SIGs/SciTech/SAGE: Difference between revisions

Revision as of 00:18, 9 September 2012

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

Fedora and other community efforts

People interested helping in packaging/reviewing:

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/

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:

package required build-time dependencies
package required run-time dependencies
package as many optional build-time dependencies as possible
package SAGE itself
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)

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
python-flask-autoindex	Flask-AutoIndex	#839097 Requires
python-flask-babel	Flask-Babel	#839071 Requires
python-flask-silk	Flask-Silk	#839098 Requires

Packages that need changes to work with sagemath

(these are required for the work in progress sagemath-5.2.beta0-1.fc18)

Fedora package	Upstream	Request for Enhancement / status
python-matplotlib	matplotlib	#837156 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	1.2.p2
python-cvxopt	CVXOPT	Review Request Completed, in Fedora	1.1.4.p1
flint	Flint	Review Request Completed, in Fedora	flint-1.5.2.p0
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.p7
iml	IML	Review Request Completed, in Fedora	1.0.1.p14
jinja	Jinja	Already in Fedora	1.2
jmol	Jmol	Already in Fedora: 11.6-8.10506svn	12.2.21.p0
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	20111004
mpfi	MPFI	Review Request Completed, in Fedora	1.5.1
palp	PALP	Review Request Completed, in Fedora	2.1.p1
pynac	pynac	Review Request Completed, Fedora	0.2.4
python-crypto	PyCrypto	Already packaged in Fedora (python-crypto)	2.1.0
python-transaction	python-transaction	Review Request Completed, in Fedora
python-polybori	PolyBoRi	Review Request Complete, in Fedora	0.8.1.p10
python-ZConfig	python-ZConfig	Review Request Completed, in Fedora 12
python-zdaemon	python-zdaemon	Review Request Complete, in Fedora 12
python-ZODB3	python-ZODB3	Review Request Complete, in Fedora
python-zope-filesystem		Review Request Completed, in Fedora
python-zope-interface	python-zope-interface
python-zope-proxy	python-zope-proxy	Review Request Completed, in Fedora
python-zope-testing	python-zope-testing	Review Request Completed, in Fedora 12
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
sphinx	Sphinx	Review Request Complete, in Fedora
pygments	Pygments	Review Request Complete, in Fedora
python-zc-lockfile	zc-lockfile	Review Request Complete, in Fedora
python-zope-event	python-zope-event	Review Request Complete, in Fedora

Packages for which SAGE is upstream

Latest versions found in http://www.sagemath.org/packages/standard/

sage
sage_scripts
rubiks
doc
examples
extcode
elliptic_curves, conway_polynomials, graphs, polytopes_db (ZoDB databases used internally by SAGE)
flintqs (upstream because original upstream deprecated it)

Some of those may or may not be worth packaging as separate SRPMs.

@@ Line 88: / Line 88: @@
 |-
 |[http://admin.fedoraproject.org/pkgdb/packages/name/cddlib cddlib]||[http://www.ifor.math.ethz.ch/%7Efukuda/cdd_home Cddlib]||[https://bugzilla.redhat.com/show_bug.cgi?id=464074 Review Request Completed, in Fedora]||094f.p11
+|-
+|[http://admin.fedoraproject.org/pkgdb/packages/name/cliquer cliquer]||[http://users.tkk.fi/pat/cliquer.html Cliquer]||[https://bugzilla.redhat.com/show_bug.cgi?id=825494 Review Request Completed, in Fedora]||1.2.p11
 |-
 |[http://admin.fedoraproject.org/pkgdb/packages/name/cudd cudd]||[http://vlsi.colorado.edu/~fabio/CUDD/ CUDD]||[https://bugzilla.redhat.com/show_bug.cgi?id=476329 Review Request Completed, in Fedora]||
@@ Line 94: / Line 96: @@
 |-
 |[http://admin.fedoraproject.org/pkgdb/packages/name/givaro givaro ]||[http://ljk.imag.fr/CASYS/LOGICIELS/givaro/ Givaro]||[https://bugzilla.redhat.com/show_bug.cgi?id=475065 Review Request Completed, in Fedora]||
 |-
 |[http://admin.fedoraproject.org/pkgdb/packages/name/python-networkx python-networkx]||[https://networkx.lanl.gov/wiki NetworkX] || [https://bugzilla.redhat.com/show_bug.cgi?id=476350 Review Request Complete, in Fedora]||1.2.p2
@@ Line 149: / Line 150: @@
 |-
 |[http://admin.fedoraproject.org/pkgdb/packages/name/python-zope-testing python-zope-testing ]||[http://pypi.python.org/pypi/zope.testing/ python-zope-testing]||[https://bugzilla.redhat.com/show_bug.cgi?id=476524 Review Request Completed, in Fedora 12]||
+|-
+|[http://admin.fedoraproject.org/pkgdb/packages/name/surf-geometry surf]||[http://surf.sourceforge.net/ Surf]||[https://bugzilla.redhat.com/show_bug.cgi?id=840244 Review Request Completed, in Fedora]||1.1.0
 |-
 |[http://admin.fedoraproject.org/pkgdb/packages/name/symmetrica symmetrica]||[http://www.mathe2.uni-bayreuth.de/axel/symneu_engl.html Symmetrica]||[https://bugzilla.redhat.com/show_bug.cgi?id=475410 Review Request Completed, in Fedora]||2.0.p7

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