[bug#51028] [PATCH 0/7] More julia packages

[bug#51028] [PATCH 0/7] More julia packages

[Efraim Flashner]

7 more julia packages, ready for upstreaming.

Efraim Flashner (7):
  gnu: Add julia-latexstrings.
  gnu: Add julia-pyplot.
  gnu: Add julia-dataframes.
  gnu: Add julia-bson.
  gnu: Add julia-expronicon.
  gnu: Add julia-configurations.
  gnu: Add julia-structarrays.

 gnu/packages/julia-xyz.scm | 238 +++++++++++++++++++++++++++++++++++++
 1 file changed, 238 insertions(+)


base-commit: 83adca8ff7cce328ca66fd8ce32d85aa11dae9ed
-- 
2.33.0

[bug#51028] [PATCH 1/7] gnu: Add julia-latexstrings.

[Efraim Flashner]

* gnu/packages/julia-xyz.scm (julia-latexstrings): New variable.
---
 gnu/packages/julia-xyz.scm | 22 ++++++++++++++++++++++
 1 file changed, 22 insertions(+)

diff --git a/gnu/packages/julia-xyz.scm b/gnu/packages/julia-xyz.scm
index 492fdd9175..2238acf103 100644
--- a/gnu/packages/julia-xyz.scm
+++ b/gnu/packages/julia-xyz.scm
@@ -2407,6 +2407,28 @@ (define-public julia-json3
 focus on speed and slick struct mapping.")
     (license license:expat)))
 
+(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-lazyarrays
   (package
     (name "julia-lazyarrays")
-- 
2.33.0

[bug#51028] [PATCH 2/7] gnu: Add julia-pyplot.

[Efraim Flashner]

* gnu/packages/julia-xyz.scm (julia-pyplot): New variable.
---
 gnu/packages/julia-xyz.scm | 29 +++++++++++++++++++++++++++++
 1 file changed, 29 insertions(+)

diff --git a/gnu/packages/julia-xyz.scm b/gnu/packages/julia-xyz.scm
index 2238acf103..5925ca2417 100644
--- a/gnu/packages/julia-xyz.scm
+++ b/gnu/packages/julia-xyz.scm
@@ -3280,6 +3280,35 @@ (define-public julia-pycall
 share large data structures between Julia and Python without copying them.")
     (license license:expat)))
 
+(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" ,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-quadgk
   (package
     (name "julia-quadgk")
-- 
2.33.0

[bug#51028] [PATCH 0/7] More julia packages

[zimoun]

Hi,

I would write:

> +    (description "This module provides a Julia interface to the Matplotlib

  (description "This package provides a Julia interface to the Matplotlib


LTGM.

Cheers,
simon

[bug#51028] [PATCH 3/7] gnu: Add julia-dataframes.

[Efraim Flashner]

* gnu/packages/julia-xyz.scm (julia-dataframes): New variable.
---
 gnu/packages/julia-xyz.scm | 53 ++++++++++++++++++++++++++++++++++++++
 1 file changed, 53 insertions(+)

diff --git a/gnu/packages/julia-xyz.scm b/gnu/packages/julia-xyz.scm
index 5925ca2417..33f09a34d3 100644
--- a/gnu/packages/julia-xyz.scm
+++ b/gnu/packages/julia-xyz.scm
@@ -806,6 +806,59 @@ (define-public julia-dataapi
 dependency on it.")
     (license license:expat)))
 
+(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)))
+
 (define-public julia-datastructures
   (package
     (name "julia-datastructures")
-- 
2.33.0

[bug#51028] [PATCH 0/7] More julia packages

[zimoun]

Hi,

I would write:

> +    (description "Tools for working with tabular data in Julia.")

--8<---------------cut here---------------start------------->8---
This packages provides a set of tools for working with tabular data in
Julia.  Its design and functionality are similar to those of Pandas from
Python or data.frame, data.table and dplyr from R, making it a great
general purpose data science tool, especially for those coming to Julia
from R or Python.
--8<---------------cut here---------------end--------------->8---

LGTM.

Cheers,
simon

[bug#51028] [PATCH 4/7] gnu: Add julia-bson.

[Efraim Flashner]

* gnu/packages/julia-xyz.scm (julia-bson): New variable.
---
 gnu/packages/julia-xyz.scm | 23 +++++++++++++++++++++++
 1 file changed, 23 insertions(+)

diff --git a/gnu/packages/julia-xyz.scm b/gnu/packages/julia-xyz.scm
index 33f09a34d3..f53d4bce6d 100644
--- a/gnu/packages/julia-xyz.scm
+++ b/gnu/packages/julia-xyz.scm
@@ -368,6 +368,29 @@ (define-public julia-blockbandedmatrices
 @code{BlockArrays.jl} whose layout of non-zero blocks is banded.")
     (license license:expat)))
 
+(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)))
+
 (define-public julia-bufferedstreams
   (package
     (name "julia-bufferedstreams")
-- 
2.33.0

[bug#51028] [PATCH 5/7] gnu: Add julia-expronicon.

[Efraim Flashner]

* gnu/packages/julia-xyz.scm (julia-expronicon): New variable.
---
 gnu/packages/julia-xyz.scm | 34 ++++++++++++++++++++++++++++++++++
 1 file changed, 34 insertions(+)

diff --git a/gnu/packages/julia-xyz.scm b/gnu/packages/julia-xyz.scm
index f53d4bce6d..895e43bb14 100644
--- a/gnu/packages/julia-xyz.scm
+++ b/gnu/packages/julia-xyz.scm
@@ -1343,6 +1343,40 @@ (define-public julia-example
       (description "This package provides various examples.")
       (license license:expat))))
 
+;; 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)))
+
 (define-public julia-exprtools
   (package
     (name "julia-exprtools")
-- 
2.33.0

[bug#51028] [PATCH 6/7] gnu: Add julia-configurations.

[Efraim Flashner]

* gnu/packages/julia-xyz.scm (julia-configurations): New variable.
---
 gnu/packages/julia-xyz.scm | 43 ++++++++++++++++++++++++++++++++++++++
 1 file changed, 43 insertions(+)

diff --git a/gnu/packages/julia-xyz.scm b/gnu/packages/julia-xyz.scm
index 895e43bb14..ee0e1fb74a 100644
--- a/gnu/packages/julia-xyz.scm
+++ b/gnu/packages/julia-xyz.scm
@@ -729,6 +729,49 @@ (define-public julia-compat
 way.")
     (license license:expat)))
 
+(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)))
+
 (define-public julia-constructionbase
   (package
     (name "julia-constructionbase")
-- 
2.33.0

[bug#51028] [PATCH 0/7] More julia packages

[zimoun]

Hi,

I would write:

On mar., 05 oct. 2021 at 12:47, Efraim Flashner <efraim@flashner.co.il> wrote:

> +    (synopsis "Options and configurations in Julia")

Tools for options and configurations


LGTM.

Cheers,
simon

[bug#51028] [PATCH 7/7] gnu: Add julia-structarrays.

[Efraim Flashner]

* gnu/packages/julia-xyz.scm (julia-structarrays): New variable.
---
 gnu/packages/julia-xyz.scm | 34 ++++++++++++++++++++++++++++++++++
 1 file changed, 34 insertions(+)

diff --git a/gnu/packages/julia-xyz.scm b/gnu/packages/julia-xyz.scm
index ee0e1fb74a..8be2277728 100644
--- a/gnu/packages/julia-xyz.scm
+++ b/gnu/packages/julia-xyz.scm
@@ -4271,6 +4271,40 @@ (define-public julia-stringdistances
 applied to any distance.")
     (license license:expat)))
 
+(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-structtypes
   (package
     (name "julia-structtypes")
-- 
2.33.0

[bug#51028] [PATCH 0/7] More julia packages

[zimoun]

Hi Efraim,

On mar., 05 oct. 2021 at 12:35, Efraim Flashner <efraim@flashner.co.il> wrote:

>   gnu: Add julia-latexstrings.
>   gnu: Add julia-pyplot.
>   gnu: Add julia-dataframes.
>   gnu: Add julia-bson.
>   gnu: Add julia-expronicon.
>   gnu: Add julia-configurations.
>   gnu: Add julia-structarrays.

LGTM.  Except minor wordings sent as reply for concerned patches.

Cheers,
imon

bug#51028: [PATCH 0/7] More julia packages

[Efraim Flashner]

[-- Attachment #1: Type: text/plain, Size: 824 bytes --]

On Mon, Oct 11, 2021 at 02:03:45PM +0200, zimoun wrote:
> Hi Efraim,
> 
> On mar., 05 oct. 2021 at 12:35, Efraim Flashner <efraim@flashner.co.il> wrote:
> 
> >   gnu: Add julia-latexstrings.
> >   gnu: Add julia-pyplot.
> >   gnu: Add julia-dataframes.
> >   gnu: Add julia-bson.
> >   gnu: Add julia-expronicon.
> >   gnu: Add julia-configurations.
> >   gnu: Add julia-structarrays.
> 
> LGTM.  Except minor wordings sent as reply for concerned patches.
> 
> Cheers,
> Simon

I changed a "This packages" to "This package" and made the other
changes. Patches pushed! Thanks for the review.

-- 
Efraim Flashner   <efraim@flashner.co.il>   רנשלפ םירפא
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