GNU bug report logs - #55379
[PATCH 01/14] gnu: Add r-gpg.

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Package: guix-patches; Reported by: kyle <kyle@HIDDEN>; Keywords: patch; dated Thu, 12 May 2022 02:11:02 UTC; Maintainer for guix-patches is guix-patches@HIDDEN.

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From: kyle <kyle@HIDDEN>
To: guix-patches@HIDDEN
Subject: [PATCH 14/14] gnu: Add r-genoud.
Date: Thu, 12 May 2022 02:10:34 +0000
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From: Kyle Andrews <kyle@HIDDEN>

---
 gnu/packages/cran.scm | 20 ++++++++++++++++++++
 1 file changed, 20 insertions(+)

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 30ca01c0a0..2bd741d254 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -33531,6 +33531,26 @@ (define-public r-showimage
     "Sometimes it is handy to be able to view an image file on an 'R' graphics device.  This package just does that.  Currently it supports 'PNG' files.")
    (license (list license:gpl2 license:gpl3))))
 
+(define-public r-rgenoud
+  (package
+   (name "r-rgenoud")
+   (version "5.8-3.0")
+   (source
+    (origin
+     (method url-fetch)
+     (uri (cran-uri "rgenoud" version))
+     (sha256
+      (base32
+       "0p93wf6ghgz2nifxbscb6bhahh5jd2ba7nh1c2mb6fmbxnsi3swv"))))
+   (properties `((upstream-name . "rgenoud")))
+   (build-system r-build-system)
+   (home-page "http://sekhon.berkeley.edu/rgenoud/")
+   (synopsis
+    "R Version of GENetic Optimization Using Derivatives")
+   (description
+    "This package provides a genetic algorithm plus derivative optimizer.")
+   (license license:gpl3)))
+
 
 (define r-gpg
   (package
-- 
2.36.0





Information forwarded to guix-patches@HIDDEN:
bug#55379; Package guix-patches. Full text available.

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To: guix-patches@HIDDEN
Subject: [PATCH 10/14] gnu: Add r-relimp.
Date: Thu, 12 May 2022 02:10:30 +0000
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From: Kyle Andrews <kyle@HIDDEN>

---
 gnu/packages/cran.scm | 20 ++++++++++++++++++++
 1 file changed, 20 insertions(+)

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 0114be8b0f..f578cdfa2a 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -33446,6 +33446,26 @@ (define-public r-qvcalc
     "This package provides functions to compute quasi variances and associated measures of approximation error.")
    (license (list license:gpl2+ license:gpl3+))))
 
+(define-public r-relimp
+  (package
+   (name "r-relimp")
+   (version "1.0-5")
+   (source
+    (origin
+     (method url-fetch)
+     (uri (cran-uri "relimp" version))
+     (sha256
+      (base32
+       "0ydn82g8xdqzhf34187080bbpcpw1zdjbj2i3dv1d6d35vvprb5c"))))
+   (properties `((upstream-name . "relimp")))
+   (build-system r-build-system)
+   (home-page "http://warwick.ac.uk/relimp")
+   (synopsis
+    "Relative Contribution of Effects in a Regression Model")
+   (description
+    "This package provides functions to facilitate inference on the relative importance of predictors in a linear or generalized linear model, and a couple of useful Tcl/Tk widgets.")
+   (license license:gpl2+)))
+
 
 (define r-gpg
   (package
-- 
2.36.0





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bug#55379; Package guix-patches. Full text available.

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Subject: [PATCH 13/14] gnu: Add r-showimage.
Date: Thu, 12 May 2022 02:10:33 +0000
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From: Kyle Andrews <kyle@HIDDEN>

---
 gnu/packages/cran.scm | 22 ++++++++++++++++++++++
 1 file changed, 22 insertions(+)

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index a2a29f8cdb..30ca01c0a0 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -33509,6 +33509,28 @@ (define-public r-ryacas
     "Interface to the 'yacas' computer algebra system (<http://www.yacas.org/>).")
    (license (list license:gpl2+ license:gpl3+))))
 
+(define-public r-showimage
+  (package
+   (name "r-showimage")
+   (version "1.0.0")
+   (source
+    (origin
+     (method url-fetch)
+     (uri (cran-uri "showimage" version))
+     (sha256
+      (base32
+       "1c0x3iqjdjsz3cdhc02b3qm2pwxjr1q2k87jwvxj9lnzzw81f1pl"))))
+   (properties `((upstream-name . "showimage")))
+   (build-system r-build-system)
+   (propagated-inputs (list r-png))
+   (home-page
+    "https://github.com/r-lib/showimage#readme")
+   (synopsis
+    "Show an Image on an 'R' Graphics Device")
+   (description
+    "Sometimes it is handy to be able to view an image file on an 'R' graphics device.  This package just does that.  Currently it supports 'PNG' files.")
+   (license (list license:gpl2 license:gpl3))))
+
 
 (define r-gpg
   (package
-- 
2.36.0





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bug#55379; Package guix-patches. Full text available.

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To: guix-patches@HIDDEN
Subject: [PATCH 12/14] gnu: Add r-ryacas.
Date: Thu, 12 May 2022 02:10:32 +0000
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From: Kyle Andrews <kyle@HIDDEN>

---
 gnu/packages/cran.scm | 22 ++++++++++++++++++++++
 1 file changed, 22 insertions(+)

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 0c7a3d55ff..a2a29f8cdb 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -33487,6 +33487,28 @@ (define-public r-rpicosat
     "Bindings for the 'PicoSAT' solver to solve Boolean satisfiability problems (SAT).  The boolean satisfiability problem asks the question if a given boolean formula can be TRUE; i.e.  does there exist an assignment of TRUE/FALSE for each variable such that the whole formula is TRUE? The package bundles 'PicoSAT' solver release 965 <http://www.fmv.jku.at/picosat/>.")
    (license license:expat)))
 
+(define-public r-ryacas
+  (package
+   (name "r-ryacas")
+   (version "1.1.3")
+   (source
+    (origin
+     (method url-fetch)
+     (uri (cran-uri "Ryacas" version))
+     (sha256
+      (base32
+       "12vkylq06c7kqvvf662cyzhdcnpy928xsjflf1kf0nh6y00gywf8"))))
+   (properties `((upstream-name . "Ryacas")))
+   (build-system r-build-system)
+   (propagated-inputs (list r-magrittr r-rcpp))
+   (native-inputs (list r-knitr))
+   (home-page "https://github.com/r-cas/ryacas")
+   (synopsis
+    "R Interface to the 'Yacas' Computer Algebra System")
+   (description
+    "Interface to the 'yacas' computer algebra system (<http://www.yacas.org/>).")
+   (license (list license:gpl2+ license:gpl3+))))
+
 
 (define r-gpg
   (package
-- 
2.36.0





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bug#55379; Package guix-patches. Full text available.

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Subject: [PATCH 11/14] gnu: Add r-picosat.
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From: Kyle Andrews <kyle@HIDDEN>

---
 gnu/packages/cran.scm | 21 +++++++++++++++++++++
 1 file changed, 21 insertions(+)

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index f578cdfa2a..0c7a3d55ff 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -33466,6 +33466,27 @@ (define-public r-relimp
     "This package provides functions to facilitate inference on the relative importance of predictors in a linear or generalized linear model, and a couple of useful Tcl/Tk widgets.")
    (license license:gpl2+)))
 
+(define-public r-rpicosat
+  (package
+   (name "r-rpicosat")
+   (version "1.0.1")
+   (source
+    (origin
+     (method url-fetch)
+     (uri (cran-uri "rpicosat" version))
+     (sha256
+      (base32
+       "1zj2d6jairmvya91vhv9kpkf34zmzl9vlha5yvfjj0j0apmqc0li"))))
+   (properties `((upstream-name . "rpicosat")))
+   (build-system r-build-system)
+   (home-page
+    "https://github.com/dirkschumacher/rpicosat")
+   (synopsis
+    "R Bindings for the 'PicoSAT' SAT Solver")
+   (description
+    "Bindings for the 'PicoSAT' solver to solve Boolean satisfiability problems (SAT).  The boolean satisfiability problem asks the question if a given boolean formula can be TRUE; i.e.  does there exist an assignment of TRUE/FALSE for each variable such that the whole formula is TRUE? The package bundles 'PicoSAT' solver release 965 <http://www.fmv.jku.at/picosat/>.")
+   (license license:expat)))
+
 
 (define r-gpg
   (package
-- 
2.36.0





Information forwarded to guix-patches@HIDDEN:
bug#55379; Package guix-patches. Full text available.

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To: guix-patches@HIDDEN
Subject: [PATCH 09/14] gnu: Add r-gnm.
Date: Thu, 12 May 2022 02:10:29 +0000
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From: Kyle Andrews <kyle@HIDDEN>

---
 gnu/packages/cran.scm | 21 +++++++++++++++++++++
 1 file changed, 21 insertions(+)

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index b86ab6127d..0114be8b0f 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -33405,6 +33405,27 @@ (define-public r-ca
     "Computation and visualization of simple, multiple and joint correspondence analysis.")
    (license (list license:gpl2+ license:gpl3+))))
 
+(define-public r-gnm
+  (package
+   (name "r-gnm")
+   (version "1.1-1")
+   (source
+    (origin
+     (method url-fetch)
+     (uri (cran-uri "gnm" version))
+     (sha256
+      (base32
+       "1lddsdsg43wpg681s906i4xqqfbjdd1qb9ml5dfprb02i1806aa2"))))
+   (properties `((upstream-name . "gnm")))
+   (build-system r-build-system)
+   (propagated-inputs
+    (list r-mass r-matrix r-nnet r-qvcalc r-relimp))
+   (home-page "https://github.com/hturner/gnm")
+   (synopsis "Generalized Nonlinear Models")
+   (description
+    "This package provides functions to specify and fit generalized nonlinear models, including models with multiplicative interaction terms such as the UNIDIFF model from sociology and the AMMI model from crop science, and many others.  Over-parameterized representations of models are used throughout; functions are provided for inference on estimable parameter combinations, as well as standard methods for diagnostics etc.")
+   (license (list license:gpl2+ license:gpl3+))))
+
 (define-public r-qvcalc
   (package
    (name "r-qvcalc")
-- 
2.36.0





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bug#55379; Package guix-patches. Full text available.

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Subject: [PATCH 08/14] gnu: Add r-qvcalc.
Date: Thu, 12 May 2022 02:10:28 +0000
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From: Kyle Andrews <kyle@HIDDEN>

---
 gnu/packages/cran.scm | 21 +++++++++++++++++++++
 1 file changed, 21 insertions(+)

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index b5946070b0..b86ab6127d 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -33405,6 +33405,27 @@ (define-public r-ca
     "Computation and visualization of simple, multiple and joint correspondence analysis.")
    (license (list license:gpl2+ license:gpl3+))))
 
+(define-public r-qvcalc
+  (package
+   (name "r-qvcalc")
+   (version "1.0.2")
+   (source
+    (origin
+     (method url-fetch)
+     (uri (cran-uri "qvcalc" version))
+     (sha256
+      (base32
+       "0banzv78kb53ybfbh1hmgx7kxvpbbdxzg4dsn7vrwhmxs72srkch"))))
+   (properties `((upstream-name . "qvcalc")))
+   (build-system r-build-system)
+   (home-page "https://davidfirth.github.io/qvcalc")
+   (synopsis
+    "Quasi Variances for Factor Effects in Statistical Models")
+   (description
+    "This package provides functions to compute quasi variances and associated measures of approximation error.")
+   (license (list license:gpl2+ license:gpl3+))))
+
+
 (define r-gpg
   (package
    (name "r-gpg")
-- 
2.36.0





Information forwarded to guix-patches@HIDDEN:
bug#55379; Package guix-patches. Full text available.

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Subject: [PATCH 03/14] gnu: Add r-tidyxl.
Date: Thu, 12 May 2022 02:10:23 +0000
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From: Kyle Andrews <kyle@HIDDEN>

---
 gnu/packages/cran.scm | 24 ++++++++++++++++++++++++
 1 file changed, 24 insertions(+)

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 57166bacdc..9578263789 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -33279,6 +33279,30 @@ (define-public r-piton
 grammars and easily expose them in R packages.")
    (license license:expat)))
 
+
+(define-public r-tidyxl
+  (package
+    (name "r-tidyxl")
+    (version "1.0.7")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (cran-uri "tidyxl" version))
+       (sha256
+	(base32 "1wg8h5fd2hd8ilshrbcs99q18p15687dx8j51v5pyd30pg5cab7b"))))
+    (properties `((upstream-name . "tidyxl")))
+    (build-system r-build-system)
+    (propagated-inputs (list r-piton r-rcpp))
+    (native-inputs (list r-knitr))
+    (home-page "https://github.com/nacnudus/tidyxl")
+    (synopsis "Read Untidy Excel Files")
+    (description
+     "Imports non-tabular from Excel files into R.  Exposes cell content, position and
+formatting in a tidy structure for further manipulation.  Tokenizes Excel
+formulas.  Supports '.xlsx' and '.xlsm' via the embedded 'RapidXML' C++ library
+<http://rapidxml.sourceforge.net>.  Does not support '.xlsb' or '.xls'.")
+    (license license:gpl3)))
+
 (define r-gpg
   (package
    (name "r-gpg")
-- 
2.36.0





Information forwarded to guix-patches@HIDDEN:
bug#55379; Package guix-patches. Full text available.

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Subject: [PATCH 07/14] gnu: Add r-ca.
Date: Thu, 12 May 2022 02:10:27 +0000
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From: Kyle Andrews <kyle@HIDDEN>

---
 gnu/packages/cran.scm | 20 ++++++++++++++++++++
 1 file changed, 20 insertions(+)

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 2cd4b8d2a6..b5946070b0 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -33385,6 +33385,26 @@ (define-public r-vcdextra
 Friendly and David Meyer.")
    (license license:gpl2+)))
 
+(define-public r-ca
+  (package
+   (name "r-ca")
+   (version "0.71.1")
+   (source
+    (origin
+     (method url-fetch)
+     (uri (cran-uri "ca" version))
+     (sha256
+      (base32
+       "095lk7p2b9835hc3a03c4019wg0baf0dhz6c2vqpaq1m9k4jy304"))))
+   (properties `((upstream-name . "ca")))
+   (build-system r-build-system)
+   (home-page "http://www.carme-n.org/")
+   (synopsis
+    "Simple, Multiple and Joint Correspondence Analysis")
+   (description
+    "Computation and visualization of simple, multiple and joint correspondence analysis.")
+   (license (list license:gpl2+ license:gpl3+))))
+
 (define r-gpg
   (package
    (name "r-gpg")
-- 
2.36.0





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bug#55379; Package guix-patches. Full text available.

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Subject: [PATCH 06/14] gnu: Add r-vcdextra.
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From: Kyle Andrews <kyle@HIDDEN>

---
 gnu/packages/cran.scm | 27 +++++++++++++++++++++++++++
 1 file changed, 27 insertions(+)

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 516c335822..2cd4b8d2a6 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -33358,6 +33358,33 @@ (define-public r-unglue
 more intuitive and compact way than by using standard regular expressions.")
    (license license:gpl3)))
 
+(define-public r-vcdextra
+  (package
+   (name "r-vcdextra")
+   (version "0.8-0")
+   (source
+    (origin
+     (method url-fetch)
+     (uri (cran-uri "vcdExtra" version))
+     (sha256
+      (base32 "1wv1ypjdvw639jlphwfpqgpjkk4ki98l2lfbpncsbpy9jpknjsmk"))))
+   (properties `((upstream-name . "vcdExtra")))
+   (build-system r-build-system)
+   (propagated-inputs (list r-ca r-gnm r-mass r-vcd))
+   (native-inputs (list r-knitr))
+   (home-page "https://friendly.github.io/vcdExtra/")
+   (synopsis "'vcd' Extensions and Additions")
+   (description
+    "This package provides additional data sets, methods and documentation to
+complement the 'vcd' package for Visualizing Categorical Data and the 'gnm'
+package for Generalized Nonlinear Models.  In particular, 'vcdExtra' extends
+mosaic, assoc and sieve plots from 'vcd' to handle 'glm()' and 'gnm()' models
+and adds a 3D version in 'mosaic3d'.  Additionally, methods are provided for
+comparing and visualizing lists of 'glm' and 'loglm' objects.  This package is
+now a support package for the book, \"Discrete Data Analysis with R\" by Michael
+Friendly and David Meyer.")
+   (license license:gpl2+)))
+
 (define r-gpg
   (package
    (name "r-gpg")
-- 
2.36.0





Information forwarded to guix-patches@HIDDEN:
bug#55379; Package guix-patches. Full text available.

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To: guix-patches@HIDDEN
Subject: [PATCH 04/14] gnu: Add r-unpivotr.
Date: Thu, 12 May 2022 02:10:24 +0000
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From: Kyle Andrews <kyle@HIDDEN>

---
 gnu/packages/cran.scm | 35 +++++++++++++++++++++++++++++++++++
 1 file changed, 35 insertions(+)

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 9578263789..213f810d04 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -33303,6 +33303,41 @@ (define-public r-tidyxl
 <http://rapidxml.sourceforge.net>.  Does not support '.xlsb' or '.xls'.")
     (license license:gpl3)))
 
+(define-public r-unpivotr
+  (package
+   (name "r-unpivotr")
+   (version "0.6.2")
+   (source
+    (origin
+     (method url-fetch)
+     (uri (cran-uri "unpivotr" version))
+     (sha256
+      (base32 "1paqx2jn8gh4nd4zm8iwxpf38znzwwqli62ww7f3k5vwkf34r078"))))
+   (properties `((upstream-name . "unpivotr")))
+   (build-system r-build-system)
+   (propagated-inputs
+    (list r-cellranger
+          r-dplyr
+          r-forcats
+          r-magrittr
+          r-pillar
+          r-purrr
+          r-rlang
+          r-tibble
+          r-tidyr
+          r-tidyselect
+          r-xml2))
+   (native-inputs (list r-knitr))
+   (home-page "https://github.com/nacnudus/unpivotr")
+   (synopsis "Unpivot Complex and Irregular Data Layouts")
+   (description
+    "Tools for converting data from complex or irregular layouts to a columnar
+structure.  For example, tables with multilevel column or row headers, or
+spreadsheets.  Header and data cells are selected by their contents and
+position, as well as formatting and comments where available, and are associated
+with one other by their proximity in given directions.  Functions for data
+frames and HTML tables are provided.")
+   (license license:expat)))
 (define r-gpg
   (package
    (name "r-gpg")
-- 
2.36.0





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bug#55379; Package guix-patches. Full text available.

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Subject: [PATCH 01/14] gnu: Add r-gpg.
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From: Kyle Andrews <kyle@HIDDEN>

---
 gnu/packages/cran.scm | 27 +++++++++++++++++++++++++++
 1 file changed, 27 insertions(+)

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 5c05f20ea7..f69a7dd605 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -103,6 +103,7 @@ (define-module (gnu packages cran)
   #:use-module (gnu packages python-xyz)
   #:use-module (gnu packages sqlite)
   #:use-module (gnu packages statistics)
+  #:use-module (gnu packages gnupg)
   #:use-module (gnu packages tcl)
   #:use-module (gnu packages textutils)
   #:use-module (gnu packages tls)
@@ -33255,3 +33256,29 @@ (define-public r-zoeppritz
 coefficients or scattering amplitudes, for seismological P and S-waves at an
 interface.")
     (license license:gpl2+)))
+
+(define r-gpg
+  (package
+   (name "r-gpg")
+   (version "1.2.2")
+   (source
+    (origin
+     (method url-fetch)
+     (uri (cran-uri "gpg" version))
+     (sha256
+      (base32
+       "1qc7w4d6frp0j4yk0q7slkj1mps80bv78lixcpw1shgx48rp41kh"))))
+   (properties `((upstream-name . "gpg")))
+   (build-system r-build-system)
+   (propagated-inputs
+    `(("r-askpass" ,r-askpass) ("r-curl" ,r-curl)))
+   (inputs
+    `(("gpgme" ,gpgme) ("gnupg" ,gnupg)))
+   (native-inputs
+    `(("pkg-config" ,pkg-config) ("r-knitr" ,r-knitr)))
+   (home-page
+    "https://jeroen.cran.dev/gpg/https://github.com/jeroen/gpg")
+   (synopsis "GNU Privacy Guard for R")
+   (description
+    "Bindings to GnuPG for working with OpenGPG (RFC4880) cryptographic methods.  Includes utilities for public key encryption, creating and verifying digital signatures, and managing your local keyring.  Note that some functionality depends on the version of GnuPG that is installed on the system.  On Windows this package can be used together with 'GPG4Win' which provides a GUI for managing keys and entering passphrases.")
+   (license license:expat)))
-- 
2.36.0





Acknowledgement sent to kyle <kyle@HIDDEN>:
New bug report received and forwarded. Copy sent to guix-patches@HIDDEN. Full text available.
Report forwarded to guix-patches@HIDDEN:
bug#55379; Package guix-patches. Full text available.
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