7a18bd9e74
TEXLIVE-UPDMAP.CFG and TEXLIVE-TINY should only be used as native inputs. Also remove texlive packages already provided by them. * doc/build.scm (pdf-manual): * gnu/packages/algebra.scm (pari-gp): * gnu/packages/bioinformatics.scm (discrover): (phyml): (velvet): * gnu/packages/chemistry.scm (yaehmop): * gnu/packages/chez.scm (stex-bootstrap): (chez-web): (chez-sockets): * gnu/packages/cran.scm (r-prereg): * gnu/packages/docbook.scm (dblatex): * gnu/packages/emacs-xyz.scm (emacs-auctex): * gnu/packages/engineering.scm (fastcap): * gnu/packages/fsf.scm (book-faif): * gnu/packages/graphviz.scm (dot2tex): * gnu/packages/maths.scm (hypre): * gnu/packages/ocaml.scm (unison): (ocaml-bibtex2html): * gnu/packages/plotutils.scm (asymptote): * gnu/packages/python-xyz.scm (python-nbconvert): (python-pypandoc): * gnu/packages/radio.scm (gnuradio): (libosmo-dsp): * gnu/packages/statistics.scm (r-with-tests): * gnu/packages/tex.scm (texlive-makecmds): (texlive-innerscript): (teximpatient): (texlive-xkeyval): Remove texlive packages already provided by TEXLIVE-UPDMAP.CFG. Don't add TEXLIVE-TINY or TEXLIVE-UPDMAP.CFG as inputs.
447 lines
16 KiB
Scheme
447 lines
16 KiB
Scheme
;;; GNU Guix --- Functional package management for GNU
|
||
;;; Copyright © 2013, 2015, 2021, 2023 Ludovic Courtès <ludo@gnu.org>
|
||
;;; Copyright © 2015, 2020 Efraim Flashner <efraim@flashner.co.il>
|
||
;;; Copyright © 2016 Theodoros Foradis <theodoros@foradis.org>
|
||
;;; Copyright © 2017, 2018, 2019, 2022 Ricardo Wurmus <rekado@elephly.net>
|
||
;;; Copyright © 2017, 2018 Tobias Geerinckx-Rice <me@tobias.gr>
|
||
;;; Copyright © 2017 Gábor Boskovits <boskovits@gmail.com>
|
||
;;; Copyright © 2018 Mathieu Lirzin <mthl@gnu.org>
|
||
;;; Copyright © 2020, 2022 Marius Bakke <marius@gnu.org>
|
||
;;; Copyright © 2020 Vincent Legoll <vincent.legoll@gmail.com>
|
||
;;; Copyright © 2020 Pjotr Prins <pjotr.guix@thebird.nl>
|
||
;;; Copyright © 2021 Bonface Munyoki Kilyungi <me@bonfacemunyoki.com>
|
||
;;; Copyright © 2021 Giacomo Leidi <goodoldpaul@autistici.org>
|
||
;;; Copyright © 2021 Justin Veilleux <terramorpha@cock.li>
|
||
;;; Copyright © 2021 Denis 'GNUtoo' Carikli <GNUtoo@cyberdimension.org>
|
||
;;;
|
||
;;; This file is part of GNU Guix.
|
||
;;;
|
||
;;; GNU Guix is free software; you can redistribute it and/or modify it
|
||
;;; under the terms of the GNU General Public License as published by
|
||
;;; the Free Software Foundation; either version 3 of the License, or (at
|
||
;;; your option) any later version.
|
||
;;;
|
||
;;; GNU Guix is distributed in the hope that it will be useful, but
|
||
;;; WITHOUT ANY WARRANTY; without even the implied warranty of
|
||
;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
|
||
;;; GNU General Public License for more details.
|
||
;;;
|
||
;;; You should have received a copy of the GNU General Public License
|
||
;;; along with GNU Guix. If not, see <http://www.gnu.org/licenses/>.
|
||
|
||
(define-module (gnu packages graphviz)
|
||
#:use-module (guix packages)
|
||
#:use-module (guix build-system gnu)
|
||
#:use-module (guix build-system pyproject)
|
||
#:use-module (guix build-system python)
|
||
#:use-module (guix download)
|
||
#:use-module (guix git-download)
|
||
#:use-module (guix utils)
|
||
#:use-module (guix gexp)
|
||
#:use-module (gnu packages)
|
||
#:use-module (gnu packages autotools)
|
||
#:use-module (gnu packages bison)
|
||
#:use-module (gnu packages check)
|
||
#:use-module (gnu packages compression)
|
||
#:use-module (gnu packages fontutils)
|
||
#:use-module (gnu packages gd)
|
||
#:use-module (gnu packages glib)
|
||
#:use-module (gnu packages gnome)
|
||
#:use-module (gnu packages gtk)
|
||
#:use-module (gnu packages guile)
|
||
#:use-module (gnu packages image)
|
||
#:use-module (gnu packages pkg-config)
|
||
#:use-module (gnu packages python)
|
||
#:use-module (gnu packages python-build)
|
||
#:use-module (gnu packages python-check)
|
||
#:use-module (gnu packages python-xyz)
|
||
#:use-module (gnu packages sphinx)
|
||
#:use-module (gnu packages swig)
|
||
#:use-module (gnu packages tex)
|
||
#:use-module (gnu packages xml)
|
||
#:use-module (gnu packages xorg)
|
||
#:use-module ((guix licenses) #:prefix license:))
|
||
|
||
(define-public graphviz
|
||
(package
|
||
(name "graphviz")
|
||
(version "7.0.1")
|
||
(source (origin
|
||
(method url-fetch)
|
||
(uri (string-append "https://gitlab.com/api/v4/projects/4207231"
|
||
"/packages/generic/graphviz-releases/"
|
||
version "/graphviz-" version ".tar.xz"))
|
||
(sha256
|
||
(base32
|
||
"1b6x3g03j7q77lzyvdp34hkzld5sg1l1ippc6sh1qxnmm59xs3ly"))))
|
||
(build-system gnu-build-system)
|
||
(arguments
|
||
;; FIXME: rtest/rtest.sh is a ksh script (!). Add ksh as an input.
|
||
(list #:tests? #f
|
||
#:phases
|
||
#~(modify-phases %standard-phases
|
||
(add-after 'install 'move-guile-bindings
|
||
(lambda* (#:key outputs #:allow-other-keys)
|
||
(let* ((lib (string-append #$output "/lib"))
|
||
(extdir (string-append lib "/guile/"
|
||
#$(version-major+minor
|
||
(package-version
|
||
(this-package-input "guile")))
|
||
"/extensions")))
|
||
(mkdir-p extdir)
|
||
(rename-file (string-append
|
||
lib "/graphviz/guile/libgv_guile.so")
|
||
(string-append extdir
|
||
"/libgv_guile.so"))))))))
|
||
(inputs
|
||
(list libxrender
|
||
libx11
|
||
gts
|
||
gd
|
||
guile-3.0 ;Guile bindings
|
||
pango
|
||
fontconfig
|
||
freetype
|
||
libltdl
|
||
libxaw
|
||
expat
|
||
libjpeg-turbo
|
||
libpng))
|
||
(native-inputs
|
||
(list bison
|
||
pkg-config
|
||
swig))
|
||
(outputs '("out" "doc")) ;5 MiB of html + pdfs
|
||
(home-page "https://www.graphviz.org/")
|
||
(synopsis "Graph visualization software")
|
||
(description
|
||
"Graphviz is a graph visualization tool suite. Graph visualization is a
|
||
way of representing structural information as diagrams of abstract graphs and
|
||
networks. It has important applications in networking, bioinformatics,
|
||
software engineering, database and web design, machine learning, and in visual
|
||
interfaces for other technical domains.")
|
||
(properties
|
||
'((release-monitoring-url . "https://graphviz.org/download/source/")))
|
||
(license license:epl1.0)))
|
||
|
||
(define-public graphviz-minimal
|
||
(package/inherit graphviz
|
||
(name "graphviz-minimal")
|
||
(inputs (modify-inputs (package-inputs graphviz)
|
||
(delete "libxrender" "libx11" "pango" "libxaw")))
|
||
(synopsis "Graph visualization software (without X11 support)")))
|
||
|
||
(define-public python-graphviz
|
||
(package
|
||
(name "python-graphviz")
|
||
(version "0.20.1")
|
||
(source (origin
|
||
(method url-fetch)
|
||
(uri (pypi-uri "graphviz" version ".zip"))
|
||
(sha256
|
||
(base32
|
||
"1y1b956r01kg7qarkkrivhn71q64k0gbq6bcybd4gfd3v95g2n4c"))))
|
||
(build-system pyproject-build-system)
|
||
(arguments
|
||
(list
|
||
#:phases
|
||
'(modify-phases %standard-phases
|
||
(add-before 'check 'prepare-chec
|
||
;; Needed for fontconfig cache directories
|
||
(lambda _ (setenv "HOME" (getcwd)))))))
|
||
(native-inputs
|
||
(list unzip
|
||
;; For tests.
|
||
graphviz
|
||
python-mock
|
||
python-pytest
|
||
python-pytest-cov
|
||
python-pytest-mock))
|
||
(home-page "https://github.com/xflr6/graphviz")
|
||
(synopsis "Simple Python interface for Graphviz")
|
||
(description
|
||
"This package provides a simple Python interface for the Graphviz graph
|
||
visualization tool suite.")
|
||
(license license:expat)))
|
||
|
||
(define-public python-pygraphviz
|
||
(package
|
||
(name "python-pygraphviz")
|
||
(version "1.10")
|
||
(source
|
||
(origin
|
||
(method git-fetch)
|
||
(uri (git-reference
|
||
(url "https://github.com/pygraphviz/pygraphviz")
|
||
(commit (string-append "pygraphviz-" version))))
|
||
(file-name (string-append "pygraphviz-" version "-checkout"))
|
||
(sha256
|
||
(base32
|
||
"1yrzjp5n86ynlj32p5dj1aj67md6bzkk8hac74j5y3mbl94m259g"))))
|
||
(build-system python-build-system)
|
||
(inputs
|
||
(list graphviz))
|
||
(native-inputs
|
||
(list python-nose python-mock python-pytest
|
||
python-doctest-ignore-unicode))
|
||
(home-page "https://pygraphviz.github.io")
|
||
(synopsis "Python interface to Graphviz")
|
||
(description "PyGraphviz is a Python interface to the Graphviz graph
|
||
layout and visualization package. With PyGraphviz you can create, edit, read,
|
||
write, and draw graphs using Python to access the Graphviz graph data
|
||
structure and layout algorithms.")
|
||
(license license:bsd-3)))
|
||
|
||
(define-public python-uqbar
|
||
(package
|
||
(name "python-uqbar")
|
||
(version "0.5.6")
|
||
(source
|
||
(origin
|
||
(method git-fetch)
|
||
(uri (git-reference
|
||
(url "https://github.com/josiah-wolf-oberholtzer/uqbar")
|
||
(commit (string-append "v" version))))
|
||
(file-name (git-file-name name version))
|
||
(sha256
|
||
(base32
|
||
"1ml3x2mf7nlnvrh9lari5yk0sz2mmg39jwsbjxnpzhnw4kcwpdrs"))))
|
||
(build-system python-build-system)
|
||
(arguments
|
||
`(#:phases
|
||
(modify-phases %standard-phases
|
||
(add-after 'unpack 'patch
|
||
(lambda _
|
||
(substitute* "setup.py"
|
||
;; Latest versions of sphink-rtd-theme require npm to build.
|
||
(("sphinx-rtd-theme >= 0.5.0") "sphinx-rtd-theme >= 0.2.4")
|
||
(("black") "black >= 19.10b0"))
|
||
#t))
|
||
(replace 'check
|
||
(lambda* (#:key tests? #:allow-other-keys)
|
||
(when tests?
|
||
(invoke "python" "-m" "pytest" "tests"))
|
||
#t)))))
|
||
(native-inputs
|
||
(list graphviz
|
||
python-flake8
|
||
python-isort
|
||
python-mypy
|
||
python-pytest
|
||
python-pytest-cov))
|
||
(propagated-inputs
|
||
(list python-black python-sphinx python-sphinx-rtd-theme
|
||
python-unidecode))
|
||
(home-page "https://github.com/josiah-wolf-oberholtzer/uqbar")
|
||
(synopsis "Tools for building documentation with Sphinx, Graphviz and LaTeX")
|
||
(description
|
||
"This package contains tools for building documentation with Sphinx,
|
||
Graphviz and LaTeX.")
|
||
(license license:expat)))
|
||
|
||
(define-public gts
|
||
(package
|
||
(name "gts")
|
||
(version "0.7.6")
|
||
(source (origin
|
||
(method url-fetch)
|
||
(uri (string-append "mirror://sourceforge/gts/gts/" version
|
||
"/gts-" version ".tar.gz"))
|
||
(sha256
|
||
(base32
|
||
"07mqx09jxh8cv9753y2d2jsv7wp8vjmrd7zcfpbrddz3wc9kx705"))))
|
||
(build-system gnu-build-system)
|
||
(arguments
|
||
'(#:phases
|
||
(modify-phases %standard-phases
|
||
(add-before 'check 'pre-check
|
||
(lambda _
|
||
(chmod "test/boolean/test.sh" #o777)
|
||
#t)))
|
||
|
||
;; Some data files used by the test suite are missing.
|
||
;; See <http://sourceforge.net/p/gts/bugs/41/>.
|
||
#:tests? #f))
|
||
(native-inputs
|
||
(list pkg-config))
|
||
(propagated-inputs
|
||
;; The gts.pc file has glib-2.0 as required.
|
||
(list glib))
|
||
(home-page "https://gts.sourceforge.net/")
|
||
|
||
;; Note: Despite the name, this is not official GNU software.
|
||
(synopsis "Triangulated Surface Library")
|
||
(description
|
||
"Library intended to provide a set of useful functions to deal with
|
||
3D surfaces meshed with interconnected triangles.")
|
||
(license license:lgpl2.0+)))
|
||
|
||
(define-public xdot
|
||
(package
|
||
(name "xdot")
|
||
(version "1.1")
|
||
(source
|
||
(origin
|
||
(method url-fetch)
|
||
(uri (pypi-uri "xdot" version))
|
||
(sha256
|
||
(base32
|
||
"0cr4rh7dz4dfzyxrk5pzhm0d15gkrgkfp3i5lw178xy81pc56p71"))))
|
||
(build-system python-build-system)
|
||
(arguments
|
||
`(#:phases
|
||
(modify-phases %standard-phases
|
||
;; We wrap xdot, so that we don't propagate gtk+ and graphviz
|
||
(add-after 'install 'wrap
|
||
(lambda* (#:key inputs outputs #:allow-other-keys)
|
||
(wrap-program (string-append (assoc-ref outputs "out") "/bin/xdot")
|
||
`("GI_TYPELIB_PATH" ":" prefix
|
||
(,(string-append
|
||
(assoc-ref inputs "gtk+") "/lib/girepository-1.0"
|
||
":" (assoc-ref inputs "pango") "/lib/girepository-1.0"
|
||
":" (assoc-ref inputs "gdk-pixbuf") "/lib/girepository-1.0"
|
||
":" (assoc-ref inputs "at-spi2-core") "/lib/girepository-1.0"
|
||
":" (assoc-ref inputs "harfbuzz") "/lib/girepository-1.0")))
|
||
`("PATH" ":" prefix
|
||
(,(dirname (search-input-file inputs "bin/dot"))))))))))
|
||
(inputs
|
||
(list at-spi2-core
|
||
(librsvg-for-system)
|
||
harfbuzz
|
||
graphviz
|
||
gtk+
|
||
python-pycairo
|
||
python-pygobject))
|
||
(home-page "https://pypi.org/project/xdot/")
|
||
(synopsis "Interactive viewer for graphviz dot files")
|
||
(description "Xdot is an interactive viewer for graphs written in
|
||
@code{graphviz}’s dot language. Internally, it uses the xdot output format as
|
||
an intermediate format, and @code{gtk} and @code{cairo} for rendering. Xdot
|
||
can be used either as a standalone application, or as a Python library.")
|
||
(license license:lgpl3+)))
|
||
|
||
(define-public python-pydot
|
||
(package
|
||
(name "python-pydot")
|
||
(version "1.4.2")
|
||
(source
|
||
(origin
|
||
(method url-fetch)
|
||
(uri (pypi-uri "pydot" version))
|
||
(sha256
|
||
(base32
|
||
"0z80zwldf7ffkwrpm28hixsiqp3053j7g281xd6phmnbkfiq3014"))))
|
||
(build-system python-build-system)
|
||
(arguments
|
||
'(#:phases
|
||
(modify-phases %standard-phases
|
||
(replace 'check
|
||
;; Taken from .travis.yaml
|
||
(lambda* (#:key tests? inputs outputs #:allow-other-keys)
|
||
(when tests?
|
||
(add-installed-pythonpath inputs outputs)
|
||
(with-directory-excursion "test"
|
||
(invoke "python" "pydot_unittest.py"))))))))
|
||
(native-inputs
|
||
;; For tests.
|
||
(list graphviz python-chardet))
|
||
(propagated-inputs
|
||
;; XXX: Two test failures with 3.0+:
|
||
;; https://github.com/pydot/pydot/issues/277
|
||
(list python-pyparsing-2.4.7))
|
||
(home-page "https://github.com/pydot/pydot")
|
||
(synopsis "Python interface to Graphviz's DOT language")
|
||
(description
|
||
"Pydot provides an interface to create, handle, modify and process
|
||
graphs in Graphviz's DOT language, written in pure Python.")
|
||
(license license:expat)))
|
||
|
||
(define-public dot2tex
|
||
(package
|
||
(name "dot2tex")
|
||
(version "2.11.3")
|
||
(source (origin
|
||
(method url-fetch)
|
||
(uri (pypi-uri "dot2tex" version))
|
||
(sha256
|
||
(base32
|
||
"1kp77wiv7b5qib82i3y3sn9r49rym43aaqm5aw1bwnzfbbq2m6i9"))))
|
||
(build-system python-build-system)
|
||
(arguments
|
||
(list
|
||
#:phases
|
||
#~(modify-phases %standard-phases
|
||
(replace 'check
|
||
(lambda* (#:key tests? #:allow-other-keys)
|
||
(when tests?
|
||
(invoke "pytest" "-vv" "tests"
|
||
;; The test_semicolon test fails for unknown reason
|
||
;; (see:
|
||
;; https://github.com/kjellmf/dot2tex/issues/94).
|
||
"-k" "not test_semicolon")))))))
|
||
(native-inputs
|
||
(list python-pytest
|
||
(texlive-updmap.cfg
|
||
(list texlive-pgf
|
||
texlive-preview
|
||
texlive-pstricks
|
||
texlive-xcolor
|
||
texlive-xkeyval))))
|
||
(inputs (list graphviz))
|
||
(propagated-inputs (list python-pyparsing))
|
||
(home-page "https://github.com/kjellmf/dot2tex")
|
||
(synopsis "Graphviz to LaTeX converter")
|
||
(description
|
||
"The purpose of @code{dot2tex} is to give graphs generated by Graphviz a
|
||
more LaTeX friendly look and feel. This is accomplished by converting
|
||
@code{xdot} output from Graphviz to a series of PSTricks or PGF/TikZ commands.
|
||
This approach allows:
|
||
|
||
@itemize @bullet
|
||
@item Typesetting labels with LaTeX, allowing mathematical notation
|
||
@item Using native PSTricks and PGF/TikZ commands for drawing arrows
|
||
@item Using backend specific styles to customize the output
|
||
@end itemize")
|
||
(license license:expat)))
|
||
|
||
(define-public gprof2dot
|
||
(package
|
||
(name "gprof2dot")
|
||
(version "2021.02.21")
|
||
(source
|
||
(origin
|
||
(method git-fetch)
|
||
(uri (git-reference
|
||
(url "https://github.com/jrfonseca/gprof2dot")
|
||
(commit version)))
|
||
(file-name (git-file-name name version))
|
||
(sha256
|
||
(base32
|
||
"1jjhsjf5fdi1fkn7mvhnzkh6cynl8gcjrygd3cya5mmda3akhzic"))))
|
||
(build-system python-build-system)
|
||
(arguments
|
||
`(#:phases
|
||
(modify-phases %standard-phases
|
||
(replace 'check
|
||
(lambda* (#:key inputs outputs tests? #:allow-other-keys)
|
||
(when tests?
|
||
(add-installed-pythonpath inputs outputs)
|
||
(invoke "python" "tests/test.py")))))))
|
||
(native-inputs
|
||
(list graphviz))
|
||
(home-page "https://github.com/jrfonseca/gprof2dot")
|
||
(synopsis "Generate a dot graph from the output of several profilers")
|
||
(description "This package provides a Python script to convert the output
|
||
from many profilers into a dot graph.
|
||
|
||
It can:
|
||
|
||
@itemize
|
||
|
||
@item prune nodes and edges below a certain threshold;
|
||
@item use an heuristic to propagate time inside mutually recursive functions;
|
||
@item use color efficiently to draw attention to hot-spots;
|
||
@item work on any platform where Python and Graphviz is available.
|
||
|
||
@end itemize")
|
||
(license license:lgpl3+)))
|