy5 = SF.macdonald(q=y,t=5).P()
sage: MPy5(MPxy[2,1])
Other changes include bringing .omega_qt(), .scalar_qt() and .nabla() to all
bases and adding q=value, t=value as optional parameters.
I could use some help testing. If you use symmetric functions and notice
any bad behavior please pass along odd doc tests.
If you want functionality does not seem to be part of these changes, please
feel free to add your two cents.
-Mike
--
You received this message because you are subscribed to the Google Groups
sage-combinat-devel group.
To view this discussion on the web visit
https://groups.google.com/d/msg/sage-combinat-devel/-/O1XqNR_bbLUJ.
To post to this group, send email to sage-combinat-devel@googlegroups.com.
To unsubscribe from this group, send email to
sage-combinat-devel+unsubscr...@googlegroups.com.
For more options, visit this group at
http://groups.google.com/group/sage-combinat-devel?hl=en.
--
You received this message because you are subscribed to the Google Groups
sage-combinat-devel group.
To post to this group, send email to sage-combinat-devel@googlegroups.com.
To unsubscribe from this group, send email to
sage-combinat-devel+unsubscr...@googlegroups.com.
For more options, visit this group at
http://groups.google.com/group/sage-combinat-devel?hl=en.
Re: [sage-combinat-devel] testing new symmetric function functionality
Hi Mike, Very impressive work! I am glad you took over my initial patch. I will send you more comments off-line except for the main issues that need to be discussed with everyone. Franco: Moreover, LLT polynomials, Hall-Littlewood, Jack and Macdonald symmetric functions have all been moved into SymmetricFunctions(R). sage: Mac = SF.macdonald() gives an error because q and t are not in the ring! (this is different behavior than before where the q and t were added to the base ring) Why can't SF.macdonald() just return the appropriate thing? This is what was discussed during the Sage Days 38 in Montreal. SF needs to specify the base and macdonald() does not live in the ring of symmetric functions without q,t. If you really are going to do this, then you need to improve the error message: ValueError: parameter q must be in the base ring Perhaps we can include in the error message the command that would produce what the user wants? That might be a good idea! Best, Anne -- You received this message because you are subscribed to the Google Groups sage-combinat-devel group. To post to this group, send email to sage-combinat-devel@googlegroups.com. To unsubscribe from this group, send email to sage-combinat-devel+unsubscr...@googlegroups.com. For more options, visit this group at http://groups.google.com/group/sage-combinat-devel?hl=en.
Re: [sage-combinat-devel] Re: testing new symmetric function functionality
Hi Mike,
I did some timing tests on the old and new code:
sage: Sym = SymmetricFunctions(QQ['q','t'].fraction_field())
sage: s = Sym.schur()
sage: m = Sym.monomial()
sage: timeit('m(s([6,3,3,2,1]))')
25 loops, best of 3: 8.51 ms per loop
sage: timeit('m(s([10,6,3,3,2,1]))')
5 loops, best of 3: 214 ms per loop
sage: M = Sym.macdonald()
sage: Ht = M.Ht()
sage: timeit('s(Ht([4,2,1]))')
5 loops, best of 3: 16.2 ms per loop
as compared to
sage: Ht = MacdonaldPolynomialsHt(QQ)
sage: s = SFASchur(Ht.base_ring())
sage: m = SFAMonomial(Ht.base_ring())
sage: timeit('m(s([6,3,3,2,1]))')
25 loops, best of 3: 8.25 ms per loop
sage: timeit('m(s([10,6,3,3,2,1]))')
5 loops, best of 3: 211 ms per loop
sage: timeit('s(Ht([4,2,1]))')
5 loops, best of 3: 16.1 ms per loop
So the new code seems only very slightly (negligibly?) slower.
Best,
Anne
On 6/7/12 9:37 AM, Mike Zabrocki wrote:
Hi,
I should add that one thing that should really be tested in addition to
behavior is *speed*!
With these changes there might be potential slow-down from previous versions.
We don't want this to happen. I've tested a bit, but this is one thing that
is even more difficult to identify than a bad doc test.
If there is some functionality that you use in particular I am asking for
testers who are willing to run heavy computations with and without the patch
applied to try to identify where the changes I
have made may have slowed things down. The changes I have made with the
classical bases are minor, but with Hall-Littlewood, Jacks, Macdonald and LLT
had their caches shaken up a bit. Please let me
know if you notice slow downs (or improvements).
-Mike
On Thursday, 7 June 2012 12:26:15 UTC-4, Mike Zabrocki wrote:
Hey SFA users...
I've been working on a patch to change how symmetric functions are used
in the future. I will be deprecating some common functions soon on the sage
combinat queue and we will try to get this into
sage in an upcoming version. Starting soon: SFAxxx where xxx in {Schur,
Monomial, Homogeneous, Elementary, Power} will not be the way to access these
functions.
Old notation:
sage: s = SFASchur(QQ)
sage: h = SFAHomogeneous(QQ)
sage: e = SFAElementary(QQ)
...
The new notation will be:
sage: SF = SymmetricFunctions(QQ)
sage: s = SF.schur() # or .s()
sage: h = SF.homogeneous() # or .h()
sage: e = SF.elementary() # or .e()
sage: p = SF.power() # or .p()
sage: m = SF.monomial() # or .m()
Moreover, LLT polynomials, Hall-Littlewood, Jack and Macdonald symmetric
functions have all been moved into SymmetricFunctions(R).
sage: Mac = SF.macdonald()
gives an error because q and t are not in the ring! (this is different
behavior than before where the q and t were added to the base ring)
New notation:
sage: SF = SymmetricFunctions(QQ['q','t'].fraction_field())
sage: Mac = SF.macdonald()
sage: MP = Mac.P() # or .Q() or .J() or .H() or .Ht()
sage: HL = SF.hall_littlewood()
sage: HLP = HL.P() # or .Q() or .Qp()
sage: Jack = SF.jack()
sage: JP = Jack.P() # or .Q() or .Qp() or .J()
sage: LLT = SF.llt(2) # 2 is the level here which needs to be specified
sage: HS = LLT.hspin() # .hcospin()
The real improvements are behind the scenes. Your field can be more
general than before and your q and t parameters should be something in that
field.
sage: SF = SymmetricFunctions(QQ['x','y'].fraction_field()); (x,y) =
SF.base_ring().gens()
sage: MPxy = SF.macdonald(q=x,t=y).P()
sage: MPy5 = SF.macdonald(q=y,t=5).P()
sage: MPy5(MPxy[2,1])
Other changes include bringing .omega_qt(), .scalar_qt() and .nabla() to
all bases and adding q=value, t=value as optional parameters.
I could use some help testing. If you use symmetric functions and notice
any bad behavior please pass along odd doc tests.
If you want functionality does not seem to be part of these changes,
please feel free to add your two cents.
-Mike
--
You received this message because you are subscribed to the Google Groups
sage-combinat-devel group.
To post to this group, send email to sage-combinat-devel@googlegroups.com.
To unsubscribe from this group, send email to
sage-combinat-devel+unsubscr...@googlegroups.com.
For more options, visit this group at
http://groups.google.com/group/sage-combinat-devel?hl=en.
[sage-devel] Re: Sage server port forwarding
Nils Bruin nbr...@sfu.ca writes: As remarked on: http://wiki.sagemath.org/SageServer it's essentially impossible to safely run sage to natively listen on port 80 or port 443, because these are privileged ports and sage currently doesn't have convenient mechanisms to relinquish privileges after opening the port. The solution on the above wikipage is to use Apache to set up a forward proxy, delegating the SSL layer to Apache in the process. Another solution is to use iptables nat to forward the port: iptables -t nat -A PREROUTING -i eth0 -p tcp --dport 443 -j REDIRECT -- to-port 8000 Any comments on the pros and cons of these approaches? I thought one of the pros is that iptables is virtually sure to be running already, whereas apache might not be. I used iptables to run our university's Sage server on external port 80 but internal port 8000. It worked, and still works, without any problems. I agree that it would be good to mention this on the wiki page. -Keshav Join us in #sagemath on irc.freenode.net ! -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] reporting Xcode 4 problems to Apple
Dear all, Are there bug reports filed regarding issues with Xcode 4? Someone who works at Apple asked me for details of the troubles we have with building Sage using Xcode 4, so I would like to supply as much detail as possible. Thanks, Dima -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: Sage server port forwarding
On 6/6/12 10:20 PM, Nils Bruin wrote: Another solution is to use iptables nat to forward the port: iptables -t nat -A PREROUTING -i eth0 -p tcp --dport 443 -j REDIRECT -- to-port 8000 Just double-checking: this means that you run with secure=True, and the notebook itself does the SSL, right? Thanks, Jason -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] help wanted with braid groups
I have been working on an implementation of braid groups for sage (together with free and finitely presented groups). So far i have a preliminary version (see ticket #12339). It is still not feature complete and also very slow compared to cbraid[1], for example, but it is usable. In order to speed it up, i want to interface cbraid directly. But i have no experience at all with c++ or python interfaces to external libraries. Please can someone help me with it? For example, i would need to write a function that takes an integer n and a list of integers l (that represents a braid of n strands), and uses cbraid to compute the left normal form. I have tried to do it directly with ctypes, but i only got error messages. Thanks in advance. [1]http://code.google.com/p/cbraid/ -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: help wanted with braid groups
Is cbraid really the best/fastest implementation of braid groups out there? How does it compare to what GAP can do? Just from glancing at it, the author doesn't use many C++ features. Not necessarily a minus. It implements bubble sort, really? Also seems to be very hard to maintain, many nested loops with undocumented one-letter variables. On Thursday, June 7, 2012 12:28:08 PM UTC+1, mmarco wrote: I have been working on an implementation of braid groups for sage (together with free and finitely presented groups). So far i have a preliminary version (see ticket #12339). It is still not feature complete and also very slow compared to cbraid[1], for example, but it is usable. In order to speed it up, i want to interface cbraid directly. But i have no experience at all with c++ or python interfaces to external libraries. Please can someone help me with it? For example, i would need to write a function that takes an integer n and a list of integers l (that represents a braid of n strands), and uses cbraid to compute the left normal form. I have tried to do it directly with ctypes, but i only got error messages. Thanks in advance. [1]http://code.google.com/p/cbraid/ -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: help wanted with braid groups
On Thursday, 7 June 2012 13:50:59 UTC+2, Volker Braun wrote: Is cbraid really the best/fastest implementation of braid groups out there? How does it compare to what GAP can do? Indeed, there is (nonstandard) GAP package braid, packaged in gap_packages spkg, and as far as I am told by one of its authors, Sergey Shpectorov, their package mapclass http://web.mat.bham.ac.uk/S.Shpectorov/mapclass/ can do all of what braid can, and more. Just from glancing at it, the author doesn't use many C++ features. Not necessarily a minus. It implements bubble sort, really? Also seems to be very hard to maintain, many nested loops with undocumented one-letter variables. On Thursday, June 7, 2012 12:28:08 PM UTC+1, mmarco wrote: I have been working on an implementation of braid groups for sage (together with free and finitely presented groups). So far i have a preliminary version (see ticket #12339). It is still not feature complete and also very slow compared to cbraid[1], for example, but it is usable. In order to speed it up, i want to interface cbraid directly. But i have no experience at all with c++ or python interfaces to external libraries. Please can someone help me with it? For example, i would need to write a function that takes an integer n and a list of integers l (that represents a braid of n strands), and uses cbraid to compute the left normal form. I have tried to do it directly with ctypes, but i only got error messages. Thanks in advance. [1]http://code.google.com/p/cbraid/ -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
Re: [sage-devel] reporting Xcode 4 problems to Apple
On 2012-06-07 12:31, Dima Pasechnik wrote: Dear all, Are there bug reports filed regarding issues with Xcode 4? Someone who works at Apple asked me for details of the troubles we have with building Sage using Xcode 4, so I would like to supply as much detail as possible. The situation has improved a lot with newer versions of XCode compared to older versions. Of course the fact that XCode doesn't support Fortran is an issue for Sage (not specific to XCode 4 though). If you want to test building Sage with XCode, you should do the following to use Sage's gfortran but the system gcc and g++: $ cd spkg $ ./install installed/gcc-4.6.3 $ cd .. $ chmod 644 local/bin/gcc local/bin/g++ $ make -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: VirtualBox testers needed
Using 64 bit Ubuntu 12.04 inside VirtualBox 4.14 under Windows 7, I was able to make sage-5.0.1.rc0 with no errors. Running ./sage –testall resulted in just one error: Sage –t –force_lib “devel/sage/sage/schemes/plane_curves/curve.py” Tony Wickstead -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
Re: [sage-devel] reporting Xcode 4 problems to Apple
Hi Jeroen, and how about segfaults while building gcc spkg? Are they gone, too? On Thursday, 7 June 2012 14:28:59 UTC+2, Jeroen Demeyer wrote: On 2012-06-07 12:31, Dima Pasechnik wrote: Dear all, Are there bug reports filed regarding issues with Xcode 4? Someone who works at Apple asked me for details of the troubles we have with building Sage using Xcode 4, so I would like to supply as much detail as possible. The situation has improved a lot with newer versions of XCode compared to older versions. Of course the fact that XCode doesn't support Fortran is an issue for Sage (not specific to XCode 4 though). If you want to test building Sage with XCode, you should do the following to use Sage's gfortran but the system gcc and g++: $ cd spkg $ ./install installed/gcc-4.6.3 $ cd .. $ chmod 644 local/bin/gcc local/bin/g++ $ make -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
Re: [sage-devel] reporting Xcode 4 problems to Apple
On 2012-06-07 15:58, Dima Pasechnik wrote: Hi Jeroen, and how about segfaults while building gcc spkg? These only happened with old versions of XCode 4 I think. -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
Re: [sage-devel] Sage server port forwarding
On Wed, Jun 6, 2012 at 10:20 PM, Nils Bruin nbr...@sfu.ca wrote: Another solution is to use iptables nat to forward the port: iptables -t nat -A PREROUTING -i eth0 -p tcp --dport 443 -j REDIRECT -- to-port 8000 Any comments on the pros and cons of these approaches? I thought one of the pros is that iptables is virtually sure to be running already, whereas apache might not be. One advantage to using something like Apache or nginx (I'm planning to post nginx configs to the wiki in a week or two) is that you can set it up so that port 80 automatically redirects to the secure one. That way if someone simply types sage.mydomain.com into their web browser it initially connects to 80 and gets automatically redirected to 443 (https). This can make the whole setup much less confusing. --Jason Ekstrand -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Sage and LinBox = 1.3.0
Hi, Brice (for [sage-devel]: he's from the LinBox project) and I are at the Efficient Linear Algebra for Gröbner Basis Computations workshop at the moment and got kind of sidetracked into updating LinBox in Sage. Sage still uses version 1.1.6 which was released 4 years ago, this is embarrassing! Anyway, we got it to compile and Sage starts! See http://trac.sagemath.org/sage_trac/ticket/12883 which has a bunch of dependencies: * Givaro update: http://trac.sagemath.org/sage_trac/ticket/9511 * M4RIE update (because of Givaro update): http://trac.sagemath.org/sage_trac/ticket/12840 * M4RI update (because of the Givaro update): http://trac.sagemath.org/sage_trac/ticket/12841 -- name: Martin Albrecht _pgp: http://pgp.mit.edu:11371/pks/lookup?op=getsearch=0x8EF0DC99 _otr: 47F43D1A 5D68C36F 468BAEBA 640E8856 D7951CCF _www: http://martinralbrecht.wordpress.com _jab: martinralbre...@jabber.ccc.de -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: Sage and LinBox = 1.3.0
Can you try with the newest ATLAS? 3.9.77 just came out and should be pretty much to the final release. The Sage testsuite always found some errors in the combination of the newer atlas and linbox... On Thursday, June 7, 2012 7:32:15 PM UTC+1, Martin Albrecht wrote: Brice (for [sage-devel]: he's from the LinBox project) and I are at the Efficient Linear Algebra for Gröbner Basis Computations workshop at the moment and got kind of sidetracked into updating LinBox in Sage. -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: Sage and LinBox = 1.3.0
On 6/7/12 1:32 PM, Martin Albrecht wrote: Hi, Brice (for [sage-devel]: he's from the LinBox project) and I are at the Efficient Linear Algebra for Gröbner Basis Computations workshop at the moment and got kind of sidetracked into updating LinBox in Sage. Sage still uses version 1.1.6 which was released 4 years ago, this is embarrassing! So do you recommend running the testing release? Or the stable release, which is 1.1.7, right? And +1 for the idea of updating linbox (and dependencies). Good job! Jason -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Fwd: Sage and LinBox = 1.3.0
Argh, pressed sent by accident. Now again: Hi [sage-devel], (CC [linbox-devel] FYI) Brice (for [sage-devel]: he's from the LinBox project) and I are at the Efficient Linear Algebra for Gröbner Basis Computations workshop at the moment and got kind of sidetracked into updating LinBox in Sage. Sage still uses version 1.1.6 which was released 4 years ago, this is embarrassing! Anyway, we got it to compile and Sage starts! See http://trac.sagemath.org/sage_trac/ticket/12883 which has a bunch of dependencies: * Givaro update: http://trac.sagemath.org/sage_trac/ticket/9511 * M4RIE update (because of Givaro update): http://trac.sagemath.org/sage_trac/ticket/12840 * M4RI update (because of the Givaro update): http://trac.sagemath.org/sage_trac/ticket/12841 However, we found two bugs already. One of them is definitely in upstream (reduced row echelon forms are wrong when using EchelonDomain's but work when one is using FFPACK directly). I believe Brice will report this bug to LinBox properly. Another but which is a segfault in determinants over the Integers. However, we cannot reproduce this outside of Sage, so this bug needs some tracking down. It is plausible that there are more bugs. Hence, I'd appreciate help. That is, please try to compile this code and try to track down issues and perhaps fix them. It seems we are closer to upgrading LinBox than we were before and I would hate to see this bitrot. For that to happen, we need your help. Cheers, Martin -- name: Martin Albrecht _pgp: http://pgp.mit.edu:11371/pks/lookup?op=getsearch=0x8EF0DC99 _otr: 47F43D1A 5D68C36F 468BAEBA 640E8856 D7951CCF _www: http://martinralbrecht.wordpress.com _jab: martinralbre...@jabber.ccc.de -- name: Martin Albrecht _pgp: http://pgp.mit.edu:11371/pks/lookup?op=getsearch=0x8EF0DC99 _otr: 47F43D1A 5D68C36F 468BAEBA 640E8856 D7951CCF _www: http://martinralbrecht.wordpress.com _jab: martinralbre...@jabber.ccc.de -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
Re: [sage-devel] Re: Sage and LinBox = 1.3.0
Can you perhaps provide a new SPKG? I'm happy to try. On 7 June 2012 19:38, Volker Braun vbraun.n...@gmail.com wrote: Can you try with the newest ATLAS? 3.9.77 just came out and should be pretty much to the final release. The Sage testsuite always found some errors in the combination of the newer atlas and linbox... On Thursday, June 7, 2012 7:32:15 PM UTC+1, Martin Albrecht wrote: Brice (for [sage-devel]: he's from the LinBox project) and I are at the Efficient Linear Algebra for Gröbner Basis Computations workshop at the moment and got kind of sidetracked into updating LinBox in Sage. -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org -- name: Martin Albrecht _pgp: http://pgp.mit.edu:11371/pks/lookup?op=getsearch=0x8EF0DC99 _otr: 47F43D1A 5D68C36F 468BAEBA 640E8856 D7951CCF _www: http://martinralbrecht.wordpress.com _jab: martinralbre...@jabber.ccc.de -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
Re: [sage-devel] Re: Sage and LinBox = 1.3.0
On 7 June 2012 19:37, Jason Grout jason-s...@creativetrax.com wrote: On 6/7/12 1:32 PM, Martin Albrecht wrote: Hi, Brice (for [sage-devel]: he's from the LinBox project) and I are at the Efficient Linear Algebra for Gröbner Basis Computations workshop at the moment and got kind of sidetracked into updating LinBox in Sage. Sage still uses version 1.1.6 which was released 4 years ago, this is embarrassing! So do you recommend running the testing release? Or the stable release, which is 1.1.7, right? 1.1.7 is the latest stable but Brice recommended 1.3.1. I think the stable mainly refers to API stability. And +1 for the idea of updating linbox (and dependencies). Good job! Unfortunately, I pressed sent too early, there are still many issues left. Still, we seem closer than before, so let's not loose momentum. Jason -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org -- name: Martin Albrecht _pgp: http://pgp.mit.edu:11371/pks/lookup?op=getsearch=0x8EF0DC99 _otr: 47F43D1A 5D68C36F 468BAEBA 640E8856 D7951CCF _www: http://martinralbrecht.wordpress.com _jab: martinralbre...@jabber.ccc.de -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: help wanted with braid groups
On Jun 7, 8:02 am, Dima Pasechnik dimp...@gmail.com wrote: On Thursday, 7 June 2012 13:50:59 UTC+2, Volker Braun wrote: Is cbraid really the best/fastest implementation of braid groups out there? How does it compare to what GAP can do? Indeed, there is (nonstandard) GAP package braid, packaged in gap_packages spkg, and as far as I am told by one of its authors, Sergey Shpectorov, their package mapclasshttp://web.mat.bham.ac.uk/S.Shpectorov/mapclass/ can do all of what braid can, and more. Wow, that looks awesome. -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: help wanted with braid groups
Both gap4 packages (braid and mapclass) don't deal with braid groups themselves, but with the orbits of a certain actions of them (and more general groups). I mean, they don't implement the usual stuff one would expect in a braid group: normal forms, burau representation, lcm and gcd, conjugation problem... Chevie does have some of this (at least it has something similar to a left normal form, which is the basis for the rest). It can compute the left normal form faster than my python code, but it has some drawbacks: it runs on gap3, which is not even listed as an experimental package (there are some .spkg available in some trac ticket though), and also, the comunication with it is done through a pexpect interface, which has a noticeable overhead. With all that in mind, i considered cbraid as a good option, since it is very fast, and small. Other option would be to try to optimize my python code, but i think it will be always be slow. Maybe cythonizing some parts of it would make it faster, but i have noted that cythonizing code only leads to speedups when made very carefully. On 7 jun, 14:02, Dima Pasechnik dimp...@gmail.com wrote: On Thursday, 7 June 2012 13:50:59 UTC+2, Volker Braun wrote: Is cbraid really the best/fastest implementation of braid groups out there? How does it compare to what GAP can do? Indeed, there is (nonstandard) GAP package braid, packaged in gap_packages spkg, and as far as I am told by one of its authors, Sergey Shpectorov, their package mapclasshttp://web.mat.bham.ac.uk/S.Shpectorov/mapclass/ can do all of what braid can, and more. Just from glancing at it, the author doesn't use many C++ features. Not necessarily a minus. It implements bubble sort, really? Also seems to be very hard to maintain, many nested loops with undocumented one-letter variables. On Thursday, June 7, 2012 12:28:08 PM UTC+1, mmarco wrote: I have been working on an implementation of braid groups for sage (together with free and finitely presented groups). So far i have a preliminary version (see ticket #12339). It is still not feature complete and also very slow compared to cbraid[1], for example, but it is usable. In order to speed it up, i want to interface cbraid directly. But i have no experience at all with c++ or python interfaces to external libraries. Please can someone help me with it? For example, i would need to write a function that takes an integer n and a list of integers l (that represents a braid of n strands), and uses cbraid to compute the left normal form. I have tried to do it directly with ctypes, but i only got error messages. Thanks in advance. [1]http://code.google.com/p/cbraid/ -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: VirtualBox testers needed
Anthony Wickstead anthony.wickst...@gmail.com writes: Using 64 bit Ubuntu 12.04 inside VirtualBox 4.14 under Windows 7, I was able to make sage-5.0.1.rc0 with no errors. What hardware CPU does your computer have? Running ./sage –testall resulted in just one error: Sage –t –force_lib “devel/sage/sage/schemes/plane_curves/curve.py” Can you give more detail about what error it was? If you run `./sage -t -force_lib devel/sage/sage/schemes/plane_curves/curve.py` again (in the appropriate directory), do you get the error again? -Keshav Join us in #sagemath on irc.freenode.net ! -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: help wanted with braid groups
On Jun 7, 3:40 pm, mmarco mma...@unizar.es wrote: Both gap4 packages (braid and mapclass) don't deal with braid groups themselves, but with the orbits of a certain actions of them (and more general groups). I mean, they don't implement the usual stuff one would expect in a braid group: normal forms, burau representation, lcm and gcd, conjugation problem... I did notice that mapclass didn't implement mapping class groups, but rather the orbits of certain groups under the MCG. Do you think that your framework would work or be extensible for Artin groups? -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: help wanted with braid groups
With all that in mind, i considered cbraid as a good option, since it is very fast, and small. Other option would be to try to optimize my python code, but i think it will be always be slow. Maybe cythonizing some parts of it would make it faster, but i have noted that cythonizing code only leads to speedups when made very carefully. Also, would the project Braiding which uses cbraid be more useful as an optional/standard spkg? I assume not, just asking. -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: help wanted with braid groups
In the link i gave, both cbraid and braiding are mixed in a single project, also called cbraid. So when i said cbraid i actually meant cbraid+braiding. So far, what i have done is specific for braids. A framework for more general groups (artin or garside, for example) would require a different project. 7 jun, 22:10, kcrisman kcris...@gmail.com wrote: With all that in mind, i considered cbraid as a good option, since it is very fast, and small. Other option would be to try to optimize my python code, but i think it will be always be slow. Maybe cythonizing some parts of it would make it faster, but i have noted that cythonizing code only leads to speedups when made very carefully. Also, would the project Braiding which uses cbraid be more useful as an optional/standard spkg? I assume not, just asking. -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: help wanted with braid groups
I suggest you first make a spkg for cbraid that installs the headers/libary in the appropriate place. Then, do you know how to do your computation within c/c++? Do you want to use the ArtinBraid or BandBraid class? -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
Re: [sage-devel] Has anybody gotten ropemacs working for sage?
Greg, I got something that seems to work. I don't take the time to set up a ropemacs project (since I don't know what I'm doing), but if you could test it to see if it works for you that would be great. If it does work then we can put the instructions on the wiki, and/or make an spkg or something. download pymacs sage -sh easy_install rope easy_install ropemode easy_install ropemacs cd /path/to/pymacs/source make check make install # Not sure what this did if anything -- we install it next cp Pymacs.py $SAGE_ROOT/local/lib/python/ cp Pymacs.el $SAGE_ROOT/data/emacs exit # test it when no longer in sage -sh sage --python -c 'import sys; from Pymacs import main; main(*sys.argv[1:])' -f Then, either create a sage-python shell script: #!/bin/sh sage --python $@ or patch Pymacs.el to add (hopefully where is obvious): (defvar pymacs-python-options '() Options to pass to Python interpreter) (defun pymacs-start-services () ... (append pymacs-python-options (list -c (concat import sys; from Pymacs import main; main(*sys.argv[1:]))) (and (= emacs-major-version 24) '(-f)) (mapcar 'expand-file-name pymacs-load-path)) ... ;; Add the following to .emacs ;; pymacs.el should be in the load-path if sage-mode is... (require 'pymacs) (setq pymacs-python-command sage-command pymacs-python-options '(--python)) (autoload 'pymacs-apply pymacs) (autoload 'pymacs-call pymacs) (autoload 'pymacs-eval pymacs nil t) (autoload 'pymacs-exec pymacs nil t) (autoload 'pymacs-load pymacs nil t) (autoload 'pymacs-autoload pymacs) (pymacs-load ropemacs rope-) (setq ropemacs-enable-autoimport t) (require 'auto-complete) (global-auto-complete-mode t) Then test: M-x pymacs-eval and see the ropemacs menu etc. -Ivan On May 30, 2012, at 10:17 AM, Ivan Andrus wrote: Sorry, I meant to write back earlier. I haven't gotten ropemacs to work, but I haven't tried. I don't have time to work on it right now, but if you open a ticket on https://bitbucket.org/gvol/sage-mode/issues then I'll get around to it eventually. Unfortunately, the installation looks rather complicated. What did you try and how did it fail? Did you install rope and friends in sage's python for example? sage -sh easy_install rope easy_install ropemode easy_install ropemacs In fact perhaps everything would best be done in sage -sh. -Ivan On May 16, 2012, at 4:26 AM, Greg Laun wrote: I'm writing some modules for sage, and I would like to get some auto- completion and refactoring abilities. I can get some things to work, such as pyflakes for code checking, but I would really like ropemacs to work. I see there is a page on the wiki about setting up IDEs, but no mention is made of the emacs IDE features. I know many sage developers use emacs, so I was wondering if anyone had gotten ropemacs or pymacs or something similar to work. If so, would anybody be willing to document the procedure? Thanks! Greg Laun -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] sage-5.0 serious bug: segfaults in basic linear algebra?
Hi Sage-Devel, I'm randomly running into segfaults when multiplying matrices over the integers, in the course of doing basic modular symbols calculations. For example, sometimes (but not always), this crashes: sage: M = ModularSymbols(389,sign=0).cuspidal_submodule().decomposition()[0] ... /Users/wstein/sage/build/sage-5.0/local/lib/python2.7/site-packages/sage/matrix/matrix_rational_dense.so in sage.matrix.matrix_rational_dense.Matrix_rational_dense._multiply_over_integers (sage/matrix/matrix_rational_dense.c:11754)() RuntimeError: Segmentation fault -- I can't reliably get this to happen. I'm observing this on OS X 10.7 with sage-5.0. Anyway, in case anybody else runs into this, please post, since it is obviously a serious obstruction for research. -- william -- William Stein Professor of Mathematics University of Washington http://wstein.org -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: sage-5.0 serious bug: segfaults in basic linear algebra?
On Jun 7, 4:19 pm, William Stein wst...@gmail.com wrote: Hi Sage-Devel, I'm randomly running into segfaults when multiplying matrices over the integers, in the course of doing basic modular symbols calculations. For example, sometimes (but not always), this crashes: sage: M = ModularSymbols(389,sign=0).cuspidal_submodule().decomposition()[0] I observed (once) on Sage 4.7.1 (Fedora 15 x64): sage: %time M = ModularSymbols(389,sign=0).cuspidal_submodule().decomposition()[0] ArithmeticError: subspace is not invariant under matrix I'm not able to reliably reproduce this error either. -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] trac connection error
I haven't seen this before, after logging in to trac.sagemath.org:
Traceback (most recent call last):
File build/bdist.linux-x86_64/egg/trac/web/api.py, line 436, in send_error
data, 'text/html')
File build/bdist.linux-x86_64/egg/trac/web/chrome.py, line 803, in
render_template
message = req.session.pop('chrome.%s.%d' % (type_, i))
File build/bdist.linux-x86_64/egg/trac/web/api.py, line 212, in __getattr__
value = self.callbacks[name](self)
File build/bdist.linux-x86_64/egg/trac/web/main.py, line 298, in
_get_session
return Session(self.env, req)
File build/bdist.linux-x86_64/egg/trac/web/session.py, line 156, in __init__
if req.authname == 'anonymous':
File build/bdist.linux-x86_64/egg/trac/web/api.py, line 212, in __getattr__
value = self.callbacks[name](self)
File build/bdist.linux-x86_64/egg/trac/web/main.py, line 157, in
authenticate
authname = authenticator.authenticate(req)
File build/bdist.linux-x86_64/egg/trac/web/auth.py, line 83, in authenticate
authname = self._get_name_for_cookie(req, req.incookie['trac_auth'])
File build/bdist.linux-x86_64/egg/trac/web/auth.py, line 205, in
_get_name_for_cookie
db = self.env.get_db_cnx()
File build/bdist.linux-x86_64/egg/trac/env.py, line 335, in get_db_cnx
return get_read_db(self)
File build/bdist.linux-x86_64/egg/trac/db/api.py, line 90, in get_read_db
return _transaction_local.db or DatabaseManager(env).get_connection()
File build/bdist.linux-x86_64/egg/trac/db/api.py, line 152, in
get_connection
return self._cnx_pool.get_cnx(self.timeout or None)
File build/bdist.linux-x86_64/egg/trac/db/pool.py, line 172, in get_cnx
return _backend.get_cnx(self._connector, self._kwargs, timeout)
File build/bdist.linux-x86_64/egg/trac/db/pool.py, line 105, in get_cnx
cnx = connector.get_connection(**kwargs)
File build/bdist.linux-x86_64/egg/trac/db/postgres_backend.py,
line 87, in get_connection
params)
File build/bdist.linux-x86_64/egg/trac/db/postgres_backend.py,
line 203, in __init__
port))
OperationalError: FATAL: connection limit exceeded for non-superusers
--
Benjamin Jones
--
To post to this group, send an email to sage-devel@googlegroups.com
To unsubscribe from this group, send an email to
sage-devel+unsubscr...@googlegroups.com
For more options, visit this group at http://groups.google.com/group/sage-devel
URL: http://www.sagemath.org
[sage-devel] Re: trac connection error
I just got this too. Just keep on trying; apparently developing for
Sage is very popular right now :)
On Jun 7, 8:02 pm, Benjamin Jones benjaminfjo...@gmail.com wrote:
I haven't seen this before, after logging in to trac.sagemath.org:
Traceback (most recent call last):
File build/bdist.linux-x86_64/egg/trac/web/api.py, line 436, in send_error
data, 'text/html')
File build/bdist.linux-x86_64/egg/trac/web/chrome.py, line 803, in
render_template
message = req.session.pop('chrome.%s.%d' % (type_, i))
File build/bdist.linux-x86_64/egg/trac/web/api.py, line 212, in
__getattr__
value = self.callbacks[name](self)
File build/bdist.linux-x86_64/egg/trac/web/main.py, line 298, in
_get_session
return Session(self.env, req)
File build/bdist.linux-x86_64/egg/trac/web/session.py, line 156, in
__init__
if req.authname == 'anonymous':
File build/bdist.linux-x86_64/egg/trac/web/api.py, line 212, in
__getattr__
value = self.callbacks[name](self)
File build/bdist.linux-x86_64/egg/trac/web/main.py, line 157, in
authenticate
authname = authenticator.authenticate(req)
File build/bdist.linux-x86_64/egg/trac/web/auth.py, line 83, in
authenticate
authname = self._get_name_for_cookie(req, req.incookie['trac_auth'])
File build/bdist.linux-x86_64/egg/trac/web/auth.py, line 205, in
_get_name_for_cookie
db = self.env.get_db_cnx()
File build/bdist.linux-x86_64/egg/trac/env.py, line 335, in get_db_cnx
return get_read_db(self)
File build/bdist.linux-x86_64/egg/trac/db/api.py, line 90, in get_read_db
return _transaction_local.db or DatabaseManager(env).get_connection()
File build/bdist.linux-x86_64/egg/trac/db/api.py, line 152, in
get_connection
return self._cnx_pool.get_cnx(self.timeout or None)
File build/bdist.linux-x86_64/egg/trac/db/pool.py, line 172, in get_cnx
return _backend.get_cnx(self._connector, self._kwargs, timeout)
File build/bdist.linux-x86_64/egg/trac/db/pool.py, line 105, in get_cnx
cnx = connector.get_connection(**kwargs)
File build/bdist.linux-x86_64/egg/trac/db/postgres_backend.py,
line 87, in get_connection
params)
File build/bdist.linux-x86_64/egg/trac/db/postgres_backend.py,
line 203, in __init__
port))
OperationalError: FATAL: connection limit exceeded for non-superusers
--
Benjamin Jones
--
To post to this group, send an email to sage-devel@googlegroups.com
To unsubscribe from this group, send an email to
sage-devel+unsubscr...@googlegroups.com
For more options, visit this group at http://groups.google.com/group/sage-devel
URL: http://www.sagemath.org
Re: [sage-devel] Re: sage-5.0 serious bug: segfaults in basic linear algebra?
On Thu, Jun 7, 2012 at 4:41 PM, Nils Bruin nbr...@sfu.ca wrote: On Jun 7, 4:19 pm, William Stein wst...@gmail.com wrote: Hi Sage-Devel, I'm randomly running into segfaults when multiplying matrices over the integers, in the course of doing basic modular symbols calculations. For example, sometimes (but not always), this crashes: sage: M = ModularSymbols(389,sign=0).cuspidal_submodule().decomposition()[0] I observed (once) on Sage 4.7.1 (Fedora 15 x64): sage: %time M = ModularSymbols(389,sign=0).cuspidal_submodule().decomposition()[0] ArithmeticError: subspace is not invariant under matrix I'm not able to reliably reproduce this error either. Thanks for reporting this, which is different than what I saw before. -- William -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org -- William Stein Professor of Mathematics University of Washington http://wstein.org -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: Changing password on notebook server?
When I do it in sage5.0 using google chrome I get redirected to the login page. What version of sage and which browser do you use? ps. Hidden sage security easter egg: Is you password longer then 8 characters? Then try to just type the first 8 Le jeudi 7 juin 2012 02:03:48 UTC+2, Nils Bruin a écrit : Can this be confirmed? - Log into a sage notebook - Change password Expected result: - happy computing with a new password Observed outcome 404 Not Found: The resource / cannot be found. Workaround -Quit browser -Start browser and reconnect -New password provides access. -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: Changing password on notebook server?
On 6/7/12 8:41 PM, Maarten Derickx wrote: ps. Hidden sage security easter egg: Is you password longer then 8 characters? Then try to just type the first 8 Until you change your password. A year ago we switched from using crypt to using sha256, so any recent accounts and any recently-changed passwords should not have the 8-character limit. I don't know if this change is in the old notebook. Thanks, Jason -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: Sage server port forwarding
Le jeudi 7 juin 2012 05:20:02 UTC+2, Nils Bruin a écrit : As remarked on: http://wiki.sagemath.org/SageServer it's essentially impossible to safely run sage to natively listen on port 80 or port 443, because these are privileged ports and sage currently doesn't have convenient mechanisms to relinquish privileges after opening the port. Maybe its also worth looking into authbind . I use it for quite a while now to run sage.mderickx.nl nativily on a privaliged port. authbind is a linux tool which allows you to configure which non privaleged users can use which non privaleged ports. Note that in my case I still can't use port 80 or 443 since apache already needs to listen to those ports to server other webpages. -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: Changing password on notebook server?
Le vendredi 8 juin 2012 04:04:07 UTC+2, jason a écrit : On 6/7/12 8:41 PM, Maarten Derickx wrote: ps. Hidden sage security easter egg: Is you password longer then 8 characters? Then try to just type the first 8 Until you change your password. A year ago we switched from using crypt to using sha256, so any recent accounts and any recently-changed passwords should not have the 8-character limit. I don't know if this change is in the old notebook. It's still in the current notebook (at least the one included in 5.0). The file sagenb/notebook/user.py still contains the line: SALT = 'aa' And I verified it in my own sage 5.0 server so this code is still getting used. Note that it could be fixed by a minimal effort of changing this line to SALT = '$1$aa' but this will not be very usefull since flask already has positive review so it will be fixed in the new notebook. Thanks, Jason -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: Changing password on notebook server?
On Jun 7, 6:41 pm, Maarten Derickx m.derickx.stud...@gmail.com wrote: When I do it in sage5.0 using google chrome I get redirected to the login page. What version of sage and which browser do you use? Firefox Sage 5.0. There's something funny with that setup anyway -- sometimes, the logout button doesn't work, which is probably exactly the same problem. So there must be some cookie that doesn't always go away when it should. Unless I find a way to reproduce it on other systems I'll chalk it up to the browser configuration. -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: Changing password on notebook server?
On 6/7/12 9:36 PM, Nils Bruin wrote: Firefox Sage 5.0. Sage 5.0 with the included notebook? Or the new flask notebook (like what is running on *.sagenb.org)? Jason -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: Changing password on notebook server?
On Jun 7, 7:46 pm, Jason Grout jason-s...@creativetrax.com wrote: On 6/7/12 9:36 PM, Nils Bruin wrote: Firefox Sage 5.0. Sage 5.0 with the included notebook? Or the new flask notebook (like what is running on *.sagenb.org)? I'm not that adventurous. Stock Sage 5.0. -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
[sage-devel] Re: trac connection error
This happend in the past also. It was an issue with to many connections to
the database still being open for some reasons. It should be (at least till
for the short future) fixed now.
Le vendredi 8 juin 2012 02:54:05 UTC+2, kcrisman a écrit :
I just got this too. Just keep on trying; apparently developing for
Sage is very popular right now :)
On Jun 7, 8:02 pm, Benjamin Jones benjaminfjo...@gmail.com wrote:
I haven't seen this before, after logging in to trac.sagemath.org:
Traceback (most recent call last):
File build/bdist.linux-x86_64/egg/trac/web/api.py, line 436, in
send_error
data, 'text/html')
File build/bdist.linux-x86_64/egg/trac/web/chrome.py, line 803, in
render_template
message = req.session.pop('chrome.%s.%d' % (type_, i))
File build/bdist.linux-x86_64/egg/trac/web/api.py, line 212, in
__getattr__
value = self.callbacks[name](self)
File build/bdist.linux-x86_64/egg/trac/web/main.py, line 298, in
_get_session
return Session(self.env, req)
File build/bdist.linux-x86_64/egg/trac/web/session.py, line 156, in
__init__
if req.authname == 'anonymous':
File build/bdist.linux-x86_64/egg/trac/web/api.py, line 212, in
__getattr__
value = self.callbacks[name](self)
File build/bdist.linux-x86_64/egg/trac/web/main.py, line 157, in
authenticate
authname = authenticator.authenticate(req)
File build/bdist.linux-x86_64/egg/trac/web/auth.py, line 83, in
authenticate
authname = self._get_name_for_cookie(req, req.incookie['trac_auth'])
File build/bdist.linux-x86_64/egg/trac/web/auth.py, line 205, in
_get_name_for_cookie
db = self.env.get_db_cnx()
File build/bdist.linux-x86_64/egg/trac/env.py, line 335, in
get_db_cnx
return get_read_db(self)
File build/bdist.linux-x86_64/egg/trac/db/api.py, line 90, in
get_read_db
return _transaction_local.db or
DatabaseManager(env).get_connection()
File build/bdist.linux-x86_64/egg/trac/db/api.py, line 152, in
get_connection
return self._cnx_pool.get_cnx(self.timeout or None)
File build/bdist.linux-x86_64/egg/trac/db/pool.py, line 172, in
get_cnx
return _backend.get_cnx(self._connector, self._kwargs, timeout)
File build/bdist.linux-x86_64/egg/trac/db/pool.py, line 105, in
get_cnx
cnx = connector.get_connection(**kwargs)
File build/bdist.linux-x86_64/egg/trac/db/postgres_backend.py,
line 87, in get_connection
params)
File build/bdist.linux-x86_64/egg/trac/db/postgres_backend.py,
line 203, in __init__
port))
OperationalError: FATAL: connection limit exceeded for non-superusers
--
Benjamin Jones
--
To post to this group, send an email to sage-devel@googlegroups.com
To unsubscribe from this group, send an email to
sage-devel+unsubscr...@googlegroups.com
For more options, visit this group at http://groups.google.com/group/sage-devel
URL: http://www.sagemath.org
Re: [sage-devel] Re: Sage server port forwarding
On Thu, Jun 7, 2012 at 7:23 PM, Maarten Derickx m.derickx.stud...@gmail.com wrote: Le jeudi 7 juin 2012 05:20:02 UTC+2, Nils Bruin a écrit : As remarked on: http://wiki.sagemath.org/SageServer it's essentially impossible to safely run sage to natively listen on port 80 or port 443, because these are privileged ports and sage currently doesn't have convenient mechanisms to relinquish privileges after opening the port. Maybe its also worth looking into authbind . I use it for quite a while now to run sage.mderickx.nl nativily on a privaliged port. authbind is a linux tool which allows you to configure which non privaleged users can use which non privaleged ports. Just curious -- by non privaleged here do you mean privileged? Note that in my case I still can't use port 80 or 443 since apache already needs to listen to those ports to server other webpages. -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org -- William Stein Professor of Mathematics University of Washington http://wstein.org -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
Re: [sage-devel] Re: Is left_kernel_matrix missing intentionally?
So William knows my memory is faulty, and I finally overcame my own
laziness and looked at the code (and the ticket where this originated,
http://trac.sagemath.org/sage_trac/ticket/10746). IML, PARI, Sage generic
code produce right kernels. These come in different formats, so one option
for the right_kernel_matrix() function is to do no extra processing of the
result by asking for a computed basis. ('padic' uses IML.)
sage: A = matrix(ZZ,
[[-1, 0, -2, 2, -3],
[1, -1, 4, 0, 0],
[2, -2, 8, 0, 0],
[0, -2, 4, 4, -6]])
sage: A.right_kernel_matrix(algorithm='padic', basis='computed')
[ 2 -2 -1 0 0]
[-2 -2 0 -1 0]
[ 3 3 0 0 -1]
sage: A.right_kernel_matrix(algorithm='pari', basis='computed')
[-1 -1 0 1 1]
[ 1 1 0 2 1]
[-2 2 1 0 0]
Over fields, the results of a basis matrix of a kernel are a list of
vectors as rows, echelonized, whereas the computed basis of the Sage
generic code comes naturally (and simply) from the echelon form.
sage: A.change_ring(QQ).right_kernel_matrix(algorithm='generic',
basis='computed')
[-2 2 1 0 0]
[ 2 2 0 1 0]
[-3 -3 0 0 1]
sage: A.change_ring(QQ).right_kernel().basis_matrix()
[ 10 -1/40 -1/6]
[ 01 1/40 -1/6]
[ 0001 2/3]
The existing code before the ticket had a _right_kernel_matrix() over the
integers, which was called one place
(sage/algebras/quatalg/quaternion_algebra.py) and this was the model for
the new non-underscore method which replaced it (available for almost any
ring).
Previously Sage had a preference for left kernels, so a matrix would be
transposed *before* the call to a specialized procedure that was designed
to compute right kernels. For a right kernel, the matrix would be
transposed to compute a left kernel, then transposed again to be correct
input for the routine. I think this inefficiency is now gone.
I would be in favor of a right kernel matrix having its vectors as
columns. It looks like this would save some transposes on the exit from
the actual routines doing the computations. In refactoring, I was
concentrating on the organization of the code and packaging of the results,
so left a lot of things alone. It looks to me now like some of this old
code could be made more efficient in terms of packaging the results.
However, changing the format of an output of a function like this,
especially for square matrices, would probably be unwise.
Anyway, short answer is that there looks to be some room for further
(minor) improvements. But you'd have to look at the code.
Rob
--
To post to this group, send an email to sage-devel@googlegroups.com
To unsubscribe from this group, send an email to
sage-devel+unsubscr...@googlegroups.com
For more options, visit this group at http://groups.google.com/group/sage-devel
URL: http://www.sagemath.org
[sage-devel] Re: help wanted with braid groups
On Friday, June 8, 2012 1:40:05 AM UTC+6, mmarco wrote: Chevie does have some of this (at least it has something similar to a left normal form, which is the basis for the rest). It can compute the left normal form faster than my python code, but it has some drawbacks: it runs on gap3, which is not even listed as an experimental package (there are some .spkg available in some trac ticket though), and also, the comunication with it is done through a pexpect interface, which has a noticeable overhead. Franco Saliola has written a good gap3 interface for sage: sage: from sage.interfaces.gap3 import Gap3 sage: gap3 = Gap3(command='gap3') Note, however, that gap3 is not bundled with sage and you have to install it yourself. From Franco's documentation: - There is an optional Sage package providing GAP3 pre-packaged with several GAP3 packages: http://trac.sagemath.org/sage_trac/ticket/8906 -- To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org
