SIGs/SciTech/SAGE

This is to help document the process to get SAGE (http://sagemath.org/), the open-source computer algebra/mathematics framework into Fedora.

People

People interested helping in packaging/reviewing:

• Rex Dieter
• Alex Lancaster
• Manuel Wolfshant
• Kevin Kofler
• Neal Becker
• Conrad Meyer
• Matthew Daniels
• Jason Tibbitts
• Thomas Spura
• Finnbarr P. Murphy
• Paulo Andrade
• ...add your name here...

sagemath-5.4 Fedora review request

The "package SAGE itself" goal has been reached!

https://bugzilla.redhat.com/show_bug.cgi?id=877651

It is now possible to build sagemath in rawhide, with minor efforts in f18, and there is a private x86_64 f17 repository at:

http://pcpa.fedorapeople.org/sagemath/f17/

You need this in /etc/yum.repos.d

http://pcpa.fedorapeople.org/sagemath/sagemath-f17.repo

(Note that this backports a very large amount of rawhide packages and will not be maintained once f18 is released)

Dependencies (for which there is a separate upstream)

Missing required components

(If you are working on packaging a component or have filed a review request bug, please note it or link to something here.)

Fedora package	Upstream	Review request / status
cliquer	cliquer	#825494 Missing in f18

Packages that need changes to work with sagemath

Fedora package	Upstream	Request for Enhancement / status
python-matplotlib	matplotlib	#837156 Requires
numpy	scipy	#868585 Requires

Completed (reviewed and built) required components

Fedora package	Upstream	Review request / status	Version in SAGE
cddlib	Cddlib	Review Request Completed, in Fedora	094f.p11
cliquer	Cliquer	Review Request Completed, in Fedora	1.2.p11
cudd	CUDD	Review Request Completed, in Fedora
eclib	EClib	Review Request Completed, in Fedora
givaro	Givaro	Review Request Completed, in Fedora
python-networkx	NetworkX	Review Request Complete, in Fedora	1.6
python-cvxopt	CVXOPT	Review Request Completed, in Fedora	1.1.5
flint	Flint	Review Request Completed, in Fedora	flint-1.5.2.p2
libfpll	FpLLL	Review Request Completed, in Fedora	3.0.12.p2
genus2reduction	Genus2reduction	Review Request Completed, in Fedora	genus2reduction-0.3.p8
gfan	Gfan	Review Request Completed, in Fedora	0.4plus.p3
ghmm	GHMM	Review Request Complete, in Fedora
gmp-ecm	GMP-ECM	Review Request completed, in Fedora	6.3.p8
iml	IML	Review Request Completed, in Fedora	1.0.1.p14
jmol	Jmol	Already in Fedora: 11.6-8.10506svn	12.3.27.p3
L-function	L-function	Review Request Completed, in Fedora	1.23.p10
linbox	Linbox	Review Request Completed, in Fedora
m4ri	M4RI	Review Request complete, in Fedora	20120613
mpfi	MPFI	Review Request Completed, in Fedora	1.5.1
palp	PALP	Review Request Completed, in Fedora	2.1.p0
pynac	pynac	Review Request Completed, Fedora	0.2.5
python-crypto	PyCrypto	Already packaged in Fedora (python-crypto)	2.1.0
python-polybori	PolyBoRi	Review Request Complete, in Fedora	0.8.2
python-ZODB3	python-ZODB3	Review Request Complete, in Fedora
surf	Surf	Review Request Completed, in Fedora	1.1.0
symmetrica	Symmetrica	Review Request Completed, in Fedora	2.0.p7
sympy	Sympy	Review Request Completed, in Fedora	0.7.1.p0
scipy	Weave	Already in scipy.	0.9.p1
sympow	Sympow	Review Request Complete, in Fedora	1.018.1.p11

Packages for which SAGE is upstream

Latest versions found in http://www.sagemath.org/packages/standard/ that may be worth packaging as separate SRPMS or different subpackages:

sage	could be named python-sagemath for %{python_sitearch}/sage contents but may not be fully functional without a few "system overrides" in $SAGE_ROOT/site-packages
sage_scripts	the main sagemath package requiring all python modules
rubiks	there are 3 solvers, but only 2 with functional upstream link, therefore should use sagemath spkg
doc	can be made optional in a sagemath-doc package for users that would prefer to access documentation from elsewhere or are good enough with the python docstrings
extcode	interfaces to other systems or customizations, could/should be made an optional, but a very small package
notebook	%{python_sitearch}/sagenb contents, needs some testing, but may be useful if one wants only the command line interface
elliptic_curves, conway_polynomials, graphs, polytopes_db	ZoDB databases used internally by SAGE
flintqs	upstream because original upstream deprecated it

Cross-distribution efforts

• Debian: Tim Abbott's list of SAGE-related Debian packages. Some of these Debian packages may include some patches for the dependencies that may be required for SAGE that have not yet been pushed upstream (older unmaintained wiki page http://wiki.sagemath.org/devel/DebianSage)
• PcLinuxOS: http://www.mypclinuxos.com/forum/index.php?topic=1509.msg13532#msg13532
• Mandriva: http://svn.mandriva.com/cgi-bin/viewvc.cgi/packages/cooker/sagemath/

Historical discussion

On fedora-devel KevinKofler points out that:

One problem will be that they're bundling many third-party components which should
be packaged separately:

http://sage.math.washington.edu/sage/doc/html/inst/intro.html

So the first step is to track down which of these dependencies are in Fedora
already, whether they need any patches to work with SAGE, whether they are
build-time (BuildRequires) dependencies, run-time (Requires) dependencies or
both, whether they're required or optional and package those which are not in
Fedora yet.

He suggests the following order:

1. package required build-time dependencies
2. package required run-time dependencies
3. package as many optional build-time dependencies as possible
4. package SAGE itself
5. package optional run-time dependencies (and decide on a case by case basis whether it makes sense to add them as actual Requires: dependencies to the package or not)

Required components that SAGE ships with: http://sagemath.org/packages/standard/

Optional components that SAGE ships with: http://sagemath.org/packages/optional/

(a manual list with descriptions which may vary somewhat with respect to the above is at http://sagemath.org/links-components.html) (See also: http://wiki.sagemath.org/days6/sprint/debian)