diff options
| -rw-r--r-- | VERSION | 2 | ||||
| -rw-r--r-- | gn/packages/julia.scm | 245 |
2 files changed, 1 insertions, 246 deletions
@@ -1 +1 @@ -7b59508ca711d1fe299de3f8d9710da36aeb6829 +03f6a44cfc46cd49886d7a7ec6429cc22dd97c9c diff --git a/gn/packages/julia.scm b/gn/packages/julia.scm index f53431a..491db13 100644 --- a/gn/packages/julia.scm +++ b/gn/packages/julia.scm @@ -202,36 +202,6 @@ leave-one-chromosome-out}, computation of kinship matrices, and support for distributed computing.") (license license:gpl3))) -;; ready to upstream -(define-public julia-pyplot - (package - (name "julia-pyplot") - (version "2.10.0") - (source - (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/JuliaPy/PyPlot.jl") - (commit (string-append "v" version)))) - (file-name (git-file-name name version)) - (sha256 - (base32 "007zs0imfgs69f30pp2a3rc93kl0qiq7qjx6ig35z4wzkmps4skd")))) - (build-system julia-build-system) - (propagated-inputs - `(("julia-colors" ,julia-colors) - ("julia-latexstrings" ,julia-latexstrings) - ("julia-pycall" ,julia-pycall) - ("julia-versionparsing" ,julia-versionparsing) - ;; python-matplotlib is expected to be available at runtime. - ("python-matplotlib" ,(S "python-matplotlib")))) - (home-page "https://github.com/JuliaPy/PyPlot.jl") - (synopsis "Plotting for Julia based on matplotlib.pyplot") - (description "This module provides a Julia interface to the Matplotlib -plotting library from Python, and specifically to the @code{matplotlib.pyplot} -module. PyPlot uses the Julia PyCall package to call Matplotlib directly from -Julia with little or no overhead (arrays are passed without making a copy).") - (license license:expat))) - (define-public julia-conda (package (name "julia-conda") @@ -292,29 +262,6 @@ Julia with little or no overhead (arrays are passed without making a copy).") (description "This package allows one to use @code{conda} as a cross-platform binary provider for Julia for other Julia packages, especially to install binaries that have complicated dependencies like Python.") (license license:expat))) -;; ready to upstream -(define-public julia-latexstrings - (package - (name "julia-latexstrings") - (version "1.2.1") - (source - (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/stevengj/LaTeXStrings.jl") - (commit (string-append "v" version)))) - (file-name (git-file-name name version)) - (sha256 - (base32 "117z27krcf8fydgp6mb0pgn75r4gng9qs7v90qb4bqzsry3faadp")))) - (build-system julia-build-system) - (native-inputs - `(("julia-documenter" ,julia-documenter))) - (home-page "https://github.com/stevengj/LaTeXStrings.jl") - (synopsis "Input and display of LaTeX equation strings") - (description "This is a small package to make it easier to type LaTeX -equations in string literals in the Julia language.") - (license license:expat))) - (define-public julia-distributions (package (name "julia-distributions") @@ -458,84 +405,6 @@ optimization of functions.") (description "Plots is a plotting API and toolset.") (license license:expat))) -;; ready to upstream -(define-public julia-bson - (package - (name "julia-bson") - (version "0.3.3") - (source - (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/JuliaIO/BSON.jl") - (commit (string-append "v" version)))) - (file-name (git-file-name name version)) - (sha256 - (base32 "1l5608ma2ys7v2gpcqbiv9mwfc6yrlqkihrfx1pf7fgv5llhd4fn")))) - (build-system julia-build-system) - (native-inputs - `(("julia-dataframes" ,julia-dataframes))) - (home-page "https://github.com/JuliaIO/BSON.jl") - (synopsis "Binary JSON serialisation format") - (description "@code{BSON.jl} is a Julia package for working with the Binary -JSON serialisation format. It can be used as a general store for Julia data -structures.") - (license license:expat))) - -;; ready to upstream -(define-public julia-dataframes - (package - (name "julia-dataframes") - (version "1.2.2") - (source - (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/JuliaData/DataFrames.jl") - (commit (string-append "v" version)))) - (file-name (git-file-name name version)) - (sha256 - (base32 "1bk0amrghgjrkyn1mm4ac23swwbgszl1d0qyl9137qj5zvv9dasp")))) - (build-system julia-build-system) - (arguments - `(#:phases - (modify-phases %standard-phases - (add-after 'unpack 'skip-failing-test - (lambda _ - ;; Tests with non-standard colors. - (substitute* "test/show.jl" - (("test (sprint\\(show, df, context=:color=>true)" _ test) - (string-append "test_nowarn " test))) - (substitute* "test/io.jl" - (("testset \\\"improved.*" all) - (string-append all "return\n"))) - (substitute* "test/join.jl" - (("test (levels\\(outerjoin\\(B)" _ test) - (string-append "test_nowarn " test))) - #t))))) - (propagated-inputs - `(("julia-dataapi" ,julia-dataapi) - ("julia-invertedindices" ,julia-invertedindices) - ("julia-iteratorinterfaceextensions" ,julia-iteratorinterfaceextensions) - ("julia-missings" ,julia-missings) - ("julia-pooledarrays" ,julia-pooledarrays) - ("julia-prettytables" ,julia-prettytables) - ("julia-reexport" ,julia-reexport) - ("julia-sortingalgorithms" ,julia-sortingalgorithms) - ("julia-tables" ,julia-tables) - ("julia-tabletraits" ,julia-tabletraits))) - (native-inputs - `(("julia-categoricalarrays" ,julia-categoricalarrays) - ("julia-combinatorics" ,julia-combinatorics) - ("julia-datastructures" ,julia-datastructures) - ("julia-datavalues" ,julia-datavalues) - ("julia-offsetarrays" ,julia-offsetarrays) - ("julia-unitful" ,julia-unitful))) - (home-page "https://dataframes.juliadata.org/stable/") - (synopsis "In-memory tabular data") - (description "Tools for working with tabular data in Julia.") - (license license:expat))) - ;; TODO: unbundle javascript calls to cdn.jsdelivr.net (define-public julia-pluto (package @@ -612,85 +481,6 @@ native to Julia. Use it with the @code{@@bind} macro in Pluto.") (license license:expat))) ;; ready to upstream -(define-public julia-configurations - (package - (name "julia-configurations") - (version "0.16.4") - (source - (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/Roger-luo/Configurations.jl") - (commit (string-append "v" version)))) - (file-name (git-file-name name version)) - (sha256 - (base32 "1b23p0zk8dx2sf01cnw177mqci7qd81b9s32ixz9clsh0r0icl1b")))) - (build-system julia-build-system) - (arguments - `(#:phases - (modify-phases %standard-phases - (add-after 'unpack 'fix-tests - (lambda _ - (substitute* "test/runtests.jl" - (("option.toml") "test/option.toml")) - #t)) - (add-after 'unpack 'dont-use-exproniconlite - (lambda _ - (substitute* '("Project.toml" - "src/Configurations.jl" - "test/runtests.jl") - (("ExproniconLite") "Expronicon")) - (substitute* "Project.toml" - (("55351af7-c7e9-48d6-89ff-24e801d99491") - "6b7a57c9-7cc1-4fdf-b7f5-e857abae3636")) - #t))))) - (propagated-inputs - `(("julia-crayons" ,julia-crayons) - ("julia-expronicon" ,julia-expronicon) - ("julia-orderedcollections" ,julia-orderedcollections))) - (home-page "https://configurations.rogerluo.dev/stable/") - (synopsis "Options and configurations in Julia") - (description "@code{Configurations.jl} provides a macro @code{@@option} to -let you define @code{structs} to represent options/configurations, and serialize -between different option/configuration file formats such as @code{TOML}.") - (license license:expat))) - -;; ready to upstream -;; ExproniconLite.jl is autogenerated from this package. -(define-public julia-expronicon - (package - (name "julia-expronicon") - (version "0.6.10") - (source - (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/Roger-luo/Expronicon.jl") - (commit (string-append "v" version)))) - (file-name (git-file-name name version)) - (sha256 - (base32 "0h8aaynqlxrkn8575k5vqmhzil4vvxchhf0bcxa6zwawp558gj2y")))) - (build-system julia-build-system) - (arguments - `(#:phases - (modify-phases %standard-phases - (add-after 'unpack 'skip-network-tests - (lambda _ - (substitute* "test/runtests.jl" - ;; This test tries to access the Julia package registry. - ((".*expand\\.jl.*") ""))))))) - (propagated-inputs - `(("julia-mlstyle" ,julia-mlstyle))) - (native-inputs - `(("julia-documenter" ,julia-documenter))) - (home-page "https://expronicon.rogerluo.dev/dev/") - (synopsis "Collective tools for metaprogramming on Julia Expr") - (description "This package provides a collection of tools for -metaprogramming on Julia Expr, the meta programming standard library for -@code{MLStyle}.") - (license license:expat))) - -;; ready to upstream (define-public julia-statsfuns (package (name "julia-statsfuns") @@ -1169,41 +959,6 @@ that still support Julia versions older than 1.6.") (description "This package aims to offer a standard set of Geometry types, which easily work with metadata, query frameworks on geometries and different memory layouts. The aim is to create a solid basis for Graphics/Plotting, finite elements analysis, Geo applications, and general geometry manipulations - while offering a julian API, that still allows performant C-interop.") (license license:expat))) -;; ready to upstream -(define-public julia-structarrays - (package - (name "julia-structarrays") - (version "0.6.3") - (source - (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/JuliaArrays/StructArrays.jl") - (commit (string-append "v" version)))) - (file-name (git-file-name name version)) - (sha256 - (base32 "0rjcpyjwzg70n87q5r9c5i1qzigavncslxssm3rk5a3y549py56v")))) - (build-system julia-build-system) - (propagated-inputs - `(("julia-dataapi" ,julia-dataapi) - ("julia-staticarrays" ,julia-staticarrays) - ("julia-tables" ,julia-tables))) - (native-inputs - `(("julia-documenter" ,julia-documenter) - ("julia-offsetarrays" ,julia-offsetarrays) - ("julia-pooledarrays" ,julia-pooledarrays) - ("julia-typedtables" ,julia-typedtables) - ("julia-weakrefstrings" ,julia-weakrefstrings))) - (home-page "https://github.com/JuliaArrays/StructArrays.jl") - (synopsis "Efficient implementation of struct arrays in Julia") - (description "This package introduces the type @code{StructArray} which is -an @code{AbstractArray} whose elements are @code{struct} (for example -@code{NamedTuples}, or @code{ComplexF64}, or a custom user defined -@code{struct}). While a @code{StructArray} iterates @code{structs}, the layout -is column based (meaning each field of the @code{struct} is stored in a separate -@code{Array}).") - (license license:expat))) - (define-public julia-earcut-jll ;; Only release tag contains just a license file. (let ((commit "b234ae0c064af12eb5482c7474a64af8be0f511e") |