Add M4RIE to Sage

[malb]

M4RIE is a library for linear algebra over small extension of GF(2). It is still in an early stage but already offers performance comparable to Magma for many inputs and is more than 1000 times faster than what we have in Sage right now.

Upstream: http://bitbucket.org/malb/m4rie/

Sage Days 24 coding sprint: http://wiki.sagemath.org/days24/projects/gf2e

• Install http://sage.math.washington.edu/home/malb/spkgs/libm4rie-20111004.spkg
• Apply attachment: m4rie_for_sage.patch
• Apply attachment: m4rie_spkg.patch to Sage root repository

There was a vote on sage-devel, recommending to add this as a standard spkg.

Depends on #11757
Depends on #4260

CC: @sagetrac-mvngu @simon-king-jena

Component: packages: standard

Keywords: m4ri, sd32

Author: Martin Albrecht

Reviewer: Paul Zimmermann, Simon King

Merged: sage-4.8.alpha3

Issue created by migration from https://trac.sagemath.org/ticket/9562

[malb]

Description changed:

--- 
+++ 
@@ -1 +1,5 @@
 M4RIE is a library for linear algebra over small extension of GF(2). It is still in an early stage but already offers performance comparable to Magma for many inputs and is more than 1000 times faster than what we have in Sage right now.
+
+Upstream: http://bitbucket.org/malb/m4rie/
+
+Sage Days 24 coding sprint: http://wiki.sagemath.org/days24/projects/gf2e

[malb]

comment:2

The SPKG is here:

http://sage.math.washington.edu/home/malb/spkgs/libm4ri-20100730.spkg

[malb]

comment:3

The attached patch depends on #9475

[malb]

comment:4

The package compiles on t2. sage-check fails because libstdc++ cannot be found (I believe this is due to a problem in the old Sage I have on t2). I cannot apply my patch against this old version of Sage either.

[mwhansen]

comment:5

This builds a static library only on Cygwin, but segfaults on both of the tests.

[malb]

comment:6

Mike, is there a Sage I can copy on winxp1?

[malb]

comment:7

sage -t  devel/sage/sage/modular/modsym/space.py # 1 doctests failed
sage -t  devel/sage/sage/misc/sagedoc.py # 3 doctests failed
sage -t  devel/sage/sage/crypto/mq/mpolynomialsystem.py # 19 doctests failed
sage -t  devel/sage/sage/crypto/mq/sr.py # 7 doctests failed
sage -t  devel/sage/sage/modular/modsym/modsym.py # 1 doctests failed
sage -t  devel/sage/sage/rings/polynomial/pbori.pyx # 2 doctests failed
sage -t  devel/sage/sage/crypto/block_cipher/miniaes.py # 72 doctests failed

[sagetrac-drkirkby]

comment:8

Replying to @malb:

The package compiles on t2. sage-check fails because libstdc++ cannot be found (I believe this is due to a problem in the old Sage I have on t2). I cannot apply my patch against this old version of Sage either.

There's a Sage 4.5.1 package in /usr/local.

[malb]

comment:9

After unpacking that I get

     21 from numpy.lib import triu
---> 22 from numpy.linalg import lapack_lite
     23 from numpy.core.defmatrix import matrix_power
     24 

ImportError: ld.so.1: python: fatal: libgfortran.so.3: open failed: No such file or directory
Error importing ipy_profile_sage - perhaps you should run %upgrade?
WARNING: Loading of ipy_profile_sage failed.

Any ideas?

[malb]

comment:10

The updated patch fixes all doctest failures. 

PS: CCing Minh since I'm touching his code in a potentially non-trivial way/