Differences between revisions 1 and 12 (spanning 11 versions)

This page is outdated.

- Up-to-date information for the latest Sage release can be found in the Sage reference manual.
- Up-to-date information of the current development version can be found in the Sage source tree: https://git.sagemath.org/sage.git/tree/build/pkgs.
- The Sage Developer Guide includes some information on including packages into the source code.

SPKGs (outdated partial list)

https://trac.sagemath.org/ticket/29655 will review the information below and include useful bits in the source tree.

Spkg	Upstream Weblink	Includes a spkg-src? (NY = updates manually)	Purpose	Standard?
beautifulsoup	https://www.crummy.com/software/BeautifulSoup/	?	Screen-scraping library (sits atop html/xml parser)	"pip"
benzene	? Assuming http://www.grinvin.org/	NY	Efficient generation of all nonisomorphic fusenes and benzenoids	Optional
biopython	http://biopython.org/	?	Python tools for computational molecular biology	"pip"
bliss	http://www.tcs.tkk.fi/Software/bliss	(AUTO UPDATES)	Computing automorphism groups and canonical forms of graphs	Optional
boost	http://www.boost.org/	NY	"Portable C++ Libraries"	Optional
boost_cropped	Same as above	includes spkg-src	?	Standard
brial	https://github.com/BRiAl/BRiAl	NY	Various; successor to PolyBoRi	Standard
brian	https://pypi.python.org/pypi/brian http://briansimulator.org/	?	A clock-driven simulator for spiking neural networks	"pip"
buckygen	http://caagt.ugent.be/buckygen/	NY	Efficient generation of all nonisomorphic fullerenes	Optional
bzip2	http://www.bzip.org/	(AUTO UPDATES)	Data compressor	Standard
cbc	https://projects.coin-or.org/Cbc	NY	Open-source mixed integer programming solver written in C++	Optional
ccache	https://ccache.samba.org/	NY	Compiler cache; supports C, C++, Objective-C, and Objective-C++	Optional
cddlib	https://www.inf.ethz.ch/personal/fukudak/cdd_home/	(AUTO UPDATES)	C implementation of the Double Description Method of Motzkin	Standard
cephes	http://www.moshier.net/	NY	Mathematical library in/for C	Standard
certifi	http://certifi.io/	NY	Python package for providing Mozilla's CA Bundle	Standard
cliquier	https://users.aalto.fi/~pat/cliquer.html	(AUTO UPDATES)	Set of C routines for finding cliques in an arbitrary weighted graph	Standard
cmake	https://cmake.org/	NY	CMake is a cross-platform build system generator	Experimental
combinatoral_designs	?	NY	Data for combinatoral designs	Standard
compilerwrapper	https://bitbucket.org/vbraun/compilerwrapper	NY	A wrapper for compiler and binutils	Experimental
configparser	https://docs.python.org/3/library/configparser.html	NY	Exists for compatiblity with Python2	Standard
configure	Auto-generated by Sage	Auto-generated by Sage	shipped in case sufficiently recent autotools not installed	Base
conway_polynomials	extends Sage library	NY?	Small database of Conway Polynomials	Standard
coxeter3	http://math.univ-lyon1.fr/~ducloux/coxeter/coxeter3/english/coxeter3_e.html	NY	Wraps Fokko Ducloux's Coxeter 3 C++ library	Optional
cryptominisat	https://www.msoos.org/	NY	(To be) an efficient sequential, parallel and distributed solver	Experimental
csdp	https://projects.coin-or.org/Csdp	(AUTO UPDATES)	A fast SDP solver written in C	Optional
cvxopt	http://cvxopt.org/	NY	Convex optimization based on Python	Standard
cycler	http://matplotlib.org/cycler/	NY	A small break of of matplotlib to deal with "composable cycles"	Standard
cysignals	https://github.com/sagemath/cysignals	NY	Interrupt and signal handling for Cython	Standard
cython	http://cython.org/	NY	C extensions for Python	Standard
d3js	https://d3js.org/	(AUTO UPDATES)	JavaScript library for manipulating documents based on data	Optional
database_cremona_ellcurve	https://github.com/JohnCremona/ecdata	NY	John Cremona's database of elliptic curves	Optional
database_gap	https://www.gap-system.org/	(AUTO UPDATE)	The databases of GAP: finite groups and tables of marks	Optional
database_kohel
database_mutation_class
database_odlyzko_zeta
database_pari
database_stein_watkins
database_stein_watkins_mini
database_symbolic_data
dateutil	https://pypi.python.org/pypi/python-dateutil	NY	Extensions to Python dateutil	Standard
decorator	?	NY	"Better living through Python with decorators"	Standard
docutils	http://docutils.sourceforge.net/	NY	A modular system for processing documentation into useful formats, such as HTML, XML, and LaTeX.	Standard
doc2tex	https://pypi.python.org/pypi/dot2tex	NY	A Graphviz to LaTeX converter	Optional
ecl	https://common-lisp.net/project/ecl/	(AUTO UPDATES)	Implementation of the Common Lisp language	Standard
eclib	https://github.com/JohnCremona/eclib	NY	Enumerating and computing with elliptic curves defined over the rational numbers	Standard
ecm	http://gforge.inria.fr/projects/ecm/	NY	Elliptic Curve Method for Integer Factorization	Standard
elliptic_curves		NY	Two databases for elliptic curves, from John Cremona and William Stein	Standard
entrypoints	https://github.com/takluyver/entrypoints	NY, but also has special setup	Discover and load entry points from installed packages	Standard
fflas_ffpak	http://www.linalg.org/linbox/fflas-ffpack/	NY	Source code library for dense linear algebra over word-size finite fields	Standard
flask	http://flask.pocoo.org/	NY	Web micro-framework	Standard
flask_autoindex	?	NY	The mod_autoindex for Flask	Standard
flask_babel	?	NY	Adds i18n/l10n support to Flask applications	Standard
flask_oldsessions	?	NY	Provides a session class	Standard
flask_openid	?	NY	OpenID support for Flask	Standard
flask_silk	?	NY	Adds silk icons to your Flask application or blueprint, or extension	Standard
flint	http://www.flintlib.org/	NY	Fast Library for Number Theory	Standard
flintqs	http://www.friedspace.com/QS/	NY	Multi-polynomial quadratic sieve for integer factorization	Standard
fyplll	https://github.com/fplll/fpylll	NY	Python interface for fpll (Lattice algorithms using floating-point arithmetic)	Standard
freetype	https://www.freetype.org/	NY	Software library to render fonts	Standard
fricas	https://fricas.sourceforge.net/	NY	Advanced CAS	Experimental
frobby	http://www.broune.com/frobby/	NY	Provides a number of computations on monomial ideals	Optional
functools32	https://pypi.python.org/pypi/functools32	NY	Backport of the functools module from Python 3.2.3	Standard
future	https://pypi.python.org/pypi/future/	NY	future is the missing compatibility layer between Python 2 and Python 3	Standard

-  ⇤ ← Revision 1 as of 2009-07-10 18:47:21 → 
  Size: 1551
  Editor: Minh Nguyen
  Comment: Explain what spkg's are
+   ← Revision 12 as of 2020-12-29 03:21:18 → ⇥
  Size: 7816
  Editor: mkoeppe
  Comment: Remove absorbed/outdated spkg for b*
-Deletions are marked like this.
+Additions are marked like this.
 Line 1:
-= Sage .spkg files =
+This page is outdated.
 Line 3:
-Files with the extension ".spkg" are known as Sage packages. The directory {{{SAGE_ROOT/spkg/standard}}} contains the standard SPKG's. In a source install of Sage, this directory contains all the standard Sage spkg files (actually .tar or .tar.bz2 files), which are the source code that defines Sage. In a binary install, some of these may be small placeholder files to save space.
+ - Up-to-date information for the latest Sage release can be found in the [[https://doc.sagemath.org/html/en/reference/spkg/ |Sage reference manual]].
 Line 5:
-Sage packages are distributed as ".spkg" files, which are .tar.bz2 files (or tar files) but have the extension ".spkg" to discourage confusion. Although Sage packages are packed using tar and/or bzip2, please note that ".spkg" files contain control information (installation scripts and metadata) that are necessary for building and installing them. For source distributions, when you compile Sage the file {{{SAGE_ROOT/makefile}}} takes care of the unpacking, compilation, and installation of Sage packages for you. For more information on the structure of {{{.spkg}}} files, please refer to the Sage Developer's Guide
in your local installation of Sage at
{{{
SAGE_ROOT/sage/doc/output/html/en/developer/index.html
}}}
If you cannot locate that file in your local installation of Sage, you might want to consider (re)building the standard Sage documentation using this command:
{{{
SAGE_ROOT/sage -docbuild all html
}}}
or refer to the [[http://www.sagemath.org/doc/developer/|online Sage developer's guide]]. Additional Sage packages can be found at the [[http://www.sagemath.org/download-packages.html|packages download page]].
+ - Up-to-date information of the current development version can be found in the Sage source tree: [[https://git.sagemath.org/sage.git/tree/build/pkgs]].

 - The Sage [[http://doc.sagemath.org/html/en/developer/index.html|Developer Guide]] includes some information on including packages into the source code.

= SPKGs (outdated partial list) =

https://trac.sagemath.org/ticket/29655 will review the information below and include useful bits in the source tree.


||'''Spkg''' ||'''Upstream Weblink''' ||'''Includes a spkg-src? (NY = updates manually)''' ||'''Purpose''' ||'''Standard?''' ||
|| beautifulsoup || [[https://www.crummy.com/software/BeautifulSoup/]]  || ? || Screen-scraping library (sits atop html/xml parser) || "pip" ||
|| benzene || ? Assuming http://www.grinvin.org/ || NY || Efficient generation of all nonisomorphic fusenes and benzenoids || Optional ||
|| biopython || [[http://biopython.org/]] || ? || Python tools for computational molecular biology || "pip" ||
|| bliss || [[http://www.tcs.tkk.fi/Software/bliss]]|| (AUTO UPDATES) ||Computing automorphism groups and canonical forms of graphs || Optional ||
|| boost || [[http://www.boost.org/]]|| NY || "Portable C++ Libraries" || Optional ||
|| boost_cropped || Same as above || includes spkg-src || ? || Standard ||
|| brial || [[https://github.com/BRiAl/BRiAl]] || NY || Various; successor to PolyBoRi || Standard ||
|| brian || [[https://pypi.python.org/pypi/brian]] [[http://briansimulator.org/]] || ? || A clock-driven simulator for spiking neural networks || "pip" ||
|| buckygen || [[http://caagt.ugent.be/buckygen/]] || NY || Efficient generation of all nonisomorphic fullerenes || Optional ||
|| bzip2 || [[http://www.bzip.org/]] || (AUTO UPDATES) || Data compressor || Standard ||
|| cbc || [[https://projects.coin-or.org/Cbc]] || NY || Open-source mixed integer programming solver written in C++ || Optional ||
|| ccache || [[https://ccache.samba.org/]] || NY || Compiler cache; supports C, C++, Objective-C, and Objective-C++ || Optional ||
|| cddlib ||[[https://www.inf.ethz.ch/personal/fukudak/cdd_home/]]|| (AUTO UPDATES) ||C implementation of the Double Description Method of Motzkin||Standard||
|| cephes || [[http://www.moshier.net/]] || NY || Mathematical library in/for C || Standard||
|| certifi || [[http://certifi.io/]] || NY || Python package for providing Mozilla's CA Bundle || Standard ||
|| cliquier || [[https://users.aalto.fi/~pat/cliquer.html]] || (AUTO UPDATES) ||Set of C routines for finding cliques in an arbitrary weighted graph ||Standard||
|| cmake || [[https://cmake.org/]] || NY || CMake is a cross-platform build system generator || Experimental ||
|| combinatoral_designs || ? || NY || Data for combinatoral designs || Standard ||
|| compilerwrapper || [[https://bitbucket.org/vbraun/compilerwrapper]] || NY || A wrapper for compiler and binutils || Experimental ||
|| configparser || [[https://docs.python.org/3/library/configparser.html]] || NY || Exists for compatiblity with Python2 || Standard ||
|| configure || Auto-generated by Sage || Auto-generated by Sage || shipped in case sufficiently recent autotools not installed || Base ||
|| conway_polynomials || extends Sage library || NY? || Small database of Conway Polynomials || Standard ||
|| coxeter3 || [[http://math.univ-lyon1.fr/~ducloux/coxeter/coxeter3/english/coxeter3_e.html]] || NY || Wraps Fokko Ducloux's Coxeter 3 C++ library || Optional||
|| cryptominisat || [[https://www.msoos.org/]] || NY || (To be) an efficient sequential, parallel and distributed solver || Experimental ||
|| csdp || [[https://projects.coin-or.org/Csdp]] || (AUTO UPDATES) || A fast SDP solver written in C || Optional ||
|| cvxopt || [[http://cvxopt.org/]] || NY || Convex optimization based on Python || Standard ||
|| cycler || [[http://matplotlib.org/cycler/]] || NY || A small break of of matplotlib to deal with "composable cycles" || Standard ||
|| cysignals || [[https://github.com/sagemath/cysignals]] || NY || Interrupt and signal handling for Cython || Standard ||
|| cython || [[http://cython.org/]] || NY || C extensions for Python || Standard ||
|| d3js || [[https://d3js.org/]] || (AUTO UPDATES) || JavaScript library for manipulating documents based on data || Optional ||
|| database_cremona_ellcurve || [[https://github.com/JohnCremona/ecdata]] || NY || John Cremona's database of elliptic curves || Optional ||
|| database_gap || [[https://www.gap-system.org/]] || (AUTO UPDATE) || The databases of GAP: finite groups and tables of marks || Optional ||
|| database_kohel ||
|| database_mutation_class ||
|| database_odlyzko_zeta ||
|| database_pari ||
|| database_stein_watkins ||
|| database_stein_watkins_mini ||
|| database_symbolic_data ||
|| dateutil || [[https://pypi.python.org/pypi/python-dateutil]] || NY || Extensions to Python dateutil || Standard ||
|| decorator || ? || NY || "Better living through Python with decorators" || Standard ||
|| docutils || [[http://docutils.sourceforge.net/]] || NY || A modular system for processing documentation into useful formats, such as HTML, XML, and LaTeX.|| Standard ||
|| doc2tex || [[https://pypi.python.org/pypi/dot2tex]] || NY || A Graphviz to LaTeX converter || Optional ||
|| ecl || [[https://common-lisp.net/project/ecl/]] || (AUTO UPDATES) || Implementation of the Common Lisp language || Standard ||
|| eclib || [[https://github.com/JohnCremona/eclib]] || NY || Enumerating and computing with elliptic curves defined over the rational numbers || Standard ||
|| ecm || [[http://gforge.inria.fr/projects/ecm/]] || NY || Elliptic Curve Method for Integer Factorization || Standard ||
|| elliptic_curves || || NY || Two databases for elliptic curves, from John Cremona and William Stein || Standard ||
|| entrypoints || [[https://github.com/takluyver/entrypoints]] || NY, but also has special setup || Discover and load entry points from installed packages || Standard||
|| fflas_ffpak || [[http://www.linalg.org/linbox/fflas-ffpack/]] || NY || Source code library for dense linear algebra over word-size finite fields ||Standard ||
|| flask || [[http://flask.pocoo.org/]] || NY || Web micro-framework || Standard||
|| flask_autoindex || ? || NY || The mod_autoindex for Flask || Standard ||
|| flask_babel || ? || NY || Adds i18n/l10n support to Flask applications || Standard ||
|| flask_oldsessions || ? || NY || Provides a session class || Standard ||
|| flask_openid || ? || NY || OpenID support for Flask || Standard||
|| flask_silk || ? || NY || Adds silk icons to your Flask application or blueprint, or extension || Standard ||
|| flint || [[http://www.flintlib.org/]] || NY || Fast Library for Number Theory || Standard ||
|| flintqs || [[http://www.friedspace.com/QS/]] || NY || Multi-polynomial quadratic sieve for integer factorization || Standard ||
|| fyplll || [[https://github.com/fplll/fpylll]] || NY || Python interface for fpll (Lattice algorithms using floating-point arithmetic) || Standard ||
|| freetype || [[https://www.freetype.org/]] || NY || Software library to render fonts || Standard ||
|| fricas || [[https://fricas.sourceforge.net/]] || NY || Advanced CAS || Experimental ||
|| frobby || [[http://www.broune.com/frobby/]] || NY || Provides a number of computations on monomial ideals || Optional ||
|| functools32 || [[https://pypi.python.org/pypi/functools32]] || NY || Backport of the functools module from Python 3.2.3 || Standard ||
|| future || [[https://pypi.python.org/pypi/future/]] || NY || future is the missing compatibility layer between Python 2 and Python 3 || Standard ||

Diff for "spkg"

SPKGs (outdated partial list)