SIGs/SciTech/SAGE: Difference between revisions

Revision as of 20:42, 25 June 2009

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/DebianSAGE)
PcLinuxOS: http://www.mypclinuxos.com/forum/index.php?topic=1509.msg13532#msg13532

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
[1]	EClib	Review Request
	G95	Not needed, we can use gcc-gfortran instead. ^[1]
	GAP	This is large (they claim you need 500M of disk)
[2]	GHMM	Review Request
[3]	Givaro	Review Request
	JsMath
[4]	Linbox	Review Request
[5]	pynac	Review Request
[6]	python-ZConfig	Review Request
[7]	python-zc-lockfile	Review Request
[8]	python-zdaemon	Review Request
[9]	python-ZODB3	Review Request
[10]	python-zope-event	Review Request
[11]	python-zope-proxy	Review Request
[12]	python-zope-testing	Review Request
	Singular	I (konradm) started working on this but haven't gotten very far.
	sphinx, pygments	[recently added to SAGE, need to check status]

Completed (reviewed and built) required components

Fedora package	Upstream	Review request / status	Version in SAGE
cddlib	Cddlib	Review Request Completed, in Fedora	094b.p3
cudd	CUDD	Review Request Completed, in Fedora
eclib	EClib	Review Request Completed, in Fedora
python-networkx	NetworkX	Review Request Complete, in Fedora	0.99
python-cvxopt	CVXOPT	Review Request Completed, in Fedora	0.9.p7
flint	Flint	Review Request Completed, in Fedora	flint-1.0.21.p0
libfpll	FpLLL	Review Request Completed, in Fedora	2.1.6-20071129.p5
genus2reduction	Genus2reduction	Review Request Completed, in Fedora	genus2reduction-0.3.p4
gfan	Gfan	Review Request Completed, in Fedora	0.3.p4
gmp-ecm	GMP-ECM	Review Request completed, in Fedora	4.2.2.p1.fake
iml	IML	Review Request Completed, in Fedora	1.0.1.p11
jinja	Jinja	Already in Fedora	1.2
jmol	Jmol	Already in Fedora: 11.6-8.10506svn	11.6.16.p0
L-function	L-function	Review Request Completed, in Fedora	20080205.p2
m4ri	M4RI	Review Request complete, in Fedora	20080909
mpfi	MPFI	Review Request Completed, in Fedora	1.3.4-cvs20071125.p7
palp	PALP	Review Request Completed, in Fedora	1.1.p1
python-crypto	PyCrypto	Already packaged in Fedora (python-crypto)	2.0.1.p2
python-transaction	python-transaction	Review Request Completed, in Fedora
python-polybori	PolyBoRi	Review Request Complete, in Fedora	5.5
python-zope-filesystem		Review Request Completed, in Fedora
python-zope-interface	python-zope-interface
qd	Qd	Review Request Complete, in Fedora [may removed from SAGE soon]	2.3.7
symmetrica	Symmetrica	Review Request Completed, in Fedora	2.0.p2
sympy	Sympy	Review Request Completed, in Fedora	0.6.3.p0
scipy	Weave	Already in scipy.	0.4.9
sympow	Sympow	Review Request Complete, in Fedora	1.019

Packages for which SAGE is upstream

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

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

References

↑ From upstream's readme.txt: "If you're using Fortran on a platform without g95 binaries included with Sage, e.g., Itanium, you must use a system-wide gfortran.". So they support gfortran and even system-wide installations of it.

[1] From upstream's readme.txt: "If you're using Fortran on a platform without g95 binaries included with Sage, e.g., Itanium, you must use a system-wide gfortran.". So they support gfortran and even system-wide installations of it.

[1]

@@ Line 100: / Line 100: @@
 |-
 |[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]||
+|-
+|[http://admin.fedoraproject.org/pkgdb/packages/name/eclib eclib ]||[http://www.warwick.ac.uk/staff/J.E.Cremona/ EClib]||[https://bugzilla.redhat.com/show_bug.cgi?id=476398 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]||0.99

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