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authorLiliana Marie Prikler <liliana.prikler@gmail.com>2023-09-15 18:20:38 +0200
committerLiliana Marie Prikler <liliana.prikler@gmail.com>2023-09-15 18:47:00 +0200
commite9ff5d51e3297089e66c124195e1f1b42dbded65 (patch)
treece3993c90b76a2275b57bf3231628966897ee122 /gnu/packages
parent43cdc8a07517e936812782c313fe145bcf5c7ed3 (diff)
parentb696fb41bc0dfcb7130a5aa6d69aff2ae191c283 (diff)
Merge branch 'master' into gnome-team.
Diffstat (limited to 'gnu/packages')
-rw-r--r--gnu/packages/admin.scm75
-rw-r--r--gnu/packages/algebra.scm32
-rw-r--r--gnu/packages/base.scm3
-rw-r--r--gnu/packages/bioconductor.scm135
-rw-r--r--gnu/packages/bioinformatics.scm204
-rw-r--r--gnu/packages/boost.scm4
-rw-r--r--gnu/packages/c.scm29
-rw-r--r--gnu/packages/chez.scm10
-rw-r--r--gnu/packages/ci.scm6
-rw-r--r--gnu/packages/cluster.scm4
-rw-r--r--gnu/packages/code.scm45
-rw-r--r--gnu/packages/cran.scm424
-rw-r--r--gnu/packages/crates-io.scm132
-rw-r--r--gnu/packages/databases.scm19
-rw-r--r--gnu/packages/datastructures.scm4
-rw-r--r--gnu/packages/debian.scm15
-rw-r--r--gnu/packages/debug.scm6
-rw-r--r--gnu/packages/dezyne.scm4
-rw-r--r--gnu/packages/diffoscope.scm6
-rw-r--r--gnu/packages/django.scm5
-rw-r--r--gnu/packages/emacs-xyz.scm245
-rw-r--r--gnu/packages/fonts.scm4
-rw-r--r--gnu/packages/games.scm122
-rw-r--r--gnu/packages/geo.scm1
-rw-r--r--gnu/packages/glib.scm6
-rw-r--r--gnu/packages/gnome-xyz.scm12
-rw-r--r--gnu/packages/gnome.scm25
-rw-r--r--gnu/packages/golang.scm4
-rw-r--r--gnu/packages/graphics.scm82
-rw-r--r--gnu/packages/guile-xyz.scm74
-rw-r--r--gnu/packages/heads.scm1
-rw-r--r--gnu/packages/image.scm89
-rw-r--r--gnu/packages/ipfs.scm7
-rw-r--r--gnu/packages/julia-jll.scm7
-rw-r--r--gnu/packages/julia-xyz.scm3
-rw-r--r--gnu/packages/kde-plasma.scm1
-rw-r--r--gnu/packages/libftdi.scm77
-rw-r--r--gnu/packages/linux.scm34
-rw-r--r--gnu/packages/lisp-xyz.scm11
-rw-r--r--gnu/packages/lua.scm151
-rw-r--r--gnu/packages/machine-learning.scm281
-rw-r--r--gnu/packages/maths.scm68
-rw-r--r--gnu/packages/mpi.scm6
-rw-r--r--gnu/packages/music.scm4
-rw-r--r--gnu/packages/networking.scm64
-rw-r--r--gnu/packages/openstack.scm15
-rw-r--r--gnu/packages/package-management.scm59
-rw-r--r--gnu/packages/parallel.scm4
-rw-r--r--gnu/packages/patches/asli-use-system-libs.patch72
-rw-r--r--gnu/packages/patches/ganeti-lens-compat.patch40
-rw-r--r--gnu/packages/patches/ganeti-procps-compat.patch45
-rw-r--r--gnu/packages/patches/ganeti-relax-dependencies.patch28
-rw-r--r--gnu/packages/patches/ganeti-reorder-arbitrary-definitions.patch90
-rw-r--r--gnu/packages/patches/ganeti-template-haskell-2.17.patch69
-rw-r--r--gnu/packages/patches/ganeti-template-haskell-2.18.patch179
-rw-r--r--gnu/packages/patches/glibc-hurd-getauxval.patch34
-rw-r--r--gnu/packages/patches/hdf4-architectures.patch632
-rw-r--r--gnu/packages/patches/hdf4-tirpc.patch33
-rw-r--r--gnu/packages/patches/iputils-libcap-compat.patch37
-rw-r--r--gnu/packages/patches/kwin-unwrap-executable-name-for-dot-desktop-search.patch89
-rw-r--r--gnu/packages/patches/libftdi-fix-paths-when-FTDIPP-set.patch39
-rw-r--r--gnu/packages/patches/nanosvg-prusa-slicer.patch248
-rw-r--r--gnu/packages/patches/python-pyflakes-test-location.patch42
-rw-r--r--gnu/packages/patches/racket-backport-8.10-rktboot.patch130
-rw-r--r--gnu/packages/patches/racket-rktboot-riscv64-support.patch15
-rw-r--r--gnu/packages/patches/tor-remove-defensive-assert.patch28
-rw-r--r--gnu/packages/pdf.scm10
-rw-r--r--gnu/packages/perl.scm1
-rw-r--r--gnu/packages/piet.scm21
-rw-r--r--gnu/packages/pulseaudio.scm6
-rw-r--r--gnu/packages/python-check.scm23
-rw-r--r--gnu/packages/python-web.scm6
-rw-r--r--gnu/packages/python-xyz.scm148
-rw-r--r--gnu/packages/racket.scm44
-rw-r--r--gnu/packages/rust-apps.scm34
-rw-r--r--gnu/packages/rust.scm6
-rw-r--r--gnu/packages/scheme.scm45
-rw-r--r--gnu/packages/serialization.scm11
-rw-r--r--gnu/packages/skarnet.scm1
-rw-r--r--gnu/packages/sqlite.scm4
-rw-r--r--gnu/packages/statistics.scm59
-rw-r--r--gnu/packages/syncthing.scm8
-rw-r--r--gnu/packages/terminals.scm29
-rw-r--r--gnu/packages/tor.scm8
-rw-r--r--gnu/packages/upnp.scm4
-rw-r--r--gnu/packages/video.scm4
-rw-r--r--gnu/packages/vim.scm56
-rw-r--r--gnu/packages/virtualization.scm25
-rw-r--r--gnu/packages/web-browsers.scm4
-rw-r--r--gnu/packages/web.scm4
-rw-r--r--gnu/packages/wm.scm4
-rw-r--r--gnu/packages/xfce.scm4
92 files changed, 3189 insertions, 1849 deletions
diff --git a/gnu/packages/admin.scm b/gnu/packages/admin.scm
index 604cd70c02..1b2324bfc7 100644
--- a/gnu/packages/admin.scm
+++ b/gnu/packages/admin.scm
@@ -8,7 +8,7 @@
;;; Copyright © 2015 Eric Dvorsak <eric@dvorsak.fr>
;;; Copyright © 2016, 2017, 2020 Leo Famulari <leo@famulari.name>
;;; Copyright © 2016 Pjotr Prins <pjotr.guix@thebird.nl>
-;;; Copyright © 2016, 2017 Ricardo Wurmus <rekado@elephly.net>
+;;; Copyright © 2016, 2017, 2023 Ricardo Wurmus <rekado@elephly.net>
;;; Copyright © 2016-2023 Efraim Flashner <efraim@flashner.co.il>
;;; Copyright © 2016 Peter Feigl <peter.feigl@nexoid.at>
;;; Copyright © 2016 John J. Foerch <jjfoerch@earthlink.net>
@@ -36,7 +36,7 @@
;;; Copyright © 2020 Vincent Legoll <vincent.legoll@gmail.com>
;;; Copyright © 2020 Morgan Smith <Morgan.J.Smith@outlook.com>
;;; Copyright © 2021, 2022, 2023 Maxim Cournoyer <maxim.cournoyer@gmail.com>
-;;; Copyright © 2021 Zheng Junjie <873216071@qq.com>
+;;; Copyright © 2021, 2023 Zheng Junjie <873216071@qq.com>
;;; Copyright © 2021 Stefan Reichör <stefan@xsteve.at>
;;; Copyright © 2021 qblade <qblade@protonmail.com>
;;; Copyright © 2021 Hyunseok Kim <lasnesne@lagunposprasihopre.org>
@@ -153,6 +153,7 @@
#:use-module (gnu packages ncurses)
#:use-module (gnu packages networking)
#:use-module (gnu packages openldap)
+ #:use-module (gnu packages package-management)
#:use-module (gnu packages patchutils)
#:use-module (gnu packages pciutils)
#:use-module (gnu packages pcre)
@@ -385,9 +386,18 @@ interface and is based on GNU Guile.")
(base32
"0v9ld9gbqdp5ya380fbkdsxa0iqr90gi6yk004ccz3n792nq6wlj"))))
(native-inputs (modify-inputs (package-native-inputs shepherd-0.9)
- (replace "guile-fibers" guile-fibers-1.3)))
+ (replace "guile-fibers"
+ ;; Work around
+ ;; <https://github.com/wingo/fibers/issues/89>. This
+ ;; affects any system without a functional real-time
+ ;; clock (RTC), but in practice these are typically Arm
+ ;; single-board computers.
+ (if (target-arm?)
+ guile-fibers-1.1
+ guile-fibers-1.3))))
(inputs (modify-inputs (package-inputs shepherd-0.9)
- (replace "guile-fibers" guile-fibers-1.3)))))
+ (replace "guile-fibers"
+ (this-package-native-input "guile-fibers"))))))
(define-public shepherd shepherd-0.9)
@@ -398,6 +408,43 @@ interface and is based on GNU Guile.")
(native-inputs (list pkg-config guile-2.2))
(inputs (list guile-2.2 guile2.2-fibers))))
+(define-public swineherd
+ (package
+ (name "swineherd")
+ (version "0.0.1")
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/BIMSBbioinfo/swineherd")
+ (commit (string-append "v" version))))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "18nk0sy5s0dm2rhxnrrn8g0m098b110mxnnxa2vnl1dnvfdzszw8"))))
+ (build-system gnu-build-system)
+ (arguments
+ '(#:configure-flags '("--localstatedir=/var")
+ #:make-flags '("GUILE_AUTO_COMPILE=0")))
+ (native-inputs
+ (list autoconf automake guile-3.0 pkg-config texinfo))
+ (inputs
+ (list btrfs-progs
+ guile-config
+ guile-fibers-1.3
+ guile-netlink
+ guile-3.0
+ guix
+ shepherd-0.10))
+ (home-page "https://github.com/BIMSBbioinfo/swineherd")
+ (synopsis "System container manager")
+ (description
+ "This project aims to provide an extension to the Shepherd, retraining it
+as a swineherd, a manager of crude system containers. It does this by
+providing a Shepherd service @code{swineherd} that talks to the Shepherd
+process to create Guix System containers as Shepherd services. It also comes
+with an optional HTTP API server.")
+ (license license:gpl3+)))
+
(define-public cfm
(package
(name "cfm")
@@ -1931,7 +1978,11 @@ at once based on a Perl regular expression.")
(lambda* (#:key inputs #:allow-other-keys)
(substitute* "rc/rc"
(("/usr/sbin/sendmail")
- (search-input-file inputs "/bin/mail")))))
+ (search-input-file inputs "/bin/mail")))
+ (with-fluids ((%default-port-encoding "ISO-8859-1"))
+ (substitute* "src/rottlog"
+ (("awk")
+ (search-input-file inputs "/bin/awk"))))))
(add-after 'build 'set-packdir
(lambda _
;; Set a default location for archived logs.
@@ -1950,7 +2001,7 @@ at once based on a Perl regular expression.")
(lambda _
(invoke "make" "install-info"))))))
(native-inputs (list autoconf automake texinfo util-linux)) ; for 'cal'
- (inputs (list coreutils mailutils))
+ (inputs (list coreutils gawk mailutils))
(home-page "https://www.gnu.org/software/rottlog/")
(synopsis "Log rotation and management")
(description
@@ -3961,12 +4012,12 @@ Intel DRM Driver.")
"0i7wpisipwzk0j62pzaigbiq42y1mn4sbraz4my2jlz6ahwf00kv"))))
(build-system gnu-build-system)
(arguments
- `(#:tests? #f ; there are no tests
- #:make-flags
- (list (string-append "PREFIX=" %output))
- #:phases
- (modify-phases %standard-phases
- (delete 'configure)))) ; no configure script
+ (list #:tests? #f ; there are no tests
+ #:make-flags
+ #~(list (string-append "PREFIX=" #$output))
+ #:phases
+ #~(modify-phases %standard-phases
+ (delete 'configure)))) ; no configure script
(home-page "https://github.com/dylanaraps/neofetch")
(synopsis "System information script")
(description "Neofetch is a command-line system information tool written in
diff --git a/gnu/packages/algebra.scm b/gnu/packages/algebra.scm
index a717750c7b..b1ab755144 100644
--- a/gnu/packages/algebra.scm
+++ b/gnu/packages/algebra.scm
@@ -1154,38 +1154,6 @@ features, and more.")
(substitute* "test/CMakeLists.txt"
(("ei_add_test\\(stddeque") "#")))))))))))
-(define-public eigen-for-tensorflow-lite
- ;; This commit was taken from
- ;; tensorflow/lite/tools/cmake/modules/eigen.cmake
- (let ((commit "d10b27fe37736d2944630ecd7557cefa95cf87c9")
- (revision "1"))
- (package (inherit eigen)
- (name "eigen-for-tensorflow-lite")
- (version (git-version "3.3.7" revision commit))
- (source (origin
- (method git-fetch)
- (uri (git-reference
- (url "https://gitlab.com/libeigen/eigen")
- (commit commit)))
- (sha256
- (base32
- "0v8a20cwvwmp3hw4275b37frw33v92z0mr8f4dn6y8k0rz92hrrf"))
- (file-name (git-file-name name version))
- (modules '((guix build utils)))
- (snippet
- ;; Ther are test failures in the "unsupported" directory, but
- ;; maintainers say it's unsupported anyway, so just skip
- ;; them.
- '(begin
- (substitute* "unsupported/CMakeLists.txt"
- (("add_subdirectory\\(test.*")
- "# Do not build the tests for unsupported features.\n"))))))
- (arguments
- (substitute-keyword-arguments (package-arguments eigen)
- ((#:phases phases)
- `(modify-phases ,phases
- (delete 'disable-some-tests))))))))
-
(define-public xtensor
(package
(name "xtensor")
diff --git a/gnu/packages/base.scm b/gnu/packages/base.scm
index 5a3d5aced5..786b080ae4 100644
--- a/gnu/packages/base.scm
+++ b/gnu/packages/base.scm
@@ -1463,7 +1463,8 @@ command.")
"glibc-2.37-hurd-clock_t_centiseconds.patch"
"glibc-2.37-hurd-local-clock_gettime_MONOTONIC.patch"
"glibc-hurd-mach-print.patch"
- "glibc-hurd-gettyent.patch"))))
+ "glibc-hurd-gettyent.patch"
+ "glibc-hurd-getauxval.patch"))))
(supported-systems %hurd-systems)))
(define-public glibc/hurd-headers
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index c913232680..8e13044b1a 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -51,6 +51,7 @@
#:use-module (gnu packages haskell-xyz)
#:use-module (gnu packages image)
#:use-module (gnu packages java)
+ #:use-module (gnu packages javascript)
#:use-module (gnu packages maths)
#:use-module (gnu packages netpbm)
#:use-module (gnu packages python)
@@ -7194,13 +7195,13 @@ genomic intervals. In addition, it can use BAM or BigWig files as input.")
(define-public r-genomeinfodb
(package
(name "r-genomeinfodb")
- (version "1.36.2")
+ (version "1.36.3")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "GenomeInfoDb" version))
(sha256
(base32
- "0bd46s7ch4j70n0snjf2nyx8gzkxn7d563jh5i3i0wzb647f5hbg"))))
+ "04bh4481jcj91xdh11ic4519jczck6zmysbpnpbbhykanp31z4pf"))))
(properties
`((upstream-name . "GenomeInfoDb")))
(build-system r-build-system)
@@ -7253,13 +7254,13 @@ alignments.")
(define-public r-genomicdatacommons
(package
(name "r-genomicdatacommons")
- (version "1.24.2")
+ (version "1.24.3")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "GenomicDataCommons" version))
(sha256
(base32
- "0dgvhi6nbc1qvrdwww2r39gxd2xmbadvy03lxh5nny9pyhhdlz3l"))))
+ "1grvria7lx7p0py3w8yi0j41bpfx951lds5db7jdiq0j8l75fh38"))))
(properties `((upstream-name . "GenomicDataCommons")))
(build-system r-build-system)
(propagated-inputs (list r-dplyr
@@ -7272,6 +7273,7 @@ alignments.")
r-readr
r-rlang
r-tibble
+ r-tidyr
r-xml2))
(native-inputs (list r-knitr))
(home-page "https://bioconductor.org/packages/GenomicDataCommons")
@@ -7734,6 +7736,90 @@ of other R packages who wish to make use of HTSlib.")
microarray data, using nearest neighbor averaging.")
(license license:gpl2+)))
+(define-public r-interactivedisplay
+ (package
+ (name "r-interactivedisplay")
+ (version "1.38.0")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "interactiveDisplay" version))
+ (sha256
+ (base32
+ "1y9fdnpz1bagrwhyj8jikp2q5fd9y74j48l5z7f0s88v88sa7szl"))
+ (snippet
+ '(for-each delete-file
+ '("inst/www/js/jquery.js"
+ "inst/www/js/jquery.min.js"
+ "inst/www/js/jquery.dataTables.min.js")))))
+ (properties `((upstream-name . "interactiveDisplay")))
+ (build-system r-build-system)
+ (arguments
+ (list
+ #:modules '((guix build utils)
+ (guix build r-build-system)
+ (srfi srfi-1))
+ #:phases
+ '(modify-phases %standard-phases
+ (add-after 'unpack 'process-javascript
+ (lambda* (#:key inputs #:allow-other-keys)
+ (call-with-values
+ (lambda ()
+ (unzip2
+ `((,(assoc-ref inputs "js-jquery-1.8.2")
+ "inst/www/js/jquery.js")
+ (,(assoc-ref inputs "js-jquery-1.9.1")
+ "inst/www/js/jquery.min.js")
+ (,(search-input-file inputs
+ "/share/javascript/jquery.dataTables.min.js")
+ "inst/www/js/jquery.dataTables.min.js"))))
+ (lambda (sources targets)
+ (for-each (lambda (source target)
+ (format #true "Processing ~a --> ~a~%"
+ source target)
+ (invoke "esbuild" source "--minify"
+ (string-append "--outfile=" target)))
+ sources targets))))))))
+ (propagated-inputs
+ (list r-annotationdbi
+ r-biocgenerics
+ r-biocmanager
+ r-category
+ r-dt
+ r-ggplot2
+ r-gridsvg
+ r-interactivedisplaybase
+ r-plyr
+ r-rcolorbrewer
+ r-reshape2
+ r-shiny
+ r-zlibbioc
+ r-xml))
+ (native-inputs
+ `(("esbuild" ,esbuild)
+ ("r-knitr" ,r-knitr)
+ ("js-datatables" ,js-datatables)
+ ("js-jquery-1.8.2"
+ ,(origin
+ (method url-fetch)
+ (uri "https://code.jquery.com/jquery-1.8.2.js")
+ (sha256
+ (base32
+ "0nikk2clbnyi02k0brvhbd8m43lfh4l1zrya35jya9sy6wb9b9ng"))))
+ ("js-jquery-1.9.1"
+ ,(origin
+ (method url-fetch)
+ (uri "https://code.jquery.com/jquery-1.9.1.js")
+ (sha256
+ (base32
+ "0h4dk67yc9d0kadqxb6b33585f3x3559p6qmp70l00qwq030vn3v"))))))
+ (home-page "https://bioconductor.org/packages/interactiveDisplay")
+ (synopsis "Package for Shiny web displays of Bioconductor objects")
+ (description
+ "This package offers interactive Shiny displays for Bioconductor
+objects. In addition, this package empowers users to develop engaging
+visualizations and interfaces for working with Bioconductor data.")
+ (license license:artistic2.0)))
+
(define-public r-interactivedisplaybase
(package
(name "r-interactivedisplaybase")
@@ -9727,13 +9813,13 @@ and advanced quality control routines.")
(define-public r-shinymethyl
(package
(name "r-shinymethyl")
- (version "1.36.0")
+ (version "1.36.1")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "shinyMethyl" version))
(sha256
(base32
- "1rqwwglj0475gr14bxazfmcvsy7rq6nlw2zcswa684751wy15w0r"))))
+ "0hq1q66vjd9pwdwm9zx8q45ws65bn6cm87zmjmyc3md8dwvb8cck"))))
(properties `((upstream-name . "shinyMethyl")))
(build-system r-build-system)
(propagated-inputs
@@ -9877,16 +9963,17 @@ level.")
(define-public r-tcgautils
(package
(name "r-tcgautils")
- (version "1.20.2")
+ (version "1.20.4")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "TCGAutils" version))
(sha256
(base32
- "0nnfrd5x3mii9adizvz79jinlxn2lhg4civ9v0wwygmdhk7rrm1n"))))
+ "02mkijvh2h58wg7hsi76ycw6gapl0ai190agckaw4l54sqpsx91q"))))
(properties `((upstream-name . "TCGAutils")))
(build-system r-build-system)
(propagated-inputs (list r-annotationdbi
+ r-biocbaseutils
r-biocgenerics
r-genomeinfodb
r-genomicdatacommons
@@ -11023,13 +11110,13 @@ posterior for individual coefficients.")
(define-public r-greylistchip
(package
(name "r-greylistchip")
- (version "1.32.0")
+ (version "1.32.1")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "GreyListChIP" version))
(sha256
(base32
- "1sfpf9msnzyrc8b0xzc2406bq2gkcwrrhv7fa9ynqv2ip6xwsc8s"))))
+ "0z89yikglx077x18qhq6f8f2fa9xni12jz8my9p5sa6zmvnj4dnm"))))
(properties `((upstream-name . "GreyListChIP")))
(build-system r-build-system)
(propagated-inputs
@@ -12564,14 +12651,14 @@ abnormal copy number.")
(define-public r-htscluster
(package
(name "r-htscluster")
- (version "2.0.10")
+ (version "2.0.11")
(source
(origin
(method url-fetch)
(uri (cran-uri "HTSCluster" version))
(sha256
(base32
- "0scn4fsfmlkzxibfhsh6krm2cl9c8hsmyjgn48k9dyjf0ylyxg9n"))))
+ "0x9shhyla9bldkkh367gfdmf0k72l1ppixb8gzsa6nf8jx8qdpbp"))))
(properties `((upstream-name . "HTSCluster")))
(build-system r-build-system)
(propagated-inputs
@@ -14335,14 +14422,14 @@ attempts to assess their statistical significance.")
(define-public r-clusterprofiler
(package
(name "r-clusterprofiler")
- (version "4.8.2")
+ (version "4.8.3")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "clusterProfiler" version))
(sha256
(base32
- "0iijby2j9i6sbdc3iwhqqb8xlz25k3dpiyq91p7yybggpr2p1nw4"))))
+ "1kihrpa8cb2bqk5dck0w6yzgfpl72qxlrxwpidg1ar27q3ivz8w3"))))
(properties
`((upstream-name . "clusterProfiler")))
(build-system r-build-system)
@@ -19576,13 +19663,13 @@ routines.")
(define-public r-s4arrays
(package
(name "r-s4arrays")
- (version "1.0.5")
+ (version "1.0.6")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "S4Arrays" version))
(sha256
(base32
- "01xlccybhdgas9pnx88ll9q56qb2xd687xvfrc7bd5r9sf72b81c"))))
+ "011n4lyznlrya5l8d7m30x81k7h81wbp07b12s6a4s5sy9fzd5jb"))))
(properties `((upstream-name . "S4Arrays")))
(build-system r-build-system)
(propagated-inputs
@@ -19840,14 +19927,14 @@ block processing.")
(define-public r-rhdf5lib
(package
(name "r-rhdf5lib")
- (version "1.22.0")
+ (version "1.22.1")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "Rhdf5lib" version))
(sha256
(base32
- "1j8i4rmq85n7jys86a9zyj1n4qn7bhc1sqgcq8dyh7zqfdvb9bcw"))
+ "1007i2rzz86k04kswa4h53p8zzh52k31m9d8im6iw0n91inqbcj9"))
(modules '((guix build utils)))
(snippet
'(begin
@@ -20463,14 +20550,14 @@ Visium platform.")
(define-public r-delayedmatrixstats
(package
(name "r-delayedmatrixstats")
- (version "1.22.5")
+ (version "1.22.6")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "DelayedMatrixStats" version))
(sha256
(base32
- "1bzbsfds5zki6iazj53y6kps8bvn7zdysbmpf9359sv6zshk18fv"))))
+ "0jaaqa2fm61dmsphm5y4rlwf2dm1l5rs0vpq0f5r35iyw2m12lh8"))))
(properties
`((upstream-name . "DelayedMatrixStats")))
(build-system r-build-system)
@@ -21108,14 +21195,14 @@ on the plot.")
(define-public r-abn
(package
(name "r-abn")
- (version "2.7-5")
+ (version "3.0.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "abn" version))
(sha256
(base32
- "0ibznjhy7vmh2myarvmxy06rvddbpbarbp201px62mig2pb9aq4y"))))
+ "100nafmyddz0c1h01fbqw5q6pji7zhg2196rkyak88za6s5ms0s4"))))
(build-system r-build-system)
(inputs
(list gsl))
@@ -21124,11 +21211,13 @@ on the plot.")
r-foreach
r-graph
r-lme4
+ r-mclogit
r-nnet
r-rcpp
r-rcpparmadillo
r-rgraphviz
- r-rjags))
+ r-rjags
+ r-stringi))
(native-inputs
(list r-r-rsp))
(home-page "https://r-bayesian-networks.org/")
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 8968325e83..c78f017a24 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -1945,6 +1945,42 @@ matplotlib Axes objects, making them easy to style and incorporate into
multi-panel figures.")
(license license:expat)))
+(define-public python-peaks2utr
+ (package
+ (name "python-peaks2utr")
+ (version "1.2.0")
+ (source (origin
+ (method url-fetch)
+ (uri (pypi-uri "peaks2utr" version))
+ (sha256
+ (base32
+ "1idp9cgwqxvryf4qqrc1xjsamfqn3jmr56kmjp2h1ysmckwmhw4v"))))
+ (build-system pyproject-build-system)
+ (arguments
+ (list
+ #:test-flags
+ ;; These two tests fail because file names are not URLs.
+ '(list "-k" "not test_annotation.py")))
+ (propagated-inputs
+ (list python-asgiref
+ python-gffutils
+ python-importlib-resources
+ macs
+ python-numpy
+ python-psutil
+ python-pybedtools
+ python-pysam
+ python-requests
+ python-tqdm
+ python-typing-extensions
+ python-zipp))
+ (home-page "https://github.com/haessar/peaks2utr")
+ (synopsis "Python CLI for annotating three prime UTR")
+ (description
+ "This package provides a robust, parallelized Python CLI for annotating
+three prime UTR.")
+ (license license:gpl3+)))
+
(define-public python-pegasusio
(package
(name "python-pegasusio")
@@ -7023,7 +7059,7 @@ experiments.")
(define-public macs
(package
(name "macs")
- (version "2.2.7.1")
+ (version "2.2.9.1")
(source (origin
;; The PyPi tarball does not contain tests.
(method git-fetch)
@@ -7033,7 +7069,7 @@ experiments.")
(file-name (git-file-name name version))
(sha256
(base32
- "08zsgh65xbpv1md2s3wqmrk9g2mz6izmn59ryw5lbac54120p291"))
+ "10vwc09fq4nvbd39hax1949mvq2wvkgz0k3p2zqmqwq8hv9r5l0j"))
(modules '((guix build utils)))
;; Remove files generated by Cython
(snippet
@@ -7048,21 +7084,17 @@ experiments.")
;; Python 3.10 is in fact more recent than 3.6.
(substitute* "setup.py"
(("float\\(sys.version\\[:3\\]\\)<3.6") "False"))))))
- (build-system python-build-system)
+ (build-system pyproject-build-system)
(arguments
`(#:phases
(modify-phases %standard-phases
(add-before 'build 'set-HOME
- (lambda _ (setenv "HOME" "/tmp")))
- (replace 'check
- (lambda* (#:key tests? inputs outputs #:allow-other-keys)
- (when tests?
- (add-installed-pythonpath inputs outputs)
- (invoke "pytest" "-v")))))))
- (inputs
- (list python-numpy))
+ (lambda _ (setenv "HOME" "/tmp"))))))
+ ;; Propagate these for use of macs as a library.
+ (propagated-inputs
+ (list python-cython python-numpy))
(native-inputs
- (list python-cython python-pytest))
+ (list python-pytest))
(home-page "https://github.com/macs3-project/MACS")
(synopsis "Model based analysis for ChIP-Seq data")
(description
@@ -16197,10 +16229,10 @@ includes operations like compartment, insulation or peak calling.")
(list
#:phases
'(modify-phases %standard-phases
- (replace 'check
- (lambda* (#:key tests? #:allow-other-keys)
- (when tests?
- (invoke "python" "-m" "pytest" "-v")))))))
+ (add-after 'unpack 'remove-invalid-syntax
+ (lambda _
+ (substitute* "setup.py"
+ ((".\\*\"") "\"")))))))
(propagated-inputs
(list python-cooler
python-intervaltree
@@ -19134,7 +19166,7 @@ coordinates between different assemblies.")
(define-public python-cgatcore
(package
(name "python-cgatcore")
- (version "0.6.14")
+ (version "0.6.15")
;; The version of pypi does not include test data.
(source (origin
(method git-fetch)
@@ -19144,7 +19176,7 @@ coordinates between different assemblies.")
(file-name (git-file-name name version))
(sha256
(base32
- "0fjjaski39j8b7v21wldmbwwsfhicngajah7n4skafi56kdck33p"))))
+ "103hpdnkqr3a34blbicshk56j36g652s0g1zi9isppc5dngn0s18"))))
(build-system pyproject-build-system)
(arguments
(list
@@ -19214,77 +19246,77 @@ large-scale data-analysis.")
"1dvh23fx52m59y6304xi2j2pl2hiqadlqg8jyv2pm14j1hy71ych"))))
(build-system perl-build-system)
(arguments
- `(#:modules ((guix build perl-build-system)
+ (list
+ #:modules '((guix build perl-build-system)
(guix build utils)
(srfi srfi-26))
- #:phases
- (modify-phases %standard-phases
- (add-after 'unpack 'hardcode-references
- (lambda* (#:key inputs #:allow-other-keys)
- (let ((bedtools (assoc-ref inputs "bedtools"))
- (r (assoc-ref inputs "r-minimal")))
- (substitute* '("scripts/python/getEigenVectors.py"
- "scripts/python/matrix2EigenVectors.py")
- (("bedtools intersect")
- (string-append bedtools "/bin/bedtools intersect")))
- (substitute* "lib/cworld/dekker.pm"
- (("bedtools --version")
- (string-append bedtools "/bin/bedtools --version")))
- (substitute* '("scripts/perl/correlateMatrices.pl"
- "scripts/perl/matrix2scaling.pl"
- "scripts/perl/matrix2distance.pl"
- "scripts/perl/coverageCorrect.pl"
- "scripts/perl/matrix2anchorPlot.pl"
- "scripts/python/matrix2EigenVectors.py"
- "scripts/python/matrix2insulation-lite.py"
- "scripts/perl/matrix2compartment.pl"
- "scripts/perl/anchorPurge.pl"
- "scripts/perl/applyCorrection.pl"
- "scripts/perl/compareInsulation.pl"
- "scripts/perl/fillMissingData.pl"
- "scripts/perl/matrix2loess.pl"
- "scripts/python/getEigenVectors.py"
- "scripts/perl/aggregateBED.pl"
- "scripts/perl/collapseMatrix.pl"
- "scripts/perl/matrix2direction.pl"
- "scripts/perl/singletonRemoval.pl"
- "lib/cworld/dekker.pm"
- "scripts/perl/matrix2insulation.pl")
- (("(`|\")Rscript" _ pre)
- (string-append pre r "/bin/Rscript"))))))
- (add-after 'install 'install-scripts
- (lambda* (#:key outputs #:allow-other-keys)
- (let* ((out (assoc-ref outputs "out"))
- (share (string-append out "/share/cworld-dekker")))
- (mkdir-p share)
- (copy-recursively "scripts" share)
-
- ;; Make all scripts executable and wrap them.
- (let ((r (find-files share "\\.R$"))
- (py (find-files share "\\.py$"))
- (pl (find-files share "\\.pl$"))
- (wrap (lambda* (script var #:optional (extra ""))
- (let ((path (string-append (getenv var)
- extra)))
- (wrap-program script
- `(,var ":" prefix (,path)))))))
- (for-each (cut chmod <> #o555) (append r py pl))
- (for-each (cut wrap <> "PERL5LIB"
- (string-append ":" out
- "/lib/perl5/site_perl"))
- pl)
- (for-each (cut wrap <> "GUIX_PYTHONPATH") py))))))))
+ #:phases
+ #~(modify-phases %standard-phases
+ (add-after 'unpack 'hardcode-references
+ (lambda* (#:key inputs #:allow-other-keys)
+ (let ((bedtools #$(this-package-input "bedtools"))
+ (r #$(this-package-input "r-minimal")))
+ (substitute* '("scripts/python/getEigenVectors.py"
+ "scripts/python/matrix2EigenVectors.py")
+ (("bedtools intersect")
+ (string-append bedtools "/bin/bedtools intersect")))
+ (substitute* "lib/cworld/dekker.pm"
+ (("bedtools --version")
+ (string-append bedtools "/bin/bedtools --version")))
+ (substitute* '("scripts/perl/correlateMatrices.pl"
+ "scripts/perl/matrix2scaling.pl"
+ "scripts/perl/matrix2distance.pl"
+ "scripts/perl/coverageCorrect.pl"
+ "scripts/perl/matrix2anchorPlot.pl"
+ "scripts/python/matrix2EigenVectors.py"
+ "scripts/python/matrix2insulation-lite.py"
+ "scripts/perl/matrix2compartment.pl"
+ "scripts/perl/anchorPurge.pl"
+ "scripts/perl/applyCorrection.pl"
+ "scripts/perl/compareInsulation.pl"
+ "scripts/perl/fillMissingData.pl"
+ "scripts/perl/matrix2loess.pl"
+ "scripts/python/getEigenVectors.py"
+ "scripts/perl/aggregateBED.pl"
+ "scripts/perl/collapseMatrix.pl"
+ "scripts/perl/matrix2direction.pl"
+ "scripts/perl/singletonRemoval.pl"
+ "lib/cworld/dekker.pm"
+ "scripts/perl/matrix2insulation.pl")
+ (("(`|\")Rscript" _ pre)
+ (string-append pre r "/bin/Rscript"))))))
+ (add-after 'install 'install-scripts
+ (lambda _
+ (let ((share (string-append #$output "/share/cworld-dekker")))
+ (mkdir-p share)
+ (copy-recursively "scripts" share)
+
+ ;; Make all scripts executable and wrap them.
+ (let ((r (find-files share "\\.R$"))
+ (py (find-files share "\\.py$"))
+ (pl (find-files share "\\.pl$"))
+ (wrap (lambda* (script var #:optional (extra ""))
+ (let ((path (string-append (getenv var)
+ extra)))
+ (wrap-program script
+ `(,var ":" prefix (,path)))))))
+ (for-each (cut chmod <> #o555) (append r py pl))
+ (for-each (cut wrap <> "PERL5LIB"
+ (string-append ":" #$output
+ "/lib/perl5/site_perl"))
+ pl)
+ (for-each (cut wrap <> "GUIX_PYTHONPATH") py))))))))
(inputs
- `(("libgd" ,gd)
- ("perl-gd" ,perl-gd)
- ("bedtools" ,bedtools)
- ("python" ,python-wrapper)
- ("python-scipy" ,python-scipy)
- ("python-numpy" ,python-numpy)
- ("python-matplotlib" ,python-matplotlib)
- ("python-h5py" ,python-h5py)
- ("python-scikit-learn" ,python-scikit-learn)
- ("r-minimal" ,r-minimal)))
+ (list gd
+ perl-gd
+ bedtools
+ python-wrapper
+ python-scipy
+ python-numpy
+ python-matplotlib
+ python-h5py
+ python-scikit-learn
+ r-minimal))
(native-inputs
(list perl-module-build))
(home-page "https://github.com/dekkerlab/cworld-dekker")
diff --git a/gnu/packages/boost.scm b/gnu/packages/boost.scm
index d2b676cc73..98dccf7f16 100644
--- a/gnu/packages/boost.scm
+++ b/gnu/packages/boost.scm
@@ -45,14 +45,12 @@
#:use-module (guix build-system trivial)
#:use-module (gnu packages)
#:use-module (gnu packages compression)
- #:use-module (gnu packages hurd)
#:use-module (gnu packages icu4c)
#:use-module (gnu packages llvm)
#:use-module (gnu packages perl)
#:use-module (gnu packages python)
#:use-module (gnu packages shells)
- #:use-module (gnu packages mpi)
- #:use-module (srfi srfi-1))
+ #:use-module (gnu packages mpi))
(define (version-with-underscores version)
(string-map (lambda (x) (if (eq? x #\.) #\_ x)) version))
diff --git a/gnu/packages/c.scm b/gnu/packages/c.scm
index 9e5b511b98..ea58c68262 100644
--- a/gnu/packages/c.scm
+++ b/gnu/packages/c.scm
@@ -17,6 +17,7 @@
;;; Copyright © 2022 Artyom V. Poptsov <poptsov.artyom@gmail.com>
;;; Copyright © 2022 Ekaitz Zarraga <ekaitz@elenq.tech>
;;; Copyright © 2022 ( <paren@disroot.org>
+;;; Copyright © 2022 Antero Mejr <antero@mailbox.org>
;;; Copyright © 2023 zamfofex <zamfofex@twdb.moe>
;;; Copyright © 2023 Foundation Devices, Inc. <hello@foundationdevices.com>
;;;
@@ -1495,6 +1496,34 @@ string.h, but with a utf8* prefix instead of the str* prefix.")
"This package provides a header-only unit testing library for C/C++.")
(license license:unlicense))))
+(define-public nsync
+ (package
+ (name "nsync")
+ (version "1.26.0")
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/google/nsync")
+ (commit version)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "0qg58kkcbm4zqkql8j5yvrb7fpx09qsf7j93dwqb9s1y69l70kx4"))))
+ (build-system cmake-build-system)
+ (home-page "https://github.com/google/nsync")
+ (synopsis "C library for synchronization primitives")
+ (description
+ "nsync is a C library that exports various synchronization primitives:
+@enumerate
+@item locks,
+@item condition variables,
+@item run-once initialization,
+@item waitable counter (useful for barriers),
+@item waitable bit (useful for cancellation, or other conditions).
+@end enumerate
+")
+ (license license:asl2.0)))
+
(define-public ispc
(package
(name "ispc")
diff --git a/gnu/packages/chez.scm b/gnu/packages/chez.scm
index a5cb5a2e06..3f53beac1a 100644
--- a/gnu/packages/chez.scm
+++ b/gnu/packages/chez.scm
@@ -466,7 +466,7 @@ and 32-bit PowerPC architectures.")
(package
(inherit chez-scheme)
(name "chez-scheme-for-racket")
- (version "9.9.9-pre-release.16")
+ (version "9.9.9-pre-release.17")
;; The version should match `scheme-version`.
;; See racket/src/ChezScheme/s/cmacros.ss c. line 360.
;; It will always be different than the upstream version!
@@ -691,13 +691,7 @@ source.")))
#~(invoke
(search-input-file (or native-inputs inputs)
"/opt/racket-vm/bin/racket")
- "../rktboot/main.rkt"
- ;; Temporary handling of builds on non-x86 architectures,
- ;; see https://github.com/racket/racket/issues/3948
- ;; Autodetect in rktboot only addresses x86 archs, so far.
- #$@(let ((m (or (racket-cs-native-supported-system?)
- (nix-system->pbarch-machine-type))))
- #~("--machine" #$m))))))))))))
+ "../rktboot/main.rkt"))))))))))
(supported-systems
(package-supported-systems chez-scheme-for-racket))
(home-page "https://github.com/racket/ChezScheme")
diff --git a/gnu/packages/ci.scm b/gnu/packages/ci.scm
index 25566bc0fa..f38dd4383d 100644
--- a/gnu/packages/ci.scm
+++ b/gnu/packages/ci.scm
@@ -58,8 +58,8 @@
#:use-module ((guix search-paths) #:select ($SSL_CERT_DIR)))
(define-public cuirass
- (let ((commit "7416bb916315730cd1ea74e7914f7532a1aba193")
- (revision "17"))
+ (let ((commit "613188072c468fe2ffa4e8f83b48aefeb2488a2c")
+ (revision "18"))
(package
(name "cuirass")
(version (git-version "1.1.0" revision commit))
@@ -72,7 +72,7 @@
(file-name (git-file-name name version))
(sha256
(base32
- "1wc39c7aqva5sp3gpdxq2kqa17ywy21yn5w8r66qgxjinvj21a68"))))
+ "13ai3xmf62kx9ijc5imapcjwyvkhj2kxnh36chh3vbh3sxbbanzz"))))
(build-system gnu-build-system)
(arguments
`(#:modules ((guix build utils)
diff --git a/gnu/packages/cluster.scm b/gnu/packages/cluster.scm
index 6d10d73859..1b38015372 100644
--- a/gnu/packages/cluster.scm
+++ b/gnu/packages/cluster.scm
@@ -46,14 +46,14 @@
(define-public drbd-utils
(package
(name "drbd-utils")
- (version "9.22.0")
+ (version "9.25.0")
(source (origin
(method url-fetch)
(uri (list (string-append "https://pkg.linbit.com/downloads/drbd"
"/utils/drbd-utils-" version ".tar.gz")))
(sha256
(base32
- "02zdfd9xg5xdxps2bg9ch3vkrs800whsycazkvgi29p80nihq1vm"))
+ "01vbghs4vyl3jvxkid59bqv73dya98k6jx5zhni2yx2xf8msynvf"))
(modules '((guix build utils)))
(snippet
'(begin
diff --git a/gnu/packages/code.scm b/gnu/packages/code.scm
index 9cdda2b751..b716f32599 100644
--- a/gnu/packages/code.scm
+++ b/gnu/packages/code.scm
@@ -17,6 +17,7 @@
;;; Copyright © 2021 lu hui <luhuins@163.com>
;;; Copyright © 2021, 2022 Foo Chuan Wei <chuanwei.foo@hotmail.com>
;;; Copyright © 2022 Michael Rohleder <mike@rohleder.de>
+;;; Copyright © 2023 Zheng Junjie <873216071@qq.com>
;;;
;;; This file is part of GNU Guix.
;;;
@@ -200,6 +201,10 @@ highlighting your own code that seemed comprehensible when you wrote it.")
(string-append "--with-universal-ctags="
#$(this-package-input "universal-ctags")
"/bin/ctags")
+ ;; Otherwise this gets overridden in the 'configure phase.
+ (string-append "--with-python-interpreter="
+ #$(this-package-input "python-wrapper")
+ "/bin/python")
(string-append "--sysconfdir="
#$output "/share/gtags")
"--localstatedir=/var" ; This needs to be a writable location.
@@ -769,11 +774,13 @@ produce colored output.")
(base32 "1gjfk3d8qg3cla7qd2y7r9s03whlfwy83q8k76xfcnqrjjfavdgk"))))
(build-system gnu-build-system)
(arguments
- '(#:test-target "test"
- #:make-flags (list "CC=gcc" (string-append "prefix=" %output))
- #:phases
- (modify-phases %standard-phases
- (delete 'configure))))
+ (list
+ #:test-target "test"
+ #:make-flags #~(list (string-append "CC=" #$(cc-for-target))
+ (string-append "prefix=" #$output))
+ #:phases
+ #~(modify-phases %standard-phases
+ (delete 'configure))))
(native-inputs
(list graphviz))
(home-page "https://github.com/lindenb/makefile2graph")
@@ -787,7 +794,7 @@ independent targets.")
(define-public uncrustify
(package
(name "uncrustify")
- (version "0.75.1")
+ (version "0.77.1")
(source (origin
(method git-fetch)
(uri (git-reference
@@ -796,22 +803,20 @@ independent targets.")
(file-name (git-file-name name version))
(sha256
(base32
- "1mzzzd4alajjdshbjd2a5mddqcpag8yyss72n09mfpialzyf7g60"))))
+ "17x9p5pqgzjchi9xhskp4kq7ag4chmsgbkvwym5m2b9zwm6qykpm"))))
(build-system cmake-build-system)
- (native-inputs
- `(("python" ,python-wrapper)))
+ (native-inputs (list python-wrapper))
(arguments
- `(#:phases
- (modify-phases %standard-phases
- (add-after 'unpack 'unpack-etc
- (lambda* (#:key inputs outputs #:allow-other-keys)
- ;; Configuration samples are not installed by default.
- (let* ((output (assoc-ref outputs "out"))
- (etcdir (string-append output "/etc")))
- (for-each (lambda (l)
- (install-file l etcdir))
- (find-files "etc" "\\.cfg$")))
- #t)))))
+ (list #:phases
+ #~(modify-phases %standard-phases
+ (add-after 'unpack 'unpack-etc
+ (lambda* (#:key inputs outputs #:allow-other-keys)
+ ;; Configuration samples are not installed by default.
+ (let* ((output (assoc-ref outputs "out"))
+ (etcdir (string-append output "/etc")))
+ (for-each (lambda (l)
+ (install-file l etcdir))
+ (find-files "etc" "\\.cfg$"))))))))
(home-page "https://uncrustify.sourceforge.net/")
(synopsis "Code formatter for C and other related languages")
(description
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index b6a01a99b0..6166b0d006 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -782,13 +782,13 @@ text annotations.")
(define-public r-ggfittext
(package
(name "r-ggfittext")
- (version "0.10.0")
+ (version "0.10.1")
(source (origin
(method url-fetch)
(uri (cran-uri "ggfittext" version))
(sha256
(base32
- "06xfv552nhw13wc8dixyqhhmw5zh8hphrabw090nzb33cpfwzin8"))))
+ "1z06q55igv6nibc72hll93cpp80mfg3yqfqbi967832nfj7wll7a"))))
(properties `((upstream-name . "ggfittext")))
(build-system r-build-system)
(propagated-inputs (list r-ggplot2 r-gridtext r-shades r-stringi))
@@ -1714,13 +1714,13 @@ size and can be easily tested locally before being sent to a remote.")
(define-public r-climaemet
(package
(name "r-climaemet")
- (version "1.1.1")
+ (version "1.2.0")
(source (origin
(method url-fetch)
(uri (cran-uri "climaemet" version))
(sha256
(base32
- "17g55shqsgpv9vpm41r5lc7ihqhfqj0phbsgv9ghpql9z1nxjy19"))))
+ "1276pxs3w610v6m8j5h206xxgwvm2wwma73jpvn7s3rcxycs32m5"))))
(properties `((upstream-name . "climaemet")))
(build-system r-build-system)
(propagated-inputs
@@ -3018,13 +3018,13 @@ objects.")
(define-public r-mboost
(package
(name "r-mboost")
- (version "2.9-7")
+ (version "2.9-8")
(source (origin
(method url-fetch)
(uri (cran-uri "mboost" version))
(sha256
(base32
- "01ln0vxbbx1fq77q17sx61si82lhfibbchsnf2yw9032cn8wnhh2"))))
+ "1jyigxi5lzcaa6psc8lyvw2b6ylldqlnps3jlvjrl9zr6336nk6n"))))
(build-system r-build-system)
(propagated-inputs
(list r-lattice
@@ -3168,14 +3168,14 @@ large-scale hypothesis testing and false discovery rate estimation.")
(define-public r-askpass
(package
(name "r-askpass")
- (version "1.1")
+ (version "1.2.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "askpass" version))
(sha256
(base32
- "07q0ik8jzk44vpwh48rr3fnpd7dzsdhjjsl4l850rffv3dyq4h6v"))))
+ "1vrcb69gf5hc8rggc9m7wv19crz5mkl7f08cipy0ykckh6bkc8mr"))))
(build-system r-build-system)
(propagated-inputs (list r-sys))
(home-page "https://github.com/jeroen/askpass")
@@ -5558,18 +5558,17 @@ Docstrings (PEP-0257) and Julia's Triple-Quoted String Literals.")
(define-public r-glmnetutils
(package
(name "r-glmnetutils")
- (version "1.1.8")
+ (version "1.1.9")
(source (origin
(method url-fetch)
(uri (cran-uri "glmnetUtils" version))
(sha256
(base32
- "1k8ivzjgpkm2a948qxx3wmkhlppbk31qc76spv2pscmp24x0lxyn"))))
+ "0rh07i9j6bxiqcl84d8jnn7dzqdwfdzak7w8bf4j4521r24mwm01"))))
(properties `((upstream-name . "glmnetUtils")))
(build-system r-build-system)
(propagated-inputs
- (list r-glmnet
- r-matrix))
+ (list r-glmnet r-matrix))
(native-inputs (list r-knitr))
(home-page "https://github.com/hongooi73/glmnetUtils")
(synopsis
@@ -5939,13 +5938,13 @@ safely be interrupted from R.")
(define-public r-rcppnumerical
(package
(name "r-rcppnumerical")
- (version "0.5-0")
+ (version "0.6-0")
(source (origin
(method url-fetch)
(uri (cran-uri "RcppNumerical" version))
(sha256
(base32
- "15hb08vwdvjrhzq1pyalv3qv946jnlk0w77nn654zcmmsns2fqar"))))
+ "11nph9fz1bzb0pcvh6xx4cb94090ahwpj21zmbi06m4pibb1a1rg"))))
(build-system r-build-system)
(propagated-inputs
(list r-rcpp r-rcppeigen))
@@ -6158,13 +6157,13 @@ graphics packages that comes with the base installation.")
(define-public r-ctrdata
(package
(name "r-ctrdata")
- (version "1.15.0")
+ (version "1.15.1")
(source (origin
(method url-fetch)
(uri (cran-uri "ctrdata" version))
(sha256
(base32
- "16j44mzfllpp7il0kz3j4a6mi2k939yndgwxki01rqlmf8lrj15j"))))
+ "1yzn7cxsxbldnfhk83kw8p9qv0154lf2207qvlgjhpc6lzka4lic"))))
(properties `((upstream-name . "ctrdata")))
(build-system r-build-system)
(propagated-inputs
@@ -6681,13 +6680,13 @@ print, summary, etc.")
(define-public r-lambertw
(package
(name "r-lambertw")
- (version "0.6.7-1")
+ (version "0.6.8")
(source (origin
(method url-fetch)
(uri (cran-uri "LambertW" version))
(sha256
(base32
- "0cdrq2nrvji8l5blswkffymm7cbjk5jzzx16js2a516cm3gjwxk4"))))
+ "10lqsz44ndm8pl8z75j35fzd1s313q09rs9bs3lkym8d43k50pha"))))
(properties `((upstream-name . "LambertW")))
(build-system r-build-system)
(propagated-inputs (list r-ggplot2
@@ -7145,14 +7144,14 @@ topics for ecologists (ISBN 978-0-691-12522-0).")
(define-public r-lpsolve
(package
(name "r-lpsolve")
- (version "5.6.18")
+ (version "5.6.19")
(source
(origin
(method url-fetch)
(uri (cran-uri "lpSolve" version))
(sha256
(base32
- "04p71mcpksighyvl74ffvgxzc7iiv7nafphddhmqa6yqzhk1j7km"))))
+ "06sqjj69gp2ja2hgzfxii00js6pjbmhyp07a9jya5sy6cjgb9ma9"))))
(properties `((upstream-name . "lpSolve")))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/lpSolve")
@@ -7578,17 +7577,22 @@ regression using Kernel Ridge Regression.")
(define-public r-prodlim
(package
(name "r-prodlim")
- (version "2023.03.31")
+ (version "2023.08.28")
(source
(origin
(method url-fetch)
(uri (cran-uri "prodlim" version))
(sha256
(base32
- "003qg4apcayj5kr3730qcs8npibmv1vznzgjcrk9bjhihm7la42m"))))
+ "1s2xalxfq2q6a9ssz01vzpldpa98q3cl5icap0k2xr5v72gj40l0"))))
(build-system r-build-system)
(propagated-inputs
- (list r-data-table r-diagram r-kernsmooth r-lava r-rcpp r-survival))
+ (list r-data-table
+ r-diagram
+ r-kernsmooth
+ r-lava
+ r-rcpp
+ r-survival))
(home-page "https://cran.r-project.org/web/packages/prodlim")
(synopsis "Product-limit estimation for censored event history analysis")
(description
@@ -8245,13 +8249,13 @@ functions for:
(define-public r-statsexpressions
(package
(name "r-statsexpressions")
- (version "1.5.1")
+ (version "1.5.2")
(source (origin
(method url-fetch)
(uri (cran-uri "statsExpressions" version))
(sha256
(base32
- "1lq4h3a8yr7wnmjkg2rgr8524vdpfacr73pv4wxj44dbg9yh8l3x"))))
+ "1lqx6wcip0vzlrlhj8yg09009r1r12xg1wxkq93hrlkvya6wm66k"))))
(properties `((upstream-name . "statsExpressions")))
(build-system r-build-system)
(propagated-inputs (list r-afex
@@ -9912,20 +9916,19 @@ information between package updates.")
(define-public r-leaflet
(package
(name "r-leaflet")
- (version "2.1.2")
+ (version "2.2.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "leaflet" version))
(sha256
- (base32 "0fa0f9fcrxbqhmcm45l0byws56d8gg0bi3vx4m65mn4rihg6gn16"))
+ (base32 "0k0zplbhmvld6q1id17s827z1230kvnz16c4hlvp6jn9g26yy0dq"))
(snippet
'(for-each
delete-file
(list "inst/htmlwidgets/lib/leaflet/leaflet.js"
"inst/htmlwidgets/lib/leaflet-measure/leaflet-measure.min.js"
"inst/htmlwidgets/lib/leaflet-omnivore/leaflet-omnivore.min.js"
- "inst/htmlwidgets/lib/jquery/jquery.min.js"
"inst/htmlwidgets/plugins/Leaflet-MiniMap/Control.MiniMap.min.js"
"inst/htmlwidgets/plugins/Leaflet.awesome-markers/bootstrap.min.js"
"inst/htmlwidgets/plugins/Leaflet.awesome-markers/leaflet.awesome-markers.min.js"
@@ -9956,8 +9959,6 @@ information between package updates.")
"htmlwidgets/lib/leaflet-measure/leaflet-measure.min.js")
(,(assoc-ref inputs "js-leaflet-omnivore")
"htmlwidgets/lib/leaflet-omnivore/leaflet-omnivore.min.js")
- (,(assoc-ref inputs "js-jquery")
- "htmlwidgets/lib/jquery/jquery.min.js")
("htmlwidgets/plugins/Leaflet-MiniMap/Control.MiniMap.js"
"htmlwidgets/plugins/Leaflet-MiniMap/Control.MiniMap.min.js")
(,(assoc-ref inputs "js-bootstrap3")
@@ -9992,13 +9993,6 @@ information between package updates.")
(sha256
(base32
"1j1qjagwj0m3q322z9wxxnpkd8zbk6g3kl047dsbmqad6gmqvgha"))))
- ("js-jquery"
- ,(origin
- (method url-fetch)
- (uri "https://code.jquery.com/jquery-1.12.4.js")
- (sha256
- (base32
- "0x9mrc1668icvhpwzvgafm8xm11x9lfai9nwr66aw6pjnpwkc3s3"))))
("js-leaflet"
,(origin
(method url-fetch)
@@ -10061,19 +10055,19 @@ information between package updates.")
(base32
"0vyrbf6gv2lyh4c2bzp5349ivwvvg28gpn87y52a7jdb13rlkpab"))))))
(propagated-inputs
- (list r-base64enc
- r-crosstalk
+ (list r-crosstalk
r-htmltools
r-htmlwidgets
+ r-jquerylib
r-leaflet-providers
r-magrittr
- r-markdown
r-png
r-raster
r-rcolorbrewer
r-scales
r-sp
- r-viridis))
+ r-viridis
+ r-xfun))
(home-page "https://rstudio.github.io/leaflet/")
(synopsis "Create interactive web maps with the JavaScript Leaflet library")
(description
@@ -10939,14 +10933,14 @@ local smoothers and many more.")
(define-public r-radiant-data
(package
(name "r-radiant-data")
- (version "1.5.6")
+ (version "1.6.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "radiant.data" version))
(sha256
(base32
- "1dd18brwgcpkqbnxg6jqk4r7aw1i2d7lg9mnfw59q95n6jk86lr5"))
+ "00bjq3zpxhd6yjq3jwizgiyzp2qf557ms6mhlz74d0wcm0l3vd72"))
(modules '((guix build utils)))
(snippet
'(begin
@@ -10978,15 +10972,16 @@ local smoothers and many more.")
(string-append "--outfile=" target)))
sources targets)))))))))
(propagated-inputs
- (list r-base64enc
+ (list r-arrow
+ r-base64enc
r-broom
r-bslib
r-car
r-curl
r-dplyr
r-dt
- r-glue
r-ggplot2
+ r-glue
r-import
r-jsonlite
r-knitr
@@ -11006,8 +11001,8 @@ local smoothers and many more.")
r-rstudioapi
r-scales
r-shiny
- r-shinyfiles
r-shinyace
+ r-shinyfiles
r-stringi
r-tibble
r-tidyr
@@ -11668,14 +11663,14 @@ dependency on Java.")
(define-public r-rio
(package
(name "r-rio")
- (version "0.5.29")
+ (version "0.5.30")
(source
(origin
(method url-fetch)
(uri (cran-uri "rio" version))
(sha256
(base32
- "04jlrhyl0791yxwcpp1s8p1hhkljnijlc5iaxpk56h41w63k39lz"))))
+ "0ihpdwixzkpm3qqh7iy6xm9mmvka2hx50qdidhxnav72nx5b31w0"))))
(build-system r-build-system)
(propagated-inputs
(list r-curl
@@ -12362,14 +12357,14 @@ always locate the files relative to your project root.")
(define-public r-reticulate
(package
(name "r-reticulate")
- (version "1.31")
+ (version "1.32.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "reticulate" version))
(sha256
(base32
- "19yrxn99xwv5pfn3rnp4ahnp4wfkavj0chqp3zkn223azsigz5cj"))))
+ "0r9rycwin4yv5k2n1lzybwblb8529yhw5xnl46if6yvxm3bcra9s"))))
(build-system r-build-system)
(arguments
(list
@@ -13259,14 +13254,14 @@ Decomposition in R (Beaton et al 2014) <doi:10.1016/j.csda.2013.11.006>.")
(define-public r-insight
(package
(name "r-insight")
- (version "0.19.3")
+ (version "0.19.4")
(source
(origin
(method url-fetch)
(uri (cran-uri "insight" version))
(sha256
(base32
- "0zl8in5mvqjq58kprn1slrgc5wfh8vv7wprfc3qp3xl4bsqkj7zz"))))
+ "1v9555c4rrq91gkpy995f4p6gzcmw7xir73pvi70jwy81agc99g1"))))
(build-system r-build-system)
(native-inputs
(list r-knitr))
@@ -13418,14 +13413,14 @@ functions.")
(define-public r-flextable
(package
(name "r-flextable")
- (version "0.9.2")
+ (version "0.9.3")
(source
(origin
(method url-fetch)
(uri (cran-uri "flextable" version))
(sha256
(base32
- "0gcjkw35dlhf71djkvmlz0rp62sy3zd45vm8qhk1v3z5ka8m7kdw"))))
+ "1jdikfiswxi63vj9xr9a24p8fv50h91pvhv3xllgwwfbs1wqyq4x"))))
(build-system r-build-system)
(propagated-inputs
(list r-data-table
@@ -15095,13 +15090,13 @@ singular or ill-conditioned Jacobian.")
(define-public r-phyclust
(package
(name "r-phyclust")
- (version "0.1-33")
+ (version "0.1-34")
(source (origin
(method url-fetch)
(uri (cran-uri "phyclust" version))
(sha256
(base32
- "04x4ymqnmc20pns89i4zs2yp75vchdgjszsinnpddjiv3446cy1q"))))
+ "1wzmd02ng7zphn97xdra3hgivrxqpizqcy5kpg45sk7jx4q7016j"))))
(properties `((upstream-name . "phyclust")))
(build-system r-build-system)
(propagated-inputs (list r-ape))
@@ -15373,13 +15368,13 @@ handle data from simple random samples as well as complex surveys.")
(define-public r-tarchetypes
(package
(name "r-tarchetypes")
- (version "0.7.7")
+ (version "0.7.8")
(source (origin
(method url-fetch)
(uri (cran-uri "tarchetypes" version))
(sha256
(base32
- "1vqyabk04kpskx1ny7c4knzg90ri99x17vfnwcb6syjbzpcfg444"))))
+ "1m43f2c2rrwnmsbhzfl97fvgjnfm4xwip09saia0dmp84lml26n1"))))
(properties `((upstream-name . "tarchetypes")))
(build-system r-build-system)
(propagated-inputs (list r-digest
@@ -15410,13 +15405,13 @@ were influenced by the drake R package by Will Landau (2018)
(define-public r-targets
(package
(name "r-targets")
- (version "1.2.2")
+ (version "1.3.0")
(source (origin
(method url-fetch)
(uri (cran-uri "targets" version))
(sha256
(base32
- "13znvv0qxdmad4rdxjm7zv1wayzj71m35vj8xxshf4fy55a1d59f"))))
+ "146ylh76sc5vzfgh2xp5mfpgdxvm3j9b2hzh0wqgih6d9d11n8pk"))))
(properties `((upstream-name . "targets")))
(build-system r-build-system)
(propagated-inputs (list r-base64url
@@ -15583,6 +15578,27 @@ estimation problem.")
;; The CRAN page only says GPL-3.
(license license:gpl3+)))
+(define-public r-quickjsr
+ (package
+ (name "r-quickjsr")
+ (version "1.0.6")
+ (source (origin
+ (method url-fetch)
+ (uri (cran-uri "QuickJSR" version))
+ (sha256
+ (base32
+ "1n09jivw1qvsniyap0ki5ablvkwgggh981hcs7k5wx3lp3qxxlnk"))))
+ (properties `((upstream-name . "QuickJSR")))
+ (build-system r-build-system)
+ (propagated-inputs (list r-jsonlite r-r6 r-rcpp))
+ (home-page "https://cran.r-project.org/package=QuickJSR")
+ (synopsis "Interface for the QuickJS lightweight JavaScript engine")
+ (description
+ "This package provides an R interface to the @code{QuickJS} portable
+@code{JavaScript} engine. The engine is bundled entirely within the package,
+requiring no external system dependencies beyond a C compiler.")
+ (license license:expat)))
+
(define-public r-abundant
(package
(name "r-abundant")
@@ -16100,14 +16116,14 @@ ROPE percentage and pd).")
(define-public r-performance
(package
(name "r-performance")
- (version "0.10.4")
+ (version "0.10.5")
(source
(origin
(method url-fetch)
(uri (cran-uri "performance" version))
(sha256
(base32
- "0ddwfkrzwbj1bykvifzrb11hs5kh2a6ykr3ac1hi7cqpqikymfna"))))
+ "1bwcdz2iah6ya1p9ykbj5ybvzwlq9spv6mq3fn68cckymg0hs76r"))))
(build-system r-build-system)
(propagated-inputs
(list r-bayestestr r-datawizard r-insight))
@@ -16126,14 +16142,14 @@ effects models and Bayesian models.")
(define-public r-ggeffects
(package
(name "r-ggeffects")
- (version "1.3.0")
+ (version "1.3.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "ggeffects" version))
(sha256
(base32
- "145lqfkbawfm9nb23znd80v80j4a5jj8fgyilxqf8pxbqdbwmqql"))))
+ "0cw9j08qqck1gbfqsfyl3nb4rgi5cwsydxazqw8ppfnjqzw3nwmp"))))
(build-system r-build-system)
(propagated-inputs
(list r-insight))
@@ -16389,14 +16405,14 @@ terminals that do not support Unicode.")
(define-public r-credentials
(package
(name "r-credentials")
- (version "1.3.2")
+ (version "2.0.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "credentials" version))
(sha256
(base32
- "1f18j3zrq8c9kah57xwahmmljsjg5qphlgamvx507ynvpq8pryig"))))
+ "12rm7hjrbl3vfcbvdqc1hx3a6b91gf83xm455cn9myjapm2zqz1c"))))
(properties `((upstream-name . "credentials")))
(build-system r-build-system)
(arguments
@@ -17477,14 +17493,14 @@ University Press, 2007.")
(define-public r-circular
(package
(name "r-circular")
- (version "0.4-95")
+ (version "0.5-0")
(source
(origin
(method url-fetch)
(uri (cran-uri "circular" version))
(sha256
(base32
- "1qmwj1pf37lc2s5r83y7nqckscznqhbsv66bdfgfbby7x4qkwga8"))))
+ "14kvkbmvdfzh8j4hgw93qkjkg86xlpw69sp7g8d5smcyw9fxmx2b"))))
(build-system r-build-system)
(propagated-inputs
(list r-boot r-mvtnorm))
@@ -17545,13 +17561,13 @@ for evolution along a phylogenetic tree.")
(define-public r-fmri
(package
(name "r-fmri")
- (version "1.9.11")
+ (version "1.9.12")
(source (origin
(method url-fetch)
(uri (cran-uri "fmri" version))
(sha256
(base32
- "07lk24jandnlxn6b8q8acnc4v6r2x2vsl734cpzhwxfjky119sz5"))))
+ "1cv5mxcdpyf05n5pcjdawl59j7f4k40386r4m38qf15vcy45zdfq"))))
(properties `((upstream-name . "fmri")))
(build-system r-build-system)
(propagated-inputs (list r-aws r-metafor r-nlme r-oro-nifti))
@@ -17653,13 +17669,13 @@ Anderson-Darling Distribution\".")
(define-public r-adimpro
(package
(name "r-adimpro")
- (version "0.9.5")
+ (version "0.9.6")
(source (origin
(method url-fetch)
(uri (cran-uri "adimpro" version))
(sha256
(base32
- "1w3zcazbxkn1vq37vm4zz4mcmmk1bhxy22gkmv1v9bkv63b46kzm"))))
+ "0d5viz9ayywpp1pas1yzmhllzn9rjrl8a3k7bj7h46f95l5x1586"))))
(properties `((upstream-name . "adimpro")))
(build-system r-build-system)
(propagated-inputs
@@ -18262,13 +18278,13 @@ while other are highly specific for the special data format used for
(define-public r-qmri
(package
(name "r-qmri")
- (version "1.2")
+ (version "1.2.6")
(source (origin
(method url-fetch)
(uri (cran-uri "qMRI" version))
(sha256
(base32
- "10x59g8awxjib5j5mc1yd5wsibk3z6ki6zifxsg8azl0zblxbscf"))))
+ "1laslvp1h6xh73lbxvjysznazafcbl7bz0pw4h85n6mp3gsnlvcj"))))
(properties `((upstream-name . "qMRI")))
(build-system r-build-system)
(propagated-inputs (list r-adimpro r-aws r-awsmethods r-oro-nifti
@@ -18866,14 +18882,14 @@ inventor of the SOM.")
(define-public r-nnls
(package
(name "r-nnls")
- (version "1.4")
+ (version "1.5")
(source
(origin
(method url-fetch)
(uri (cran-uri "nnls" version))
(sha256
(base32
- "07vcrrxvswrvfiha6f3ikn640yg0m2b4yd9lkmim1g0jmsmpfp8f"))))
+ "0lilga63p7k5mkkfcf5p3swx76vwysl979jxszm6svzqhsrgww6d"))))
(build-system r-build-system)
(native-inputs (list gfortran))
(home-page "https://cran.r-project.org/web/packages/nnls")
@@ -21141,14 +21157,14 @@ user-defined patterns.")
(define-public r-minpack-lm
(package
(name "r-minpack-lm")
- (version "1.2-3")
+ (version "1.2-4")
(source
(origin
(method url-fetch)
(uri (cran-uri "minpack.lm" version))
(sha256
(base32
- "1w7f9zhqjzayppbd5r6wmlkzlv72nvg74cdjajd2qfq2kxkh59xz"))))
+ "0cg7arnmb7x6v5x487gkc2k4i5gchgdwblrrd0k0vw1w6pza83z3"))))
(properties `((upstream-name . "minpack.lm")))
(build-system r-build-system)
(native-inputs (list gfortran))
@@ -21371,14 +21387,14 @@ graphs.")
(define-public r-pbdzmq
(package
(name "r-pbdzmq")
- (version "0.3-9")
+ (version "0.3-10")
(source
(origin
(method url-fetch)
(uri (cran-uri "pbdZMQ" version))
(sha256
(base32
- "1dhg9sakfz4mivwvyfv5hnjrbi6gcd9cgis0dcgmh44q1a6j6cyh"))))
+ "14fi1bcvc77k5qjh0vb5r44p9rzlzrbzbw2c99psnzq2wic018ir"))))
(properties `((upstream-name . "pbdZMQ")))
(build-system r-build-system)
(inputs
@@ -21995,14 +22011,14 @@ classes.")
(define-public r-classint
(package
(name "r-classint")
- (version "0.4-9")
+ (version "0.4-10")
(source
(origin
(method url-fetch)
(uri (cran-uri "classInt" version))
(sha256
(base32
- "1hz1436apcnqvfyhmlv5f4127jviwfw6hz7f8xxkqygq11ysy4av"))))
+ "12rbwh7g0a6abvy423xjiv53gx1f9lg4y78r80lc0fj9pjpiwmn3"))))
(properties `((upstream-name . "classInt")))
(build-system r-build-system)
(propagated-inputs
@@ -22424,13 +22440,13 @@ lspec, polyclass, and polymars.")
(define-public r-rms
(package
(name "r-rms")
- (version "6.7-0")
+ (version "6.7-1")
(source
(origin
(method url-fetch)
(uri (cran-uri "rms" version))
(sha256
- (base32 "1zxv7njzaxh6ivrxcszcn128pfxqyh5ga1q8kx6v5brfgv218flb"))))
+ (base32 "199xb98zxsbd8wa9g33bgrvbcpq79glnfmq060ic8f9vjw96r0qz"))))
(build-system r-build-system)
(propagated-inputs
(list r-cluster
@@ -22538,14 +22554,14 @@ examples in the vignette.")
(define-public r-bqtl
(package
(name "r-bqtl")
- (version "1.0-34")
+ (version "1.0-35")
(source
(origin
(method url-fetch)
(uri (cran-uri "bqtl" version))
(sha256
(base32
- "1xlkgyhlgrwqfzph4sbhh49pjzfnw5zdr3y4786rsnr3faksnxns"))))
+ "107yq7mk4gdr1wm20i751682jlj172bzbdjgqwviwgjxzbd0c2xa"))))
(build-system r-build-system)
(native-inputs (list gfortran))
(home-page "http://famprevmed.ucsd.edu/faculty/cberry/bqtl/")
@@ -23232,14 +23248,14 @@ package.")
(define-public r-yulab-utils
(package
(name "r-yulab-utils")
- (version "0.0.8")
+ (version "0.0.9")
(source
(origin
(method url-fetch)
(uri (cran-uri "yulab.utils" version))
(sha256
(base32
- "1bb2rxpwisvb5a670n65k24rdd4aba2xx27dxb9wgj8swqc1rc6y"))))
+ "0y8594xmsg59p7pgz9bnjdc0bi50y6nmzvvzmjk8wyn4v5rz09ln"))))
(properties `((upstream-name . "yulab.utils")))
(build-system r-build-system)
(propagated-inputs
@@ -23885,14 +23901,14 @@ in-memory raw vectors.")
(define-public r-ggcorrplot
(package
(name "r-ggcorrplot")
- (version "0.1.4")
+ (version "0.1.4.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "ggcorrplot" version))
(sha256
(base32
- "186a0mpdpipp24fjbd52l1gdgpqm6vl83ff8069d8nngyqbrx0jr"))))
+ "0yd865lfs4144jqh9ilznqa69rj0183ashnhvmjmis87zw69a45q"))))
(build-system r-build-system)
(propagated-inputs
(list r-ggplot2 r-reshape2))
@@ -24317,14 +24333,14 @@ colored by the number of neighboring points. This is useful to visualize the
(define-public r-arrow
(package
(name "r-arrow")
- (version "12.0.1.1")
+ (version "13.0.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "arrow" version))
(sha256
(base32
- "18c864ingckbi3v2xhigaiv72sc2c4x3zps60z0v22slkpz5ba0s"))))
+ "0s29xw9r9hxyvcgdasw95qa7q8zvs79ffhfnlpnzsvb523d2cb6l"))))
(properties `((upstream-name . "arrow")))
(build-system r-build-system)
(inputs
@@ -24550,14 +24566,14 @@ provided.")
(define-public r-cyclocomp
(package
(name "r-cyclocomp")
- (version "1.1.0")
+ (version "1.1.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "cyclocomp" version))
(sha256
(base32
- "0gky3svk02wiajw7nfjh30684h3qxili4bvsab0m7b6cggw6bgyd"))))
+ "0kdinnn6cgkfc94japyyp5qr7imjxddajds3qqxf4q5higahdzws"))))
(properties `((upstream-name . "cyclocomp")))
(build-system r-build-system)
(propagated-inputs
@@ -24708,14 +24724,14 @@ batch correction, and data correction.")
(define-public r-styler
(package
(name "r-styler")
- (version "1.10.1")
+ (version "1.10.2")
(source
(origin
(method url-fetch)
(uri (cran-uri "styler" version))
(sha256
(base32
- "0rswg2habyk38hcx0gn9hnvb200bq0dc4fy4k3gqhfhwjq9l7a1b"))))
+ "043v9xwm72jqrrzzmjgrkf34lncjnn69650ks72z7rjb1wqmbh56"))))
(build-system r-build-system)
;; This is needed by R.cache.
(arguments
@@ -24891,14 +24907,14 @@ dimensional low-discrepancy sequence.")
(define-public r-dqrng
(package
(name "r-dqrng")
- (version "0.3.0")
+ (version "0.3.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "dqrng" version))
(sha256
(base32
- "1fwsldqcri2lccna4icbmmlqic3w4xyjm7rn0xmikrsw4kzapvjb"))))
+ "0vmrbnix05a9h1bc4b7d999qkzkk63i1arzyblyhmvydv4m8cc72"))))
(build-system r-build-system)
(propagated-inputs
(list r-bh r-rcpp r-sitmo))
@@ -25656,13 +25672,13 @@ guaranteeing well-connected communities.\" <arXiv:1810.08473>.")
(define-public r-leidenalg
(package
(name "r-leidenalg")
- (version "1.1.0")
+ (version "1.1.2")
(source
(origin
(method url-fetch)
(uri (cran-uri "leidenAlg" version))
(sha256
- (base32 "1hn5fps5m5am4s82wvhr4fgfw49h0jar4i687czbkab3l9x1dr68"))))
+ (base32 "0wqay0rf28pgaf88bsvmrwgggzbma93rv9nqbydhjf1lc96ay1lz"))))
(properties
`((upstream-name . "leidenAlg")
(updater-extra-inputs . ("gmp"))))
@@ -25997,14 +26013,14 @@ emphasize hidden group structures in networks or focus on specific nodes.")
(define-public r-terra
(package
(name "r-terra")
- (version "1.7-39")
+ (version "1.7-46")
(source
(origin
(method url-fetch)
(uri (cran-uri "terra" version))
(sha256
(base32
- "03kc2m89236qh50qfxl1101ys466ddhgjwp80x6hjpmd9fz5jf5l"))))
+ "0jpni25g9rhsqh71pgr2d3221r9xacsw3kz5qqnifj0jz5g3wyh1"))))
(properties `((upstream-name . "terra")))
(build-system r-build-system)
(inputs
@@ -26287,13 +26303,13 @@ programming problems.")
(define-public r-desolve
(package
(name "r-desolve")
- (version "1.36")
+ (version "1.38")
(source
(origin
(method url-fetch)
(uri (cran-uri "deSolve" version))
(sha256
- (base32 "1ygijjvmi7igk3xmm2mzfnbw05kynjdqbwddifg798awk7mfffjw"))))
+ (base32 "0sc933g0jx25b7fm5bl6is95mn4fn1sf8cgb6qzhlmmf8rfgxd50"))))
(properties `((upstream-name . "deSolve")))
(build-system r-build-system)
(native-inputs
@@ -27490,14 +27506,14 @@ models.")
(define-public r-gamlss
(package
(name "r-gamlss")
- (version "5.4-12")
+ (version "5.4-18")
(source
(origin
(method url-fetch)
(uri (cran-uri "gamlss" version))
(sha256
(base32
- "1w5630hzir49nacpvmx28hqc8hcc9acmba9dd8zwzhz5ywwi0ycz"))))
+ "1wj6hx6z48zpwkqz3w68dfsf2nfj8clhwqykq5ln94vrarqaim7g"))))
(properties `((upstream-name . "gamlss")))
(build-system r-build-system)
(propagated-inputs
@@ -27805,14 +27821,14 @@ and may be used to generate realistic data sets with known truth.")
(define-public r-acopula
(package
(name "r-acopula")
- (version "0.9.3")
+ (version "0.9.4")
(source
(origin
(method url-fetch)
(uri (cran-uri "acopula" version))
(sha256
(base32
- "0vvbbw8pfs9jwfz5c57lw48pr0qj661r0ys007q6zf9jmlrhx1ln"))))
+ "0asxfcjrsr9d7ab59pdajs0zvdjgwfswk9rdlpfdr51535wpjrfy"))))
(properties `((upstream-name . "acopula")))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/acopula/")
@@ -29772,14 +29788,14 @@ OpenMP.")
(define-public r-emplik
(package
(name "r-emplik")
- (version "1.3")
+ (version "1.3-1")
(source
(origin
(method url-fetch)
(uri (cran-uri "emplik" version))
(sha256
(base32
- "14jgwwxvsglkbq7kwjl34lyax45qn4hkra4qmmv4ybnvvcmbcag1"))))
+ "1f6v0bg9sl8kn4y8bpgjyc1b18xkmfbs86gbbmbh198v335lgcrb"))))
(properties `((upstream-name . "emplik")))
(build-system r-build-system)
(propagated-inputs
@@ -30031,14 +30047,14 @@ Raftery, Appl.Statistics, 1989); it includes inference and basic methods.")
(define-public r-forecast
(package
(name "r-forecast")
- (version "8.21")
+ (version "8.21.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "forecast" version))
(sha256
(base32
- "1hn60p88jq9qprgwgh4ymb53fri71imad6kasycv6gwxb9wk3lgx"))))
+ "09w1vh96cf9wz071why5f4265cvvwqi2b3wb0khrjvkzgkiaq7l1"))))
(properties `((upstream-name . "forecast")))
(build-system r-build-system)
(propagated-inputs
@@ -30621,14 +30637,14 @@ perform @dfn{exploratory mediation} (XMed).")
(define-public r-stanheaders
(package
(name "r-stanheaders")
- (version "2.26.27")
+ (version "2.26.28")
(source
(origin
(method url-fetch)
(uri (cran-uri "StanHeaders" version))
(sha256
(base32
- "1cf9hc7z3d8b70jck37j3lc2ml040di91dylfb18yi6wx936bq3h"))))
+ "1s1xgvn5c1vjikm1dx9g0qm2k8m24clylgp7zssmfhx6sfb8v2lk"))))
(properties `((upstream-name . "StanHeaders")))
(build-system r-build-system)
(inputs (list pandoc))
@@ -31086,16 +31102,29 @@ Haberman's interaction model when all items are dichotomously scored.")
(define-public r-iheatmapr
(package
(name "r-iheatmapr")
- (version "0.5.1")
+ (version "0.7.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "iheatmapr" version))
(sha256
(base32
- "1pwkwh7ljlpr6zyz6j8knpz3iw60xzkw8amc98x4pc2mw148jvzx"))))
+ "0ym796kf6d8cwd7nmgzy3ga7r8fyywddl3rr2hbn4cfmwhggv02l"))
+ (snippet
+ '(delete-file
+ "inst/htmlwidgets/lib/plotlyjs/plotly-latest.min.js"))))
(properties `((upstream-name . "iheatmapr")))
(build-system r-build-system)
+ (arguments
+ (list
+ #:phases
+ '(modify-phases %standard-phases
+ (add-after 'unpack 'process-javascript
+ (lambda* (#:key inputs #:allow-other-keys)
+ (with-directory-excursion "inst/htmlwidgets/lib/plotlyjs/"
+ (invoke "esbuild" (assoc-ref inputs "js-plotly")
+ "--minify"
+ "--outfile=plotly-latest.min.js")))))))
(propagated-inputs
(list r-fastcluster
r-ggdendro
@@ -31106,7 +31135,17 @@ Haberman's interaction model when all items are dichotomously scored.")
r-rcolorbrewer
r-scales))
(native-inputs
- (list r-knitr))
+ `(("esbuild" ,esbuild)
+ ("r-knitr" ,r-knitr)
+ ("js-plotly"
+ ,(let ((version "2.10.1"))
+ (origin
+ (method url-fetch)
+ (uri (string-append "https://raw.githubusercontent.com/plotly/plotly.js/v"
+ version "/dist/plotly.js"))
+ (sha256
+ (base32
+ "1cg2q681yjsrpjmm4nkfia7752wxnszi3c94nq9a91zpnfkm22yb")))))))
(home-page "https://docs.ropensci.org/iheatmapr")
(synopsis "Interactive, Complex Heatmaps")
(description
@@ -31124,14 +31163,14 @@ interesting features. iheatmapr uses the plotly library for interactivity.")
(define-public r-packrat
(package
(name "r-packrat")
- (version "0.9.1")
+ (version "0.9.2")
(source
(origin
(method url-fetch)
(uri (cran-uri "packrat" version))
(sha256
(base32
- "0i1kzmjzks6g673jkcqmra0nysviab0r915wkgk8aaad0k316h21"))))
+ "1mvj2s78n2r66nlqq5bjrvgdwlwbcqdj81yryc34sv3y4m1mkpv9"))))
(properties `((upstream-name . "packrat")))
(build-system r-build-system)
(home-page "https://github.com/rstudio/packrat/")
@@ -31145,14 +31184,14 @@ and reproducible way.")
(define-public r-rsconnect
(package
(name "r-rsconnect")
- (version "1.0.2")
+ (version "1.1.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "rsconnect" version))
(sha256
(base32
- "1cni5sc4qgvd3vvn2jy0saxsxz144yl2jahhbf0bhix35blgzlp1"))))
+ "1jpz9cx2fqj3cp69xd2vi9gc5wdfrs4rbpy81mm7hq1iaq5nd7pc"))))
(properties `((upstream-name . "rsconnect")))
(build-system r-build-system)
(propagated-inputs
@@ -31356,14 +31395,14 @@ techniques to average Bayesian predictive distributions.")
(define-public r-rstan
(package
(name "r-rstan")
- (version "2.21.8")
+ (version "2.26.23")
(source
(origin
(method url-fetch)
(uri (cran-uri "rstan" version))
(sha256
(base32
- "0xah8wl4lg8zh5982m20ipc6cjck1dsfi8lz1jbkg4212p1yvm5j"))))
+ "08hdwrpxbxp2wdnfk2jj2xsdgl7q9nbalz5wgwmy0m878swxxzci"))))
(properties `((upstream-name . "rstan")))
(build-system r-build-system)
(arguments
@@ -31377,7 +31416,7 @@ techniques to average Bayesian predictive distributions.")
(search-input-directory inputs
"share/zoneinfo")))))))
(native-inputs
- (list tzdata-for-tests pandoc r-knitr))
+ (list r-knitr tzdata-for-tests))
(propagated-inputs
(list r-bh
r-ggplot2
@@ -31385,6 +31424,7 @@ techniques to average Bayesian predictive distributions.")
r-inline
r-loo
r-pkgbuild
+ r-quickjsr
r-rcpp
r-rcppeigen
r-rcppparallel
@@ -32624,14 +32664,14 @@ permuted copies (shadows).")
(define-public r-directlabels
(package
(name "r-directlabels")
- (version "2021.1.13")
+ (version "2023.8.25")
(source
(origin
(method url-fetch)
(uri (cran-uri "directlabels" version))
(sha256
(base32
- "0415kh9k2qzdwi8zb32fh2icl5wf5335kyj11cyfdmfxji39zv2w"))))
+ "0p7as0yvvywbdqjpng70sdiy0xyczac4qbv534cwqxiqyx81vp8j"))))
(build-system r-build-system)
(propagated-inputs
(list r-quadprog))
@@ -33191,13 +33231,13 @@ diagonals. This package allows you to compute the tensor product of arrays.")
(define-public r-spatstat-explore
(package
(name "r-spatstat-explore")
- (version "3.2-1")
+ (version "3.2-3")
(source (origin
(method url-fetch)
(uri (cran-uri "spatstat.explore" version))
(sha256
(base32
- "02n64bml361xakfbj71m7mgkb0p6szqc55lijjsnwa3z69pwwshb"))))
+ "18zhpspq07rcnpmnkc82hzjvjp39fsb06g73gin4x5bwzbi22kgr"))))
(properties `((upstream-name . "spatstat.explore")))
(build-system r-build-system)
(propagated-inputs
@@ -33231,13 +33271,13 @@ Kolmogorov-Smirnov, ANOVA) are also supported.")
(define-public r-spatstat-model
(package
(name "r-spatstat-model")
- (version "3.2-4")
+ (version "3.2-6")
(source (origin
(method url-fetch)
(uri (cran-uri "spatstat.model" version))
(sha256
(base32
- "0vcxwwc4kjfmjd80sk7rbv8a9yg9v2m94brgww8fiibrm6m9psi6"))))
+ "1lvs6ns4hna7w6b0nvzsx2rw699ampdm8jmxdzlfpk4hla2lf7wq"))))
(properties `((upstream-name . "spatstat.model")))
(build-system r-build-system)
(propagated-inputs
@@ -33342,14 +33382,14 @@ package.")
(define-public r-spatstat-geom
(package
(name "r-spatstat-geom")
- (version "3.2-4")
+ (version "3.2-5")
(source
(origin
(method url-fetch)
(uri (cran-uri "spatstat.geom" version))
(sha256
(base32
- "09x2z2jqgbmilqg2kx4sgzrz54hbkyfpv9hm759075i2hkaza796"))))
+ "13xlp88yfp61kl0c3vaqs7lrckkc4ixpp0mpf89h5ggmjyf57nxx"))))
(properties `((upstream-name . "spatstat.geom")))
(build-system r-build-system)
(propagated-inputs
@@ -33428,13 +33468,13 @@ for spatial data on a linear network.")
(define-public r-spatstat-random
(package
(name "r-spatstat-random")
- (version "3.1-5")
+ (version "3.1-6")
(source
(origin
(method url-fetch)
(uri (cran-uri "spatstat.random" version))
(sha256
- (base32 "128rm8k4b5rklddmnhbsv93jj6qym0fngir9nb65cawg3zb991m6"))))
+ (base32 "0vrx0mxzcd6yr6rzn9jk2wj5d2l7yn0ij1n58yb3hw2g7nasad06"))))
(properties `((upstream-name . "spatstat.random")))
(build-system r-build-system)
(propagated-inputs (list r-spatstat-data r-spatstat-geom r-spatstat-utils))
@@ -34182,14 +34222,14 @@ coerce and verify the types and shapes of values for input checking.")
(define-public r-config
(package
(name "r-config")
- (version "0.3.1")
+ (version "0.3.2")
(source
(origin
(method url-fetch)
(uri (cran-uri "config" version))
(sha256
(base32
- "0l2zp7v6qaz72dclcbjrlis633zlwp8rsi5azr7iw127iyz7i26l"))))
+ "0r8hjg7jrhr9lncb82xmq2slygv3slacd2w8ds6shnvdp3122p3v"))))
(properties `((upstream-name . "config")))
(build-system r-build-system)
(propagated-inputs
@@ -35048,14 +35088,14 @@ functions or computational engines (e.g. R, Spark, Stan, etc).")
(define-public r-infer
(package
(name "r-infer")
- (version "1.0.4")
+ (version "1.0.5")
(source
(origin
(method url-fetch)
(uri (cran-uri "infer" version))
(sha256
(base32
- "1s4q0nslykl0pb2w1i6ni6hkpp7awvp0wks79br3gk5wa1qkvs19"))))
+ "1zs1c22zc255m23in99cqp2chpdkski002rywmkdzwf6nd96mly7"))))
(properties `((upstream-name . "infer")))
(build-system r-build-system)
(propagated-inputs
@@ -35069,7 +35109,8 @@ functions or computational engines (e.g. R, Spark, Stan, etc).")
r-purrr
r-rlang
r-tibble
- r-tidyr))
+ r-tidyr
+ r-vctrs))
(native-inputs
(list r-knitr))
(home-page "https://github.com/tidymodels/infer")
@@ -35397,14 +35438,14 @@ designs. Broman et al. (2018) <doi:10.1534/genetics.118.301595>.")
(define-public r-seqminer
(package
(name "r-seqminer")
- (version "8.9")
+ (version "9.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "seqminer" version))
(sha256
(base32
- "1cnsy1cjz4rcm32hzcvr1d43y4m7sdkzim1mwsn3490mf3xmi3i1"))))
+ "0vdprasxy4dc9p5k43xgcmi0q50iapgcam43qzbh1kr0vi6fgqkr"))))
(build-system r-build-system)
(inputs
(list zlib))
@@ -35779,14 +35820,14 @@ Maximum Parsimony, distance methods and Hadamard conjugation.")
(define-public r-diversitree
(package
(name "r-diversitree")
- (version "0.9-19")
+ (version "0.9-20")
(source
(origin
(method url-fetch)
(uri (cran-uri "diversitree" version))
(sha256
(base32
- "1z3lzqphswb4r3rdh2jmi1pfagqs38dbccm9li02sc8aasdqk0if"))))
+ "0lm098ysk6np4dy1cifbhd85jd1f1iz4bqhgzlcx7x8qnhh3zc1c"))))
(build-system r-build-system)
(native-inputs
(list gfortran))
@@ -37149,14 +37190,14 @@ functionalities in strex.")
(define-public r-readods
(package
(name "r-readods")
- (version "2.0.0")
+ (version "2.1.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "readODS" version))
(sha256
(base32
- "09b0z5fbl09inygbmbgprj8v6cd8z8zw9r3j68rlmi7mivxzbqk4"))))
+ "1znp039wfbq8bbjj9pdkl8hwnhm9x5n8c7y5b53xmpnaqxx5agiz"))))
(properties `((upstream-name . "readODS")))
(build-system r-build-system)
(propagated-inputs
@@ -37166,7 +37207,6 @@ functionalities in strex.")
r-stringi
r-tibble
r-vctrs
- r-xml2
r-zip))
(native-inputs (list r-knitr))
(home-page
@@ -37220,13 +37260,13 @@ data you need the @code{pdftools} package.")
(define-public r-pbdmpi
(package
(name "r-pbdmpi")
- (version "0.4-6")
+ (version "0.5-0")
(source (origin
(method url-fetch)
(uri (cran-uri "pbdMPI" version))
(sha256
(base32
- "0r6kbrvc0z4mb2dhrz1iqdyx0c03f682b5xfi1igp7z3rszd1va1"))))
+ "0wfx33jhdrwp97chsp9v8z2yf49shycvky8dwl9pgwqd9l69aw7x"))))
(properties `((upstream-name . "pbdMPI")))
(build-system r-build-system)
(arguments
@@ -37235,7 +37275,7 @@ data you need the @code{pdftools} package.")
(add-before 'install 'mpi-setup
,%openmpi-setup))))
(inputs (list openmpi))
- (propagated-inputs (list r-float r-rlecuyer))
+ (propagated-inputs (list r-float))
(native-inputs (list pkg-config))
(home-page "https://pbdr.org/")
(synopsis "Programming with Big Data -- Interface to MPI")
@@ -37353,14 +37393,14 @@ and formatted text files with additional meta-data, such including @code{.csv},
(define-public r-packcircles
(package
(name "r-packcircles")
- (version "0.3.5")
+ (version "0.3.6")
(source
(origin
(method url-fetch)
(uri (cran-uri "packcircles" version))
(sha256
(base32
- "0m8ivgc5y1f9ramqw6sxb02ri6aqxz3av0l5csl32mdldrb126nc"))))
+ "0fjc575i1vxjp2v4niv2syqqk0d609wm86gkq9rvgmch841x40ps"))))
(properties `((upstream-name . "packcircles")))
(build-system r-build-system)
(propagated-inputs (list r-rcpp))
@@ -37403,23 +37443,18 @@ light-weight geometry library used by @url{http://postgis.net/,PostGIS}.")
(define-public r-stars
(package
(name "r-stars")
- (version "0.6-3")
+ (version "0.6-4")
(source
(origin
(method url-fetch)
(uri (cran-uri "stars" version))
(sha256
(base32
- "08i5m46plkwkxwgzpy6srvn69jchp364vj3sg1isp2lj9pxhzfwc"))))
+ "0mqd2dfa8jhxjmfphvv3rkw2lri5sz49042asj5lyln3wkylqjj2"))))
(properties `((upstream-name . "stars")))
(build-system r-build-system)
(propagated-inputs
- (list r-abind
- r-classint
- r-lwgeom
- r-rlang
- r-sf
- r-units))
+ (list r-abind r-classint r-rlang r-sf r-units))
(native-inputs (list r-knitr))
(home-page "https://r-spatial.github.io/stars/")
(synopsis
@@ -38456,14 +38491,14 @@ carrying out economic experiments.")
(define-public r-distributionutils
(package
(name "r-distributionutils")
- (version "0.6-0")
+ (version "0.6-1")
(source
(origin
(method url-fetch)
(uri (cran-uri "DistributionUtils" version))
(sha256
(base32
- "08vq54pyqxlqsj6q6gsg5ikqa0z3x842j52ld5dxaq272p6xchvl"))))
+ "1mv3p7hm02q3mhrw5165gc2d77ighnykyfn6ibxvkc3ii2m9xrri"))))
(properties
`((upstream-name . "DistributionUtils")))
(build-system r-build-system)
@@ -38674,14 +38709,14 @@ fully reproducible.")
(define-public r-paws-common
(package
(name "r-paws-common")
- (version "0.5.8")
+ (version "0.6.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "paws.common" version))
(sha256
(base32
- "1vx74lxgzsl1yl4ak5zympkgwza023qbjwskp19nm2dvxhz75cfh"))))
+ "1451705w30lb33msi4qgzpfmw6xnwh2ffh30fwb9im8g47fqm2bw"))))
(properties `((upstream-name . "paws.common")))
(build-system r-build-system)
(propagated-inputs
@@ -38705,14 +38740,14 @@ Service (S3).")
(define-public r-paws-customer-engagement
(package
(name "r-paws-customer-engagement")
- (version "0.3.0")
+ (version "0.4.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "paws.customer.engagement" version))
(sha256
(base32
- "18gkr3272jj1pkksm6fy6qz5s5jn0yvb12pz29k204xrzmqwdwgm"))))
+ "0skfya3m9i36dd0jqvnnc72k1h3lb4s3fjkvg7na6aq6xgpjh4jv"))))
(properties
`((upstream-name . "paws.customer.engagement")))
(build-system r-build-system)
@@ -38729,14 +38764,14 @@ service, and more.")
(define-public r-paws-cost-management
(package
(name "r-paws-cost-management")
- (version "0.3.1")
+ (version "0.4.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "paws.cost.management" version))
(sha256
(base32
- "0v0s8wwx2j3a6s0pl9vnvbpgdyhn3jlxri0b2fl3gc3zx6qh07dl"))))
+ "1j9zi73y9ng5m6wlws4crfv4j6b8qxk1m9g1hd286g4gg852g80y"))))
(properties
`((upstream-name . "paws.cost.management")))
(build-system r-build-system)
@@ -38753,13 +38788,13 @@ more.")
(define-public r-paws-developer-tools
(package
(name "r-paws-developer-tools")
- (version "0.3.1")
+ (version "0.4.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "paws.developer.tools" version))
(sha256
- (base32 "1b661gpg7rsdkgpriwczj4cvqg9rh1ajz9ma457bw4p3lv7n53x2"))))
+ (base32 "13i5yi23xsrks1dsw0k3cqzr2gqj8p23yajb3a7drim6d4rpsaxl"))))
(properties `((upstream-name . "paws.developer.tools")))
(build-system r-build-system)
(propagated-inputs
@@ -38775,13 +38810,13 @@ deployment, and more.")
(define-public r-paws-end-user-computing
(package
(name "r-paws-end-user-computing")
- (version "0.3.0")
+ (version "0.4.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "paws.end.user.computing" version))
(sha256
- (base32 "0as9ix46rsa7sg8k96v6l3ibxqc95pf7swrij31ljmwfy82z2rq3"))))
+ (base32 "0v3ng20vrp5cvpbgipwwpvyhi995n2rp8jls0kklkrjax41x62cn"))))
(properties `((upstream-name . "paws.end.user.computing")))
(build-system r-build-system)
(propagated-inputs
@@ -38797,14 +38832,14 @@ and more.")
(define-public r-paws-application-integration
(package
(name "r-paws-application-integration")
- (version "0.3.1")
+ (version "0.4.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "paws.application.integration" version))
(sha256
(base32
- "19lz1vcvb1bn405saxx4zjsmm1q4zaw77z08iw4xbyny5xhkgyvi"))))
+ "0hilnczvamdv3bi1v6hdki05h8qqh0wlgvh5ilh09113005fpz98"))))
(properties
`((upstream-name . "paws.application.integration")))
(build-system r-build-system)
@@ -38821,14 +38856,14 @@ Simple Notification Service (SNS) publish/subscribe messaging, and more.")
(define-public r-paws-security-identity
(package
(name "r-paws-security-identity")
- (version "0.3.1")
+ (version "0.4.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "paws.security.identity" version))
(sha256
(base32
- "02k15skswd58icafydrbjrp7br5x8l93lwi5z1pwqak6xasi0vqh"))))
+ "081339201j19y8y28h0dhr876ii82zpfyqddc21lvmg27z53hj4x"))))
(properties
`((upstream-name . "paws.security.identity")))
(build-system r-build-system)
@@ -38846,14 +38881,14 @@ more.")
(define-public r-paws-analytics
(package
(name "r-paws-analytics")
- (version "0.3.0")
+ (version "0.4.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "paws.analytics" version))
(sha256
(base32
- "0qjk1gn4p41l4ryqf9xppiphfakypl0xdjk23c9c8xdhqkbw0lcw"))))
+ "1x7ix8x0ks357b7gf2skixsd0najjbn8hnq7p6a354p5h7bz39b4"))))
(properties
`((upstream-name . "paws.analytics")))
(build-system r-build-system)
@@ -38870,14 +38905,14 @@ Elasticsearch search engine, and more.")
(define-public r-paws-machine-learning
(package
(name "r-paws-machine-learning")
- (version "0.3.0")
+ (version "0.4.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "paws.machine.learning" version))
(sha256
(base32
- "092n5p5hjwaqkdnw4r7n71znabfazc2pg19raja69jgk6zh6csvy"))))
+ "0cwmriprwrz446q4d5ljkpvwdhmamnl98g1ks6p35vbjiv4imk21"))))
(properties
`((upstream-name . "paws.machine.learning")))
(build-system r-build-system)
@@ -38894,14 +38929,14 @@ natural language processing, speech recognition, translation, and more.")
(define-public r-paws-management
(package
(name "r-paws-management")
- (version "0.3.1")
+ (version "0.4.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "paws.management" version))
(sha256
(base32
- "0hdmc07i75hbk2fh580p7q7p3pk8ykr5m1jibnfk8azc4flikwv6"))))
+ "0lp8s4caxppwxsra6ijcz1dzkmnznwrrs92y87387vq53y3icc6m"))))
(properties
`((upstream-name . "paws.management")))
(build-system r-build-system)
@@ -38918,14 +38953,14 @@ monitoring, Auto Scaling for automatically scaling resources, and more.")
(define-public r-paws-networking
(package
(name "r-paws-networking")
- (version "0.3.0")
+ (version "0.4.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "paws.networking" version))
(sha256
(base32
- "0pf1vvwmgsz65bq5diabybnsgyxfbjq1f64srf3qk49ycfh2sc7h"))))
+ "1imq29nxy5hxz2vlijdj2jl0lllvm3plb3jwpvsx1wlcvhpz0in3"))))
(properties
`((upstream-name . "paws.networking")))
(build-system r-build-system)
@@ -38942,14 +38977,14 @@ CloudFront content delivery, load balancing, and more.")
(define-public r-paws-database
(package
(name "r-paws-database")
- (version "0.3.0")
+ (version "0.4.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "paws.database" version))
(sha256
(base32
- "08ak299kyr6dr8idcna7i433aab1bis2b9zqmwm1yma3m3xk4n8i"))))
+ "1rnjjdb4l7a943cawkkzfjkg8shy2vy5d9mcl2p5ms191lw056bn"))))
(properties `((upstream-name . "paws.database")))
(build-system r-build-system)
(propagated-inputs
@@ -38966,14 +39001,14 @@ database, and more.")
(define-public r-paws-storage
(package
(name "r-paws-storage")
- (version "0.3.0")
+ (version "0.4.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "paws.storage" version))
(sha256
(base32
- "0z693wawgm975lw54xkbg9hwsf1lz69a4dsg85ywjpjcfvl1g1b7"))))
+ "0yr99328rwm6i95xhp4yds6dzfvrvbr7ys2hy17iqbyij958j0m4"))))
(properties `((upstream-name . "paws.storage")))
(build-system r-build-system)
(propagated-inputs
@@ -38988,14 +39023,14 @@ services, including Simple Storage Service (S3).")
(define-public r-paws-compute
(package
(name "r-paws-compute")
- (version "0.3.1")
+ (version "0.4.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "paws.compute" version))
(sha256
(base32
- "17xzc1ngir4v043xclw6c1qs092aicj83qmn8sydn9apmlzcps1r"))))
+ "0q0xikrq7095l8fhii2jyjxfbihhnlm7nzzbspfqdh8xbr7g4kld"))))
(properties `((upstream-name . "paws.compute")))
(build-system r-build-system)
(propagated-inputs
@@ -39156,14 +39191,14 @@ large datasets.")
(define-public r-mlearning
(package
(name "r-mlearning")
- (version "1.1.1")
+ (version "1.2.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "mlearning" version))
(sha256
(base32
- "1zjnh4gcw068li1bks60gazn3205xhmqz67hbkb1san33lmlxya3"))))
+ "0fh28i36smpybhzd2kni435m7wf20i3yib6h7jy173r1v5adzkba"))))
(properties `((upstream-name . "mlearning")))
(build-system r-build-system)
(propagated-inputs
@@ -39172,7 +39207,8 @@ large datasets.")
r-ipred
r-mass
r-nnet
- r-randomforest))
+ r-randomforest
+ r-rpart))
(home-page "https://www.sciviews.org/zooimage")
(synopsis "Machine learning algorithms with unified interface")
(description
@@ -39816,14 +39852,14 @@ be efficient and easy to use.")
(define-public r-ggh4x
(package
(name "r-ggh4x")
- (version "0.2.5")
+ (version "0.2.6")
(source
(origin
(method url-fetch)
(uri (cran-uri "ggh4x" version))
(sha256
(base32
- "0xj4nlxrpmwzdlj4q3vnhwy7gd1634ff7yjsnaf609ap0q23mxb1"))))
+ "0frbkdylyz630y7rjyif0whf74r89ca5bmhk9djcwz8nqfs2jygb"))))
(properties `((upstream-name . "ggh4x")))
(build-system r-build-system)
(propagated-inputs
diff --git a/gnu/packages/crates-io.scm b/gnu/packages/crates-io.scm
index 77a41a5116..3c83563c45 100644
--- a/gnu/packages/crates-io.scm
+++ b/gnu/packages/crates-io.scm
@@ -21557,6 +21557,24 @@ signing, and verification in pure Rust.")
@code{Right} is a general purpose sum type with two cases.")
(license (list license:expat license:asl2.0))))
+(define-public rust-either-1.6.0
+ (package
+ (inherit rust-either-1)
+ (name "rust-either")
+ (version "1.6.1")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (crate-uri "either" version))
+ (file-name
+ (string-append name "-" version ".tar.gz"))
+ (sha256
+ (base32
+ "0mwl9vngqf5jvrhmhn9x60kr5hivxyjxbmby2pybncxfqhf4z3g7"))))
+ (arguments
+ `(#:cargo-inputs (("rust-serde" ,rust-serde-1))
+ #:cargo-development-inputs (("rust-serde-json" ,rust-serde-json-1.0.73))))))
+
(define-public rust-elf-0.0.10
(package
(name "rust-elf")
@@ -41724,6 +41742,19 @@ with all line endings.")
notification library.")
(license (list license:cc0 license:artistic2.0))))
+(define-public rust-notify-5-pre.13
+ (package
+ (inherit rust-notify-5)
+ (name "rust-notify")
+ (version "5.0.0-pre.13")
+ (source (origin
+ (method url-fetch)
+ (uri (crate-uri "notify" version))
+ (file-name (string-append name "-" version ".tar.gz"))
+ (sha256
+ (base32
+ "0za8mpacxkr62fii5h7ny4h396y0m8myd3hf08njqdg2h21kap94"))))))
+
(define-public rust-notify-4
(package
(inherit rust-notify-5)
@@ -49388,6 +49419,27 @@ in your code.")
in terms of the upstream unstable API.")
(license (list license:asl2.0 license:expat))))
+(define-public rust-proc-macro2-1.0.34
+ (package
+ (inherit rust-proc-macro2-1)
+ (name "rust-proc-macro2")
+ (version "1.0.34")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (crate-uri "proc-macro2" version))
+ (file-name (string-append name "-" version ".tar.gz"))
+ (sha256
+ (base32
+ "1c93jhwl8lv3hiqqvdhd2d2xhjryh5bqb9w5icr5i7bw1wnfk11g"))))
+ (arguments
+ `(#:cargo-test-flags '("--lib")
+ #:cargo-inputs
+ (("rust-unicode-ident" ,rust-unicode-ident-1))
+ #:cargo-development-inputs
+ (("rust-quote" ,rust-quote-1.0.10)
+ ("rust-rustversion" ,rust-rustversion-1))))))
+
(define-public rust-proc-macro2-0.4
(package
(inherit rust-proc-macro2-1)
@@ -51588,6 +51640,25 @@ transport protocol in Rust.")
(description "Quasi-quoting macro quote!(...)")
(license (list license:asl2.0 license:expat))))
+(define-public rust-quote-1.0.10
+ (package
+ (inherit rust-quote-1)
+ (name "rust-quote")
+ (version "1.0.10")
+ (source (origin
+ (method url-fetch)
+ (uri (crate-uri "quote" version))
+ (file-name (string-append name "-" version ".tar.gz"))
+ (sha256
+ (base32
+ "01ff7a76f871ggnby57iagw6499vci4bihcr11g6bqzjlp38rg1q"))))
+ (arguments
+ `(#:cargo-inputs
+ (("rust-proc-macro2" ,rust-proc-macro2-1.0.34))
+ #:cargo-development-inputs
+ (("rust-rustversion" ,rust-rustversion-1)
+ ("rust-trybuild" ,rust-trybuild-1.0.19))))))
+
(define-public rust-quote-0.6
(package
(inherit rust-quote-1)
@@ -57489,7 +57560,7 @@ in pure Rust.")
#:cargo-inputs
(("rust-crossbeam-utils"
,rust-crossbeam-utils-0.8)
- ("rust-indexmap" ,rust-indexmap-1)
+ ("rust-indexmap" ,rust-indexmap-1.7)
("rust-lock-api" ,rust-lock-api-0.4)
("rust-log" ,rust-log-0.4)
("rust-oorandom" ,rust-oorandom-11.1)
@@ -59795,6 +59866,32 @@ data. This crate provides a wrapper that works with any existing Serde
"This package provides a JSON serialization file format.")
(license (list license:expat license:asl2.0))))
+(define-public rust-serde-json-1.0.73
+ (package
+ (inherit rust-serde-json-1)
+ (name "rust-serde-json")
+ (version "1.0.73")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (crate-uri "serde-json" version))
+ (file-name (string-append name "-" version ".tar.gz"))
+ (sha256
+ (base32 "1xbwmzc5j6r1nz62a20w6l9bkwbhzd11vwbdqmzbqcv5pi207gdw"))))
+ (arguments
+ `(#:cargo-inputs
+ (("rust-indexmap" ,rust-indexmap-1.7)
+ ("rust-itoa" ,rust-itoa-1)
+ ("rust-ryu" ,rust-ryu-1)
+ ("rust-serde" ,rust-serde-1))
+ #:cargo-development-inputs
+ (("rust-automod" ,rust-automod-1)
+ ("rust-rustversion" ,rust-rustversion-1)
+ ("rust-serde-bytes" ,rust-serde-bytes-0.11)
+ ("rust-serde-derive" ,rust-serde-derive-1)
+ ("rust-serde-stacker" ,rust-serde-stacker-0.1)
+ ("rust-trybuild" ,rust-trybuild-1))))))
+
(define-public rust-serde-json-0.9
(package
(inherit rust-serde-json-1)
@@ -59863,7 +59960,7 @@ programs in rust.")
(("rust-serde" ,rust-serde-1))
#:cargo-development-inputs
(("rust-serde-derive" ,rust-serde-derive-1)
- ("rust-serde-json" ,rust-serde-json-1))))
+ ("rust-serde-json" ,rust-serde-json-1.0.73))))
(home-page
"https://github.com/dtolnay/path-to-error")
(synopsis
@@ -59921,14 +60018,14 @@ commonly used by Ruby on Rails via Rack.")
(build-system cargo-build-system)
(arguments
`(#:cargo-inputs
- (("rust-proc-macro2" ,rust-proc-macro2-1)
- ("rust-quote" ,rust-quote-1)
+ (("rust-proc-macro2" ,rust-proc-macro2-1.0.34)
+ ("rust-quote" ,rust-quote-1.0.10)
("rust-syn" ,rust-syn-1))
#:cargo-development-inputs
(("rust-rustversion" ,rust-rustversion-1)
("rust-serde" ,rust-serde-1)
- ("rust-serde-json" ,rust-serde-json-1)
- ("rust-trybuild" ,rust-trybuild-1))))
+ ("rust-serde-json" ,rust-serde-json-1.0.73)
+ ("rust-trybuild" ,rust-trybuild-1.0.19))))
(home-page "https://github.com/dtolnay/serde-repr")
(synopsis "Serialize and deserialize C-like enum as underlying repr")
(description
@@ -73148,6 +73245,29 @@ the Trust-DNS client to use rustls for TLS.")
"Test harness for ui tests of compiler diagnostics.")
(license (list license:expat license:asl2.0))))
+(define-public rust-trybuild-1.0.19
+ (package
+ (inherit rust-trybuild-1)
+ (name "rust-trybuild")
+ (version "1.0.19")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (crate-uri "trybuild" version))
+ (file-name (string-append name "-" version ".tar.gz"))
+ (sha256
+ (base32 "0ab7ahdx563n6kbm14pm3qnxq4fp06pz42nh5ii4acvlzycnwdh4"))))
+ (arguments
+ `(#:cargo-inputs
+ (("rust-toml" ,rust-toml-0.5)
+ ("rust-dissimilar" ,rust-dissimilar-1)
+ ("rust-glob" ,rust-glob-0.3)
+ ("rust-lazy-static" ,rust-lazy-static-1)
+ ("rust-serde" ,rust-serde-1)
+ ("rust-serde-json" ,rust-serde-json-1.0.73)
+ ("rust-termcolor" ,rust-termcolor-1))
+ #:cargo-development-inputs (("rust-automod" ,rust-automod-1))))))
+
(define-public rust-trybuild2-1
(package
(name "rust-trybuild2")
diff --git a/gnu/packages/databases.scm b/gnu/packages/databases.scm
index 3d41649f4d..2b8e80e1b0 100644
--- a/gnu/packages/databases.scm
+++ b/gnu/packages/databases.scm
@@ -59,7 +59,8 @@
;;; Copyright © 2022 muradm <mail@muradm.net>
;;; Copyright © 2022 Thomas Albers Raviola <thomas@thomaslabs.org>
;;; Copyright © 2021, 2022 jgart <jgart@dismail.de>
-;;; Copyright © 2023 Felix Gruber <felgru@posteo.net>
+;;; Copyright © 2023 Felix Gruber <felgru@posteo.ne
+;;; Copyright © 2023 Munyoki Kilyungi <me@bonfacemunyoki.com>
;;;
;;; This file is part of GNU Guix.
;;;
@@ -3706,7 +3707,7 @@ PickleShare.")
(define-public python-apsw
(package
(name "python-apsw")
- (version "3.40.0.0")
+ (version "3.42.0.1")
;; The compressed release has fetching functionality disabled.
(source
(origin
@@ -3716,11 +3717,11 @@ PickleShare.")
version "/apsw-" version ".zip"))
(sha256
(base32
- "02sgja00azvd08wi2wm105apmhp2644s7aw9b1zdg3dkcwjnsiad"))))
+ "0dr7zymn45x2793cilr709rnwn9g1c4n4vzln57y2lhj7420ykic"))))
(build-system pyproject-build-system)
(native-inputs
(list python-cython unzip))
- (inputs (list sqlite-next)) ;SQLite 3.40 required.
+ (inputs (list sqlite-next)) ;SQLite 3.42 required.
(arguments
(list
#:phases
@@ -3963,7 +3964,7 @@ database).")
(define-public yoyo-migrations
(package
(name "yoyo-migrations")
- (version "7.2.0")
+ (version "8.2.0")
(source
(origin
;; We use the upstream repository, as the tests are not included in the
@@ -3974,14 +3975,14 @@ database).")
(changeset (string-append "v" version "-release"))))
(file-name (string-append name "-" version "-checkout"))
(sha256
- (base32 "0q2z9bgdj3wyix7yvqsayfs21grp5av8ilh411lgmjhigszkvhcq"))))
+ (base32 "1al030ix0w63hr4s3mqry6s0mlqdj8p242pdqks06br7c25nx3yj"))))
(build-system python-build-system)
(arguments
;; XXX: Tests require a connection to some pgsql database and psycopg
;; fails to connect to it.
'(#:tests? #f))
(propagated-inputs
- (list python-sqlparse python-tabulate))
+ (list python-sqlparse python-tabulate python-importlib-metadata))
(home-page "https://ollycope.com/software/yoyo/latest/")
(synopsis "Database migrations with SQL")
(description
@@ -4304,7 +4305,7 @@ the SQL language using a syntax that reflects the resulting query.")
(define-public apache-arrow
(package
(name "apache-arrow")
- (version "12.0.1")
+ (version "13.0.0")
(source
(origin
(method git-fetch)
@@ -4314,7 +4315,7 @@ the SQL language using a syntax that reflects the resulting query.")
(file-name (git-file-name name version))
(sha256
(base32
- "03flvb4xj6a7mfphx68ndrqr6g5jphmzb75m16fx7rnbzira2zpz"))))
+ "03ykynzz01ar2y4blhcxjh6xsi0gqv380h5m669dddfz2isplsf8"))))
(build-system cmake-build-system)
(arguments
(list
diff --git a/gnu/packages/datastructures.scm b/gnu/packages/datastructures.scm
index bd4f099d94..0689ef4259 100644
--- a/gnu/packages/datastructures.scm
+++ b/gnu/packages/datastructures.scm
@@ -213,14 +213,14 @@ allows multiple concurrent reader and writer threads.")
(define-public liburcu
(package
(name "liburcu")
- (version "0.13.1")
+ (version "0.14.0")
(source (origin
(method url-fetch)
(uri (string-append "https://www.lttng.org/files/urcu/"
"userspace-rcu-" version ".tar.bz2"))
(sha256
(base32
- "10rh6v9j13622cjlzx31cfpghjy0kqkvn6pb42whwwcg5cyz64rj"))))
+ "0kwx4fi3gn4p4sdxqkz2zh4z0fv06q449bnz43zjqfad3lkbyhya"))))
(build-system gnu-build-system)
(native-inputs
(list perl)) ; for tests
diff --git a/gnu/packages/debian.scm b/gnu/packages/debian.scm
index ef3c5f1f2c..6e40096199 100644
--- a/gnu/packages/debian.scm
+++ b/gnu/packages/debian.scm
@@ -190,7 +190,7 @@ contains the archive keys used for that.")
(define-public debootstrap
(package
(name "debootstrap")
- (version "1.0.128")
+ (version "1.0.132")
(source
(origin
(method git-fetch)
@@ -199,7 +199,7 @@ contains the archive keys used for that.")
(commit version)))
(file-name (git-file-name name version))
(sha256
- (base32 "0hc7xc6qvnmjlpf3j6bm25kf0j1ifvv5j7a0iljfmbag4idxc9jv"))))
+ (base32 "1l6mc3i2wqfhmhj85x9qiiqchqp9br6gg54hv1xs08h8xndmfchf"))))
(build-system gnu-build-system)
(arguments
(list
@@ -226,6 +226,12 @@ contains the archive keys used for that.")
(substitute* "debootstrap"
(("=/usr") (string-append "=" #$output))
(("/usr/bin/dpkg") (search-input-file inputs "/bin/dpkg")))
+ ;; Include the keyring locations by default.
+ (substitute* (find-files "scripts")
+ (("keyring.*(debian-archive-keyring.gpg)"_ keyring)
+ (string-append "keyring " debian "/share/keyrings/" keyring))
+ (("keyring.*(ubuntu-archive-keyring.gpg)" _ keyring)
+ (string-append "keyring " ubuntu "/share/keyrings/" keyring)))
;; Ensure PATH works both in guix and within the debian chroot
;; workaround for: https://bugs.debian.org/929889
(substitute* "functions"
@@ -335,7 +341,7 @@ distributions such as Debian and Trisquel.")
(define-public dpkg
(package
(name "dpkg")
- (version "1.21.22")
+ (version "1.22.0")
(source
(origin
(method git-fetch)
@@ -344,7 +350,7 @@ distributions such as Debian and Trisquel.")
(commit version)))
(file-name (git-file-name name version))
(sha256
- (base32 "0b5czgif5g6pdjzcw60hzzj0i1llxvajf3nlx115axmpa3y4iynd"))))
+ (base32 "1p7f2mgrn2iy0xfysxfq4pjbbhbhb2rp649bsik0x25jrck4if83"))))
(build-system gnu-build-system)
(arguments
(list #:modules
@@ -382,6 +388,7 @@ distributions such as Debian and Trisquel.")
`("PATH" ":" prefix (,(string-append #$output
"/bin")))))
(list "dpkg-architecture"
+ "dpkg-buildapi"
"dpkg-buildflags"
"dpkg-buildpackage"
"dpkg-checkbuilddeps"
diff --git a/gnu/packages/debug.scm b/gnu/packages/debug.scm
index e2a29a3ae9..febc041e53 100644
--- a/gnu/packages/debug.scm
+++ b/gnu/packages/debug.scm
@@ -892,11 +892,10 @@ to aid in debugging.")
(home-page "https://www.gnu.org/software/ddd/")
(license license:gpl3+)))
-
(define-public delve
(package
(name "delve")
- (version "1.9.1")
+ (version "1.21.0")
(source
(origin
(method git-fetch)
@@ -906,14 +905,13 @@ to aid in debugging.")
(file-name (git-file-name name version))
(sha256
(base32
- "07jch3yd1pgqviyy18amn23gazbzi7l51f210c3vmc707v3vbbqr"))))
+ "1gdynx4gp02lj47znnf638kkbmmsl24a9fis81a2fg3pdrg6jg3c"))))
(build-system go-build-system)
(arguments
(list #:import-path "github.com/go-delve/delve/cmd/dlv"
#:unpack-path "github.com/go-delve/delve"
#:install-source? #f
#:phases #~(modify-phases %standard-phases (delete 'check))))
- (propagated-inputs (list go))
(home-page "https://github.com/go-delve/delve")
(synopsis "Debugger for the Go programming language")
(description "Delve is a debugger for the Go programming language.")
diff --git a/gnu/packages/dezyne.scm b/gnu/packages/dezyne.scm
index 23b51274a5..db3523ac3e 100644
--- a/gnu/packages/dezyne.scm
+++ b/gnu/packages/dezyne.scm
@@ -32,14 +32,14 @@
(define-public dezyne
(package
(name "dezyne")
- (version "2.17.5")
+ (version "2.17.6")
(source
(origin
(method url-fetch)
(uri (string-append "https://dezyne.org/download/dezyne/"
name "-" version ".tar.gz"))
(sha256
- (base32 "15jhi17f0aqnlznvpf6lkz2y837xkzf8chi9rhhb55920vqf6cgg"))))
+ (base32 "0z019yyvf1ac1l95j29wlayi2gmwa9sjqg31a4r89za1bijmk19k"))))
(inputs (list bash-minimal
guile-3.0-latest
guile-json-4
diff --git a/gnu/packages/diffoscope.scm b/gnu/packages/diffoscope.scm
index 86f0c779ef..1b8b77d7a4 100644
--- a/gnu/packages/diffoscope.scm
+++ b/gnu/packages/diffoscope.scm
@@ -74,7 +74,7 @@
(define-public diffoscope
(package
(name "diffoscope")
- (version "247")
+ (version "250")
(source
(origin
(method git-fetch)
@@ -83,7 +83,7 @@
(commit version)))
(file-name (git-file-name name version))
(sha256
- (base32 "0c81pvdq0bz47sk3gcgpm2l3g5hxdi2s1jz05krv1cr2bd0sfq4j"))))
+ (base32 "12cdsgxlva1gcry16w9x44ji9asar1n8p9q6rv2jd1gr9fi6l0sz"))))
(build-system python-build-system)
(arguments
(list
@@ -188,6 +188,7 @@
gnumeric
gnupg
hdf5
+ html2text
imagemagick
libarchive
llvm
@@ -206,6 +207,7 @@
sqlite
squashfs-tools
tcpdump
+ u-boot-tools
unzip
wabt
xxd
diff --git a/gnu/packages/django.scm b/gnu/packages/django.scm
index b089954b6b..577789e988 100644
--- a/gnu/packages/django.scm
+++ b/gnu/packages/django.scm
@@ -34,6 +34,7 @@
#:use-module (guix gexp)
#:use-module (guix build-system python)
#:use-module (guix deprecation)
+ #:use-module (guix search-paths)
#:use-module (gnu packages)
#:use-module (gnu packages base)
#:use-module (gnu packages compression)
@@ -126,9 +127,7 @@
;; Set TZDIR when 'tzdata' is available so that timezone functionality
;; works (mostly) out of the box in containerized environments.
;; Note: This search path actually belongs to 'glibc'.
- (list (search-path-specification
- (variable "TZDIR")
- (files '("share/zoneinfo")))))
+ (list $TZDIR))
(home-page "https://www.djangoproject.com/")
(synopsis "High-level Python Web framework")
(description
diff --git a/gnu/packages/emacs-xyz.scm b/gnu/packages/emacs-xyz.scm
index baa67eefbb..c4de0e1d1f 100644
--- a/gnu/packages/emacs-xyz.scm
+++ b/gnu/packages/emacs-xyz.scm
@@ -134,6 +134,7 @@
;;; Copyright © 2023 Ahmad Draidi <a.r.draidi@redscript.org>
;;; Copyright © 2023 Sergiu Ivanov <sivanov@colimite.fr>
;;; Copyright © 2023 Camilo Q.S. (Distopico) <distopico@riseup.net>
+;;; Copyright © 2023 Thanos Apollo <public@thanosapollo.com>
;;;
;;; This file is part of GNU Guix.
;;;
@@ -181,6 +182,7 @@
#:use-module (gnu packages djvu)
#:use-module (gnu packages ebook)
#:use-module (gnu packages emacs)
+ #:use-module (gnu packages enchant)
#:use-module (gnu packages fonts)
#:use-module (gnu packages freedesktop)
#:use-module (gnu packages games)
@@ -493,6 +495,25 @@ just one-off queries and multiple independent sessions. It requires an OpenAI
API key.")
(license license:gpl3+)))
+(define-public emacs-chatgpt-shell
+ (package
+ (name "emacs-chatgpt-shell")
+ (version "0.74.1")
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/xenodium/chatgpt-shell")
+ (commit "1de7bfa6a34f20cca813006282d9a8f2ef291f95")))
+ (sha256
+ (base32
+ "1rabpp70qlmc47lmp2v7ckvfjhy6wkk881fxpbv2dchzhn77qk5r"))))
+ (build-system emacs-build-system)
+ (home-page "https://github.com/xenodium/chatgpt-shell")
+ (synopsis "ChatGPT and DALL-E Emacs shells + Org Babel")
+ (description
+ "chatgpt-shell is a comint-based ChatGPT shell for Emacs.")
+ (license license:gpl3+)))
+
(define-public emacs-geiser-guile
(package
(name "emacs-geiser-guile")
@@ -1443,10 +1464,10 @@ libgit2 bindings for Emacs, intended to boost the performance of Magit.")
(license license:gpl2+))))
(define-public emacs-magit
- ;; Use this unreleased commit to benefit from a recent change needed to
- ;; add Reviewed-by: tags for any contributor in commit messages.
- (let ((commit "186414ae418a07a46c413f05c68413a76256a05e")
- (revision "5"))
+ ;; Use this unreleased commit to benefit from a recent improvements with
+ ;; regard to adding git trailers such as "Reviewed-by".
+ (let ((commit "7a1d50347086678217cf90a32dda277b76ea3081")
+ (revision "6"))
(package
(name "emacs-magit")
(version (git-version "3.3.0" revision commit))
@@ -1458,7 +1479,7 @@ libgit2 bindings for Emacs, intended to boost the performance of Magit.")
(commit commit)))
(file-name (git-file-name name version))
(sha256
- (base32 "0rhsbcjfjw0z3vy2ix30y4h55c0cx4lyvz6mbijwbbjryln71kpj"))))
+ (base32 "1yn3v24w0sx6r8jqw8blfvyjdjfz5xa7c3x8p6xw1lj7b81l8i0l"))))
(build-system emacs-build-system)
(arguments
(list
@@ -10330,6 +10351,66 @@ insertion mode. When enabled all keys are implicitly prefixed with
sgml/html integration, and indentation (working with sgml).")
(license license:gpl3+)))
+(define-public emacs-jinx
+ (package
+ (name "emacs-jinx")
+ (version "0.8")
+ (source
+ (origin
+ (method git-fetch)
+ (uri
+ (git-reference
+ (url "https://github.com/minad/jinx")
+ (commit version)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "1y097rnf9zg26jf4vh74a0laddfp4x6pp1fjqs3xqgwc0cmdq59w"))))
+ (build-system emacs-build-system)
+ (arguments
+ (list
+ #:phases
+ #~(modify-phases %standard-phases
+ (add-after 'expand-load-path 'build-jinx-mod
+ (lambda* _
+ (invoke
+ "emacs" "--batch" "-L" "."
+ "-l" "jinx.el"
+ "-f" "jinx--load-module")))
+ (add-after 'expand-load-path 'build-info
+ (lambda _
+ (invoke "emacs" "--batch"
+ "--eval=(require 'ox-texinfo)"
+ "--eval=(find-file \"README.org\")"
+ "--eval=(org-texinfo-export-to-info)")))
+ (add-after 'build-jinx-mod 'patch-path-to-jinx-mod
+ (lambda _
+ (let ((file "jinx.el"))
+ (make-file-writable file)
+ (emacs-substitute-sexps file
+ ("\"Compile and load dynamic module.\""
+ `(module-load
+ ,(string-append #$output
+ "/lib/emacs/jinx-mod.so")))))))
+ (add-after 'install 'install-jinx-mod
+ (lambda _
+ (install-file "jinx-mod.so"
+ (string-append #$output "/lib/emacs"))))
+ (add-after 'install 'install-info
+ (lambda _
+ (install-file "jinx.info"
+ (string-append #$output "/share/info")))))))
+ (inputs (list enchant))
+ (propagated-inputs (list emacs-compat))
+ (native-inputs (list emacs-compat enchant pkg-config texinfo))
+ (home-page "https://github.com/minad/jinx")
+ (synopsis "Emacs Enchanted Spell Checker")
+ (description "Jinx is a just-in-time spell-checker for Emacs
+based on the enchant library. It lazily highlights misspelled words in the
+text of the visible portion of the buffer by honouring window boundaries as
+well as text folding, if any.")
+ (license license:gpl3+)))
+
(define-public emacs-jit-spell
(package
(name "emacs-jit-spell")
@@ -12359,30 +12440,27 @@ The following completions are currently available:
(license license:gpl3+)))
(define-public emacs-sway
- ;; Commit from Nicola's fork (dash free version with various improvments)
- (let ((commit "838ef531a30fe616f0141adbdabc132d4edfd374")
- (revision "0"))
- (package
- (name "emacs-sway")
- (version (git-version "0.6.1" revision commit))
- (source
- (origin
- (method git-fetch)
- (uri (git-reference
- (url "https://github.com/thblt/sway.el")
- (commit commit)))
- (file-name (git-file-name name version))
- (sha256
- (base32 "0ddaz8my3z4ca2z81kf1h8773pyx8h0l0ra3ssqd1rq5j0041wdh"))))
- (build-system emacs-build-system)
- (home-page "https://github.com/thblt/sway.el")
- (synopsis "Communication with the Sway window manager")
- (description
- "This is a basic library to control the Sway window manager from Emacs.
+ (package
+ (name "emacs-sway")
+ (version "0.7")
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/thblt/sway.el")
+ (commit version)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32 "1w29dkl7s835zgwnc4jx1cp84s6mmwbvlil8z2c31psy0rlajc6i"))))
+ (build-system emacs-build-system)
+ (home-page "https://github.com/thblt/sway.el")
+ (synopsis "Communication with the Sway window manager")
+ (description
+ "This is a basic library to control the Sway window manager from Emacs.
Its main use case is in combination with popup managers like Shackle, to
use frames instead of windows while still giving focus to existing frames
instead of duplicating them.")
- (license license:gpl3+))))
+ (license license:gpl3+)))
(define-public emacs-sweet-theme
(let ((commit "78f741806ecebe01224bf54d09ad80e306652508")
@@ -18223,11 +18301,12 @@ in Emacs.")
(package
(name "emacs-php-mode")
(version "1.25.0")
+ (home-page "https://github.com/emacs-php/php-mode")
(source
(origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/ejmr/php-mode")
+ (url home-page)
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@@ -18250,7 +18329,6 @@ in Emacs.")
(lambda _
(chdir "lisp"))))))
(propagated-inputs (list emacs-projectile))
- (home-page "https://github.com/ejmr/php-mode")
(synopsis "Major mode for editing PHP code")
(description
"PHP mode is a major mode for editing PHP source code. It's an extension
@@ -27816,6 +27894,33 @@ as playing them in some video player, or downloading them.")
and comments.")
(license license:gpl3+))))
+(define-public emacs-yeetube
+ (package
+ (name "emacs-yeetube")
+ (version "1.4.2")
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://git.sr.ht/~thanosapollo/yeetube.el")
+ (commit version)))
+ (sha256
+ (base32
+ "0vfap6sri6qnswrjsp6qvmrp98bvrfh58gwdqbjiakq1fzvcrm03"))
+ (file-name (git-file-name name version))))
+ (build-system emacs-build-system)
+ (inputs
+ (list mpv yt-dlp))
+ (home-page "https://sr.ht/~thanosapollo/yeetube.el")
+ (synopsis "Youtube & Invidious front-end for Emacs")
+ (description
+ "This package offers an Emacs interface that allows you to search YouTube
+or an Invidious instance for a specific query. The search results are shown as
+links in an org-mode buffer. The videos can be opened to a user-defined video
+player(by default mpv) or downloaded using yt-dlp. This package also includes
+a yt-dlp front-end.")
+ (license license:gpl3+)))
+
(define-public emacs-org-web-tools
(package
(name "emacs-org-web-tools")
@@ -30194,6 +30299,27 @@ displays as you type thanks to Helm, though @command{notmuch-search} does the
real search.")
(license license:gpl3+)))
+(define-public emacs-notmuch-indicator
+ (package
+ (name "emacs-notmuch-indicator")
+ (version "1.0.1")
+ (home-page "https://git.sr.ht/~protesilaos/notmuch-indicator")
+ (source (origin
+ (method url-fetch)
+ (uri (string-append
+ "https://elpa.gnu.org/packages/notmuch-indicator-" version
+ ".tar"))
+ (sha256
+ (base32
+ "1n5k2ikk93mdwqqysf6l7gd8i6iazk8yvbqpf8xnz5zny248cc2x"))))
+ (build-system emacs-build-system)
+ (synopsis "Display a mode line indicator with @code{notmuch-count} output")
+ (description "This package renders an indicator with an email count of the
+@code{notmuch} index on the Emacs mode line. The underlying mechanism is that of
+@code{notmuch-count}, which is used to find the number of items that match the
+given search terms.")
+ (license license:gpl3+)))
+
(define-public emacs-notmuch-maildir
(package
(name "emacs-notmuch-maildir")
@@ -32665,37 +32791,40 @@ time.")
(license license:gpl3+)))
(define-public emacs-mastodon
- (package
- (name "emacs-mastodon")
- (version "1.0.0")
- (source (origin
- (method git-fetch)
- (uri (git-reference
- (url "https://codeberg.org/martianh/mastodon.el")
- (commit version)))
- (file-name (git-file-name name version))
- (sha256
- (base32
- "13swcbvwhjl8ksrgzvmfafkgd3iz8znk49bs1n48w3g9qvh097w7"))))
- (build-system emacs-build-system)
- (arguments
- (list #:phases
- #~(modify-phases %standard-phases
- ;; Move the source files to the top level, which is included in
- ;; the EMACSLOADPATH.
- (add-after 'unpack 'move-source-files
- (lambda _
- (let ((el-files (find-files "./lisp" ".*\\.el$")))
- (for-each (lambda (f)
- (rename-file f (basename f)))
- el-files)))))))
- (propagated-inputs
- (list emacs-request))
- (home-page "https://codeberg.org/martianh/mastodon.el")
- (synopsis "Emacs client for Mastodon")
- (description "@code{mastodon.el} is an Emacs client for Mastodon, the
+ ;; No release in ~1 year, hence this snapshot.
+ (let ((commit "20dec8871c9bb5f5e418bfc197e7533b5e3065e3")
+ (revision "1"))
+ (package
+ (name "emacs-mastodon")
+ (version (git-version "1.0.0" revision commit))
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://codeberg.org/martianh/mastodon.el")
+ (commit commit)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "15cfjny99yw5frdp8nlyazlwgscvfvbinsj0fbdfprxf50k2zjs6"))))
+ (build-system emacs-build-system)
+ (arguments
+ (list #:phases
+ #~(modify-phases %standard-phases
+ ;; Move the source files to the top level, which is included in
+ ;; the EMACSLOADPATH.
+ (add-after 'unpack 'move-source-files
+ (lambda _
+ (let ((el-files (find-files "./lisp" ".*\\.el$")))
+ (for-each (lambda (f)
+ (rename-file f (basename f)))
+ el-files)))))))
+ (propagated-inputs
+ (list emacs-request emacs-ts emacs-persist))
+ (home-page "https://codeberg.org/martianh/mastodon.el")
+ (synopsis "Emacs client for Mastodon")
+ (description "@code{mastodon.el} is an Emacs client for Mastodon, the
federated microblogging social network.")
- (license license:gpl3+)))
+ (license license:gpl3+))))
(define-public emacs-ebdb
(package
diff --git a/gnu/packages/fonts.scm b/gnu/packages/fonts.scm
index 93c1308d54..c51679c273 100644
--- a/gnu/packages/fonts.scm
+++ b/gnu/packages/fonts.scm
@@ -3192,7 +3192,7 @@ dialects in Hong Kong and Taiwan.")))
(define-public font-chiron-sung-hk
(package
(name "font-chiron-sung-hk")
- (version "1.008")
+ (version "1.010")
(source (origin
(method git-fetch)
(uri (git-reference
@@ -3201,7 +3201,7 @@ dialects in Hong Kong and Taiwan.")))
(file-name (git-file-name name version))
(sha256
(base32
- "19rabzmy4ywam4r5kgnqbgbmqzvhsagzddbyis5iicc6y8jrmd1j"))))
+ "065p1gc5xjwc4kfw8bqpsbhaf1p4w0k4l0j04vjsjhcl4k9vyvfz"))))
(build-system font-build-system)
(home-page "https://chiron-fonts.github.io/")
(synopsis "Traditional Chinese Song typeface")
diff --git a/gnu/packages/games.scm b/gnu/packages/games.scm
index 760234b031..1167443825 100644
--- a/gnu/packages/games.scm
+++ b/gnu/packages/games.scm
@@ -491,27 +491,25 @@ Doom clone shooter game.")
(define-public armagetronad
(package
(name "armagetronad")
- (version "0.2.9.1.0")
+ (version "0.2.9.1.1")
(source (origin
(method url-fetch)
(uri (string-append "mirror://sourceforge/armagetronad/stable/"
version "/armagetronad-" version ".tbz"))
(sha256
(base32
- "18gn4sg4j5sw38ngb90sl50raliplrsgjcvy8fjwry733k0cgdjr"))))
+ "0cpxvzbssyf45fmanp1d6l992wln8zkjx4z2flgx27fg1rqdw5zn"))))
(build-system gnu-build-system)
- (native-inputs
- (list pkg-config))
- (inputs
- (list libxml2
- sdl
- sdl-image
- freeglut
- libpng
- libjpeg-turbo))
+ (native-inputs (list pkg-config))
+ (inputs (list libxml2
+ (sdl-union (list sdl sdl-image sdl-mixer))
+ freeglut
+ libpng
+ libjpeg-turbo))
(home-page "https://www.armagetronad.org")
(synopsis "Tron clone in 3D")
- (description "Armagetron Advanced is a multiplayer game in 3d that
+ (description
+ "Armagetron Advanced is a multiplayer game in 3d that
attempts to emulate and expand on the lightcycle sequence from the movie Tron.
It's an old school arcade game slung into the 21st century. Highlights
include a customizable playing arena, HUD, unique graphics, and AI bots. For
@@ -5571,65 +5569,57 @@ fullscreen, use F5 or Alt+Enter.")
(define-public tennix
(package
(name "tennix")
- (version "1.3.1")
- (source
- (origin
- (method git-fetch)
- (uri (git-reference
- (url "https://repo.or.cz/tennix.git")
- (commit (string-append "tennix-" version))))
- (file-name (git-file-name name version))
- (sha256
- (base32 "02cj4lrdrisal5s9pnbf2smx7qz9czczjzndfkhfx0qy67b957sk"))
- ;; Remove non-free images.
- (modules '((guix build utils)))
- (snippet
- '(begin
- (for-each delete-file
- '("data/loc_training_camp.png"
- "data/loc_austrian_open.png"
- "data/loc_olympic_green_tennis.png"))
- #t))))
+ (version "1.3.4")
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://repo.or.cz/tennix.git")
+ (commit (string-append "tennix-" version))))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "1fmg0vw8c2spyxy4k64nwky80jsw9mc3vnlch49q6cagjsg9y8dj"))
+ ;; Remove non-free images.
+ (modules '((guix build utils)))
+ (snippet '(begin
+ (for-each delete-file
+ '("data/loc_training_camp.png"
+ "data/loc_austrian_open.png"
+ "data/loc_olympic_green_tennis.png")) #t))))
(build-system gnu-build-system)
(arguments
- `(#:tests? #f ;no test
- #:phases
- (modify-phases %standard-phases
- (add-after 'unpack 'fix-include
- (lambda _
- (substitute* '("src/graphics.h" "src/sound.h")
- (("#include \"(SDL_(image|ttf|mixer)\\.h)\"" _ header)
- (string-append "#include \"SDL/" header "\"")))
- (substitute* '("src/tennix.h" "src/network.h" "src/SDL_rotozoom.h")
- (("#include <SDL.h>") "#include <SDL/SDL.h>")
- (("#include <SDL_net.h>") "#include <SDL/SDL_net.h>"))
- #t))
- (add-after 'unpack 'locate-install
- ;; Build process cannot expand "$(INSTALL)" in Makefile.
- (lambda _
- (substitute* "makefile"
- (("^CONFIGURE_OUTPUT :=.*" all)
- (string-append "INSTALL := install -c\n" all)))
- #t))
- (replace 'configure
- ;; The "configure" script is picky about the arguments it
- ;; gets. Call it ourselves.
- (lambda _
- (invoke "./configure" "--prefix" (assoc-ref %outputs "out")))))))
- (native-inputs
- (list which))
- (inputs
- `(("python" ,python-wrapper)
- ("sdl" ,(sdl-union (list sdl sdl-image sdl-mixer sdl-ttf sdl-net)))))
+ (list
+ #:tests? #f ;no tests
+ #:phases #~(modify-phases %standard-phases
+ (add-after 'unpack 'locate-install
+ ;; Build process cannot expand "$(INSTALL)" in Makefile.
+ (lambda _
+ (substitute* "makefile"
+ (("^CONFIGURE_OUTPUT :=.*" all)
+ (string-append "INSTALL := install -c\n" all))) #t))
+ (replace 'configure
+ ;; The "configure" script is picky about the arguments it
+ ;; gets. Call it ourselves.
+ (lambda _
+ (invoke "./configure" "--prefix"
+ (assoc-ref %outputs "out")))))))
+ (native-inputs (list which))
+ (inputs (list python
+ (sdl-union (list sdl2
+ sdl2-image
+ sdl2-mixer
+ sdl2-ttf
+ sdl2-net
+ sdl2-gfx))))
(home-page "https://icculus.org/tennix/")
(synopsis "Play tennis against the computer or a friend")
- (description "Tennix is a 2D tennis game. You can play against the
+ (description
+ "Tennix is a 2D tennis game. You can play against the
computer or against another player using the keyboard. The game runs
in-window at 640x480 resolution or fullscreen.")
;; Project is licensed under GPL2+ terms. It includes images
- ;; released under Public Domain terms, and SDL_rotozoom, released
- ;; under LGPL2.1 terms.
- (license (list license:gpl2+ license:public-domain license:lgpl2.1))))
+ ;; released under Public Domain terms.
+ (license (list license:gpl2+ license:public-domain))))
(define-public warzone2100
(package
@@ -11059,7 +11049,7 @@ play; it will look for them at @file{~/.local/share/fheroes2} folder.")
(define-public vcmi
(package
(name "vcmi")
- (version "1.2.1")
+ (version "1.3.1")
(source (origin
(method git-fetch)
(uri (git-reference
@@ -11068,7 +11058,7 @@ play; it will look for them at @file{~/.local/share/fheroes2} folder.")
(file-name (git-file-name name version))
(sha256
(base32
- "0f3fk1fc2wb7f2j4pxz89dzr8zjnrdh435mijia483a3bq59w7pk"))
+ "0jq84i6lxp96xkzq9mq8n2bbmincjzi39vijj9ws8i59c7xvjw5f"))
(patches (search-patches "vcmi-disable-privacy-breach.patch"))))
(build-system cmake-build-system)
(arguments
diff --git a/gnu/packages/geo.scm b/gnu/packages/geo.scm
index 0a823353fa..d702046865 100644
--- a/gnu/packages/geo.scm
+++ b/gnu/packages/geo.scm
@@ -2775,6 +2775,7 @@ growing set of geoscientific methods.")
"ProcessingGrass7AlgorithmsRasterTestPt1"
"ProcessingGrass7AlgorithmsRasterTestPt2"
"ProcessingGrass7AlgorithmsVectorTest"
+ "test_core_authconfig"
"test_core_authmanager"
"test_core_compositionconverter"
"test_core_expression"
diff --git a/gnu/packages/glib.scm b/gnu/packages/glib.scm
index 4a5f8ebfb2..8af89d60e0 100644
--- a/gnu/packages/glib.scm
+++ b/gnu/packages/glib.scm
@@ -338,7 +338,7 @@ information, refer to the @samp{dbus-daemon(1)} man page.")))
(substitute* '("appmonitor.c"
"async-splice-output-stream.c"
"autoptr.c"
- "contexts.c"
+ "contexts.c"
"converter-stream.c"
"file.c"
"g-file-info.c"
@@ -347,13 +347,13 @@ information, refer to the @samp{dbus-daemon(1)} man page.")))
"gapplication.c"
"gdbus-connection-flush.c"
"gdbus-connection.c"
- "gdbus-names.c"
+ "gdbus-names.c"
"gdbus-server-auth.c"
"gsocketclient-slow.c"
"gsubprocess.c"
"io-stream.c"
"live-g-file.c"
- "memory-monitor.c"
+ "memory-monitor.c"
"mimeapps.c"
"network-monitor-race.c"
"network-monitor.c"
diff --git a/gnu/packages/gnome-xyz.scm b/gnu/packages/gnome-xyz.scm
index 77d6aecc50..86dacdf7ff 100644
--- a/gnu/packages/gnome-xyz.scm
+++ b/gnu/packages/gnome-xyz.scm
@@ -484,7 +484,7 @@ takes advantage of modern hardware using OpenGL.")
(define-public portfolio
(package
(name "portfolio")
- (version "0.9.14")
+ (version "1.0.0")
(source (origin
(method git-fetch)
(uri (git-reference
@@ -493,7 +493,7 @@ takes advantage of modern hardware using OpenGL.")
(file-name (git-file-name name version))
(sha256
(base32
- "0h09v8lhz3kv6qmwjhx3gr7rp6ccfhrzm54gjnaixl4dcg9zddls"))))
+ "1ai9mx801m5lngkljg42vrpvhbvc3071sp4jypsvbzw55hxnn5ba"))))
(arguments
(list #:glib-or-gtk? #t
#:imported-modules `(,@%meson-build-system-modules
@@ -508,6 +508,10 @@ takes advantage of modern hardware using OpenGL.")
(with-directory-excursion (string-append #$output
"/bin")
(symlink "dev.tchx84.Portfolio" "portfolio"))))
+ (add-after 'unpack 'skip-gtk-update-icon-cache
+ (lambda _
+ (substitute* "build-aux/meson/postinstall.py"
+ (("gtk-update-icon-cache") "true"))))
(add-after 'glib-or-gtk-wrap 'python-and-gi-wrap
(lambda* (#:key inputs outputs #:allow-other-keys)
(wrap-program (search-input-file outputs
@@ -519,12 +523,12 @@ takes advantage of modern hardware using OpenGL.")
`("GI_TYPELIB_PATH" =
(,(getenv "GI_TYPELIB_PATH")))))))))
(build-system meson-build-system)
- (inputs (list bash-minimal python-pygobject gtk+ libhandy))
+ (inputs (list bash-minimal python-pygobject gtk libadwaita))
(native-inputs
(list desktop-file-utils
gettext-minimal
`(,glib "bin")
- `(,gtk+ "bin")
+ pkg-config
python))
(home-page "https://github.com/tchx84/Portfolio")
(synopsis "Minimalist file manager for Linux mobile devices")
diff --git a/gnu/packages/gnome.scm b/gnu/packages/gnome.scm
index f5ed13565d..2077478ff2 100644
--- a/gnu/packages/gnome.scm
+++ b/gnu/packages/gnome.scm
@@ -142,6 +142,7 @@
#:use-module (gnu packages geo)
#:use-module (gnu packages gperf)
#:use-module (gnu packages graphviz)
+ #:use-module (gnu packages groff)
#:use-module (gnu packages gstreamer)
#:use-module (gnu packages gtk)
#:use-module (gnu packages guile)
@@ -7290,6 +7291,28 @@ jQuery.Syntax JavaScript libraries.")
(base32
"0h9vf4fx056imjf8ibmn03wg1c3hniipy1nsm2jqi62lp1m19c95"))))
(build-system glib-or-gtk-build-system)
+ (arguments
+ (list #:phases
+ #~(modify-phases %standard-phases
+ (add-after 'unpack 'set-man-file-name
+ (lambda* (#:key inputs #:allow-other-keys)
+ ;; Invoke 'man' directly instead of searching $PATH.
+ (substitute* '("libyelp/yelp-man-parser.c"
+ "libyelp/yelp-uri.c")
+ (("\"man\"")
+ (string-append "\""
+ (search-input-file inputs "bin/man")
+ "\""))
+ (("G_SPAWN_SEARCH_PATH")
+ "0"))))
+ (add-after 'install 'help-man-find-its-dependencies
+ (lambda* (#:key inputs outputs #:allow-other-keys)
+ ;; XXX: Currently 'man' looks for 'groff' in $PATH in one
+ ;; case. This should be fixed in 'man-db' proper.
+ (wrap-program (string-append (assoc-ref outputs "out")
+ "/bin/yelp")
+ `("PATH" ":" prefix
+ (,(dirname (search-input-file inputs "bin/groff"))))))))))
(native-inputs
(list `(,glib "bin") ; for glib-genmarshal, etc.
intltool
@@ -7301,6 +7324,8 @@ jQuery.Syntax JavaScript libraries.")
(list gsettings-desktop-schemas
libhandy
libxslt
+ man-db ;for URIs like "man:ls"
+ groff-minimal ;ditto
sqlite
webkitgtk
yelp-xsl))
diff --git a/gnu/packages/golang.scm b/gnu/packages/golang.scm
index cbd4bafd20..3d19b48e9f 100644
--- a/gnu/packages/golang.scm
+++ b/gnu/packages/golang.scm
@@ -3673,7 +3673,7 @@ per-goroutine.")
(define-public go-github-com-tdewolff-minify-v2
(package
(name "go-github-com-tdewolff-minify-v2")
- (version "2.12.6")
+ (version "2.12.7")
(source (origin
(method git-fetch)
(uri (git-reference
@@ -3682,7 +3682,7 @@ per-goroutine.")
(file-name (git-file-name name version))
(sha256
(base32
- "0h006wpfkl0ls0skqxblwcanrhmphgq5q0ii26l2ayh7s99cgmy3"))))
+ "0qhslaq885zbqs83nvbi29yh09b89kkb6ycami8lz28wkwrlayap"))))
(build-system go-build-system)
(arguments
(list #:import-path "github.com/tdewolff/minify/v2"
diff --git a/gnu/packages/graphics.scm b/gnu/packages/graphics.scm
index 6468695052..9dd7720ae3 100644
--- a/gnu/packages/graphics.scm
+++ b/gnu/packages/graphics.scm
@@ -36,6 +36,7 @@
;;; Copyright © 2023 Sharlatan Hellseher <sharlatanus@gmail.com>
;;; Copyright © 2023 David Thompson <dthompson2@worcester.edu>
;;; Copyright © 2023 Eric Bavier <bavier@posteo.net>
+;;; Copyright © 2023 Artyom V. Poptsov <poptsov.artyom@gmail.com>
;;;
;;; This file is part of GNU Guix.
;;;
@@ -2643,7 +2644,12 @@ a tetrahedral mesh, isovalue discretization and Lagrangian movement;
(file-name (git-file-name name version))
(sha256
(base32
- "1pkzv75kavkhrbdd2kvq755jyr0vamgrfr7lc33dq3ipkzmqvs2l"))))
+ "1pkzv75kavkhrbdd2kvq755jyr0vamgrfr7lc33dq3ipkzmqvs2l"))
+ ;; This patch required to build PrusaSlicer 2.6.
+ ;;
+ ;; It is taken from
+ ;; <https://github.com/fltk/nanosvg/commit/abcd277ea45e9098bed752cf9c6875b533c0892f.patch>
+ (patches (search-patches "nanosvg-prusa-slicer.patch"))))
(build-system cmake-build-system)
(arguments (list #:tests? #f ;no test suite
#:configure-flags #~(list "-DBUILD_SHARED_LIBS=ON")))
@@ -2655,6 +2661,80 @@ anything from rendering scalable icons in an editor application to prototyping
a game.")
(license license:zlib))))
+(define-public asli
+ (package
+ (name "asli")
+ (version "0.1")
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/tpms-lattice/ASLI")
+ (commit (string-append "v" version))))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32 "02hwdavpsy3vmivd6prp03jn004ykrl11lbkvksy5i2zm38zbknr"))
+ (patches (search-patches "asli-use-system-libs.patch"))
+ (modules '((guix build utils)))
+ (snippet
+ ;; Remove bundled libraries except (the ones missing from Guix and)
+ ;; KU Leuven's mTT, which is an obscure (i.e., unfindable by searching
+ ;; online for “mTT KU Leuven”), BSD-3 licensed, header-only library.
+ #~(begin
+ ;;(delete-file-recursively "libs/AdaptTools") ; Missing from Guix
+ (delete-file-recursively "libs/CGAL")
+ ;;(delete-file-recursively "libs/alglib") ; Missing from Guix
+ (delete-file-recursively "libs/eigen")
+ (delete-file-recursively "libs/mmg")
+ ;;(delete-file-recursively "libs/tetgen") ; Missing from Guix
+ (delete-file-recursively "libs/yaml")))))
+ (build-system cmake-build-system)
+ (inputs
+ (list boost
+ cgal
+ eigen
+ gmp
+ `(,mmg "lib")
+ mpfr
+ tbb-2020
+ yaml-cpp))
+ (arguments
+ (list #:tests? #f ; No tests
+ #:configure-flags
+ #~(list "-DCGAL_ACTIVATE_CONCURRENT_MESH_3=ON"
+ (string-append "-DEIGEN3_INCLUDE_DIR="
+ #$(this-package-input "eigen")
+ "/include/eigen3")
+ (string-append "-DMMG_INCLUDE_DIR="
+ (ungexp (this-package-input "mmg") "lib")
+ "/include")
+ (string-append "-DMMG_LIBRARY_DIR="
+ (ungexp (this-package-input "mmg") "lib")
+ "/lib"))
+ #:phases
+ #~(modify-phases %standard-phases
+ (replace 'install ; No install phase
+ (lambda _
+ (with-directory-excursion "../source/bin"
+ (install-file "ASLI" (string-append #$output "/bin"))
+ ;; The manual is included in the repository.
+ ;; Building it requires -DASLI_DOC=ON, but this is marked
+ ;; as unsupported (presumably for users).
+ ;; Besides, some of the LaTeX packages it uses are
+ ;; missing from Guix, for example emptypage, fvextra and
+ ;; menukeys.
+ (install-file "docs/ASLI [User Manual].pdf"
+ (string-append #$output "/share/doc/"
+ #$name "-" #$version))))))))
+ (home-page "http://www.biomech.ulg.ac.be/ASLI/")
+ (synopsis "Create lattice infills with varying unit cell type, size and feature")
+ (description "ASLI (A Simple Lattice Infiller) is a command-line tool that
+allows users to fill any 3D geometry with a functionally graded lattice. The
+lattice infill is constructed out of unit cells, described by implicit
+functions, whose type, size and feature can be varied locally to obtain the
+desired local properties.")
+ (license license:agpl3+)))
+
(define-public f3d
(package
(name "f3d")
diff --git a/gnu/packages/guile-xyz.scm b/gnu/packages/guile-xyz.scm
index 8c0eab7d18..87a056752f 100644
--- a/gnu/packages/guile-xyz.scm
+++ b/gnu/packages/guile-xyz.scm
@@ -728,7 +728,7 @@ you send to a FIFO file.")
(define-public guile-dsv
(package
(name "guile-dsv")
- (version "0.6.0")
+ (version "0.7.0")
(source (origin
(method git-fetch)
(uri (git-reference
@@ -737,12 +737,19 @@ you send to a FIFO file.")
(file-name (string-append name "-" version "-checkout"))
(sha256
(base32
- "0llivcgb7idglsapcmvb2qscds7768f2xfgr4lns8mzl2xf5hwvv"))))
+ "0shrzmbh6x3n3xzpcijkxk3f73z6m1i50zgc2dnnccwf4j1c78p2"))))
(build-system gnu-build-system)
- (native-inputs
- (list autoconf automake pkg-config texinfo help2man))
- (inputs (list guile-3.0))
- (propagated-inputs (list guile-lib))
+ (native-inputs (list autoconf
+ automake
+ pkg-config
+ texinfo
+ help2man
+ ;; needed when cross-compiling.
+ guile-3.0
+ guile-lib
+ guile-smc))
+ (inputs (list bash-minimal guile-3.0))
+ (propagated-inputs (list guile-lib guile-smc))
(arguments
`(#:modules (((guix build guile-build-system)
#:select (target-guile-effective-version))
@@ -756,32 +763,41 @@ you send to a FIFO file.")
(bin (string-append out "/bin"))
(guile-lib (assoc-ref inputs "guile-lib"))
(version (target-guile-effective-version))
- (scm (string-append "/share/guile/site/"
- version))
- (go (string-append "/lib/guile/"
- version "/site-ccache")))
+ (scm (string-append "/share/guile/site/" version))
+ (go (string-append "/lib/guile/" version
+ "/site-ccache")))
(wrap-program (string-append bin "/dsv")
`("GUILE_LOAD_PATH" prefix
- (,(string-append out scm)
- ,(string-append guile-lib scm)))
+ (,(string-append out scm) ,(string-append
+ guile-lib scm)))
`("GUILE_LOAD_COMPILED_PATH" prefix
- (,(string-append out go)
- ,(string-append guile-lib go)))))
- #t)))))
+ (,(string-append out go) ,(string-append guile-lib
+ go))))) #t)))))
(home-page "https://github.com/artyom-poptsov/guile-dsv")
(synopsis "DSV module for Guile")
(description
- "Guile-DSV is a GNU Guile module for working with the
-delimiter-separated values (DSV) data format. Guile-DSV supports the
-Unix-style DSV format and RFC 4180 format.")
+ "Guile-DSV is a GNU Guile module for working with the delimiter-separated
+values (DSV) data format. Guile-DSV supports the Unix-style DSV format and RFC 4180
+style format. Also Guile-DSV includes a console program named @code{dsv} that allows
+to view and process DSV data, including such operations as delimiter change,
+conversion from one DSV standard to another and printing the data as pseudographics
+tables.")
(license license:gpl3+)))
(define-public guile2.2-dsv
(package
(inherit guile-dsv)
(name "guile2.2-dsv")
- (inputs (list guile-2.2))
- (propagated-inputs `(("guile-lib" ,guile2.2-lib)))))
+ (native-inputs (modify-inputs (package-native-inputs guile-dsv)
+ (replace "guile-smc" guile2.2-smc)
+ (replace "guile" guile-2.2)
+ (replace "guile-lib" guile2.2-lib)))
+ (inputs (modify-inputs (package-inputs guile-dsv)
+ (replace "guile" guile-2.2)
+ (replace "guile-lib" guile2.2-lib)))
+ (propagated-inputs (modify-inputs (package-propagated-inputs guile-dsv)
+ (replace "guile-lib" guile2.2-lib)
+ (replace "guile-smc" guile2.2-smc)))))
(define-public guile-fibers-1.3
(package
@@ -3840,7 +3856,7 @@ debugging code.")
(define-public guile-png
(package
(name "guile-png")
- (version "0.7.0")
+ (version "0.7.1")
(source (origin
(method git-fetch)
(uri (git-reference
@@ -3849,10 +3865,13 @@ debugging code.")
(file-name (string-append name "-" version "-checkout"))
(sha256
(base32
- "0nkim662lb48y8n5hik8rrj76600v2inwaxwnfpdny7h2j0yq1wm"))))
+ "0y65795s9bs69msqvdbq8h34n00bkfs5v1d44wz21nwdffvq6557"))))
(build-system gnu-build-system)
(arguments
- `(#:make-flags '("GUILE_AUTO_COMPILE=0"))) ;to prevent guild warnings
+ (list
+ #:make-flags #~(list "GUILE_AUTO_COMPILE=0") ;to prevent guild warnings
+ #:phases #~(modify-phases %standard-phases
+ (delete 'strip))))
(native-inputs (list autoconf
automake
pkg-config
@@ -3868,9 +3887,9 @@ debugging code.")
(synopsis "PNG file parsing library for Guile")
(description
"@code{guile-png} is a GNU Guile library for working with the
-@url{https://en.wikipedia.org/wiki/PNG, PNG format}. This library provides
-API for reading and writing PNG data, as well as some basic image processing
-filters.")
+@url{https://en.wikipedia.org/wiki/PNG, PNG format}. This library provides API for
+reading and writing PNG data, as well as some graphic primitives and basic image
+processing filters.")
(license license:gpl3+)))
(define-public nomad
@@ -5413,6 +5432,9 @@ with a FSM is being built (for example, from a Makefile.)")
(package
(inherit guile-smc)
(name "guile2.2-smc")
+ (native-inputs (modify-inputs (package-native-inputs guile-smc)
+ (replace "guile" guile-2.2)
+ (replace "guile-lib" guile2.2-lib)))
(inputs (modify-inputs (package-inputs guile-smc)
(replace "guile" guile-2.2)
(replace "guile-lib" guile2.2-lib)))))
diff --git a/gnu/packages/heads.scm b/gnu/packages/heads.scm
index 212849f2a9..268d4d0198 100644
--- a/gnu/packages/heads.scm
+++ b/gnu/packages/heads.scm
@@ -158,6 +158,7 @@ done
(uri "http://www.musl-libc.org/releases/musl-1.1.24.tar.gz")
(sha256
(base32 "18r2a00k82hz0mqdvgm7crzc7305l36109c0j9yjmkxj2alcjw0k"))))))
+ (supported-systems (delete "i586-gnu" %supported-systems))
(home-page "https://github.com/osresearch/heads")
(synopsis "Musl-cross gcc 5 toolchain")
(description "Musl-cross toolchain: binutils, gcc 5 and musl.")
diff --git a/gnu/packages/image.scm b/gnu/packages/image.scm
index 75f9e3c691..a632a02139 100644
--- a/gnu/packages/image.scm
+++ b/gnu/packages/image.scm
@@ -1475,7 +1475,7 @@ channels.")
(package
(inherit libwebp)
(name "libwebp")
- (version "1.3.1")
+ (version "1.3.2")
(source
(origin
(method git-fetch)
@@ -1485,7 +1485,7 @@ channels.")
(file-name (git-file-name name version))
(sha256
(base32
- "1aas6gwy7kfcq34cil781kcsl286khh9grwcx7k4d2n1g7zcpl3m"))))))
+ "1x37795gpc63g1ma9kqw4q3dikwhrjklixqzjjsj6viqksa19z41"))))))
(define-public libmng
(package
@@ -1931,6 +1931,91 @@ medical image data, e.g. magnetic resonance image (MRI) and functional MRI
(home-page "https://niftilib.sourceforge.net")
(license license:public-domain)))
+(define-public mini
+ (package
+ (name "mini")
+ (version "0.9.14")
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/pulzed/mINI")
+ (commit version)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "01wn7h9rjz9h6cr11dd62jsb3315d1h6c33pdmwi2l7d8a4n3h8d"))))
+ (build-system gnu-build-system)
+ (arguments
+ (list #:phases
+ #~(modify-phases %standard-phases
+ (delete 'build)
+ (delete 'configure)
+ (replace 'check
+ (lambda* (#:key tests? #:allow-other-keys)
+ (when tests?
+ (with-directory-excursion "tests"
+ (for-each (lambda (test)
+ (let ((test-name (basename test
+ ".cpp")))
+ (invoke "./build.sh" test-name)
+ (invoke "./run.sh" test-name)))
+ (find-files "." ".cpp"))))))
+ (replace 'install
+ (lambda _
+ (install-file "src/mini/ini.h"
+ (string-append #$output "/include/mini")))))))
+ (home-page "https://github.com/pulzed/mINI")
+ (synopsis "INI file reader and writer header library")
+ (description
+ "This is a tiny, header-only C++ library for manipulating INI files.")
+ (license license:expat)))
+
+(define-public picket
+ (package
+ (name "picket")
+ (version "1.3")
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/rajter/picket")
+ (commit (string-append "v" version))))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "1zhpynyakjx9nc51b1j80b4y3138p3l380kp1cqmmjx2n9430144"))
+ (snippet '(begin
+ ;; bundled mINI header library.
+ (delete-file "src/cfg/ini.h")))))
+ (native-inputs (list pkg-config))
+ (inputs (list gtkmm-3 mini))
+ (arguments
+ (list #:tests? #f
+ #:phases #~(modify-phases %standard-phases
+ (add-after 'unpack 'fix-mini-includes
+ (lambda _
+ (substitute* '("src/cfg/config.h"
+ "src/cfg/config.cpp")
+ (("#include \"ini.h\"")
+ "#include \"mini/ini.h\""))
+ (substitute* "src/main.cpp"
+ (("/usr")
+ #$output))))
+ (add-after 'unpack 'fix-cmake-paths
+ (lambda* (#:key inputs #:allow-other-keys)
+ (substitute* "CMakeLists.txt"
+ (("src/cfg/ini.h")
+ (search-input-file inputs
+ "/include/mini/ini.h"))
+ (("/usr/")
+ #$output)))))))
+ (build-system cmake-build-system)
+ (home-page "https://github.com/rajter/picket")
+ (synopsis "Screen color picker with custom format output")
+ (description
+ "Picket is a screen color picker that includes a magnifier and supports
+custom formats for representing color values..")
+ (license license:gpl3+)))
+
(define-public gpick
(package
(name "gpick")
diff --git a/gnu/packages/ipfs.scm b/gnu/packages/ipfs.scm
index 141653176b..1e4a7cca3a 100644
--- a/gnu/packages/ipfs.scm
+++ b/gnu/packages/ipfs.scm
@@ -4,6 +4,7 @@
;;; Copyright © 2019, 2020 Martin Becze <mjbecze@riseup.net>
;;; Copyright © 2020, 2021, 2022 Michael Rohleder <mike@rohleder.de>
;;; Copyright © 2022 Maxime Devos <maximedevos@telenet.be>
+;;; Copyright © 2023 Artyom V. Poptsov <poptsov.artyom@gmail.com>
;;;
;;; This file is part of GNU Guix.
;;;
@@ -220,7 +221,7 @@ written in Go.")
(define-public go-ipfs
(package
(name "go-ipfs")
- (version "0.11.0")
+ (version "0.13.0")
(source
(origin
(method url-fetch/tarbomb)
@@ -228,7 +229,7 @@ written in Go.")
"https://dist.ipfs.io/go-ipfs/v" version
"/go-ipfs-source.tar.gz"))
(sha256
- (base32 "13pmj83hwpz6mk7x52qn0cjnfqxqw2qri3r0k4b270w3bafcccwm"))
+ (base32 "1cx47ais2zn62c0r7lmrpfzia2gjyr61qi8my5wg3pj3dfr0fhkq"))
(file-name (string-append name "-" version "-source"))
(modules '((guix build utils)))
(snippet '(for-each delete-file-recursively
@@ -350,6 +351,8 @@ written in Go.")
go-golang-org-x-term
go-golang-org-x-tools
go-golang-org-x-xerrors
+ go-golang-org-x-exp
+ go-golang-org-x-text
go-lukechampine-com-blake3))
(native-inputs
(append (if (%current-target-system)
diff --git a/gnu/packages/julia-jll.scm b/gnu/packages/julia-jll.scm
index 35e06c7124..753651cb9e 100644
--- a/gnu/packages/julia-jll.scm
+++ b/gnu/packages/julia-jll.scm
@@ -401,7 +401,7 @@ build tree Yggdrasil.")
(define-public julia-freetype2-jll
(package
(name "julia-freetype2-jll")
- (version "2.10.4+0")
+ (version "2.13.1+0")
(source
(origin
(method git-fetch)
@@ -410,7 +410,7 @@ build tree Yggdrasil.")
(commit (string-append "FreeType2-v" version))))
(file-name (git-file-name name version))
(sha256
- (base32 "03lgmb59lipc3bi7z22j4a53bbjmcwkf0xzpwan889p1ix3ry1lr"))))
+ (base32 "1kngkk3kkf6dam8g4g2ajvzvydzxbgpgxlcpsg7nm7q6r5b4b4db"))))
(build-system julia-build-system)
(arguments
'(#:tests? #f ; No runtests.jl
@@ -426,8 +426,7 @@ build tree Yggdrasil.")
"generate_wrapper_header(\"FreeType2\", \""
(assoc-ref inputs "freetype") "\")\n"))))
;; There's a Julia file for each platform, override them all
- (find-files "src/wrappers/" "\\.jl$"))
- #t)))))
+ (find-files "src/wrappers/" "\\.jl$")))))))
(inputs
(list freetype))
(propagated-inputs
diff --git a/gnu/packages/julia-xyz.scm b/gnu/packages/julia-xyz.scm
index bbb8085492..a1e65332fa 100644
--- a/gnu/packages/julia-xyz.scm
+++ b/gnu/packages/julia-xyz.scm
@@ -6084,7 +6084,8 @@ with ANSI escape sequences.")
"test/runtests.jl")
(("Int64") "Int32"))))))))
(propagated-inputs
- (list julia-dataapi
+ (list julia-adapt
+ julia-dataapi
julia-staticarrays
julia-tables))
(native-inputs
diff --git a/gnu/packages/kde-plasma.scm b/gnu/packages/kde-plasma.scm
index 11586a6ce2..331ab28cd1 100644
--- a/gnu/packages/kde-plasma.scm
+++ b/gnu/packages/kde-plasma.scm
@@ -1210,6 +1210,7 @@ KDE Frameworks components.")
(method url-fetch)
(uri (string-append "mirror://kde/stable/plasma/" version "/"
name "-" version ".tar.xz"))
+ (patches (search-patches "kwin-unwrap-executable-name-for-dot-desktop-search.patch"))
(sha256
(base32
"0bssp76lzqqlan5pfg6wjf4z9c6pl6p66ri8p82vqqw406x5bzyb"))))
diff --git a/gnu/packages/libftdi.scm b/gnu/packages/libftdi.scm
index e39e0b3d71..02efcbbbc0 100644
--- a/gnu/packages/libftdi.scm
+++ b/gnu/packages/libftdi.scm
@@ -1,6 +1,7 @@
;;; GNU Guix --- Functional package management for GNU
;;; Copyright © 2014 Manolis Fragkiskos Ragkousis <manolis837@gmail.com>
;;; Copyright © 2018 Tobias Geerinckx-Rice <me@tobias.gr>
+;;; Copyright © 2023 Simon South <simon@simonsouth.net>
;;;
;;; This file is part of GNU Guix.
;;;
@@ -18,32 +19,86 @@
;;; along with GNU Guix. If not, see <http://www.gnu.org/licenses/>.
(define-module (gnu packages libftdi)
- #:use-module (guix licenses)
+ #:use-module (guix build utils)
+ #:use-module (guix build-system cmake)
#:use-module (guix download)
+ #:use-module (guix gexp)
+ #:use-module ((guix licenses) #:prefix license:)
#:use-module (guix packages)
+ #:use-module (guix utils)
#:use-module (gnu packages)
+ #:use-module (gnu packages boost)
+ #:use-module (gnu packages documentation)
+ #:use-module (gnu packages graphviz)
#:use-module (gnu packages libusb)
- #:use-module (guix build-system cmake))
+ #:use-module (gnu packages pkg-config)
+ #:use-module (gnu packages python)
+ #:use-module (gnu packages swig)
+ #:use-module (gnu packages textutils))
(define-public libftdi
(package
(name "libftdi")
- (version "1.4")
+ (version "1.5")
(source (origin
(method url-fetch)
(uri (string-append
- "http://www.intra2net.com/en/developer/libftdi/download/libftdi1-"
- version ".tar.bz2"))
+ "https://www.intra2net.com/en/developer/libftdi/download/"
+ "libftdi1-" version ".tar.bz2"))
(sha256
(base32
- "0x0vncf6i92slgrn0h7ghkskqbglbs534220qa84d0qg114zndpc"))))
+ "0jdh5r499wbz83vmpskczq5m3cfc1mcv8xqisj5i95k1r3lr2w3w"))
+ (patches
+ (search-patches "libftdi-fix-paths-when-FTDIPP-set.patch"))))
(build-system cmake-build-system)
+ (outputs '("out" "doc" "python"))
+ (arguments
+ (list
+ #:configure-flags
+ #~(list (string-append "-DCMAKE_INSTALL_DOCDIR="
+ #$output "/share/doc/" #$name "-" #$version)
+ "-DDOCUMENTATION=ON"
+ "-DEXAMPLES=OFF"
+ "-DFTDIPP=ON"
+ "-DLIB_SUFFIX=''" ; place libraries in /lib, not /lib64
+ "-DPYTHON_BINDINGS=ON")
+ #:phases
+ #~(modify-phases %standard-phases
+ (add-after 'install 'install-python-binding
+ (lambda _
+ (let* ((python-version
+ #$(version-major+minor (package-version python)))
+ (python-lib-path
+ (string-append "/lib/python" python-version)))
+ (mkdir-p (string-append #$output:python "/lib"))
+ (mkdir-p (string-append #$output:python "/share/libftdi"))
+ (rename-file (string-append #$output python-lib-path)
+ (string-append #$output:python python-lib-path))
+ (rename-file (string-append #$output
+ "/share/libftdi/examples")
+ (string-append #$output:python
+ "/share/libftdi/examples")))))
+ (add-after 'install-python-binding 'install-documentation
+ (lambda _
+ (let ((share (string-append #$output:doc "/share")))
+ (copy-recursively "doc/man"
+ (string-append share "/man"))
+ (copy-recursively "doc/html"
+ (string-append share "/doc/"
+ #$name "-" #$version
+ "/html"))))))
+ #:test-target "check"
+ #:tests? #f)) ; tests fail without access to USB
+ (native-inputs
+ (list doxygen graphviz pkg-config python swig))
+ (inputs
+ (list boost libconfuse))
(propagated-inputs
- (list libusb)) ; required by libftdi1.pc
+ (list libusb)) ; required by libftdi1.pc
(home-page "https://www.intra2net.com/en/developer/libftdi/")
(synopsis "FTDI USB driver with bitbang mode")
(description
- "libFTDI is a library to talk to FTDI chips: FT232BM,
-FT245BM, FT2232C, FT2232D, FT245R and FT232H including the popular
-bitbangmode.")
- (license lgpl2.1)))
+ "libFTDI is a library to talk to FTDI chips: FT232BM, FT245BM, FT2232C,
+FT2232D, FT245R and FT232H including the popular bitbangmode.")
+ (license (list license:gpl2 ; ftdi_eeprom, C++ bindings
+ license:lgpl2.1)))) ; main library
diff --git a/gnu/packages/linux.scm b/gnu/packages/linux.scm
index 36354b4d82..91109c41d9 100644
--- a/gnu/packages/linux.scm
+++ b/gnu/packages/linux.scm
@@ -490,7 +490,7 @@ corresponding UPSTREAM-SOURCE (an origin), using the given DEBLOB-SCRIPTS."
;; The current "stable" kernels. That is, the most recently released major
;; versions that are still supported upstream.
-(define-public linux-libre-6.4-version "6.4.14")
+(define-public linux-libre-6.4-version "6.4.15")
(define-public linux-libre-6.4-gnu-revision "gnu")
(define deblob-scripts-6.4
(linux-libre-deblob-scripts
@@ -500,7 +500,7 @@ corresponding UPSTREAM-SOURCE (an origin), using the given DEBLOB-SCRIPTS."
(base32 "1rwm09anyn4py1g877f9vh6ya86y2hfvlqx51bpa53dci5k0b0ds")))
(define-public linux-libre-6.4-pristine-source
(let ((version linux-libre-6.4-version)
- (hash (base32 "1rjh0jrn5qvxwzmyg478n08vckkld8r52nkc102ppqvsfhiy7skm")))
+ (hash (base32 "1phlx375ln5pslw5vjqm029cdv6pzf4ang10xlrf90x5sb4fgy93")))
(make-linux-libre-source version
(%upstream-linux-source version hash)
deblob-scripts-6.4)))
@@ -508,7 +508,7 @@ corresponding UPSTREAM-SOURCE (an origin), using the given DEBLOB-SCRIPTS."
;; The "longterm" kernels — the older releases with long-term upstream support.
;; Here are the support timelines:
;; <https://www.kernel.org/category/releases.html>
-(define-public linux-libre-6.1-version "6.1.51")
+(define-public linux-libre-6.1-version "6.1.52")
(define-public linux-libre-6.1-gnu-revision "gnu")
(define deblob-scripts-6.1
(linux-libre-deblob-scripts
@@ -518,12 +518,12 @@ corresponding UPSTREAM-SOURCE (an origin), using the given DEBLOB-SCRIPTS."
(base32 "1c73516nbhnz0cxjz38b5794dxygb8sznv9idiibw7ablmjbhd11")))
(define-public linux-libre-6.1-pristine-source
(let ((version linux-libre-6.1-version)
- (hash (base32 "0fqhmb6v28rssd44z7jw57mwvvskpl4kabjylck0pg54irnl9c2q")))
+ (hash (base32 "0lis73mxnl7hxz8lyja6sfgmbym944l3k1h7dab6b4mw1nckfxsn")))
(make-linux-libre-source version
(%upstream-linux-source version hash)
deblob-scripts-6.1)))
-(define-public linux-libre-5.15-version "5.15.130")
+(define-public linux-libre-5.15-version "5.15.131")
(define-public linux-libre-5.15-gnu-revision "gnu")
(define deblob-scripts-5.15
(linux-libre-deblob-scripts
@@ -533,7 +533,7 @@ corresponding UPSTREAM-SOURCE (an origin), using the given DEBLOB-SCRIPTS."
(base32 "1c3lm0j401lv2lk39dmr4mlf5ic173snm7cc0cckl6czyvxr5ysy")))
(define-public linux-libre-5.15-pristine-source
(let ((version linux-libre-5.15-version)
- (hash (base32 "0qix62jsn3z9yccakac7fvqnip19zi05qn0w5wkgb7rj0x0lwimb")))
+ (hash (base32 "0sacnbw48lblnqaj56nybh588sq4k84gwf0r5zinzyrryj8k6z4r")))
(make-linux-libre-source version
(%upstream-linux-source version hash)
deblob-scripts-5.15)))
@@ -739,6 +739,7 @@ corresponding UPSTREAM-SOURCE (an origin), using the given DEBLOB-SCRIPTS."
(format p "~a-default~%" ,version)))))))
#:allowed-references ()
#:tests? #f))
+ (supported-systems (delete "i586-gnu" %supported-systems))
(home-page "https://www.gnu.org/software/linux-libre/")
(synopsis "GNU Linux-Libre kernel headers")
(description "Headers of the Linux-Libre kernel.")
@@ -1071,6 +1072,7 @@ ARCH and optionally VARIANT, or #f if there is no such configuration."
elfutils ;needed to enable CONFIG_STACK_VALIDATION
flex
bison
+ util-linux ;needed for hexdump
;; These are needed to compile the GCC plugins.
gmp
mpfr
@@ -5547,7 +5549,7 @@ arrays when needed.")
(define-public multipath-tools
(package
(name "multipath-tools")
- (version "0.9.3")
+ (version "0.9.6")
(home-page "https://github.com/opensvc/multipath-tools")
(source (origin
(method git-fetch)
@@ -5555,7 +5557,7 @@ arrays when needed.")
(file-name (git-file-name name version))
(sha256
(base32
- "0zcnr1135znizbnfqhqv3by9i2qwn5vg6kgmj6ma3yy1x1krx0d4"))
+ "1933iqh9r54pdl95yck0n4bw7jiiblymc964vlc1787qd4q012sz"))
(modules '((guix build utils)))
(snippet
'(begin
@@ -5573,7 +5575,7 @@ arrays when needed.")
(string-append "prefix=" #$output)
;; Install Udev rules below this directory, relative
;; to the prefix.
- "SYSTEMDPATH=lib")
+ (string-append "systemd_prefix=" #$output))
#:phases
#~(modify-phases %standard-phases
(add-after 'unpack 'patch-source
@@ -5605,6 +5607,16 @@ arrays when needed.")
(("CFLAGS \\+= " match)
(string-append match "-Wno-error=unused-function ")))))
(delete 'configure) ;no configure script
+ (add-before 'build 'no-fortify-3
+ (lambda _
+ ;; NOTE: The check made seems to wrongly assume the
+ ;; FORTIFY_SOURCE=3 is valid. However, when compiling, warnings
+ ;; are emitted from glibc, resulting in failed build. Fix this
+ ;; by forcing the usage of FORTIFY_SOURCE=2.
+ (substitute* "create-config.mk"
+ (("FORTIFY_SOURCE=3")
+ "FORTIFY_SOURCE=2"))
+ ))
(add-before 'build 'set-LDFLAGS
(lambda _
;; Note: this cannot be passed as a make flag because that will
@@ -5622,7 +5634,9 @@ arrays when needed.")
liburcu
lvm2
readline
- eudev))
+ eudev
+ ;; For libmount.
+ `(,util-linux "lib")))
(synopsis "Access block devices through multiple paths")
(description
"This package provides the following binaries to drive the
diff --git a/gnu/packages/lisp-xyz.scm b/gnu/packages/lisp-xyz.scm
index 69686dbed9..1d88654962 100644
--- a/gnu/packages/lisp-xyz.scm
+++ b/gnu/packages/lisp-xyz.scm
@@ -25824,12 +25824,11 @@ change since last write.
(inputs
(cons (list "iolib" cl-iolib)
(package-inputs sbcl-nfiles)))))
-
(define-public sbcl-nasdf
- (let ((commit "dd9fb2df7174464b54561b2a2f3c3e00fdd5d4f7"))
+ (let ((commit "ab7a018f3a67a999c72710644b10b4545130c139"))
(package
(name "sbcl-nasdf")
- (version "0.1.7")
+ (version "0.1.8")
(source
(origin
(method git-fetch)
@@ -25838,7 +25837,7 @@ change since last write.
(commit commit)))
(file-name (git-file-name "cl-ntemplate" version))
(sha256
- (base32 "1q8ky8hz8xrr37h7yyc6ysvrcwlsp1i6r2x44c060drspgjbqj70"))))
+ (base32 "15j7kqxvn0blr0i2xgk0il0ia91p28clfqxdh00vlp423v9a2wbx"))))
(build-system asdf-build-system/sbcl)
(arguments
`(#:phases
@@ -26603,7 +26602,7 @@ instead of #'FOO.
(define-public sbcl-njson
(package
(name "sbcl-njson")
- (version "1.1.1")
+ (version "1.2.0")
(source (origin
(method git-fetch)
(uri (git-reference
@@ -26612,7 +26611,7 @@ instead of #'FOO.
(file-name (git-file-name "cl-njson" version))
(sha256
(base32
- "0zdf6mlbpc2j95qm000ljf642af18sfz45yxh6rnxrbf8m4laxxa"))))
+ "1zsf7sm88wjrd4da5bvpxi8fvsx01cv51p8820fnj062x6hlhg38"))))
(build-system asdf-build-system/sbcl)
(inputs (list sbcl-cl-json sbcl-jzon))
(native-inputs (list sbcl-lisp-unit2))
diff --git a/gnu/packages/lua.scm b/gnu/packages/lua.scm
index 405f8511cb..3b58952911 100644
--- a/gnu/packages/lua.scm
+++ b/gnu/packages/lua.scm
@@ -19,6 +19,7 @@
;;; Copyright © 2022 Luis Henrique Gomes Higino <luishenriquegh2701@gmail.com>
;;; Copyright © 2022 Leo Nikkilä <hello@lnikki.la>
;;; Copyright © 2023 Yovan Naumovski <yovan@gorski.stream>
+;;; Copyright © 2023 Valter Nazianzeno <manipuladordedados@gmail.com>
;;;
;;; This file is part of GNU Guix.
;;;
@@ -50,14 +51,18 @@
#:use-module (gnu packages bash)
#:use-module (gnu packages boost)
#:use-module (gnu packages build-tools)
+ #:use-module (gnu packages gcc)
#:use-module (gnu packages glib)
+ #:use-module (gnu packages gperf)
#:use-module (gnu packages gtk)
#:use-module (gnu packages libevent)
#:use-module (gnu packages libffi)
+ #:use-module (gnu packages linux)
#:use-module (gnu packages m4)
#:use-module (gnu packages ncurses)
#:use-module (gnu packages pkg-config)
#:use-module (gnu packages pretty-print)
+ #:use-module (gnu packages rdf)
#:use-module (gnu packages re2c)
#:use-module (gnu packages readline)
#:use-module (gnu packages tls)
@@ -1129,63 +1134,101 @@ shell command executions.")
(define-public emilua
(package
- (name "emilua")
- (version "0.3.2")
- (source (origin
- (method git-fetch)
- (uri (git-reference
- (url "https://gitlab.com/emilua/emilua.git")
- (commit (string-append "v" version))
- ;; Current version requires Trial.Protocol and the HTTP lib
- ;; developed as part of GSoC 2014 for Boost, and these are
- ;; dependencies unlikely to be "unbundled" in future releases.
- (recursive? #t)))
- (file-name (git-file-name name version))
- (sha256
- (base32
- "1999bgrh52124a5g4qizav3x257ff2brjr855srpm1jv1nxzbygv"))))
- (build-system meson-build-system)
- (arguments
- `(;; Tests are disabled for now due to an issue that affecs guix:
- ;; <https://gitlab.com/emilua/emilua/-/issues/22>
+ (name "emilua")
+ (version "0.4.3")
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://gitlab.com/emilua/emilua.git")
+ (commit (string-append "v" version))))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "1dwag2pyqc0g86rris4w4fzafmz9a6kiqd47vdq7hl3a1lyi74mx"))))
+ (build-system meson-build-system)
+ (arguments
+ (list
+ #:phases
+ #~(modify-phases %standard-phases
+ (add-after 'unpack 'patch
+ (lambda* (#:key inputs #:allow-other-keys)
+ (substitute* "src/emilua_gperf.awk"
+ (("/usr/bin/env") (which "env")))
+ (substitute* "src/system.cpp"
+ (("P_PIDFD") "P_PID"))
+
+ (copy-recursively
+ (assoc-ref inputs "emilua-http")
+ "emilua-http")
+ (copy-recursively
+ (assoc-ref inputs "trial-protocol")
+ "trial-protocol")
+
+ (with-directory-excursion "subprojects"
+ (symlink "../emilua-http" "emilua-http")
+ (copy-file "packagefiles/emilua-http/meson.build"
+ "emilua-http/meson.build")
+ (symlink "../trial-protocol" "trial-protocol")
+ (copy-file "packagefiles/trial.protocol/meson.build"
+ "trial-protocol/meson.build")))))
#:configure-flags
- (list "-Denable_http=true"
- "-Denable_tests=false"
- "-Denable_manpages=false"
- "-Dversion_suffix=-guix1")))
- (native-inputs
- (list luajit-lua52-openresty
- pkg-config
- re2c
- xxd))
- (inputs
- (list boost
- boost-static
- fmt-7
- ;; LuaJIT has a 2GiB addressing limit[1] that has been fixed on OpenResty
- ;; fork. Emilua is severely affected by this limit, so the upstream package
- ;; is avoided. Emilua also depends on the -DLUAJIT_ENABLE_LUA52COMPAT
- ;; configure flag[2] for some features to work (e.g. __pairs on HTTP
- ;; headers).
- ;;
- ;; [1] <http://hacksoflife.blogspot.com/2012/12/integrating-luajit-with-x-plane-64-bit.html>
- ;; [2] <http://luajit.org/extensions.html#lua52>
- luajit-lua52-openresty
- ncurses
- openssl))
- (native-search-paths
- (list
- (search-path-specification
- (variable "EMILUA_PATH")
- (files
- (list (string-append "lib/emilua-" (version-major+minor version)))))))
- (home-page "https://gitlab.com/emilua/emilua")
- (synopsis "Lua execution engine")
- (description
- "Emilua is a LuaJIT-based Lua execution engine that supports async IO,
+ #~(list "-Denable_http=true"
+ "-Denable_file_io=true"
+ "-Denable_io_uring=true"
+ ;; TODO: Linux namespaces are disabled for now due to conflict
+ ;; with some packages in guix.
+ "-Denable_linux_namespaces=false"
+ "-Denable_manpages=false"
+ "-Dversion_suffix=-guix1")))
+ (native-inputs
+ (list luajit-lua52-openresty
+ re2c
+ gperf
+ xxd
+ pkg-config))
+ (inputs
+ `(("emilua-http"
+ ,(origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/BoostGSoC14/boost.http")
+ (commit "93ae527c89ffc517862e1f5f54c8a257278f1195")))
+ (sha256
+ (base32
+ "0jm7fw0cjd3s9zkkvyh6mcj6z32hcy7l9bszv74l92qk15ivvp9h"))))
+ ("trial-protocol"
+ ,(origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/breese/trial.protocol")
+ (commit "79149f604a49b8dfec57857ca28aaf508069b669")))
+ (sha256
+ (base32
+ "0k42i5b4v3zz5x0r3dssiymgmn2x8zg4fzdksya9aggxgigippsx"))))
+ ("boost" ,boost)
+ ("boost-static" ,boost-static)
+ ("fmt" ,fmt-8)
+ ("gcc" ,gcc-12)
+ ("luajit-lua52-openresty" ,luajit-lua52-openresty)
+ ("ncurses" ,ncurses)
+ ("serd" ,serd)
+ ("sord" ,sord)
+ ("libcap" ,libcap)
+ ("liburing" ,liburing)
+ ("openssl" ,openssl)))
+ (native-search-paths
+ (list
+ (search-path-specification
+ (variable "EMILUA_PATH")
+ (files
+ (list (string-append "lib/emilua-" (version-major+minor version)))))))
+ (home-page "https://gitlab.com/emilua/emilua")
+ (synopsis "Lua execution engine")
+ (description
+ "Emilua is a LuaJIT-based Lua execution engine that supports async IO,
fibers and actor-inspired threading. The experimental builtin HTTP module is
enabled.")
- (license license:boost1.0)))
+ (license license:boost1.0)))
(define-public fennel
(package
diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm
index 712abe9aff..fd0be8d500 100644
--- a/gnu/packages/machine-learning.scm
+++ b/gnu/packages/machine-learning.scm
@@ -55,12 +55,14 @@
#:use-module (gnu packages)
#:use-module (gnu packages adns)
#:use-module (gnu packages algebra)
+ #:use-module (gnu packages assembly)
#:use-module (gnu packages audio)
#:use-module (gnu packages autotools)
#:use-module (gnu packages base)
#:use-module (gnu packages bash)
#:use-module (gnu packages boost)
#:use-module (gnu packages bdw-gc)
+ #:use-module (gnu packages c)
#:use-module (gnu packages check)
#:use-module (gnu packages compression)
#:use-module (gnu packages cmake)
@@ -89,6 +91,7 @@
#:use-module (gnu packages ninja)
#:use-module (gnu packages ocaml)
#:use-module (gnu packages onc-rpc)
+ #:use-module (gnu packages opencl)
#:use-module (gnu packages parallel)
#:use-module (gnu packages perl)
#:use-module (gnu packages pkg-config)
@@ -100,6 +103,7 @@
#:use-module (gnu packages python-science)
#:use-module (gnu packages python-web)
#:use-module (gnu packages python-xyz)
+ #:use-module (gnu packages regex)
#:use-module (gnu packages rpc)
#:use-module (gnu packages serialization)
#:use-module (gnu packages sphinx)
@@ -108,6 +112,7 @@
#:use-module (gnu packages swig)
#:use-module (gnu packages time)
#:use-module (gnu packages tls)
+ #:use-module (gnu packages vulkan)
#:use-module (gnu packages video)
#:use-module (gnu packages web)
#:use-module (gnu packages xml)
@@ -115,6 +120,37 @@
#:use-module (gnu packages xorg)
#:use-module (ice-9 match))
+(define-public fasttext
+ (package
+ (name "fasttext")
+ (version "0.9.2")
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/facebookresearch/fastText")
+ (commit (string-append "v" version))))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32 "07cz2ghfq6amcljaxpdr5chbd64ph513y8zqmibfx2xwfp74xkhn"))))
+ (build-system cmake-build-system)
+ ;; Tests require downloading of test data.
+ (arguments (list #:tests? #false))
+ (home-page "https://github.com/facebookresearch/fastText")
+ (synopsis "Library for fast text representation and classification")
+ (description "fastText is a library for efficient learning of word
+representations and sentence classification.")
+ (license license:expat)))
+
+(define-public python-fasttext
+ (package
+ (inherit fasttext)
+ (name "python-fasttext")
+ (build-system pyproject-build-system)
+ (propagated-inputs (list python-numpy python-scipy))
+ (inputs (list fasttext))
+ (native-inputs (list pybind11))))
+
(define-public fann
;; The last release is >100 commits behind, so we package from git.
(let ((commit "d71d54788bee56ba4cf7522801270152da5209d7"))
@@ -2936,7 +2972,7 @@ advanced research.")
(define-public tensorflow-lite
(package
(name "tensorflow-lite")
- (version "2.5.0")
+ (version "2.12.1")
(source
(origin
(method git-fetch)
@@ -2946,97 +2982,141 @@ advanced research.")
(file-name (git-file-name name version))
(sha256
(base32
- "1jdw2i1rq06zqd6aabh7bbm0avsg4pygnfmd7gviv0blhih9054l"))))
+ "0jkgljdagdqllnxygl35r5bh3f9qmbczymfj357gm9krh59g2kmd"))))
(build-system cmake-build-system)
(arguments
- `(#:tests? #false ; no "check" target
- #:build-type "Release"
- #:configure-flags
- (list
- "-DTFLITE_ENABLE_GPU=OFF"
- "-DTFLITE_ENABLE_RUY=OFF"
-
- ;; TODO: The build system attempts to build xnnpack from source. We
- ;; would like to use our xnnpack package here, but this requires more
- ;; work.
- "-DTFLITE_ENABLE_XNNPACK=OFF"
-
- ;; Pretend we've already fetched abseil. We won't actually build it
- ;; but use the existing package.
- "-Dabseil-cpp_POPULATED=TRUE"
-
- ;; Don't fetch the sources. We have already built flatbuffers.
- "-Dflatbuffers_POPULATED=TRUE"
-
- "-DFFT2D_SOURCE_DIR=/tmp/fft2d"
- "-Dneon2sse_SOURCE_DIR=/tmp/neon2sse"
- "-Dneon2sse_BINARY_DIR=/tmp/neon2sse-bin"
- "-DFARMHASH_SOURCE_DIR=/tmp/farmhash"
- "-Dgemmlowp_SOURCE_DIR=/tmp/gemmlowp"
- (string-append "-DRUY_SOURCE_DIR="
- (assoc-ref %build-inputs "ruy-src")))
- #:phases
- (modify-phases %standard-phases
- (add-after 'unpack 'chdir
- (lambda _ (chdir "tensorflow/lite")))
- (add-after 'chdir 'copy-sources
- (lambda* (#:key inputs #:allow-other-keys)
- ;; Use external cmake finders instead of these stubs that won't
- ;; find anything but the bundled sources.
- (delete-file "tools/cmake/modules/Findabsl.cmake")
- (delete-file "tools/cmake/modules/Findeigen.cmake")
-
- (substitute* "CMakeLists.txt"
- (("find_package\\(eigen REQUIRED")
- "find_package(eigen REQUIRED NAMES Eigen3"))
- (substitute* "tools/cmake/modules/Findflatbuffers.cmake"
- (("get_target_property.*")
- (format #false "set(FLATBUFFERS_INCLUDE_DIRS ~a/include)\n"
- (assoc-ref inputs "flatbuffers"))))
-
- ;; Don't fetch source code; we already have everything we need.
- (substitute* '("tools/cmake/modules/fft2d.cmake"
- "tools/cmake/modules/ruy.cmake"
- "tools/cmake/modules/farmhash.cmake"
- "tools/cmake/modules/neon2sse.cmake"
- "tools/cmake/modules/gemmlowp.cmake")
- (("OverridableFetchContent_Populate.*") ""))
-
- (mkdir-p "/tmp/farmhash")
- (with-directory-excursion "/tmp/farmhash"
- (invoke "tar" "--strip-components=1"
- "-xf" (assoc-ref inputs "farmhash-src")))
-
- (mkdir-p "/tmp/fft2d")
- (with-directory-excursion "/tmp/fft2d"
- (invoke "tar" "--strip-components=1"
- "-xf" (assoc-ref inputs "fft2d-src")))
-
- (copy-recursively (assoc-ref inputs "neon2sse-src")
- "/tmp/neon2sse/")
- (copy-recursively (assoc-ref inputs "gemmlowp-src")
- "/tmp/gemmlowp/")))
- (add-after 'copy-sources 'prepare-shared-library-build
- (lambda _ (chdir "c")))
- (replace 'install
- (lambda* (#:key outputs #:allow-other-keys)
- (let* ((out (assoc-ref outputs "out"))
- (lib (string-append out "/lib"))
- (headers (string-append out "/include/tensorflow/lite")))
- (install-file "../build/libtensorflowlite_c.so" lib)
- (with-directory-excursion ".."
- (for-each
- (lambda (file)
- (let ((target-dir (string-append headers "/" (dirname file))))
- (install-file file target-dir)))
- (find-files "." "\\.h$")))))))))
+ (list
+ #:tests? #false ;tests are not building now
+ #:build-type "Release"
+ #:modules '((ice-9 match)
+ (guix build utils)
+ (guix build cmake-build-system))
+ #:configure-flags
+ #~(list
+ ;; "-DTFLITE_KERNEL_TEST=ON" ; TODO: build tests
+ ;; so cmake can be used to find this from other packages
+ "-DTFLITE_ENABLE_INSTALL=ON"
+
+ ;; Use Guix's own packages as dependencies.
+ "-DCMAKE_FIND_PACKAGE_PREFER_CONFIG=ON"
+
+ "-DTFLITE_ENABLE_GPU=ON"
+ "-DTFLITE_ENABLE_RUY=ON"
+
+ ;; TODO: turn on Farmhash
+ ;;"-DSYSTEM_FARMHASH=ON"
+ (string-append "-Dabsl_DIR=" #$(this-package-input "abseil-cpp")
+ "/lib/cmake/absl")
+ (string-append "-DEigen3_DIR=" #$(this-package-input "eigen")
+ "/share/eigen3/cmake")
+ (string-append "-DFlatBuffers_DIR="
+ #$(this-package-input "flatbuffers-shared")
+ "/lib/cmake/flatbuffers")
+ (string-append "-DNEON_2_SSE_DIR=" #$(this-package-input "neon2sse")
+ "/lib/cmake/NEON_2_SSE")
+ (string-append "-Dcpuinfo_DIR=" #$(this-package-input "cpuinfo")
+ "/share/cpuinfo")
+ (string-append "-Druy_DIR=" #$(this-package-input "ruy")
+ "/lib/cmake/ruy")
+
+ ;; TODO: The build system attempts to build xnnpack from source. We
+ ;; would like to use our xnnpack package here, but this requires more
+ ;; work.
+ "-DTFLITE_ENABLE_XNNPACK=OFF"
+
+ ;; Don't fetch the sources. We have these already
+ "-Degl_headers_POPULATED=TRUE"
+ "-Dfp16_headers_POPULATED=TRUE"
+ "-Dopencl_headers_POPULATED=TRUE"
+ "-Dopengl_headers_POPULATED=TRUE"
+ "-Dvulkan_headers_POPULATED=TRUE"
+ "-Dgoogletest_POPULATED=TRUE"
+ "-Dgoogle_benchmark_POPULATED=TRUE"
+ "-Dnsync_POPULATED=TRUE"
+ "-Dre2_POPULATED=TRUE"
+
+ "-DFFT2D_SOURCE_DIR=/tmp/fft2d"
+ "-DFARMHASH_SOURCE_DIR=/tmp/farmhash"
+ "-Dgemmlowp_SOURCE_DIR=/tmp/gemmlowp")
+ #:phases
+ #~(modify-phases %standard-phases
+ (add-after 'unpack 'chdir
+ (lambda _ (chdir "tensorflow/lite")))
+ (add-after 'chdir 'copy-sources
+ (lambda* (#:key inputs #:allow-other-keys)
+ ;; TODO: properly use Guix's pthreaqdpool. We are not using
+ ;; pthreadpool because we are not enabling xnnpack
+ (substitute* "CMakeLists.txt"
+ (("if\\(NOT DEFINED PTHREADPOOL_SOURCE_DIR\\)")
+ "if(false)"))
+ (substitute* "CMakeLists.txt"
+ (("if\\(NOT TARGET pthreadpool\\)")
+ "if(false)"))
+
+ ;; Don't fetch source code; we already have everything we need.
+ (substitute* '("tools/cmake/modules/fft2d.cmake"
+ "tools/cmake/modules/farmhash.cmake"
+ "tools/cmake/modules/gemmlowp.cmake")
+ (("OverridableFetchContent_Populate.*") ""))
+
+ (mkdir-p "/tmp/farmhash")
+ (with-directory-excursion "/tmp/farmhash"
+ (invoke "tar" "--strip-components=1"
+ "-xf" (assoc-ref inputs "farmhash-src")))
+
+ (mkdir-p "/tmp/fft2d")
+ (with-directory-excursion "/tmp/fft2d"
+ (invoke "tar" "--strip-components=1"
+ "-xf" (assoc-ref inputs "fft2d-src")))
+
+ (copy-recursively (assoc-ref inputs "gemmlowp-src")
+ "/tmp/gemmlowp/")))
+
+ (add-after 'build 'build-shared-library
+ (lambda* (#:key configure-flags #:allow-other-keys)
+ (mkdir-p "c")
+ (with-directory-excursion "c"
+ (apply invoke "cmake" (append configure-flags (list "../../lite/c")))
+ (invoke "cmake" "--build" "." "-j" (number->string
+ (parallel-job-count))))))
+ (add-after 'build-shared-library 'build-benchmark-model
+ (lambda _
+ (invoke "cmake" "--build" "." "--target" "benchmark_model"
+ "-j" (number->string (parallel-job-count)))))
+
+ (add-after 'install 'install-extra
+ (lambda* (#:key outputs #:allow-other-keys)
+ (let* ((out (assoc-ref outputs "out"))
+ (lib (string-append out "/lib"))
+ (bin (string-append out "/bin")))
+ (install-file "../build/c/libtensorflowlite_c.so" lib)
+ (install-file "../build/tools/benchmark/benchmark_model" bin))))
+ (replace 'check
+ (lambda* (#:key tests? #:allow-other-keys)
+ (when tests?
+ (invoke "ctest" "-L" "plain")))))))
(inputs
`(("abseil-cpp" ,abseil-cpp-20200923.3)
- ("eigen" ,eigen-for-tensorflow-lite)
- ("flatbuffers" ,flatbuffers)
- ("python" ,python)))
+ ("cpuinfo" ,cpuinfo)
+ ("eigen" ,eigen)
+ ("fp16" ,fp16)
+ ("flatbuffers-shared" ,flatbuffers-next-shared)
+ ;;("gemmlowp" ,gemmlowp) ; TODO
+ ("mesa-headers" ,mesa-headers)
+ ("neon2sse" ,neon2sse)
+ ("nsync" ,nsync)
+ ("opencl-clhpp" ,opencl-clhpp)
+ ("opencl-headers" ,opencl-headers)
+ ("opencl-icd-loader" ,opencl-icd-loader)
+ ("pthreadpool" ,pthreadpool)
+ ("python" ,python)
+ ("ruy" ,ruy)
+ ("re2" ,re2)
+ ;;("xnnpack" ,xnnpack) ; TODO: use Guix's copy of xnnpack
+ ("vulkan-headers" ,vulkan-headers)))
(native-inputs
`(("pkg-config" ,pkg-config)
+ ("googletest" ,googletest)
("gemmlowp-src"
;; The commit hash is taken from
;; "tensorflow/lite/tools/cmake/modules/gemmlowp.cmake".
@@ -3050,17 +3130,6 @@ advanced research.")
(sha256
(base32
"1sbp8kmr2azwlvfbzryy1frxi99jhsh1nc93bdbxdf8zdgpv0kxl")))))
- ("neon2sse-src"
- ,(let ((commit "a1652fd5253afbf3e39357b012974f93511f6108"))
- (origin
- (method git-fetch)
- (uri (git-reference
- (url "https://github.com/intel/ARM_NEON_2_x86_SSE")
- (commit commit)))
- (file-name (git-file-name "neon2sse" (string-take commit 8)))
- (sha256
- (base32
- "1q8gkxag9wlnwdwad2pclsrkwzrdjy94hyrkayrsvxyj7szb5y8i")))))
("farmhash-src"
,(let ((commit "816a4ae622e964763ca0862d9dbd19324a1eaf45"))
(origin
@@ -3076,24 +3145,12 @@ advanced research.")
,(origin
(method url-fetch)
(uri (string-append "https://storage.googleapis.com/"
- "mirror.tensorflow.org/"
- "www.kurims.kyoto-u.ac.jp/~ooura/fft2d.tgz"))
+ "mirror.tensorflow.org/github.com/petewarden/"
+ "OouraFFT/archive/v1.0.tar.gz"))
(file-name "fft2d.tar.gz")
(sha256
(base32
- "1jfflzi74fag9z4qmgwvp90aif4dpbr1657izmxlgvf4hy8fk9xd"))))
- ("ruy-src"
- ,(let ((commit "9c56af3fce210a8a103eda19bd6f47c08a9e3d90"))
- (origin
- (method git-fetch)
- (uri (git-reference
- (url "https://github.com/google/ruy")
- (commit commit)
- (recursive? #true)))
- (file-name (git-file-name "ruy" (string-take commit 8)))
- (sha256
- (base32
- "1cfd5gk6kaj8kbl3h98gx1ap8czd59y6p8qq8nr28fklpyzf5cis")))))))
+ "1jfflzi74fag9z4qmgwvp90aif4dpbr1657izmxlgvf4hy8fk9xd"))))))
(home-page "https://tensorflow.org")
(synopsis "Machine learning framework")
(description
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index aa53e831de..34bced2c8b 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -1,5 +1,5 @@
;;; GNU Guix --- Functional package management for GNU
-;;; Copyright © 2013, 2014, 2015, 2016, 2019, 2020 Andreas Enge <andreas@enge.fr>
+;;; Copyright © 2013, 2014, 2015, 2016, 2019, 2020, 2023 Andreas Enge <andreas@enge.fr>
;;; Copyright © 2013 Nikita Karetnikov <nikita@karetnikov.org>
;;; Copyright © 2014, 2016, 2017 John Darrington <jmd@gnu.org>
;;; Copyright © 2014-2022 Eric Bavier <bavier@posteo.net>
@@ -1322,18 +1322,16 @@ computations.")
(define-public hdf4
(package
(name "hdf4")
- (version "4.2.14")
+ (version "4.2.16-2")
(source
(origin
(method url-fetch)
(uri (string-append "https://support.hdfgroup.org/ftp/HDF/releases/HDF"
version "/src/hdf-" version ".tar.bz2"))
(sha256
- (base32 "0n29klrrbwan9307np0d9hr128dlpc4nnlf57a140080ll3jmp8l"))
- (patches (search-patches "hdf4-architectures.patch"
- "hdf4-reproducibility.patch"
- "hdf4-shared-fortran.patch"
- "hdf4-tirpc.patch"))))
+ (base32 "0b395czhqr43mmbiifmg2mhb488wnd4zccj45vpql98ja15j7hy5"))
+ (patches (search-patches "hdf4-reproducibility.patch"
+ "hdf4-shared-fortran.patch"))))
(build-system gnu-build-system)
(native-inputs
(list gfortran bison flex))
@@ -1346,9 +1344,7 @@ computations.")
#:configure-flags (list "--enable-shared"
"FCFLAGS=-fallow-argument-mismatch"
"FFLAGS=-fallow-argument-mismatch"
- (string-append "CPPFLAGS=-I"
- (assoc-ref %build-inputs "libtirpc")
- "/include/tirpc"))
+ "--enable-hdf4-xdr")
#:phases
(modify-phases %standard-phases
;; This is inspired by two of Debian's patches.
@@ -1363,14 +1359,7 @@ computations.")
(substitute*
'("mfhdf/hdfimport/testutil.sh.in" "hdf/util/testutil.sh.in")
(("/bin/rm") "rm")
- (("/bin/mkdir") "mkdir"))
- (substitute* (find-files "." "^Makefile\\.in$")
- (("@HDF_BUILD_XDR_TRUE@XDR_ADD = \
--R\\$\\(abs_top_builddir\\)/mfhdf/xdr/\\.libs") "")
- (("@HDF_BUILD_SHARED_TRUE@AM_LDFLAGS = \
--R\\$\\(abs_top_builddir\\)/mfhdf/libsrc/\\.libs \
--R\\$\\(abs_top_builddir\\)/hdf/src/\\.libs \\$\\(XDR_ADD\\)") ""))
- #t))
+ (("/bin/mkdir") "mkdir"))))
(add-after 'configure 'patch-settings
(lambda _
;; libhdf4.settings contains the full path of the
@@ -1390,8 +1379,7 @@ computations.")
;; files. Fix it manually to avoid having to propagate it.
(substitute* (find-files (string-append out "/lib") "\\.la$")
(("-ljpeg")
- (string-append "-L" libjpeg "/lib -ljpeg")))
- #t))))))
+ (string-append "-L" libjpeg "/lib -ljpeg")))))))))
(home-page "https://www.hdfgroup.org/products/hdf4/")
(synopsis
"Library and multi-object file format for storing and managing data")
@@ -2792,7 +2780,7 @@ can solve two kinds of problems:
(define-public octave-cli
(package
(name "octave-cli")
- (version "8.2.0")
+ (version "8.3.0")
(source
(origin
(method url-fetch)
@@ -2800,7 +2788,7 @@ can solve two kinds of problems:
version ".tar.xz"))
(sha256
(base32
- "1pkh4vmq4hcrmyl2gybd54i3qamyvmcjmpgy1i2kkw2g03jxdfdp"))))
+ "1aav8i88y2yl11g5d44wpjngkpldvzk90ja7wghkb91cy2a9974i"))))
(build-system gnu-build-system)
(inputs
(list alsa-lib
@@ -8544,3 +8532,39 @@ statistical analysis, image enhancement, fluid dynamics simulations, numerical
optimization, and modeling, simulation of explicit and implicit dynamical
systems and symbolic manipulations.")
(license license:cecill))) ;CeCILL v2.1
+
+(define-public ruy
+ (let ((commit "caa244343de289f913c505100e6a463d46c174de")
+ (version "0")
+ (revision "1"))
+ (package
+ (name "ruy")
+ (version (git-version version revision commit))
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/google/ruy")
+ (commit commit)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "0j2g90nzam4h52zwx2vpanj8m17068cfb1zi4hcy0pyk52kb11dy"))))
+ (build-system cmake-build-system)
+ (arguments
+ (list
+ #:configure-flags
+ #~(list "-DRUY_FIND_CPUINFO=ON"
+ ;; Needed to make sure code is relocatable for use in
+ ;; tensorflow.
+ "-DCMAKE_CXX_FLAGS=-fPIC ")))
+ (inputs (list cpuinfo))
+ (native-inputs (list googletest))
+ (home-page "https://github.com/google/ruy")
+ (synopsis "Matrix multiplication library")
+ (description
+ "Ruy is a matrix multiplication library. Its focus is to cover the
+matrix multiplication needs of neural network inference engines. Its initial
+user has been TensorFlow Lite, where it is used by default on the ARM CPU
+architecture.")
+ (license license:asl2.0))))
+
diff --git a/gnu/packages/mpi.scm b/gnu/packages/mpi.scm
index 4d2458344f..baf6ce11e0 100644
--- a/gnu/packages/mpi.scm
+++ b/gnu/packages/mpi.scm
@@ -247,6 +247,12 @@ bind processes, and much more.")
"--enable-openib-rdmacm"
"--enable-openib-rdmacm-ibaddr"
+ ;; Enable support for the 'Process Management
+ ;; Interface for Exascale' (PMIx) used e.g. by
+ ;; Slurm for the management communication and
+ ;; coordination of MPI processes.
+ "--with-pmix=internal"
+
;; Enable support for SLURM's Process Manager
;; Interface (PMI).
,(string-append "--with-pmi="
diff --git a/gnu/packages/music.scm b/gnu/packages/music.scm
index cf74a2cd36..3f17a054ca 100644
--- a/gnu/packages/music.scm
+++ b/gnu/packages/music.scm
@@ -6517,7 +6517,7 @@ curl/include/curl/curl.h")
(define-public dpf-plugins
(package
(name "dpf-plugins")
- (version "1.4")
+ (version "1.7")
(source
(origin
(method git-fetch)
@@ -6527,7 +6527,7 @@ curl/include/curl/curl.h")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
- (base32 "0y7qvpfm34g6f7d786c6c9043dlbg5c4h71l2s24dsc9m8i7x2ww"))))
+ (base32 "082f3f78x6k58j78mqr57qhw40f5s8fmcbkhl36nn3vbcsa07bzg"))))
(build-system gnu-build-system)
(arguments
`(#:tests? #f ; no "check" target
diff --git a/gnu/packages/networking.scm b/gnu/packages/networking.scm
index dd3c7485d0..1eb464673d 100644
--- a/gnu/packages/networking.scm
+++ b/gnu/packages/networking.scm
@@ -1564,42 +1564,33 @@ intended as a substitute for the PPPStatus and EthStatus projects.")
(define-public iputils
(package
(name "iputils")
- (version "20190709")
+ (version "20221126")
(home-page "https://github.com/iputils/iputils")
(source (origin
(method git-fetch)
- (uri (git-reference (url home-page)
- (commit (string-append "s" version))))
+ (uri (git-reference (url home-page) (commit version)))
(file-name (git-file-name name version))
- (patches (search-patches "iputils-libcap-compat.patch"))
(sha256
(base32
- "04bp4af15adp79ipxmiakfp0ij6hx5qam266flzbr94pr8z8l693"))))
+ "1qfdvr60mlwh5kr4p27wjknz1cvrwfi6iadh9ny45661v22i0njx"))))
(build-system meson-build-system)
(arguments
- `(#:configure-flags '("-DBUILD_RARPD=true")
- #:phases
- (modify-phases %standard-phases
- (add-after 'unpack 'fix-docbook-url
- (lambda* (#:key inputs #:allow-other-keys)
- (let* ((docbook-xsl (assoc-ref inputs "docbook-xsl"))
- (uri (string-append docbook-xsl "/xml/xsl/docbook-xsl-"
- ,(package-version docbook-xsl))))
- (for-each
- (lambda (file)
- (substitute* file
- (("http://docbook\\.sourceforge\\.net/release/xsl-ns/current")
- uri)))
- (cons "doc/meson.build"
- (find-files "doc" "\\.xsl$")))
- #t))))))
+ (list
+ #:phases
+ #~(modify-phases %standard-phases
+ (add-after 'unpack 'disable-ping-test
+ (lambda _
+ ;; Disable ping test, as it requires root or raw socket capabilities.
+ (substitute* "test/meson.build"
+ (("if build_ping == true")
+ "if false")))))))
(native-inputs
- `(("gettext" ,gettext-minimal)
- ("pkg-config" ,pkg-config)
- ("docbook-xsl" ,docbook-xsl)
- ("docbook-xml" ,docbook-xml)
- ("libxml2" ,libxml2) ;for XML_CATALOG_FILES
- ("xsltproc" ,libxslt)))
+ (list gettext-minimal
+ pkg-config
+ docbook-xsl
+ docbook-xml
+ libxml2 ;for XML_CATALOG_FILES
+ libxslt))
(inputs
(list libcap libidn2 openssl))
(synopsis "Collection of network utilities")
@@ -1611,20 +1602,15 @@ configuration, troubleshooting, or servers. Utilities included are:
@item @command{arping}: Ping hosts using the @dfn{Address Resolution Protocol}.
@item @command{clockdiff}: Compute time difference between network hosts
using ICMP TSTAMP messages.
-@item @command{ninfod}: Daemon that responds to IPv6 Node Information Queries.
@item @command{ping}: Use ICMP ECHO messages to measure round-trip delays
and packet loss across network paths.
-@item @command{rarpd}: Answer RARP requests from clients.
-@item @command{rdisc}: Populate network routing tables with information from
-the ICMP router discovery protocol.
-@item @command{tftpd}: Trivial file transfer protocol server.
@item @command{tracepath}: Trace network path to an IPv4 or IPv6 address and
discover MTU along the way.
@end itemize")
;; The various utilities are covered by different licenses, see LICENSE
;; for details.
- (license (list license:gpl2+ ;arping, rarpd, tracepath
- license:bsd-3 ;clockdiff, ninfod, ping, tftpd
+ (license (list license:gpl2+ ;arping, tracepath
+ license:bsd-3 ;clockdiff, ping
(license:non-copyleft
"https://spdx.org/licenses/Rdisc.html"
"Sun Microsystems license, see rdisc.c for details")))))
@@ -2012,14 +1998,14 @@ TCP connection, TLS handshake and so on) in the terminal.")
(define-public squid
(package
(name "squid")
- (version "4.17")
+ (version "6.3")
(source
(origin
(method url-fetch)
- (uri (string-append "http://www.squid-cache.org/Versions/v4/squid-"
+ (uri (string-append "http://www.squid-cache.org/Versions/v6/squid-"
version ".tar.xz"))
(sha256
- (base32 "060lwghn6q982bay11ia38c86kd8w6mjgy68n58v31kwik08m4nb"))))
+ (base32 "1yj869jnbdv1fb604j6g602dyvfnw7ahh9sh7mbqjpbsd9cgb83l"))))
(build-system gnu-build-system)
(arguments
'(#:configure-flags
@@ -2768,7 +2754,7 @@ procedure calls (RPCs).")
(define-public openvswitch
(package
(name "openvswitch")
- (version "3.0.3")
+ (version "3.2.0")
(source (origin
(method url-fetch)
(uri (string-append
@@ -2776,7 +2762,7 @@ procedure calls (RPCs).")
version ".tar.gz"))
(sha256
(base32
- "0qwlpnwjcyb7fpw6yp65mdqg20i1851z70xmvzxwxwpifq56a1pm"))))
+ "1i0lb40lwbakmmqklmfcgr01l1ymsawgdi7k9a1zzp8ariw7x4ff"))))
(build-system gnu-build-system)
(arguments
'(#:configure-flags
diff --git a/gnu/packages/openstack.scm b/gnu/packages/openstack.scm
index 169df27f7c..0937dc2e4f 100644
--- a/gnu/packages/openstack.scm
+++ b/gnu/packages/openstack.scm
@@ -1,6 +1,6 @@
;;; GNU Guix --- Functional package management for GNU
;;; Copyright © 2015 Cyril Roelandt <tipecaml@gmail.com>
-;;; Copyright © 2015, 2016 Efraim Flashner <efraim@flashner.co.il>
+;;; Copyright © 2015, 2016, 2023 Efraim Flashner <efraim@flashner.co.il>
;;; Copyright © 2016, 2017, 2019, 2021 Clément Lassieur <clement@lassieur.org>
;;; Copyright © 2018, 2019 Tobias Geerinckx-Rice <me@tobias.gr>
;;; Copyright © 2018, 2022 Marius Bakke <marius@gnu.org>
@@ -138,26 +138,23 @@ manner.")
(define-public python-hacking
(package
(name "python-hacking")
- (version "4.1.0")
+ (version "5.0.0")
(source
(origin
(method url-fetch)
(uri (pypi-uri "hacking" version))
(sha256
(base32
- "0fg19rlcky3n1y1ri61xyjp7534yzf8r102z9dw3zqg93f4kj20m"))))
+ "09p0avmz914asszvdknc46n43bl070f369wmjmppl51zmw4b4ddb"))))
(build-system python-build-system)
- (propagated-inputs
- (list python-flake8-3.8))
+ (propagated-inputs
+ (list python-flake8))
(native-inputs
(list ;; Tests
python-coverage
python-ddt
- python-dnspython
- python-fixtures
python-eventlet
- python-mock
- python-monotonic
+ python-fixtures
python-subunit
python-stestr
python-testscenarios
diff --git a/gnu/packages/package-management.scm b/gnu/packages/package-management.scm
index aa24798071..e899817093 100644
--- a/gnu/packages/package-management.scm
+++ b/gnu/packages/package-management.scm
@@ -961,6 +961,57 @@ transactions from C or Python.")
;; The whole is GPLv2+; librpm itself is dual-licensed LGPLv2+ | GPLv2+.
(license license:gpl2+)))
+(define-public bffe
+ (let ((commit "634d3444c094dd594bdf2b15b9a71055462ae676")
+ (revision "1"))
+ (package
+ (name "bffe")
+ (version (git-version "0" revision commit))
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://git.cbaines.net/guix/bffe")
+ (commit commit)))
+ (sha256
+ (base32
+ "0z13hyaq6bs2j3hnr7ys2vsyx2554zy69ka21savywx0ci3hhfk3"))
+ (file-name (string-append name "-" version "-checkout"))))
+ (build-system gnu-build-system)
+ (native-inputs
+ (list pkg-config
+ autoconf
+ automake
+
+ ;; Guile libraries are needed here for cross-compilation.
+ guile-next
+ guile-gnutls
+ guile-json-4
+ guix
+ guix-data-service
+ guix-build-coordinator
+ guile-fibers-1.3
+ guile-prometheus
+ guile-lib))
+ (propagated-inputs
+ (list guile-gnutls
+ guile-json-4
+ guix
+ guix-data-service
+ guix-build-coordinator
+ guile-fibers-1.3
+ guile-prometheus
+ guile-lib))
+ (home-page "https://git.cbaines.net/guix/bffe")
+ (synopsis "Build Farm Front-end for Guix")
+ (description
+ "The BFFE of Build Farm Front-end is an experimental frontend for Guix
+build farms. It works together with the Guix Data Service and Guix Build
+Coordinator to submit builds and monitor the activity.
+
+It functions as a Guile library, with the @code{run-bffe-service} procedure in
+the @code{(bffe)} module as the entry point.")
+ (license license:gpl3+))))
+
(define-public python-anaconda-client
(package
(name "python-anaconda-client")
@@ -1771,7 +1822,7 @@ in an isolated environment, in separate namespaces.")
guile-gnutls
;; Guile libraries are needed here for cross-compilation.
- (car (assoc-ref (package-native-inputs guix) "guile"))
+ guile-next
guile-json-4
guile-gcrypt
guix
@@ -1783,7 +1834,7 @@ in an isolated environment, in separate namespaces.")
guile-sqlite3))
(inputs
(list bash-minimal
- (car (assoc-ref (package-native-inputs guix) "guile"))))
+ guile-next))
(propagated-inputs
(list guile-json-4
guile-gcrypt
@@ -1870,7 +1921,7 @@ for packaging and deployment of cross-compiled Windows applications.")
(define-public libostree
(package
(name "libostree")
- (version "2022.7")
+ (version "2023.5")
(source
(origin
(method url-fetch)
@@ -1878,7 +1929,7 @@ for packaging and deployment of cross-compiled Windows applications.")
"https://github.com/ostreedev/ostree/releases/download/v"
(version-major+minor version) "/libostree-" version ".tar.xz"))
(sha256
- (base32 "07s14awf9ynlp84s08dkbwj9i18g93y0yf0k87nbks4l3hkakqlb"))))
+ (base32 "056v7bz40dx8k2j2pfypc4shl6ijzvx1gy8r0kaw66py67xklndw"))))
(build-system gnu-build-system)
(arguments
'(#:phases
diff --git a/gnu/packages/parallel.scm b/gnu/packages/parallel.scm
index 569e98430c..a2d63b0be7 100644
--- a/gnu/packages/parallel.scm
+++ b/gnu/packages/parallel.scm
@@ -64,14 +64,14 @@
(define-public parallel
(package
(name "parallel")
- (version "20230622")
+ (version "20230822")
(source
(origin
(method url-fetch)
(uri (string-append "mirror://gnu/parallel/parallel-"
version ".tar.bz2"))
(sha256
- (base32 "13i3himpq1gzhn3b0hl8vp34kz950ql9pssw251ad611f2nj8fny"))
+ (base32 "0ppwdgp9j7r0a5l5zb0mla70jq24wmy1n33b5naw44y1lfclanab"))
(snippet
'(begin
(use-modules (guix build utils))
diff --git a/gnu/packages/patches/asli-use-system-libs.patch b/gnu/packages/patches/asli-use-system-libs.patch
new file mode 100644
index 0000000000..6c4518e04e
--- /dev/null
+++ b/gnu/packages/patches/asli-use-system-libs.patch
@@ -0,0 +1,72 @@
+Adjust CMakeLists.txt to use system-provided mmg and yaml-cpp libraries.
+
+diff --git a/CMakeLists.txt b/CMakeLists.txt
+index b11c5ba..702423e 100755
+--- a/CMakeLists.txt
++++ b/CMakeLists.txt
+@@ -122,28 +122,8 @@ if(MMG_MESH)
+ add_definitions(-DMMG_MESH)
+
+ # MMG
+- set(MMG_PREFIX mmg3d)
+- set(MMG_PREFIX_DIR ${CMAKE_CURRENT_BINARY_DIR}/${MMG_PREFIX})
+- set(MMG_INSTALL_DIR ${CMAKE_CURRENT_BINARY_DIR}/${MMG_PREFIX})
+- ExternalProject_Add(${MMG_PREFIX}
+- PREFIX ${MMG_PREFIX_DIR}
+- SOURCE_DIR ${CMAKE_CURRENT_SOURCE_DIR}/libs/mmg
+-
+- BUILD_ALWAYS OFF
+- INSTALL_DIR ${MMG_INSTALL_DIR}
+-
+- CMAKE_ARGS(-DCMAKE_BUILD_TYPE=Release -DBUILD=MMG3D -DLIBMMG3D_STATIC=ON
+- -DLIBMMG3D_SHARED=OFF -DCMAKE_INSTALL_PREFIX=<INSTALL_DIR>)
+-
+- BUILD_COMMAND make
+- INSTALL_COMMAND make install
+- )
+- set(MMG3D_INCLUDE_DIRS "${MMG_INSTALL_DIR}/include")
+- set(MMG3D_LIBRARIES "${MMG_INSTALL_DIR}/${CMAKE_INSTALL_LIBDIR}/${CMAKE_STATIC_LIBRARY_PREFIX}${MMG_PREFIX}${CMAKE_STATIC_LIBRARY_SUFFIX}")
+-
+- include_directories(${MMG3D_INCLUDE_DIRS})
+- #add_library(MMG3D STATIC IMPORTED)
+- #set_target_properties(MMG3D PROPERTIES IMPORTED_LOCATION "${MMG3D_LIBRARIES}")
++ include_directories(${MMG_INCLUDE_DIR})
++ set(MMG3D_LIBRARIES ${MMG_LIBRARY_DIR}/libmmg3d.so)
+
+ # MshMet
+ set(MSHMET_PREFIX mshmet)
+@@ -192,14 +172,8 @@ target_include_directories(tet PUBLIC ${CMAKE_CURRENT_SOURCE_DIR}/libs/tetgen)
+ target_compile_definitions(tet PUBLIC TETLIBRARY) # -DTETLIBRARY: flag to compile tetgen as a library
+
+ # yaml
+-file(GLOB yaml_SRC CONFIGURE_DEPENDS ${CMAKE_CURRENT_SOURCE_DIR}/libs/yaml/src/*.cpp) # Using file GLOB is not recomended!
+-add_library(yaml STATIC)
+-target_include_directories(yaml
+- PUBLIC ${CMAKE_CURRENT_SOURCE_DIR}/libs/yaml/include
+- PRIVATE ${CMAKE_CURRENT_SOURCE_DIR}/libs/yaml/src
+-)
+-target_sources(yaml PRIVATE ${yaml_SRC})
+-set_target_properties(yaml PROPERTIES CXX_STANDARD 11)
++find_package(yaml-cpp REQUIRED)
++include_directories(${YAML_CPP_INCLUDE_DIRS})
+
+ # Compile options for debuging
+ if(CMAKE_BUILD_TYPE MATCHES Debug)
+@@ -259,7 +233,7 @@ if(MARCH_NATIVE)
+ endif()
+
+ # Create entries for C++ files in "ASLI" routine
+-target_link_libraries(ASLI PUBLIC alg tet yaml)
++target_link_libraries(ASLI PUBLIC alg tet ${YAML_CPP_LIBRARIES})
+ if(NOT MSVC)
+ target_link_libraries(ASLI PUBLIC stdc++fs)
+ endif()
+@@ -272,7 +246,7 @@ if(CGAL_MESH)
+ endif()
+
+ if(MMG_MESH)
+- add_dependencies(ASLI ${MMG_PREFIX} ${MSHMET_PREFIX})
++ add_dependencies(ASLI ${MSHMET_PREFIX})
+ target_link_libraries(ASLI PUBLIC ${MMG3D_LIBRARIES} ${MSHMET_LIBRARIES})
+ if(SCOTCH_FOUND)
+ target_link_libraries(ASLI PUBLIC ${SCOTCH_LIBRARIES} scotch)
diff --git a/gnu/packages/patches/ganeti-lens-compat.patch b/gnu/packages/patches/ganeti-lens-compat.patch
new file mode 100644
index 0000000000..1b9108d78f
--- /dev/null
+++ b/gnu/packages/patches/ganeti-lens-compat.patch
@@ -0,0 +1,40 @@
+Fix building against Lens 5 by commenting out type signatures(!).
+
+Taken from upstream:
+
+ https://github.com/ganeti/ganeti/commit/5e30bad1bba63c9f6c782003ef2560f107a0ba24
+
+diff --git a/src/Ganeti/Network.hs b/src/Ganeti/Network.hs
+index 1cb6aa1ec..696c1cd1b 100644
+--- a/src/Ganeti/Network.hs
++++ b/src/Ganeti/Network.hs
+@@ -87,11 +87,11 @@ data PoolPart = PoolInstances | PoolExt
+ addressPoolIso :: Iso' AddressPool BA.BitArray
+ addressPoolIso = iso apReservations AddressPool
+
+-poolLens :: PoolPart -> Lens' Network (Maybe AddressPool)
++--poolLens :: PoolPart -> Lens' Network (Maybe AddressPool)
+ poolLens PoolInstances = networkReservationsL
+ poolLens PoolExt = networkExtReservationsL
+
+-poolArrayLens :: PoolPart -> Lens' Network (Maybe BA.BitArray)
++--poolArrayLens :: PoolPart -> Lens' Network (Maybe BA.BitArray)
+ poolArrayLens part = poolLens part . mapping addressPoolIso
+
+ netIpv4NumHosts :: Network -> Integer
+diff --git a/src/Ganeti/Utils/MultiMap.hs b/src/Ganeti/Utils/MultiMap.hs
+index d54da3ab0..279e9335a 100644
+--- a/src/Ganeti/Utils/MultiMap.hs
++++ b/src/Ganeti/Utils/MultiMap.hs
+@@ -91,7 +91,7 @@ multiMap :: (Ord k, Ord v) => M.Map k (S.Set v) -> MultiMap k v
+ multiMap = MultiMap . M.filter (not . S.null)
+
+ -- | A 'Lens' that allows to access a set under a given key in a multi-map.
+-multiMapL :: (Ord k, Ord v) => k -> Lens' (MultiMap k v) (S.Set v)
++--multiMapL :: (Ord k, Ord v) => k -> Lens' (MultiMap k v) (S.Set v)
+ multiMapL k f = fmap MultiMap
+ . at k (fmap (mfilter (not . S.null) . Just)
+ . f . fromMaybe S.empty)
+--
+2.41.0
+
diff --git a/gnu/packages/patches/ganeti-procps-compat.patch b/gnu/packages/patches/ganeti-procps-compat.patch
new file mode 100644
index 0000000000..a2145274cb
--- /dev/null
+++ b/gnu/packages/patches/ganeti-procps-compat.patch
@@ -0,0 +1,45 @@
+Fix compatibility with procps 4.
+
+Negative UIDs are no longer allowed. Use a very high one instead.
+
+Taken from upstream:
+
+ https://github.com/ganeti/ganeti/commit/9cd67e6a81c66ed326d68ea8c3241d14eea6550b
+
+diff --git a/test/py/ganeti.uidpool_unittest.py b/test/py/ganeti.uidpool_unittest.py
+index b2f5bc5cf2..2d9227cbf5 100755
+--- a/test/py/ganeti.uidpool_unittest.py
++++ b/test/py/ganeti.uidpool_unittest.py
+@@ -106,23 +106,24 @@ def testRequestUnusedUid(self):
+
+ # Check with a single, known unused user-id
+ #
+- # We use "-1" here, which is not a valid user-id, so it's
+- # guaranteed that it's unused.
+- uid = uidpool.RequestUnusedUid(set([-1]))
+- self.assertEqualValues(uid.GetUid(), -1)
++ # We use 2^30+42 here, which is a valid UID, but unlikely to be used on
++ # most systems (even as a subuid).
++ free_uid = 2**30 + 42
++ uid = uidpool.RequestUnusedUid(set([free_uid]))
++ self.assertEqualValues(uid.GetUid(), free_uid)
+
+ # Check uid-pool exhaustion
+ #
+- # uid "-1" is locked now, so RequestUnusedUid is expected to fail
++ # free_uid is locked now, so RequestUnusedUid is expected to fail
+ self.assertRaises(errors.LockError,
+ uidpool.RequestUnusedUid,
+- set([-1]))
++ set([free_uid]))
+
+ # Check unlocking
+ uid.Unlock()
+ # After unlocking, "-1" should be available again
+- uid = uidpool.RequestUnusedUid(set([-1]))
+- self.assertEqualValues(uid.GetUid(), -1)
++ uid = uidpool.RequestUnusedUid(set([free_uid]))
++ self.assertEqualValues(uid.GetUid(), free_uid)
+
+
+ if __name__ == "__main__":
diff --git a/gnu/packages/patches/ganeti-relax-dependencies.patch b/gnu/packages/patches/ganeti-relax-dependencies.patch
new file mode 100644
index 0000000000..521b410b9e
--- /dev/null
+++ b/gnu/packages/patches/ganeti-relax-dependencies.patch
@@ -0,0 +1,28 @@
+Relax version constraints to work with Stackage LTS 19.
+
+Taken from upstream:
+
+ https://github.com/ganeti/ganeti/commit/4f8d61ea0101721eae1c6f43be8430d819e5e611
+
+diff --git a/cabal/ganeti.template.cabal b/cabal/ganeti.template.cabal
+index bb4ff8053..98491dd9f 100644
+--- a/cabal/ganeti.template.cabal
++++ b/cabal/ganeti.template.cabal
+@@ -63,14 +63,14 @@ library
+ , unix >= 2.5.1.0
+ , utf8-string >= 0.3.7
+
+- , attoparsec >= 0.10.1.1 && < 0.14
+- , base64-bytestring >= 1.0.0.1 && < 1.2
++ , attoparsec >= 0.10.1.1 && < 0.15
++ , base64-bytestring >= 1.0.0.1 && < 1.3
+ , case-insensitive >= 0.4.0.1 && < 1.3
+ , curl >= 1.3.7 && < 1.4
+ , hinotify >= 0.3.2 && < 0.5
+ , hslogger >= 1.1.4 && < 1.4
+ , json >= 0.5 && < 1.0
+- , lens >= 3.10 && < 5.0
++ , lens >= 3.10 && < 6.0
+ , lifted-base >= 0.2.0.3 && < 0.3
+ , monad-control >= 0.3.1.3 && < 1.1
+ , parallel >= 3.2.0.2 && < 3.3
diff --git a/gnu/packages/patches/ganeti-reorder-arbitrary-definitions.patch b/gnu/packages/patches/ganeti-reorder-arbitrary-definitions.patch
new file mode 100644
index 0000000000..ba34c0bdd6
--- /dev/null
+++ b/gnu/packages/patches/ganeti-reorder-arbitrary-definitions.patch
@@ -0,0 +1,90 @@
+Fix ordering of Arbitrary definitions for GHC 9 compatibility.
+
+Taken from upstream:
+
+ https://github.com/ganeti/ganeti/commit/feab8faa8fe055c89205497e4f277ae4c7b8caad
+
+diff --git a/test/hs/Test/Ganeti/Objects.hs b/test/hs/Test/Ganeti/Objects.hs
+index 97ceb36dca..8d80be9e80 100644
+--- a/test/hs/Test/Ganeti/Objects.hs
++++ b/test/hs/Test/Ganeti/Objects.hs
+@@ -93,8 +93,14 @@ instance Arbitrary (Container DataCollectorConfig) where
+ instance Arbitrary BS.ByteString where
+ arbitrary = genPrintableByteString
+
++instance Arbitrary a => Arbitrary (Private a) where
++ arbitrary = Private <$> arbitrary
++
+ $(genArbitrary ''PartialNDParams)
+
++instance Arbitrary (Container J.JSValue) where
++ arbitrary = return $ GenericContainer Map.empty
++
+ instance Arbitrary Node where
+ arbitrary = Node <$> genFQDN <*> genFQDN <*> genFQDN
+ <*> arbitrary <*> arbitrary <*> arbitrary <*> genFQDN
+@@ -297,10 +303,6 @@ genDisk = genDiskWithChildren 3
+ -- validation rules.
+ $(genArbitrary ''PartialISpecParams)
+
+--- | FIXME: This generates completely random data, without normal
+--- validation rules.
+-$(genArbitrary ''PartialIPolicy)
+-
+ $(genArbitrary ''FilledISpecParams)
+ $(genArbitrary ''MinMaxISpecs)
+ $(genArbitrary ''FilledIPolicy)
+@@ -309,6 +311,10 @@ $(genArbitrary ''FilledNDParams)
+ $(genArbitrary ''FilledNicParams)
+ $(genArbitrary ''FilledBeParams)
+
++-- | FIXME: This generates completely random data, without normal
++-- validation rules.
++$(genArbitrary ''PartialIPolicy)
++
+ -- | No real arbitrary instance for 'ClusterHvParams' yet.
+ instance Arbitrary ClusterHvParams where
+ arbitrary = return $ GenericContainer Map.empty
+@@ -331,18 +337,12 @@ instance Arbitrary OsParams where
+ instance Arbitrary Objects.ClusterOsParamsPrivate where
+ arbitrary = (GenericContainer . Map.fromList) <$> arbitrary
+
+-instance Arbitrary a => Arbitrary (Private a) where
+- arbitrary = Private <$> arbitrary
+-
+ instance Arbitrary ClusterOsParams where
+ arbitrary = (GenericContainer . Map.fromList) <$> arbitrary
+
+ instance Arbitrary ClusterBeParams where
+ arbitrary = (GenericContainer . Map.fromList) <$> arbitrary
+
+-instance Arbitrary IAllocatorParams where
+- arbitrary = return $ GenericContainer Map.empty
+-
+ $(genArbitrary ''Cluster)
+
+ instance Arbitrary ConfigData where
+diff --git a/test/hs/Test/Ganeti/Query/Language.hs b/test/hs/Test/Ganeti/Query/Language.hs
+index 04fb8c3898..fa50196f00 100644
+--- a/test/hs/Test/Ganeti/Query/Language.hs
++++ b/test/hs/Test/Ganeti/Query/Language.hs
+@@ -59,6 +59,9 @@ import Ganeti.Query.Language
+ instance Arbitrary (Filter FilterField) where
+ arbitrary = genFilter
+
++instance Arbitrary FilterRegex where
++ arbitrary = genName >>= mkRegex -- a name should be a good regex
++
+ -- | Custom 'Filter' generator (top-level), which enforces a
+ -- (sane) limit on the depth of the generated filters.
+ genFilter :: Gen (Filter FilterField)
+@@ -97,9 +100,6 @@ $(genArbitrary ''QueryTypeLuxi)
+
+ $(genArbitrary ''ItemType)
+
+-instance Arbitrary FilterRegex where
+- arbitrary = genName >>= mkRegex -- a name should be a good regex
+-
+ $(genArbitrary ''ResultStatus)
+
+ $(genArbitrary ''FieldType)
diff --git a/gnu/packages/patches/ganeti-template-haskell-2.17.patch b/gnu/packages/patches/ganeti-template-haskell-2.17.patch
new file mode 100644
index 0000000000..be5948bb96
--- /dev/null
+++ b/gnu/packages/patches/ganeti-template-haskell-2.17.patch
@@ -0,0 +1,69 @@
+Handle GHC 9 changes in a backwards compatible manner.
+
+Taken from upstream:
+
+ https://github.com/ganeti/ganeti/commit/b279fa738fd5b30320584f79f4d2f0e894315aab
+
+diff --git a/src/Ganeti/THH.hs b/src/Ganeti/THH.hs
+index 818c11f84..9ab93d5e3 100644
+--- a/src/Ganeti/THH.hs
++++ b/src/Ganeti/THH.hs
+@@ -884,7 +884,7 @@ genLoadOpCode opdefs fn = do
+ ) $ zip mexps opdefs
+ defmatch = Match WildP (NormalB fails) []
+ cst = NoBindS $ CaseE (VarE opid) $ mpats++[defmatch]
+- body = DoE [st, cst]
++ body = mkDoE [st, cst]
+ -- include "OP_ID" to the list of used keys
+ bodyAndOpId <- [| $(return body)
+ <* tell (mkUsedKeys . S.singleton . T.pack $ opidKey) |]
+@@ -1541,7 +1541,7 @@ loadExcConstructor inname sname fields = do
+ [x] -> BindS (ListP [VarP x])
+ _ -> BindS (TupP (map VarP f_names))
+ cval = appCons name $ map VarE f_names
+- return $ DoE [binds read_args, NoBindS (AppE (VarE 'return) cval)]
++ return $ mkDoE [binds read_args, NoBindS (AppE (VarE 'return) cval)]
+
+ {-| Generates the loadException function.
+
+diff --git a/src/Ganeti/THH/Compat.hs b/src/Ganeti/THH/Compat.hs
+index d29e30d18..1f51e49d7 100644
+--- a/src/Ganeti/THH/Compat.hs
++++ b/src/Ganeti/THH/Compat.hs
+@@ -40,9 +40,11 @@ module Ganeti.THH.Compat
+ , extractDataDConstructors
+ , myNotStrict
+ , nonUnaryTupE
++ , mkDoE
+ ) where
+
+ import Language.Haskell.TH
++import Language.Haskell.TH.Syntax
+
+ -- | Convert Names to DerivClauses
+ --
+@@ -61,7 +63,11 @@ derivesFromNames names = map ConT names
+ --
+ -- Handle TH 2.11 and 2.12 changes in a transparent manner using the pre-2.11
+ -- API.
++#if MIN_VERSION_template_haskell(2,17,0)
++gntDataD :: Cxt -> Name -> [TyVarBndr ()] -> [Con] -> [Name] -> Dec
++#else
+ gntDataD :: Cxt -> Name -> [TyVarBndr] -> [Con] -> [Name] -> Dec
++#endif
+ gntDataD x y z a b =
+ #if MIN_VERSION_template_haskell(2,12,0)
+ DataD x y z Nothing a $ derivesFromNames b
+@@ -114,3 +120,12 @@ nonUnaryTupE es = TupE $ map Just es
+ #else
+ nonUnaryTupE es = TupE $ es
+ #endif
++
++-- | DoE is now qualified with an optional ModName
++mkDoE :: [Stmt] -> Exp
++mkDoE s =
++#if MIN_VERSION_template_haskell(2,17,0)
++ DoE Nothing s
++#else
++ DoE s
++#endif
diff --git a/gnu/packages/patches/ganeti-template-haskell-2.18.patch b/gnu/packages/patches/ganeti-template-haskell-2.18.patch
new file mode 100644
index 0000000000..e7be869636
--- /dev/null
+++ b/gnu/packages/patches/ganeti-template-haskell-2.18.patch
@@ -0,0 +1,179 @@
+Fix compatibility with Template Haskell 2.18 and GHC 9.2.
+
+
+diff --git a/src/Ganeti/BasicTypes.hs b/src/Ganeti/BasicTypes.hs
+index 10d0426cd..d68bc7d5b 100644
+--- a/src/Ganeti/BasicTypes.hs
++++ b/src/Ganeti/BasicTypes.hs
+@@ -206,12 +206,12 @@ instance MonadTrans (ResultT a) where
+ instance (MonadIO m, Error a) => MonadIO (ResultT a m) where
+ liftIO = ResultT . liftIO
+ . liftM (either (failError . show) return)
+- . (try :: IO a -> IO (Either IOError a))
++ . (try :: IO α -> IO (Either IOError α))
+
+ instance (MonadBase IO m, Error a) => MonadBase IO (ResultT a m) where
+ liftBase = ResultT . liftBase
+ . liftM (either (failError . show) return)
+- . (try :: IO a -> IO (Either IOError a))
++ . (try :: IO α -> IO (Either IOError α))
+
+ instance (Error a) => MonadTransControl (ResultT a) where
+ #if MIN_VERSION_monad_control(1,0,0)
+diff --git a/src/Ganeti/Lens.hs b/src/Ganeti/Lens.hs
+index faa5900ed..747366e6a 100644
+--- a/src/Ganeti/Lens.hs
++++ b/src/Ganeti/Lens.hs
+@@ -93,14 +93,14 @@ makeCustomLenses' name lst = makeCustomLensesFiltered f name
+ -- Most often the @g@ functor is @(,) r@ and 'traverseOf2' is used to
+ -- traverse an effectful computation that also returns an additional output
+ -- value.
+-traverseOf2 :: Over (->) (Compose f g) s t a b
+- -> (a -> f (g b)) -> s -> f (g t)
++-- traverseOf2 :: Over (->) (Compose f g) s t a b
++-- -> (a -> f (g b)) -> s -> f (g t)
+ traverseOf2 k f = getCompose . traverseOf k (Compose . f)
+
+ -- | Traverses over a composition of a monad and a functor.
+ -- See 'traverseOf2'.
+-mapMOf2 :: Over (->) (Compose (WrappedMonad m) g) s t a b
+- -> (a -> m (g b)) -> s -> m (g t)
++-- mapMOf2 :: Over (->) (Compose (WrappedMonad m) g) s t a b
++-- -> (a -> m (g b)) -> s -> m (g t)
+ mapMOf2 k f = unwrapMonad . traverseOf2 k (WrapMonad . f)
+
+ -- | A helper lens over sets.
+diff --git a/src/Ganeti/THH.hs b/src/Ganeti/THH.hs
+index 9ab93d5e3..9a10a9a07 100644
+--- a/src/Ganeti/THH.hs
++++ b/src/Ganeti/THH.hs
+@@ -996,8 +996,8 @@ buildAccessor fnm fpfx rnm rpfx nm pfx field = do
+ f_body = AppE (VarE fpfx_name) $ VarE x
+ return $ [ SigD pfx_name $ ArrowT `AppT` ConT nm `AppT` ftype
+ , FunD pfx_name
+- [ Clause [ConP rnm [VarP x]] (NormalB r_body) []
+- , Clause [ConP fnm [VarP x]] (NormalB f_body) []
++ [ Clause [myConP rnm [VarP x]] (NormalB r_body) []
++ , Clause [myConP fnm [VarP x]] (NormalB f_body) []
+ ]]
+
+ -- | Build lense declartions for a field.
+@@ -1037,10 +1037,10 @@ buildLens (fnm, fdnm) (rnm, rdnm) nm pfx ar (field, i) = do
+ (ConE cdn)
+ $ zip [0..] vars
+ let setterE = LamE [VarP context, VarP var] $ CaseE (VarE context)
+- [ Match (ConP fnm [ConP fdnm . set (element i) WildP
++ [ Match (myConP fnm [myConP fdnm . set (element i) WildP
+ $ map VarP vars])
+ (body (not isSimple) fnm fdnm) []
+- , Match (ConP rnm [ConP rdnm . set (element i) WildP
++ , Match (myConP rnm [myConP rdnm . set (element i) WildP
+ $ map VarP vars])
+ (body False rnm rdnm) []
+ ]
+@@ -1098,9 +1098,9 @@ buildObjectWithForthcoming sname field_pfx fields = do
+ $ JSON.showJSON $(varE x) |]
+ let rdjson = FunD 'JSON.readJSON [Clause [] (NormalB read_body) []]
+ shjson = FunD 'JSON.showJSON
+- [ Clause [ConP (mkName real_nm) [VarP x]]
++ [ Clause [myConP (mkName real_nm) [VarP x]]
+ (NormalB show_real_body) []
+- , Clause [ConP (mkName forth_nm) [VarP x]]
++ , Clause [myConP (mkName forth_nm) [VarP x]]
+ (NormalB show_forth_body) []
+ ]
+ instJSONdecl = gntInstanceD [] (AppT (ConT ''JSON.JSON) (ConT name))
+@@ -1121,9 +1121,9 @@ buildObjectWithForthcoming sname field_pfx fields = do
+ (fromDictWKeys $(varE xs)) |]
+ todictx_r <- [| toDict $(varE x) |]
+ todictx_f <- [| ("forthcoming", JSON.JSBool True) : toDict $(varE x) |]
+- let todict = FunD 'toDict [ Clause [ConP (mkName real_nm) [VarP x]]
++ let todict = FunD 'toDict [ Clause [myConP (mkName real_nm) [VarP x]]
+ (NormalB todictx_r) []
+- , Clause [ConP (mkName forth_nm) [VarP x]]
++ , Clause [myConP (mkName forth_nm) [VarP x]]
+ (NormalB todictx_f) []
+ ]
+ fromdict = FunD 'fromDictWKeys [ Clause [VarP xs]
+@@ -1136,9 +1136,9 @@ buildObjectWithForthcoming sname field_pfx fields = do
+ let forthPredDecls = [ SigD forthPredName
+ $ ArrowT `AppT` ConT name `AppT` ConT ''Bool
+ , FunD forthPredName
+- [ Clause [ConP (mkName real_nm) [WildP]]
++ [ Clause [myConP (mkName real_nm) [WildP]]
+ (NormalB $ ConE 'False) []
+- , Clause [ConP (mkName forth_nm) [WildP]]
++ , Clause [myConP (mkName forth_nm) [WildP]]
+ (NormalB $ ConE 'True) []
+ ]
+ ]
+@@ -1412,9 +1412,9 @@ savePParamField fvar field = do
+ normalexpr <- saveObjectField actualVal field
+ -- we have to construct the block here manually, because we can't
+ -- splice-in-splice
+- return $ CaseE (VarE fvar) [ Match (ConP 'Nothing [])
++ return $ CaseE (VarE fvar) [ Match (myConP 'Nothing [])
+ (NormalB (ConE '[])) []
+- , Match (ConP 'Just [VarP actualVal])
++ , Match (myConP 'Just [VarP actualVal])
+ (NormalB normalexpr) []
+ ]
+
+@@ -1440,9 +1440,9 @@ fillParam sname field_pfx fields = do
+ -- due to apparent bugs in some older GHC versions, we need to add these
+ -- prefixes to avoid "binding shadows ..." errors
+ fbinds <- mapM (newName . ("f_" ++) . nameBase) fnames
+- let fConP = ConP name_f (map VarP fbinds)
++ let fConP = myConP name_f (map VarP fbinds)
+ pbinds <- mapM (newName . ("p_" ++) . nameBase) pnames
+- let pConP = ConP name_p (map VarP pbinds)
++ let pConP = myConP name_p (map VarP pbinds)
+ -- PartialParams instance --------
+ -- fillParams
+ let fromMaybeExp fn pn = AppE (AppE (VarE 'fromMaybe) (VarE fn)) (VarE pn)
+@@ -1462,7 +1462,7 @@ fillParam sname field_pfx fields = do
+ memptyClause = Clause [] (NormalB memptyExp) []
+ -- mappend
+ pbinds2 <- mapM (newName . ("p2_" ++) . nameBase) pnames
+- let pConP2 = ConP name_p (map VarP pbinds2)
++ let pConP2 = myConP name_p (map VarP pbinds2)
+ -- note the reversal of 'l' and 'r' in the call to <|>
+ -- as we want the result to be the rightmost value
+ let altExp = zipWith (\l r -> AppE (AppE (VarE '(<|>)) (VarE r)) (VarE l))
+@@ -1575,9 +1575,9 @@ genLoadExc tname sname opdefs = do
+ opdefs
+ -- the first function clause; we can't use [| |] due to TH
+ -- limitations, so we have to build the AST by hand
+- let clause1 = Clause [ConP 'JSON.JSArray
+- [ListP [ConP 'JSON.JSString [VarP exc_name],
+- VarP exc_args]]]
++ let clause1 = Clause [myConP 'JSON.JSArray
++ [ListP [myConP 'JSON.JSString [VarP exc_name],
++ VarP exc_args]]]
+ (NormalB (CaseE (AppE (VarE 'JSON.fromJSString)
+ (VarE exc_name))
+ (str_matches ++ [defmatch]))) []
+diff --git a/src/Ganeti/THH/Compat.hs b/src/Ganeti/THH/Compat.hs
+index 1f51e49d7..9b07c47ef 100644
+--- a/src/Ganeti/THH/Compat.hs
++++ b/src/Ganeti/THH/Compat.hs
+@@ -41,6 +41,7 @@ module Ganeti.THH.Compat
+ , myNotStrict
+ , nonUnaryTupE
+ , mkDoE
++ , myConP
+ ) where
+
+ import Language.Haskell.TH
+@@ -129,3 +130,11 @@ mkDoE s =
+ #else
+ DoE s
+ #endif
++
++-- | ConP is now qualified with an optional [Type].
++myConP :: Name -> [Pat] -> Pat
++myConP n patterns = ConP n
++#if MIN_VERSION_template_haskell(2,18,0)
++ []
++#endif
++ patterns
diff --git a/gnu/packages/patches/glibc-hurd-getauxval.patch b/gnu/packages/patches/glibc-hurd-getauxval.patch
new file mode 100644
index 0000000000..815371b2d0
--- /dev/null
+++ b/gnu/packages/patches/glibc-hurd-getauxval.patch
@@ -0,0 +1,34 @@
+Taken from https://salsa.debian.org/glibc-team/glibc/-/blob/5af8e3701c63ad202b652b5051bec592b8385820/debian/patches/hurd-i386/unsubmitted-getaux_at_secure.diff
+
+This fixes gdk-pixbuf, gobject-introspection.
+
+FIXME: sysdeps/mach/hurd/i386/init-first.c should instead pass an auxv
+to __libc_start_main
+
+Index: glibc-2.33/misc/getauxval.c
+===================================================================
+--- glibc-2.33.orig/misc/getauxval.c
++++ glibc-2.33/misc/getauxval.c
+@@ -19,6 +19,7 @@
+ #include <errno.h>
+ #include <ldsodefs.h>
+ #include <stdbool.h>
++#include <unistd.h>
+
+ bool
+ __getauxval2 (unsigned long int type, unsigned long int *result)
+@@ -27,6 +28,14 @@ __getauxval2 (unsigned long int type, un
+ ElfW(auxv_t) *p;
+ #endif
+
++#ifdef AT_SECURE
++ if (type == AT_SECURE)
++ {
++ *result = __libc_enable_secure;
++ return true;
++ }
++#endif
++
+ if (type == AT_HWCAP)
+ {
+ *result = GLRO(dl_hwcap);
diff --git a/gnu/packages/patches/hdf4-architectures.patch b/gnu/packages/patches/hdf4-architectures.patch
deleted file mode 100644
index aa71d5a383..0000000000
--- a/gnu/packages/patches/hdf4-architectures.patch
+++ /dev/null
@@ -1,632 +0,0 @@
-Copied from Debian.
-
-Description: Support additional architectures.
-Author: Francesco Paolo Lovergine <frankie@debian.org>
-
---- a/hdf/src/hdfi.h
-+++ b/hdf/src/hdfi.h
-@@ -48,6 +48,7 @@
- /* 8 - Cray IEEE */
- /* (i.e. Big-Endian, all 64-bit architecture w/IEEE Floats) */
- /*--------------------------------------------------------------------------*/
-+#define DFMT_S390 0x1111
- #define DFMT_SUN 0x1111
- #define DFMT_SUN_INTEL 0x4441
- #define DFMT_ALLIANT 0x1111
-@@ -62,6 +63,7 @@
- #define DFMT_CTSS 0x3331
- #define DFMT_VAX 0x2221
- #define DFMT_MIPSEL 0x4441
-+#define DFMT_MIPSEB 0x1111
- #define DFMT_PC 0x4441
- #define DFMT_APPLE 0x1111
- #define DFMT_APPLE_INTEL 0x4441
-@@ -75,6 +77,13 @@
- #define DFMT_IA64 0x4441
- #define DFMT_LINUX64 0x4441
- #define DFMT_POWERPC64 0x1111
-+#define DFMT_POWERPC64LE 0x4441
-+#define DFMT_ARMV4L 0x4441
-+#define DFMT_AARCH64 0x4441
-+#define DFMT_X86_64 0x4441
-+#define DFMT_SH 0x4441
-+#define DFMT_SHEB 0x1111
-+#define DFMT_RISCV64 0x4441
-
- /* I/O library constants */
- #define UNIXUNBUFIO 1
-@@ -288,7 +297,7 @@ typedef int hdf_pint_t;
-
- #endif /* IBM6000 */
-
--#if defined(HP9000) || (!defined(__convexc__) && (defined(hpux) || defined(__hpux)))
-+#if defined(HP9000) || (!defined(__convexc__) && (defined(hpux) || defined(__hpux) || defined(__hppa__)))
-
- #ifndef HP9000
- #define HP9000
-@@ -347,6 +356,10 @@ typedef int hdf_pint_t;
- /* what each does */
- #define JMEMSYS MEM_ANSI
-
-+#ifdef __linux__
-+#define FNAME_POST_UNDERSCORE
-+#endif
-+
- #endif /* HP9000 */
-
-
-@@ -670,6 +683,462 @@ typedef int hdf_pint_t;
- #endif /* !(defined(__APPLE__)) */
-
- /*-----------------------------------------------------*/
-+#if defined (__linux__) && defined (__mc68000__)
-+
-+#ifdef GOT_MACHINE
-+If you get an error on this line more than one machine type has been defined.
-+Please check your Makefile.
-+#endif
-+#define GOT_MACHINE 1
-+
-+#include <fcntl.h>
-+#include <sys/types.h> /* for unbuffered file I/O */
-+#include <sys/stat.h>
-+#include <unistd.h>
-+#include <ctype.h> /* for character macros */
-+
-+#define DF_MT DFMT_MOTOROLA
-+
-+#ifndef VOID /* The stupid windows.h header file uses a #define instead of a typedef */
-+typedef void VOID;
-+#endif /* end VOID */
-+typedef void * VOIDP;
-+typedef char * _fcd;
-+typedef char char8;
-+typedef unsigned char uchar8;
-+typedef char int8;
-+typedef unsigned char uint8;
-+typedef short int int16;
-+typedef unsigned short int uint16;
-+typedef long int int32;
-+typedef unsigned long int uint32;
-+typedef int intn;
-+typedef unsigned int uintn;
-+typedef float float32;
-+typedef double float64;
-+typedef long intf; /* size of INTEGERs in Fortran compiler */
-+typedef int hdf_pint_t; /* an integer the same size as a pointer */
-+#define FNAME_POST_UNDERSCORE
-+#define _fcdtocp(desc) (desc)
-+
-+#ifdef HAVE_FMPOOL
-+#define FILELIB PAGEBUFIO /* enable page buffering */
-+#else
-+#define FILELIB UNIXBUFIO
-+#endif
-+
-+/* JPEG #define's - Look in the JPEG docs before changing - (Q) */
-+
-+/* Determine the memory manager we are going to use. Valid values are: */
-+/* MEM_DOS, MEM_ANSI, MEM_NAME, MEM_NOBS. See the JPEG docs for details on */
-+/* what each does */
-+#define JMEMSYS MEM_ANSI
-+#define HAVE_STDC
-+#define INCLUDES_ARE_ANSI
-+
-+#endif /* Linux/m68k */
-+
-+#if defined (__linux__) && defined (__sparc__)
-+
-+#ifdef GOT_MACHINE
-+If you get an error on this line more than one machine type has been defined.
-+Please check your Makefile.
-+#endif
-+#define GOT_MACHINE 1
-+
-+#include <fcntl.h>
-+#include <sys/types.h> /* for unbuffered file I/O */
-+#include <sys/stat.h>
-+#include <unistd.h>
-+#include <ctype.h> /* for character macros */
-+
-+#define DF_MT DFMT_SUN
-+
-+#ifndef VOID /* The stupid windows.h header file uses a #define instead of a typedef */
-+typedef void VOID;
-+#endif /* end VOID */
-+typedef void * VOIDP;
-+typedef char * _fcd;
-+typedef char char8;
-+typedef unsigned char uchar8;
-+typedef char int8;
-+typedef unsigned char uint8;
-+typedef short int int16;
-+typedef unsigned short int uint16;
-+#ifdef _LP64 /* 64-bit environment */
-+typedef int int32;
-+typedef unsigned int uint32;
-+#else /* 32-bit environment */
-+typedef long int int32;
-+typedef unsigned long int uint32;
-+#endif
-+typedef int intn;
-+typedef unsigned int uintn;
-+typedef float float32;
-+typedef double float64;
-+typedef long intf; /* size of INTEGERs in Fortran compiler */
-+#ifdef _LP64 /* 64-bit environment */
-+typedef long hdf_pint_t; /* an integer the same size as a pointer */
-+#else /* 32-bit environment */
-+typedef int hdf_pint_t; /* an integer the same size as a pointer */
-+#endif
-+#define FNAME_POST_UNDERSCORE
-+#define _fcdtocp(desc) (desc)
-+
-+#ifdef HAVE_FMPOOL
-+#define FILELIB PAGEBUFIO /* enable page buffering */
-+#else
-+#define FILELIB UNIXBUFIO
-+#endif
-+
-+/* JPEG #define's - Look in the JPEG docs before changing - (Q) */
-+
-+/* Determine the memory manager we are going to use. Valid values are: */
-+/* MEM_DOS, MEM_ANSI, MEM_NAME, MEM_NOBS. See the JPEG docs for details on */
-+/* what each does */
-+#define JMEMSYS MEM_ANSI
-+#define HAVE_STDC
-+#define INCLUDES_ARE_ANSI
-+
-+#endif /* Linux/Sparc */
-+
-+#if defined (__linux__) && defined (__powerpc__) && !defined(__powerpc64__)
-+
-+#ifdef GOT_MACHINE
-+If you get an error on this line more than one machine type has been defined.
-+Please check your Makefile.
-+#endif
-+#define GOT_MACHINE 1
-+
-+#include <fcntl.h>
-+#include <sys/types.h> /* for unbuffered file I/O */
-+#include <sys/stat.h>
-+#include <unistd.h>
-+#include <ctype.h> /* for character macros */
-+
-+#define DF_MT DFMT_MOTOROLA
-+
-+#ifndef VOID /* The stupid windows.h header file uses a #define instead of a typedef */
-+typedef void VOID;
-+#endif /* end VOID */
-+typedef void * VOIDP;
-+typedef char * _fcd;
-+typedef char char8;
-+typedef unsigned char uchar8;
-+typedef signed char int8;
-+typedef unsigned char uint8;
-+typedef short int int16;
-+typedef unsigned short int uint16;
-+typedef long int int32;
-+typedef unsigned long int uint32;
-+typedef int intn;
-+typedef unsigned int uintn;
-+typedef float float32;
-+typedef double float64;
-+typedef long intf; /* size of INTEGERs in Fortran compiler */
-+typedef int hdf_pint_t; /* an integer the same size as a pointer */
-+#define FNAME_POST_UNDERSCORE
-+#define _fcdtocp(desc) (desc)
-+
-+#ifdef HAVE_FMPOOL
-+#define FILELIB PAGEBUFIO /* enable page buffering */
-+#else
-+#define FILELIB UNIXBUFIO
-+#endif
-+
-+/* JPEG #define's - Look in the JPEG docs before changing - (Q) */
-+
-+/* Determine the memory manager we are going to use. Valid values are: */
-+/* MEM_DOS, MEM_ANSI, MEM_NAME, MEM_NOBS. See the JPEG docs for details on */
-+/* what each does */
-+#define JMEMSYS MEM_ANSI
-+#define HAVE_STDC
-+#define INCLUDES_ARE_ANSI
-+
-+#endif /* Linux/powerpc */
-+
-+#if defined (__linux__) && defined (__s390__)
-+
-+#ifdef GOT_MACHINE
-+If you get an error on this line more than one machine type has been defined.
-+Please check your Makefile.
-+#endif
-+#define GOT_MACHINE 1
-+
-+#include <fcntl.h>
-+#include <sys/types.h> /* for unbuffered file I/O */
-+#include <sys/stat.h>
-+#include <unistd.h>
-+#include <ctype.h> /* for character macros */
-+
-+#define DF_MT DFMT_S390
-+
-+#ifndef VOID /* The stupid windows.h header file uses a #define instead of a typedef */
-+typedef void VOID;
-+#endif /* end VOID */
-+typedef void * VOIDP;
-+typedef char * _fcd;
-+typedef char char8;
-+typedef unsigned char uchar8;
-+typedef signed char int8;
-+typedef unsigned char uint8;
-+typedef short int int16;
-+typedef unsigned short int uint16;
-+#ifdef _LP64 /* 64-bit environment */
-+typedef int int32;
-+typedef unsigned int uint32;
-+#else /* 32-bit environment */
-+typedef long int int32;
-+typedef unsigned long int uint32;
-+#endif
-+typedef int intn;
-+typedef unsigned int uintn;
-+typedef float float32;
-+typedef double float64;
-+typedef long intf; /* size of INTEGERs in Fortran compiler */
-+#ifdef _LP64 /* 64-bit environment */
-+typedef long hdf_pint_t; /* an integer the same size as a pointer */
-+#else /* 32-bit environment */
-+typedef int hdf_pint_t; /* an integer the same size as a pointer */
-+#endif
-+#define FNAME_POST_UNDERSCORE
-+#define _fcdtocp(desc) (desc)
-+
-+#ifdef HAVE_FMPOOL
-+#define FILELIB PAGEBUFIO /* enable page buffering */
-+#else
-+#define FILELIB UNIXBUFIO
-+#endif
-+
-+/* JPEG #define's - Look in the JPEG docs before changing - (Q) */
-+
-+/* Determine the memory manager we are going to use. Valid values are: */
-+/* MEM_DOS, MEM_ANSI, MEM_NAME, MEM_NOBS. See the JPEG docs for details on */
-+/* what each does */
-+#define JMEMSYS MEM_ANSI
-+#define HAVE_STDC
-+#define INCLUDES_ARE_ANSI
-+
-+#endif /* Linux/s390 */
-+
-+#if defined (__linux__) && (defined (__MIPSEB__) || defined(__MIPSEL__))
-+
-+#ifdef GOT_MACHINE
-+If you get an error on this line more than one machine type has been defined.
-+Please check your Makefile.
-+#endif
-+#define GOT_MACHINE 1
-+
-+#include <fcntl.h>
-+#include <sys/types.h> /* for unbuffered file I/O */
-+#include <sys/stat.h>
-+#include <unistd.h>
-+#include <ctype.h> /* for character macros */
-+
-+#if defined (__MIPSEB__)
-+#define DF_MT DFMT_MIPSEB
-+#elif defined(__MIPSEL__)
-+#define DF_MT DFMT_MIPSEL
-+#endif
-+
-+#ifndef VOID /* The stupid windows.h header file uses a #define instead of a typedef */
-+typedef void VOID;
-+#endif /* end VOID */
-+typedef void * VOIDP;
-+typedef char * _fcd;
-+typedef char char8;
-+typedef unsigned char uchar8;
-+typedef signed char int8;
-+typedef unsigned char uint8;
-+typedef short int int16;
-+typedef unsigned short int uint16;
-+typedef int int32;
-+typedef unsigned int uint32;
-+typedef int intn;
-+typedef unsigned int uintn;
-+typedef float float32;
-+typedef double float64;
-+typedef long intf; /* size of INTEGERs in Fortran compiler */
-+typedef long int hdf_pint_t; /* an integer the same size as a pointer */
-+#define FNAME_POST_UNDERSCORE
-+#define _fcdtocp(desc) (desc)
-+
-+#ifdef HAVE_FMPOOL
-+#define FILELIB PAGEBUFIO /* enable page buffering */
-+#else
-+#define FILELIB UNIXBUFIO
-+#endif
-+
-+/* JPEG #define's - Look in the JPEG docs before changing - (Q) */
-+
-+/* Determine the memory manager we are going to use. Valid values are: */
-+/* MEM_DOS, MEM_ANSI, MEM_NAME, MEM_NOBS. See the JPEG docs for details on */
-+/* what each does */
-+#define JMEMSYS MEM_ANSI
-+#define HAVE_STDC
-+#define INCLUDES_ARE_ANSI
-+
-+#endif /* Linux/mips */
-+
-+#if defined (__linux__) && defined (__arm__)
-+
-+#ifdef GOT_MACHINE
-+If you get an error on this line more than one machine type has been defined.
-+Please check your Makefile.
-+#endif
-+#define GOT_MACHINE 1
-+
-+#include <fcntl.h>
-+#include <sys/types.h> /* for unbuffered file I/O */
-+#include <sys/stat.h>
-+#include <unistd.h>
-+#include <ctype.h> /* for character macros */
-+
-+#define DF_MT DFMT_ARMV4L
-+
-+#ifndef VOID /* The stupid windows.h header file uses a #define instead of a typedef */
-+typedef void VOID;
-+#endif /* end VOID */
-+typedef void * VOIDP;
-+typedef char * _fcd;
-+typedef char char8;
-+typedef unsigned char uchar8;
-+typedef signed char int8;
-+typedef unsigned char uint8;
-+typedef short int int16;
-+typedef unsigned short int uint16;
-+typedef int int32;
-+typedef unsigned int uint32;
-+typedef int intn;
-+typedef unsigned int uintn;
-+typedef float float32;
-+typedef double float64;
-+typedef long intf; /* size of INTEGERs in Fortran compiler */
-+typedef long hdf_pint_t; /* an integer the same size as a pointer */
-+#define FNAME_POST_UNDERSCORE
-+#define _fcdtocp(desc) (desc)
-+
-+#ifdef HAVE_FMPOOL
-+#define FILELIB PAGEBUFIO /* enable page buffering */
-+#else
-+#define FILELIB UNIXBUFIO
-+#endif
-+
-+/* JPEG #define's - Look in the JPEG docs before changing - (Q) */
-+
-+/* Determine the memory manager we are going to use. Valid values are: */
-+/* MEM_DOS, MEM_ANSI, MEM_NAME, MEM_NOBS. See the JPEG docs for details on */
-+/* what each does */
-+#define JMEMSYS MEM_ANSI
-+#define HAVE_STDC
-+#define INCLUDES_ARE_ANSI
-+
-+#endif /* Linux/arm */
-+
-+#if defined (__linux__) && defined (__aarch64__)
-+
-+#ifdef GOT_MACHINE
-+If you get an error on this line more than one machine type has been defined.
-+Please check your Makefile.
-+#endif
-+#define GOT_MACHINE 1
-+
-+#include <fcntl.h>
-+#include <sys/types.h> /* for unbuffered file I/O */
-+#include <sys/stat.h>
-+#include <unistd.h>
-+#include <ctype.h> /* for character macros */
-+
-+#define DF_MT DFMT_AARCH64
-+
-+typedef void VOID;
-+typedef void * VOIDP;
-+typedef char * _fcd;
-+typedef char char8;
-+typedef unsigned char uchar8;
-+typedef signed char int8;
-+typedef unsigned char uint8;
-+typedef short int int16;
-+typedef unsigned short int uint16;
-+typedef int int32;
-+typedef unsigned int uint32;
-+typedef int intn;
-+typedef unsigned int uintn;
-+typedef float float32;
-+typedef double float64;
-+typedef int intf; /* size of INTEGERs in Fortran compiler */
-+typedef long hdf_pint_t; /* an integer the same size as a pointer */
-+#define FNAME_POST_UNDERSCORE
-+#define _fcdtocp(desc) (desc)
-+#define FILELIB UNIXBUFIO
-+
-+#ifndef BIG_LONGS
-+#define BIG_LONGS
-+#endif
-+
-+/* JPEG #define's - Look in the JPEG docs before changing - (Q) */
-+
-+/* Determine the memory manager we are going to use. Valid values are: */
-+/* MEM_DOS, MEM_ANSI, MEM_NAME, MEM_NOBS. See the JPEG docs for details on */
-+/* what each does */
-+#define JMEMSYS MEM_ANSI
-+#define HAVE_STDC
-+#define INCLUDES_ARE_ANSI
-+
-+#endif /* Linux/aarch64 */
-+
-+#if defined (__linux__) && defined (__riscv) && (__riscv_xlen == 64)
-+
-+#ifdef GOT_MACHINE
-+If you get an error on this line more than one machine type has been defined.
-+Please check your Makefile.
-+#endif
-+#define GOT_MACHINE 1
-+
-+#include <fcntl.h>
-+#include <sys/types.h> /* for unbuffered file I/O */
-+#include <sys/stat.h>
-+#include <unistd.h>
-+#include <ctype.h> /* for character macros */
-+
-+#define DF_MT DFMT_RISCV64
-+
-+typedef void VOID;
-+typedef void * VOIDP;
-+typedef char * _fcd;
-+typedef char char8;
-+typedef unsigned char uchar8;
-+typedef signed char int8;
-+typedef unsigned char uint8;
-+typedef short int int16;
-+typedef unsigned short int uint16;
-+typedef int int32;
-+typedef unsigned int uint32;
-+typedef int intn;
-+typedef unsigned int uintn;
-+typedef float float32;
-+typedef double float64;
-+typedef int intf; /* size of INTEGERs in Fortran compiler */
-+typedef long hdf_pint_t; /* an integer the same size as a pointer */
-+#define FNAME_POST_UNDERSCORE
-+#define _fcdtocp(desc) (desc)
-+#define FILELIB UNIXBUFIO
-+
-+#ifndef BIG_LONGS
-+#define BIG_LONGS
-+#endif
-+
-+/* JPEG #define's - Look in the JPEG docs before changing - (Q) */
-+
-+/* Determine the memory manager we are going to use. Valid values are: */
-+/* MEM_DOS, MEM_ANSI, MEM_NAME, MEM_NOBS. See the JPEG docs for details on */
-+/* what each does */
-+#define JMEMSYS MEM_ANSI
-+#define HAVE_STDC
-+#define INCLUDES_ARE_ANSI
-+
-+#endif /* Linux/riscv64 */
-+
- #if defined(NEXT) || defined(NeXT)
-
- #ifndef NEXT
-@@ -932,7 +1401,11 @@ Please check your Makefile.
-
- #include <sys/file.h> /* for unbuffered i/o stuff */
- #include <sys/stat.h>
--#define DF_MT DFMT_POWERPC64
-+#ifdef __LITTLE_ENDIAN__
-+#define DF_MT DFMT_POWERPC64LE
-+#else
-+#define DF_MT DFMT_POWERPC64
-+#endif
- typedef void VOID;
- typedef void *VOIDP;
- typedef char *_fcd;
-@@ -956,6 +1429,11 @@ typedef long hdf_pint_t;
- #define _fcdtocp(desc) (desc)
- #define FILELIB UNIXBUFIO
-
-+#ifndef BIG_LONGS
-+#define BIG_LONGS
-+#endif
-+
-+
- /* JPEG #define's - Look in the JPEG docs before changing - (Q) */
-
- /* Determine the memory manager we are going to use. Valid values are: */
-@@ -1101,6 +1579,8 @@ typedef long hdf_pint_t;
- #define _fcdtocp(desc) (desc)
- #define FILELIB UNIXBUFIO
-
-+#define BIG_LONGS
-+
- /* JPEG #define's - Look in the JPEG docs before changing - (Q) */
-
- /* Determine the memory manager we are going to use. Valid values are: */
-@@ -1115,6 +1595,66 @@ typedef long hdf_pint_t;
-
- #endif /* IA64 */
-
-+/* Renesas SuperH SH3(little/big)/SH4(little/big) */
-+#if defined (__linux__) && defined(__sh__)
-+
-+#ifdef GOT_MACHINE
-+If you get an error on this line more than one machine type has been defined.
-+Please check your Makefile.
-+#endif
-+#define GOT_MACHINE 1
-+
-+#include <fcntl.h>
-+#include <sys/types.h> /* for unbuffered file I/O */
-+#include <sys/stat.h>
-+#include <unistd.h>
-+#include <ctype.h> /* for character macros */
-+
-+#if defined (__LITTLE_ENDIAN__)
-+#define DF_MT DFMT_SH
-+#elif defined(__BIG_ENDIAN__)
-+#define DF_MT DFMT_SHEB
-+#endif
-+
-+#ifndef VOID /* The stupid windows.h header file uses a #define instead of a typedef */
-+typedef void VOID;
-+#endif /* end VOID */
-+
-+typedef void * VOIDP;
-+typedef char * _fcd;
-+typedef char char8;
-+typedef unsigned char uchar8;
-+typedef signed char int8;
-+typedef unsigned char uint8;
-+typedef short int int16;
-+typedef unsigned short int uint16;
-+typedef long int int32;
-+typedef unsigned long int uint32;
-+typedef int intn;
-+typedef unsigned int uintn;
-+typedef float float32;
-+typedef double float64;
-+typedef long intf;
-+typedef int hdf_pint_t;
-+#define FNAME_POST_UNDERSCORE
-+#define _fcdtocp(desc) (desc)
-+
-+#ifdef HAVE_FMPOOL
-+#define FILELIB PAGEBUFIO /* enable page buffering */
-+#else
-+#define FILELIB UNIXBUFIO
-+#endif
-+
-+/* JPEG #define's - Look in the JPEG docs before changing - (Q) */
-+/* Determine the memory manager we are going to use. Valid values are: */
-+/* MEM_DOS, MEM_ANSI, MEM_NAME, MEM_NOBS. See the JPEG docs for details on */
-+/* what each does */
-+#define JMEMSYS MEM_ANSI
-+#define HAVE_STDC
-+#define INCLUDES_ARE_ANSI
-+
-+#endif /* Linux/sh */
-+
- #ifndef GOT_MACHINE
- No machine type has been defined. Your Makefile needs to have someing like
- -DSUN or -DUNICOS in order for the HDF internal structures to be defined
---- a/hdf/src/hconv.h
-+++ b/hdf/src/hconv.h
-@@ -59,7 +59,7 @@
- /* CONSTANT DEFINITIONS */
- /*****************************************************************************/
- /* Generally Big-Endian machines */
--#if !defined(INTEL86) && !defined(MIPSEL) && !defined(DEC_ALPHA) && !defined(I860) && !defined(SUN386) && !(defined(__ia64) && !(defined(hpux) || defined(__hpux))) && !defined(__x86_64__)
-+#if !defined(INTEL86) && !defined(MIPSEL) && !defined(DEC_ALPHA) && !defined(I860) && !defined(SUN386) && !(defined(__ia64) && !(defined(hpux) || defined(__hpux))) && !defined(__x86_64__) && !(defined(__powerpc__) && defined(__LITTLE_ENDIAN__)) && !defined(__aarch64__) && !defined(__ARM_EABI__) && !defined(__riscv)
- # define UI8_IN DFKnb1b /* Unsigned Integer, 8 bits */
- # define UI8_OUT DFKnb1b
- # define SI16_IN DFKnb2b /* S = Signed */
diff --git a/gnu/packages/patches/hdf4-tirpc.patch b/gnu/packages/patches/hdf4-tirpc.patch
deleted file mode 100644
index 3f436e3887..0000000000
--- a/gnu/packages/patches/hdf4-tirpc.patch
+++ /dev/null
@@ -1,33 +0,0 @@
-Build with libtirpc on all architectures because glibc no longer provides
-SunRPC support.
-
-diff --git a/configure b/configure
---- a/configure
-+++ b/configure
-@@ -23635,10 +23635,13 @@
- *-pc-cygwin*)
- LIBS="$LIBS -ltirpc"
- CPPFLAGS="$CPPFLAGS -I/usr/include/tirpc" ;;
-+ *-linux-gnu)
-+ LIBS="$LIBS -ltirpc"
-+ CPPFLAGS="$CPPFLAGS" ;;
- *) ;;
- esac
-
--if test "X$BUILD_XDR" != "Xyes"; then
-+if test "X$BUILD_XDR" = "Xyes"; then
- cat confdefs.h - <<_ACEOF >conftest.$ac_ext
- /* end confdefs.h. */
-
-@@ -23693,9 +23696,9 @@
- ## but we need to make sure that it is present on the system. Do that here,
- ## The SunRPC of the glibc has been replaced by a TI-RPC (Transport Independent RPC) library for IPv6 support
- case "$host" in
-- *-pc-cygwin*)
-+ *)
- HAVE_RPC="yes"
-- ac_fn_c_check_header_mongrel "$LINENO" "rpc.h" "ac_cv_header_rpc_h" "$ac_includes_default"
-+ ac_fn_c_check_header_mongrel "$LINENO" "rpc/rpc.h" "ac_cv_header_rpc_h" "$ac_includes_default"
- if test "x$ac_cv_header_rpc_h" = xyes; then :
- :
- else
diff --git a/gnu/packages/patches/iputils-libcap-compat.patch b/gnu/packages/patches/iputils-libcap-compat.patch
deleted file mode 100644
index dc6da310ce..0000000000
--- a/gnu/packages/patches/iputils-libcap-compat.patch
+++ /dev/null
@@ -1,37 +0,0 @@
-Fix name clash with libcap 2.29.
-
-Taken from upstream:
-https://github.com/iputils/iputils/commit/18f9a84e0e702841d6cc4d5f593de4fbd1348e83
-
-diff --git a/ninfod/ninfod.c b/ninfod/ninfod.c
---- a/ninfod/ninfod.c
-+++ b/ninfod/ninfod.c
-@@ -455,7 +455,7 @@ static void do_daemonize(void)
- /* --------- */
- #ifdef HAVE_LIBCAP
- static const cap_value_t cap_net_raw = CAP_NET_RAW;
--static const cap_value_t cap_setuid = CAP_SETUID;
-+static const cap_value_t cap_setuserid = CAP_SETUID;
- static cap_flag_value_t cap_ok;
- #else
- static uid_t euid;
-@@ -487,7 +487,7 @@ static void limit_capabilities(void)
-
- cap_get_flag(cap_cur_p, CAP_SETUID, CAP_PERMITTED, &cap_ok);
- if (cap_ok != CAP_CLEAR)
-- cap_set_flag(cap_p, CAP_PERMITTED, 1, &cap_setuid, CAP_SET);
-+ cap_set_flag(cap_p, CAP_PERMITTED, 1, &cap_setuserid, CAP_SET);
-
- if (cap_set_proc(cap_p) < 0) {
- DEBUG(LOG_ERR, "cap_set_proc: %s\n", strerror(errno));
-@@ -520,8 +520,8 @@ static void drop_capabilities(void)
-
- /* setuid / setuid */
- if (cap_ok != CAP_CLEAR) {
-- cap_set_flag(cap_p, CAP_PERMITTED, 1, &cap_setuid, CAP_SET);
-- cap_set_flag(cap_p, CAP_EFFECTIVE, 1, &cap_setuid, CAP_SET);
-+ cap_set_flag(cap_p, CAP_PERMITTED, 1, &cap_setuserid, CAP_SET);
-+ cap_set_flag(cap_p, CAP_EFFECTIVE, 1, &cap_setuserid, CAP_SET);
-
- if (cap_set_proc(cap_p) < 0) {
- DEBUG(LOG_ERR, "cap_set_proc: %s\n", strerror(errno));
diff --git a/gnu/packages/patches/kwin-unwrap-executable-name-for-dot-desktop-search.patch b/gnu/packages/patches/kwin-unwrap-executable-name-for-dot-desktop-search.patch
new file mode 100644
index 0000000000..8f67553138
--- /dev/null
+++ b/gnu/packages/patches/kwin-unwrap-executable-name-for-dot-desktop-search.patch
@@ -0,0 +1,89 @@
+origin patch from nixos.
+
+see https://github.com/NixOS/nixpkgs/blob/2457551a54ffbd93b7d8f84af8b8fb3aac5cbdd5/pkgs/desktops/plasma-5/kwin/0001-NixOS-Unwrap-executable-name-for-.desktop-search.patch
+
+---
+ src/guix_utils.h | 41 +++++++++++++++++++++++++++++++++++++++++
+ src/service_utils.h | 4 +++-
+ src/waylandwindow.cpp | 5 ++++-
+ 3 files changed, 48 insertions(+), 2 deletions(-)
+ create mode 100644 src/guix_utils.h
+
+diff a/src/guix_utils.h b/src/guix_utils.h
+new file mode 100644
+index 0000000..726065d
+--- /dev/null
++++ b/src/guix_utils.h
+@@ -0,0 +1,24 @@
++#ifndef GUIX_UTILS_H
++#define GUIX_UTILS_H
++
++// kwin
++#include <kwinglobals.h>
++
++namespace KWin
++{
++
++static QString unwrapExecutablePath(const QString &in_executablePath)
++{
++ QString executablePath(in_executablePath);
++
++ while (executablePath.endsWith("-real") && executablePath[executablePath.lastIndexOf("/")+1] == QChar('.')) {
++ executablePath.remove(executablePath.length() - 5, 5);
++ executablePath.remove(executablePath.lastIndexOf("/")+1, 1);
++ }
++
++ return executablePath;
++}
++
++}// namespace
++
++#endif // GUIX_UTILS_H
+diff a/src/utils/serviceutils.h b/src/utils/serviceutils.h
+index 8a70c1f..475b15d 100644
+--- a/src/utils/serviceutils.h
++++ b/src/utils/serviceutils.h
+@@ -19,6 +19,7 @@
+ #include <QLoggingCategory>
+ //KF
+ #include <KApplicationTrader>
++#include "guix_utils.h"
+
+ namespace KWin
+ {
+@@ -26,8 +27,9 @@ namespace KWin
+ const static QString s_waylandInterfaceName = QStringLiteral("X-KDE-Wayland-Interfaces");
+ const static QString s_dbusRestrictedInterfaceName = QStringLiteral("X-KDE-DBUS-Restricted-Interfaces");
+
+-static QStringList fetchProcessServiceField(const QString &executablePath, const QString &fieldName)
++static QStringList fetchProcessServiceField(const QString &in_executablePath, const QString &fieldName)
+ {
++ const QString executablePath = unwrapExecutablePath(in_executablePath);
+ // needed to be able to use the logging category in a header static function
+ static QLoggingCategory KWIN_UTILS ("KWIN_UTILS", QtWarningMsg);
+ const auto servicesFound = KApplicationTrader::query([&executablePath] (const KService::Ptr &service) {
+diff a/src/waylandwindow.cpp b/src/waylandwindow.cpp
+index fd2c0c1..ae8cf96 100644
+--- a/src/waylandwindow.cpp
++++ b/src/waylandwindow.cpp
+@@ -10,6 +10,7 @@
+ #include "screens.h"
+ #include "wayland_server.h"
+ #include "workspace.h"
++#include "guix_utils.h"
+
+ #include <KWaylandServer/display.h>
+ #include <KWaylandServer/clientbuffer.h>
+@@ -173,7 +174,9 @@ void WaylandWindow::updateIcon()
+
+ void WaylandWindow::updateResourceName()
+ {
+- const QFileInfo fileInfo(surface()->client()->executablePath());
++ const QString in_path = surface()->client()->executablePath();
++ const QString path = unwrapExecutablePath(in_path);
++ const QFileInfo fileInfo(path);
+ if (fileInfo.exists()) {
+ const QByteArray executableFileName = fileInfo.fileName().toUtf8();
+ setResourceClass(executableFileName, executableFileName);
+--
+2.32.0 \ No newline at end of file
diff --git a/gnu/packages/patches/libftdi-fix-paths-when-FTDIPP-set.patch b/gnu/packages/patches/libftdi-fix-paths-when-FTDIPP-set.patch
new file mode 100644
index 0000000000..0a81cceb26
--- /dev/null
+++ b/gnu/packages/patches/libftdi-fix-paths-when-FTDIPP-set.patch
@@ -0,0 +1,39 @@
+commit cdb28383402d248dbc6062f4391b038375c52385
+Author: Fabrice Fontaine <fontaine.fabrice@gmail.com>
+Date: Fri Jul 17 21:25:03 2020 +0200
+
+ CMakeLists.txt: fix paths when FTDIPP is set
+
+ Use the same project name (i.e. libftdi1 and not libftdipp1) when FTDIPP
+ is enabled as suggested by Aurelien Jarno in
+ http://developer.intra2net.com/mailarchive/html/libftdi/2020/msg00044.html
+
+ Without this change, the libftdi1.pc config file defines the include
+ path as /usr/local/include/libftdipp1 while the ftdi.h file is actually
+ installed in /usr/local/include/libftdi1
+
+ This is an issue for example for libsigrok which will fail on:
+
+ In file included from src/hardware/asix-sigma/protocol.c:27:
+ src/hardware/asix-sigma/protocol.h:28:10: fatal error: ftdi.h: No such file or directory
+ 28 | #include <ftdi.h>
+ | ^~~~~~~~
+
+ Fixes:
+ - http://autobuild.buildroot.org/results/1427f44e36752c337791597fab47a1889552a2fe
+
+ Signed-off-by: Fabrice Fontaine <fontaine.fabrice@gmail.com>
+
+diff --git a/CMakeLists.txt b/CMakeLists.txt
+index 5aecafc..3b0b87c 100644
+--- a/CMakeLists.txt
++++ b/CMakeLists.txt
+@@ -136,7 +136,7 @@ endif ()
+
+ add_subdirectory(src)
+ if ( FTDIPP )
+- project(libftdipp1 C CXX)
++ project(libftdi1 C CXX)
+ add_subdirectory(ftdipp)
+ endif ()
+ if ( PYTHON_BINDINGS )
diff --git a/gnu/packages/patches/nanosvg-prusa-slicer.patch b/gnu/packages/patches/nanosvg-prusa-slicer.patch
new file mode 100644
index 0000000000..dc11e9365c
--- /dev/null
+++ b/gnu/packages/patches/nanosvg-prusa-slicer.patch
@@ -0,0 +1,248 @@
+From abcd277ea45e9098bed752cf9c6875b533c0892f Mon Sep 17 00:00:00 2001
+From: AlbrechtS <AlbrechtS.svn@fltk.example.org>
+Date: Sun, 4 Feb 2018 23:47:38 +0100
+Subject: [PATCH] Modify rasterizer to support non-square X,Y axes scaling.
+
+Add new function nsvgRasterizeXY() similar to nsvgRasterize() but with
+separate scaling factors for x-axis and y-axis.
+---
+ src/nanosvgrast.h | 78 +++++++++++++++++++++++++++++++----------------
+ 1 file changed, 51 insertions(+), 27 deletions(-)
+
+diff --git a/src/nanosvgrast.h b/src/nanosvgrast.h
+index 17ba3b0..a83db27 100644
+--- a/src/nanosvgrast.h
++++ b/src/nanosvgrast.h
+@@ -22,6 +22,12 @@
+ *
+ */
+
++/* Modified by FLTK to support non-square X,Y axes scaling.
++ *
++ * Added: nsvgRasterizeXY()
++*/
++
++
+ #ifndef NANOSVGRAST_H
+ #define NANOSVGRAST_H
+
+@@ -46,6 +52,9 @@ typedef struct NSVGrasterizer NSVGrasterizer;
+ unsigned char* img = malloc(w*h*4);
+ // Rasterize
+ nsvgRasterize(rast, image, 0,0,1, img, w, h, w*4);
++
++ // For non-square X,Y scaling, use
++ nsvgRasterizeXY(rast, image, 0,0,1,1, img, w, h, w*4);
+ */
+
+ // Allocated rasterizer context.
+@@ -55,7 +64,7 @@ NSVGrasterizer* nsvgCreateRasterizer(void);
+ // r - pointer to rasterizer context
+ // image - pointer to image to rasterize
+ // tx,ty - image offset (applied after scaling)
+-// scale - image scale
++// scale - image scale (assumes square aspect ratio)
+ // dst - pointer to destination image data, 4 bytes per pixel (RGBA)
+ // w - width of the image to render
+ // h - height of the image to render
+@@ -64,6 +73,12 @@ void nsvgRasterize(NSVGrasterizer* r,
+ NSVGimage* image, float tx, float ty, float scale,
+ unsigned char* dst, int w, int h, int stride);
+
++// As above, but allow X and Y axes to scale independently for non-square aspects
++void nsvgRasterizeXY(NSVGrasterizer* r,
++ NSVGimage* image, float tx, float ty,
++ float sx, float sy,
++ unsigned char* dst, int w, int h, int stride);
++
+ // Deletes rasterizer context.
+ void nsvgDeleteRasterizer(NSVGrasterizer*);
+
+@@ -370,7 +385,7 @@ static void nsvg__flattenCubicBez(NSVGrasterizer* r,
+ nsvg__flattenCubicBez(r, x1234,y1234, x234,y234, x34,y34, x4,y4, level+1, type);
+ }
+
+-static void nsvg__flattenShape(NSVGrasterizer* r, NSVGshape* shape, float scale)
++static void nsvg__flattenShape(NSVGrasterizer* r, NSVGshape* shape, float sx, float sy)
+ {
+ int i, j;
+ NSVGpath* path;
+@@ -378,13 +393,13 @@ static void nsvg__flattenShape(NSVGrasterizer* r, NSVGshape* shape, float scale)
+ for (path = shape->paths; path != NULL; path = path->next) {
+ r->npoints = 0;
+ // Flatten path
+- nsvg__addPathPoint(r, path->pts[0]*scale, path->pts[1]*scale, 0);
++ nsvg__addPathPoint(r, path->pts[0]*sx, path->pts[1]*sy, 0);
+ for (i = 0; i < path->npts-1; i += 3) {
+ float* p = &path->pts[i*2];
+- nsvg__flattenCubicBez(r, p[0]*scale,p[1]*scale, p[2]*scale,p[3]*scale, p[4]*scale,p[5]*scale, p[6]*scale,p[7]*scale, 0, 0);
++ nsvg__flattenCubicBez(r, p[0]*sx,p[1]*sy, p[2]*sx,p[3]*sy, p[4]*sx,p[5]*sy, p[6]*sx,p[7]*sy, 0, 0);
+ }
+ // Close path
+- nsvg__addPathPoint(r, path->pts[0]*scale, path->pts[1]*scale, 0);
++ nsvg__addPathPoint(r, path->pts[0]*sx, path->pts[1]*sy, 0);
+ // Build edges
+ for (i = 0, j = r->npoints-1; i < r->npoints; j = i++)
+ nsvg__addEdge(r, r->points[j].x, r->points[j].y, r->points[i].x, r->points[i].y);
+@@ -734,7 +749,7 @@ static void nsvg__prepareStroke(NSVGrasterizer* r, float miterLimit, int lineJoi
+ }
+ }
+
+-static void nsvg__flattenShapeStroke(NSVGrasterizer* r, NSVGshape* shape, float scale)
++static void nsvg__flattenShapeStroke(NSVGrasterizer* r, NSVGshape* shape, float sx, float sy)
+ {
+ int i, j, closed;
+ NSVGpath* path;
+@@ -742,15 +757,16 @@ static void nsvg__flattenShapeStroke(NSVGrasterizer* r, NSVGshape* shape, float
+ float miterLimit = shape->miterLimit;
+ int lineJoin = shape->strokeLineJoin;
+ int lineCap = shape->strokeLineCap;
+- float lineWidth = shape->strokeWidth * scale;
++ const float sw = (sx + sy) / 2; // average scaling factor
++ const float lineWidth = shape->strokeWidth * sw; // FIXME (?)
+
+ for (path = shape->paths; path != NULL; path = path->next) {
+ // Flatten path
+ r->npoints = 0;
+- nsvg__addPathPoint(r, path->pts[0]*scale, path->pts[1]*scale, NSVG_PT_CORNER);
++ nsvg__addPathPoint(r, path->pts[0]*sx, path->pts[1]*sy, NSVG_PT_CORNER);
+ for (i = 0; i < path->npts-1; i += 3) {
+ float* p = &path->pts[i*2];
+- nsvg__flattenCubicBez(r, p[0]*scale,p[1]*scale, p[2]*scale,p[3]*scale, p[4]*scale,p[5]*scale, p[6]*scale,p[7]*scale, 0, NSVG_PT_CORNER);
++ nsvg__flattenCubicBez(r, p[0]*sx,p[1]*sy, p[2]*sx,p[3]*sy, p[4]*sx,p[5]*sy, p[6]*sx,p[7]*sy, 0, NSVG_PT_CORNER);
+ }
+ if (r->npoints < 2)
+ continue;
+@@ -796,7 +812,7 @@ static void nsvg__flattenShapeStroke(NSVGrasterizer* r, NSVGshape* shape, float
+ dashOffset -= shape->strokeDashArray[idash];
+ idash = (idash + 1) % shape->strokeDashCount;
+ }
+- dashLen = (shape->strokeDashArray[idash] - dashOffset) * scale;
++ dashLen = (shape->strokeDashArray[idash] - dashOffset) * sw;
+
+ for (j = 1; j < r->npoints2; ) {
+ float dx = r->points2[j].x - cur.x;
+@@ -818,7 +834,7 @@ static void nsvg__flattenShapeStroke(NSVGrasterizer* r, NSVGshape* shape, float
+ // Advance dash pattern
+ dashState = !dashState;
+ idash = (idash+1) % shape->strokeDashCount;
+- dashLen = shape->strokeDashArray[idash] * scale;
++ dashLen = shape->strokeDashArray[idash] * sw;
+ // Restart
+ cur.x = x;
+ cur.y = y;
+@@ -987,7 +1003,7 @@ static inline int nsvg__div255(int x)
+ }
+
+ static void nsvg__scanlineSolid(unsigned char* dst, int count, unsigned char* cover, int x, int y,
+- float tx, float ty, float scale, NSVGcachedPaint* cache)
++ float tx, float ty, float sx, float sy, NSVGcachedPaint* cache)
+ {
+
+ if (cache->type == NSVG_PAINT_COLOR) {
+@@ -1028,9 +1044,9 @@ static void nsvg__scanlineSolid(unsigned char* dst, int count, unsigned char* co
+ int i, cr, cg, cb, ca;
+ unsigned int c;
+
+- fx = ((float)x - tx) / scale;
+- fy = ((float)y - ty) / scale;
+- dx = 1.0f / scale;
++ fx = ((float)x - tx) / sx;
++ fy = ((float)y - ty) / sy;
++ dx = 1.0f / sx;
+
+ for (i = 0; i < count; i++) {
+ int r,g,b,a,ia;
+@@ -1073,9 +1089,9 @@ static void nsvg__scanlineSolid(unsigned char* dst, int count, unsigned char* co
+ int i, cr, cg, cb, ca;
+ unsigned int c;
+
+- fx = ((float)x - tx) / scale;
+- fy = ((float)y - ty) / scale;
+- dx = 1.0f / scale;
++ fx = ((float)x - tx) / sx;
++ fy = ((float)y - ty) / sy;
++ dx = 1.0f / sx;
+
+ for (i = 0; i < count; i++) {
+ int r,g,b,a,ia;
+@@ -1114,7 +1130,7 @@ static void nsvg__scanlineSolid(unsigned char* dst, int count, unsigned char* co
+ }
+ }
+
+-static void nsvg__rasterizeSortedEdges(NSVGrasterizer *r, float tx, float ty, float scale, NSVGcachedPaint* cache, char fillRule)
++static void nsvg__rasterizeSortedEdges(NSVGrasterizer *r, float tx, float ty, float sx, float sy, NSVGcachedPaint* cache, char fillRule)
+ {
+ NSVGactiveEdge *active = NULL;
+ int y, s;
+@@ -1196,7 +1212,7 @@ static void nsvg__rasterizeSortedEdges(NSVGrasterizer *r, float tx, float ty, fl
+ if (xmin < 0) xmin = 0;
+ if (xmax > r->width-1) xmax = r->width-1;
+ if (xmin <= xmax) {
+- nsvg__scanlineSolid(&r->bitmap[y * r->stride] + xmin*4, xmax-xmin+1, &r->scanline[xmin], xmin, y, tx,ty, scale, cache);
++ nsvg__scanlineSolid(&r->bitmap[y * r->stride] + xmin*4, xmax-xmin+1, &r->scanline[xmin], xmin, y, tx,ty, sx, sy, cache);
+ }
+ }
+
+@@ -1364,8 +1380,9 @@ static void dumpEdges(NSVGrasterizer* r, const char* name)
+ }
+ */
+
+-void nsvgRasterize(NSVGrasterizer* r,
+- NSVGimage* image, float tx, float ty, float scale,
++void nsvgRasterizeXY(NSVGrasterizer* r,
++ NSVGimage* image, float tx, float ty,
++ float sx, float sy,
+ unsigned char* dst, int w, int h, int stride)
+ {
+ NSVGshape *shape = NULL;
+@@ -1396,7 +1413,7 @@ void nsvgRasterize(NSVGrasterizer* r,
+ r->freelist = NULL;
+ r->nedges = 0;
+
+- nsvg__flattenShape(r, shape, scale);
++ nsvg__flattenShape(r, shape, sx, sy);
+
+ // Scale and translate edges
+ for (i = 0; i < r->nedges; i++) {
+@@ -1414,14 +1431,14 @@ void nsvgRasterize(NSVGrasterizer* r,
+ // now, traverse the scanlines and find the intersections on each scanline, use non-zero rule
+ nsvg__initPaint(&cache, &shape->fill, shape->opacity);
+
+- nsvg__rasterizeSortedEdges(r, tx,ty,scale, &cache, shape->fillRule);
++ nsvg__rasterizeSortedEdges(r, tx,ty, sx, sy, &cache, shape->fillRule);
+ }
+- if (shape->stroke.type != NSVG_PAINT_NONE && (shape->strokeWidth * scale) > 0.01f) {
++ if (shape->stroke.type != NSVG_PAINT_NONE && (shape->strokeWidth * sx) > 0.01f) {
+ nsvg__resetPool(r);
+ r->freelist = NULL;
+ r->nedges = 0;
+
+- nsvg__flattenShapeStroke(r, shape, scale);
++ nsvg__flattenShapeStroke(r, shape, sx, sy);
+
+ // dumpEdges(r, "edge.svg");
+
+@@ -1441,7 +1458,7 @@ void nsvgRasterize(NSVGrasterizer* r,
+ // now, traverse the scanlines and find the intersections on each scanline, use non-zero rule
+ nsvg__initPaint(&cache, &shape->stroke, shape->opacity);
+
+- nsvg__rasterizeSortedEdges(r, tx,ty,scale, &cache, NSVG_FILLRULE_NONZERO);
++ nsvg__rasterizeSortedEdges(r, tx,ty,sx, sy, &cache, NSVG_FILLRULE_NONZERO);
+ }
+ }
+
+@@ -1453,6 +1470,13 @@ void nsvgRasterize(NSVGrasterizer* r,
+ r->stride = 0;
+ }
+
++void nsvgRasterize(NSVGrasterizer* r,
++ NSVGimage* image, float tx, float ty, float scale,
++ unsigned char* dst, int w, int h, int stride)
++{
++ nsvgRasterizeXY(r,image, tx, ty, scale, scale, dst, w, h, stride);
++}
++
+ #endif // NANOSVGRAST_IMPLEMENTATION
+
+ #endif // NANOSVGRAST_H
diff --git a/gnu/packages/patches/python-pyflakes-test-location.patch b/gnu/packages/patches/python-pyflakes-test-location.patch
deleted file mode 100644
index ea2c50c82e..0000000000
--- a/gnu/packages/patches/python-pyflakes-test-location.patch
+++ /dev/null
@@ -1,42 +0,0 @@
-This patch fixes test failure related to reported source code locations.
-It is a backport of this patch:
-
- commit 6a5f38b5ab12260fde8a0463acd433bc2d34dbcf
- Author: Louis Sautier <sautier.louis@gmail.com>
- Date: Sat Oct 3 02:37:53 2020 +0200
-
- Fix tests with Python 3.9, closes #549 (#586)
-
- Stop allowing failures on Python nightly.
-
-diff --git a/pyflakes/test/test_api.py b/pyflakes/test/test_api.py
-index 128aa69..b728e65 100644
---- a/pyflakes/test/test_api.py
-+++ b/pyflakes/test/test_api.py
-@@ -515,6 +515,8 @@ def foo(bar=baz, bax):
- if ERROR_HAS_LAST_LINE:
- if PYPY and sys.version_info >= (3,):
- column = 7
-+ elif sys.version_info >= (3, 9):
-+ column = 21
- elif sys.version_info >= (3, 8):
- column = 9
- else:
-@@ -543,6 +545,8 @@ foo(bar=baz, bax)
- if ERROR_HAS_LAST_LINE:
- if PYPY and sys.version_info >= (3,):
- column = 12
-+ elif sys.version_info >= (3, 9):
-+ column = 17
- elif sys.version_info >= (3, 8):
- column = 14
- else:
-@@ -577,6 +581,8 @@ foo(bar=baz, bax)
- position_end = 1
- if PYPY:
- column = 6
-+ elif ver >= (3, 9):
-+ column = 13
- else:
- column = 7
- # Column has been "fixed" since 3.2.4 and 3.3.1
diff --git a/gnu/packages/patches/racket-backport-8.10-rktboot.patch b/gnu/packages/patches/racket-backport-8.10-rktboot.patch
new file mode 100644
index 0000000000..834001bd83
--- /dev/null
+++ b/gnu/packages/patches/racket-backport-8.10-rktboot.patch
@@ -0,0 +1,130 @@
+From 5446e36e0685ec5c7b4f812dec5bf7959db4f906 Mon Sep 17 00:00:00 2001
+From: Efraim Flashner <efraim@flashner.co.il>
+Date: Thu, 20 Jul 2023 15:56:21 +0300
+Subject: [PATCH 1/2] rktboot: Add support for riscv64.
+
+(cherry picked from commit f80c5d001d5235556ae9cde617b1e3a1322d0505)
+---
+ racket/src/rktboot/machine-def.rkt | 1 +
+ 1 file changed, 1 insertion(+)
+
+diff --git a/racket/src/rktboot/machine-def.rkt b/racket/src/rktboot/machine-def.rkt
+index 8ff0688652..59ebfc88d8 100644
+--- a/racket/src/rktboot/machine-def.rkt
++++ b/racket/src/rktboot/machine-def.rkt
+@@ -25,6 +25,7 @@
+ [(regexp-match? #rx"^t?arm32" target-machine) "arm32"]
+ [(regexp-match? #rx"^t?arm64" target-machine) "arm64"]
+ [(regexp-match? #rx"^t?ppc32" target-machine) "ppc32"]
++ [(regexp-match? #rx"^t?rv64" target-machine) "rv64"]
+ [(regexp-match? #rx"^t?pb" target-machine) "pb"]
+ [else (error "machine.def: cannot infer architecture")]))]
+ [s (regexp-replace* #rx"[$][(]Mend[)]" s
+
+base-commit: b10ecfb8311fca2d42636eea2ca12aff0b76b208
+--
+2.41.0
+
+
+From 6261c3582c386e770d654ca6a36f112834f35aef Mon Sep 17 00:00:00 2001
+From: Philip McGrath <philip@philipmcgrath.com>
+Date: Sun, 16 Jul 2023 15:47:14 -0400
+Subject: [PATCH 2/2] rktboot: improve machene type inference
+
+Related to https://issues.guix.gnu.org/62231
+Related to https://github.com/racket/racket/issues/3948
+
+(cherry picked from commit 005488491cee89e7db38109de4c9dcf2d8d5aef0)
+---
+ racket/src/rktboot/config.rkt | 73 +++++++++++++++++++++++++++++------
+ 1 file changed, 61 insertions(+), 12 deletions(-)
+
+diff --git a/racket/src/rktboot/config.rkt b/racket/src/rktboot/config.rkt
+index 7a969017ed..2b411e002c 100644
+--- a/racket/src/rktboot/config.rkt
++++ b/racket/src/rktboot/config.rkt
+@@ -15,20 +15,69 @@
+ (path->complete-path scheme-dir))))))
+ (hash-set! ht 'make-boot-scheme-dir scheme-dir)
+
++(define (infer-target-machine)
++ ;; Compute a native or pbarch machine string for the current platform.
++ ;; Some caveats:
++ ;; 1. A pbarch Racket will always infer a pbarch machine,
++ ;; even if a native machine exists. Hopefully this is an
++ ;; unlikely scenario: if you're running Racket CS, you've
++ ;; bootstrapped Chez somehow, so you could use `re.boot`.
++ ;; 2. A `tpb` or `pb` Racket on a 32-bit platform would still return
++ ;; 64 from `(system-type 'word)`, but, in addition to the above,
++ ;; it is not currently possible or desired to build Racket as
++ ;; `tpb` or `pb` (as opposed to pbarch variants):
++ ;; see <https://github.com/racket/racket/issues/4692>.
++ ;; 3. On a hypothetical platform where Chez supported both the
++ ;; architecture and the OS, but not the combination of the two,
++ ;; (e.g. riscv64 Windows) this code would currently return a
++ ;; non-existent native machine (e.g. trv64nt) instead of a
++ ;; working pbarch machine. Presumably this could be fixed if
++ ;; such a platform came into existence.
++ (define s (path->string (system-library-subpath #f)))
++ (define arch+os
++ (cond
++ [(regexp-match #rx"^([^\\]+)\\\\([^\\]+)$" s)
++ => (λ (m)
++ (reverse (cdr m)))]
++ [(regexp-match #rx"^([^-]+)-(.+)$" s)
++ => cdr]
++ [else
++ (error 'infer-target-machine "unknown format for system library subpath"
++ "produced" (system-library-subpath #f))]))
++ (define arch
++ (case (car arch+os)
++ [("x86_64" "amd64") "a6"] ; https://github.com/racket/racket/issues/4691
++ [("i386") "i3"]
++ [("aarch64") "arm64"]
++ [("arm") "arm32"]
++ [("ppc") "ppc32"]
++ [("riscv64") "rv64"]
++ [("unknown") #f] ; pb machine types
++ [else #f]))
++ (define os
++ (case (cadr arch+os)
++ [("macosx" "darwin" "ios") "osx"]
++ [("win32" "cygwin") "nt"]
++ [("linux" "android") "le"]
++ [("gnu-hurd") "gnu"]
++ [("freebsd") "fb"]
++ [("openbsd") "ob"]
++ [("netbsd") "nb"]
++ [("solaris") "s2"] ; NOT "sunos4" (I think)
++ [("qnx") "qnx"]
++ [("unknown") #f] ; pb machine types
++ [else #f]))
++ (if (and arch os)
++ (string-append "t" arch os)
++ (format "tpb~a~a"
++ (system-type 'word)
++ (if (system-big-endian?)
++ "b"
++ "l"))))
++
+ (define target-machine (or (hash-ref ht 'make-boot-targate-machine #f)
+ (getenv "MACH")
+- (case (system-type)
+- [(macosx) (if (eqv? 64 (system-type 'word))
+- "ta6osx"
+- "ti3osx")]
+- [(windows) (if (eqv? 64 (system-type 'word))
+- "ta6nt"
+- "ti3nt")]
+- [else
+- (case (path->string (system-library-subpath #f))
+- [("x86_64-linux") "ta6le"]
+- [("i386-linux") "ti3le"]
+- [else #f])])))
++ (infer-target-machine)))
+ (hash-set! ht 'make-boot-targate-machine target-machine)
+
+ (define optimize-level-init 3)
+--
+2.41.0
+
diff --git a/gnu/packages/patches/racket-rktboot-riscv64-support.patch b/gnu/packages/patches/racket-rktboot-riscv64-support.patch
deleted file mode 100644
index f268b1e7f8..0000000000
--- a/gnu/packages/patches/racket-rktboot-riscv64-support.patch
+++ /dev/null
@@ -1,15 +0,0 @@
-Submitted upstream:
-https://github.com/racket/racket/pull/4703
-
-diff --git a/racket/src/rktboot/machine-def.rkt b/racket/src/rktboot/machine-def.rkt
-index 8ff0688..59ebfc8 100644
---- a/racket/src/rktboot/machine-def.rkt
-+++ b/racket/src/rktboot/machine-def.rkt
-@@ -25,6 +25,7 @@
- [(regexp-match? #rx"^t?arm32" target-machine) "arm32"]
- [(regexp-match? #rx"^t?arm64" target-machine) "arm64"]
- [(regexp-match? #rx"^t?ppc32" target-machine) "ppc32"]
-+ [(regexp-match? #rx"^t?rv64" target-machine) "rv64"]
- [(regexp-match? #rx"^t?pb" target-machine) "pb"]
- [else (error "machine.def: cannot infer architecture")]))]
- [s (regexp-replace* #rx"[$][(]Mend[)]" s
diff --git a/gnu/packages/patches/tor-remove-defensive-assert.patch b/gnu/packages/patches/tor-remove-defensive-assert.patch
new file mode 100644
index 0000000000..7207ec867a
--- /dev/null
+++ b/gnu/packages/patches/tor-remove-defensive-assert.patch
@@ -0,0 +1,28 @@
+This patch removes a call to `tor_assert_nonfatal_unreached()` in
+`relay_key_is_unavailable_()` that is only called when Tor is compiled
+without relay support.
+
+Unfortunately, the non-fatal assertion causes a BUG log
+message to appear for clients when they start up without relay support
+for each CPU worker we spawn. This makes it spotting issues during
+bootstrap harder particularly for our iOS developers.
+
+Since the call sites to `get_master_identity_key()` handles `NULL`
+values already, we do not think this will be an issue later on.
+
+Reported by Benjamin Erhart (@tla) from Guardian Project.
+
+Fixes tpo/core/tor#40848.
+
+diff --git a/src/feature/relay/routerkeys.h b/src/feature/relay/routerkeys.h
+index 7b6d80773c..b97615a9c9 100644
+--- a/src/feature/relay/routerkeys.h
++++ b/src/feature/relay/routerkeys.h
+@@ -53,7 +53,6 @@ void routerkeys_free_all(void);
+ static inline void *
+ relay_key_is_unavailable_(void)
+ {
+- tor_assert_nonfatal_unreached();
+ return NULL;
+ }
+ #define relay_key_is_unavailable(type) \
diff --git a/gnu/packages/pdf.scm b/gnu/packages/pdf.scm
index e270bdf27f..b71add6f25 100644
--- a/gnu/packages/pdf.scm
+++ b/gnu/packages/pdf.scm
@@ -117,7 +117,7 @@
(define-public capypdf
(package
(name "capypdf")
- (version "0.4.0")
+ (version "0.5.0")
(source (origin
(method git-fetch)
(uri (git-reference
@@ -125,18 +125,14 @@
(commit version)))
(file-name (git-file-name name version))
(sha256
- (base32 "1kn46n3j5fygivmd6ldnv8vdwfv48ffaizq61yy4z9w2jm6fgxim"))))
+ (base32 "1mb3i0jq04gg5cm1l07mn9kal5s748miql97j6fpaf1x1j2lcrsx"))))
(build-system meson-build-system)
(arguments
(list #:meson meson/newer
+ #:configure-flags #~(list "-Dcpp_std=c++23")
#:test-options '(list "plainc")
#:phases
#~(modify-phases %standard-phases
- (add-after 'unpack 'add-missing-header
- (lambda _
- (substitute* "src/pdfgen.cpp"
- (("#include <cassert>" all)
- (string-append all "\n#include <unistd.h>")))))
(add-after 'unpack 'fix-glib-application-flags
(lambda _
;; XXX: remove when bumping glib
diff --git a/gnu/packages/perl.scm b/gnu/packages/perl.scm
index 6175a38365..8b82c272fc 100644
--- a/gnu/packages/perl.scm
+++ b/gnu/packages/perl.scm
@@ -76,7 +76,6 @@
#:use-module (gnu packages gd)
#:use-module (gnu packages gl)
#:use-module (gnu packages gtk)
- #:use-module (gnu packages hurd)
#:use-module (gnu packages image)
#:use-module (gnu packages language)
#:use-module (gnu packages less)
diff --git a/gnu/packages/piet.scm b/gnu/packages/piet.scm
index 824efe59de..0b16299482 100644
--- a/gnu/packages/piet.scm
+++ b/gnu/packages/piet.scm
@@ -1,6 +1,7 @@
;;; GNU Guix --- Functional package management for GNU
;;; Copyright © 2020 Jesse Gibbons <jgibbons2357+guix@gmail.com>
;;; Copyright © 2020 Tobias Geerinckx-Rice <me@tobias.gr>
+;;; Copyright © 2023 Zheng Junjie <873216071@qq.com>
;;;
;;; This file is part of GNU Guix.
;;;
@@ -20,6 +21,7 @@
(define-module (gnu packages piet)
#:use-module (guix packages)
#:use-module (guix download)
+ #:use-module (guix gexp)
#:use-module (guix git-download)
#:use-module ((guix licenses) #:prefix license:)
#:use-module (guix build-system gnu)
@@ -43,14 +45,17 @@
"0nl59fhdqqr7nslxdirdn8nvlq5wws67c7jyx2ckbmxbc9h8bv9d"))))
(build-system gnu-build-system)
(arguments
- `(#:phases
- (modify-phases %standard-phases
- (add-after 'install 'wrap-binaries
- (lambda* (#:key outputs #:allow-other-keys)
- (let ((out (assoc-ref outputs "out")))
- (wrap-program (string-append out "/bin/npietedit")
- `("PATH" ":" prefix (,(dirname (which "wish")))))
- #t))))))
+ (list #:phases
+ #~(modify-phases %standard-phases
+ (add-after 'install 'wrap-binaries
+ (lambda* (#:key inputs outputs #:allow-other-keys)
+ (let ((out (assoc-ref outputs "out")))
+ (wrap-program (string-append out
+ "/bin/npietedit")
+ `("PATH" ":" prefix
+ (,(dirname
+ (search-input-file
+ inputs "bin/wish")))))))))))
(inputs
(list gd giflib libpng tk))
(native-inputs (list groff))
diff --git a/gnu/packages/pulseaudio.scm b/gnu/packages/pulseaudio.scm
index ef4f8ba8cf..dd0d3985c0 100644
--- a/gnu/packages/pulseaudio.scm
+++ b/gnu/packages/pulseaudio.scm
@@ -385,16 +385,16 @@ volume levels of the sinks (get, set, decrease, increase, toggle mute, etc).")
(define-public pasystray
(package
(name "pasystray")
- (version "0.7.1")
+ (version "0.8.2")
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/christophgysin/pasystray")
- (commit (string-append name "-" version))))
+ (commit version)))
(file-name (git-file-name name version))
(sha256
- (base32 "0xx1bm9kimgq11a359ikabdndqg5q54pn1d1dyyjnrj0s41168fk"))))
+ (base32 "1zf79pfmm7wa1l9yyab2g6lf0j81v1mrp406262rd21g4prx1921"))))
(build-system gnu-build-system)
(arguments
`(#:phases
diff --git a/gnu/packages/python-check.scm b/gnu/packages/python-check.scm
index 87e15b4560..3a718954c5 100644
--- a/gnu/packages/python-check.scm
+++ b/gnu/packages/python-check.scm
@@ -1834,24 +1834,14 @@ supported by the MyPy typechecker.")
(define-public python-mypy
(package
(name "python-mypy")
- (version "0.971")
+ (version "1.4.1")
(source
(origin
- ;; Because of https://github.com/python/mypy/issues/9584, the
- ;; mypyc/analysis directory is missing in the PyPI archive, leading to
- ;; test failures.
- (method git-fetch)
- (uri (git-reference
- (url "https://github.com/python/mypy")
- (commit (string-append "v" version))
- ;; Fetch git submodules otherwise typeshed is not fetched.
- ;; Typeshed is a collection of Python sources type annotation
- ;; (data) files.
- (recursive? #t)))
- (file-name (git-file-name name version))
+ (method url-fetch)
+ (uri (pypi-uri "mypy" version))
(sha256
(base32
- "0i8swdynms1wpiprgqn24za6mx8rlgxr2jash3cb5xi8jyf58n97"))))
+ "06svfmqbnb45pydy8lcrr12wqhhla5dl888w0g4f3wm1ismxkg4v"))))
(build-system python-build-system)
(arguments
`(#:phases
@@ -1859,10 +1849,7 @@ supported by the MyPy typechecker.")
(replace 'check
(lambda* (#:key tests? #:allow-other-keys)
(when tests?
- (invoke "pytest" "-vv" "mypyc"
- ;; XXX: This test gets an unexpected DeprecationWarning
- ;; from recent versions of setuptools. Ignore for now.
- "-k" "not testImports")))))))
+ (invoke "pytest" "mypyc")))))))
(native-inputs
(list python-attrs
python-lxml
diff --git a/gnu/packages/python-web.scm b/gnu/packages/python-web.scm
index 93fd2d2278..12f0ce6208 100644
--- a/gnu/packages/python-web.scm
+++ b/gnu/packages/python-web.scm
@@ -3215,17 +3215,17 @@ HTTP via a UNIX domain socket.")
(define-public python-requests_ntlm
(package
(name "python-requests_ntlm")
- (version "1.1.0")
+ (version "1.2.0")
(source
(origin
(method url-fetch)
(uri (pypi-uri "requests_ntlm" version))
(sha256
(base32
- "0wgbqzaq9w7bas16b7brdb75f91bh3275fb459093bk1ihpck2ci"))))
+ "1a0np7lk8ma1plv1s4aw5q9h2z3aljprkl9qsfypqcaf0zsqbhik"))))
(build-system python-build-system)
(propagated-inputs
- (list python-cryptography python-ntlm-auth python-requests))
+ (list python-cryptography python-pyspnego python-requests))
(home-page "https://github.com/requests/requests-ntlm")
(synopsis
"NTLM authentication support for Requests")
diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm
index c0e4b62418..2230310a03 100644
--- a/gnu/packages/python-xyz.scm
+++ b/gnu/packages/python-xyz.scm
@@ -141,6 +141,8 @@
;;; Copyright © 2023 Ontje Lünsdorf <ontje.luensdorf@dlr.de>
;;; Copyright © 2023 Parnikkapore <poomklao@yahoo.com>
;;; Copyright © 2023 Foundation Devices, Inc. <hello@foundationdevices.com>
+;;; Copyright © c4droid <c4droid@foxmail.com>
+;;; Copyright © 2023 Janneke Nieuwenhuizen <janneke@gnu.org>
;;;
;;; This file is part of GNU Guix.
;;;
@@ -2039,13 +2041,13 @@ and a list of words that are easier to remember for humans (the
(define-public python-bitarray
(package
(name "python-bitarray")
- (version "2.6.1")
+ (version "2.8.1")
(source (origin
(method url-fetch)
(uri (pypi-uri "bitarray" version))
(sha256
(base32
- "0c4jli872nzix81n1xirnrghlq2fdsxb570d9rnfvxi1694sah44"))))
+ "1wy80bmhg33bpzn28g1n7s8r8f4drj7pcl4m2qb5sql8bbryx376"))))
(build-system python-build-system)
(arguments
(list #:phases
@@ -3485,17 +3487,17 @@ standard.")
(define-public python-eventlet
(package
(name "python-eventlet")
- (version "0.33.0")
+ (version "0.33.3")
(source
(origin
(method url-fetch)
(uri (pypi-uri "eventlet" version))
(sha256
(base32
- "07qlyhcm0f28sxdizawvdf3d50m3hnbzz5kg3fjp7chvki44y540"))))
+ "1nngffz21afhfi266smf4s5mn5dfd0ykdnirfls9bwnzxbkh6a3j"))))
(build-system python-build-system)
(propagated-inputs
- (list python-dnspython python-greenlet python-monotonic python-six))
+ (list python-dnspython python-greenlet python-six))
(native-inputs
(list python-nose))
(arguments
@@ -3520,7 +3522,9 @@ standard.")
;; <https://github.com/eventlet/eventlet/issues/730>.
"-e" "test_patcher_existing_locks_locked"
;; And see <https://github.com/eventlet/eventlet/issues/739>.
- "-e" "test_017_ssl_zeroreturnerror")))))))
+ "-e" "test_017_ssl_zeroreturnerror"
+ ;; This test is failing on some architectures
+ "-e" "test_fork_after_monkey_patch")))))))
(home-page "https://eventlet.net")
(synopsis "Concurrent networking library for Python")
(description
@@ -7126,6 +7130,11 @@ provides additional functionality on the produced Mallard documents.")
,@(if (not (target-64bit?))
'("-x" "run.parallel")
'())
+ ,@(if (system-hurd?)
+ '("-x" "test_class_ref"
+ "-x" "test_compiler_directives"
+ "-x" "test_lang_version")
+ '())
;; This test fails when running on 24 cores.
"-x" "cpp_stl_conversion")))))))
(home-page "https://cython.org/")
@@ -7474,24 +7483,14 @@ color scales, and color space conversion easy. It has support for:
(define-public python-pyspnego
(package
(name "python-pyspnego")
- (version "0.1.6")
- (source
- (origin
- (method git-fetch) ;no tests in PyPI release
- (uri (git-reference
- (url "https://github.com/jborean93/pyspnego")
- (commit (string-append "v" version))))
- (file-name (git-file-name name version))
- (sha256
- (base32
- "0pfh2x0539f0k2qi2pbjm64b2fqp64c63xxpinvg1yfaw915kgpb"))))
- (build-system python-build-system)
- (arguments
- `(#:phases (modify-phases %standard-phases
- (replace 'check
- (lambda* (#:key tests? #:allow-other-keys)
- (when tests?
- (invoke "pytest")))))))
+ (version "0.8.0")
+ (source (origin
+ (method url-fetch)
+ (uri (pypi-uri "pyspnego" version))
+ (sha256
+ (base32
+ "1ps34laa0kvvp33az173hp5l0hnk8cr0bfqmlgw64ry5cv09qjg0"))))
+ (build-system pyproject-build-system)
(native-inputs
(list python-pytest python-pytest-mock))
(propagated-inputs
@@ -8365,17 +8364,6 @@ Python code against some of the style conventions in
@url{http://www.python.org/dev/peps/pep-0008/,PEP 8}.")
(license license:expat)))
-(define-public python-pycodestyle-2.6
- (package
- (inherit python-pycodestyle)
- (version "2.6.0")
- (source (origin
- (method url-fetch)
- (uri (pypi-uri "pycodestyle" version))
- (sha256
- (base32
- "0bhr6ia0hmgx3nhgibc9pmkzhlh1zcqk707i5fbxgs702ll7v2n5"))))))
-
(define-public python-multidict
(package
(name "python-multidict")
@@ -12511,19 +12499,6 @@ file (e.g. @file{PKG-INFO}).")
"Pyflakes statically checks Python source code for common errors.")
(license license:expat)))
-(define-public python-pyflakes-2.2
- (package
- (inherit python-pyflakes)
- (version "2.2.0")
- (source (origin
- (method url-fetch)
- (uri (pypi-uri "pyflakes" version))
- (sha256
- (base32
- "1j3zqbiwkyicvww499bblq33x0bjpzdrxajhaysr7sk7x5gdgcim"))
- (patches
- (search-patches "python-pyflakes-test-location.patch"))))))
-
(define-public python-mccabe
(package
(name "python-mccabe")
@@ -12599,20 +12574,6 @@ cyclomatic complexity of Python source code.")
"Flake8 is a wrapper around PyFlakes, pep8 and python-mccabe.")
(license license:expat)))
-(define-public python-flake8-3.8
- (package
- (inherit python-flake8)
- (version "3.8.4")
- (source (origin
- (method url-fetch)
- (uri (pypi-uri "flake8" version))
- (sha256
- (base32
- "0fvcrsbyzjpcli8ldbpsdbpmf238nkvwc1dy4hy82lf63rvfinma"))))
- (propagated-inputs
- (list python-pycodestyle-2.6 python-entrypoints python-pyflakes-2.2
- python-mccabe))))
-
(define-public python-flake8-blind-except
(package
(name "python-flake8-blind-except")
@@ -14359,7 +14320,7 @@ specification.")
(define-public python-libsass
(package
(name "python-libsass")
- (version "0.20.1")
+ (version "0.22.0")
(source
(origin
;; PyPI tarball is missing some test files.
@@ -14369,7 +14330,7 @@ specification.")
(commit version)))
(file-name (git-file-name name version))
(sha256
- (base32 "1r0kgl7i6nnhgjl44sjw57k08gh2qr7l8slqih550dyxbf1akbxh"))))
+ (base32 "0j6c7jb1bnpmz76gs5za41qwgrs7v1yd1jkgvsy5ql6dg2ph9vp4"))))
(build-system python-build-system)
(arguments
'(#:phases
@@ -14377,6 +14338,17 @@ specification.")
;; Use Guix package of libsass instead of compiling from a checkout.
(add-before 'build 'set-libsass
(lambda _ (setenv "SYSTEM_SASS" "indeed")))
+ ;; XXX: Silent 2 failing tests, reported to upstream (closed), see
+ ;; https://github.com/sass/libsass-python/issues/440. It passed with
+ ;; libsass@3.6.5 which requires rebuild the world (1200+ packages),
+ ;; remove when v3.6.5 is available.
+ (add-before 'check 'silent-failing-tests
+ (lambda _
+ (substitute* "sasstests.py"
+ (("def test_build_one")
+ "def __off_test_build_one")
+ (("def test_stack_trace_formatting")
+ "def __off_test_stack_trace_formatting"))))
(replace 'check
(lambda* (#:key tests? #:allow-other-keys)
(when tests?
@@ -24808,19 +24780,25 @@ and corruption checks.")
(define-public python-fasteners
(package
(name "python-fasteners")
- (version "0.15")
- (source
- (origin
- (method url-fetch)
- (uri (pypi-uri "fasteners" version))
- (sha256
- (base32
- "1vzmz1xh38b84dv0f4hlp7arwmx8wjlih6lf964bpy8dnyk6s5rs"))))
- (build-system python-build-system)
- (propagated-inputs
- (list python-monotonic python-six))
- (native-inputs
- (list python-testtools))
+ (version "0.17.3")
+ (source (origin
+ ;; No tests in the pypi tarball
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/harlowja/fasteners")
+ (commit version)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "0m0dxv8ljpkq99s3d1mib1zfb0ppx3h74h5yr8809zsrq2klfn0m"))))
+ (build-system pyproject-build-system)
+ (arguments
+ `(#:phases (modify-phases %standard-phases
+ (replace 'check
+ (lambda* (#:key tests? #:allow-other-keys)
+ (when tests?
+ (invoke "pytest")))))))
+ (native-inputs (list python-diskcache python-more-itertools python-pytest))
(home-page "https://github.com/harlowja/fasteners")
(synopsis "Python package that provides useful locks")
(description
@@ -25188,8 +25166,16 @@ tool).")
(modules '((guix build utils)))
(snippet
'(begin
+ ;; Only add CFLAGS on architectures where they are supported
+ (substitute* "setup.py"
+ (("import sys")
+ "import sys\nimport platform")
+ (("os\\.name == 'posix'")
+ (string-append "os.name + platform.machine() == 'posixx86_64' or"
+ " os.name + platform.machine() == 'posixx86'")))
(delete-file-recursively "c-blosc")
- (for-each delete-file '("numcodecs/blosc.c"
+ (for-each delete-file '("numcodecs/_shuffle.c"
+ "numcodecs/blosc.c"
"numcodecs/compat_ext.c"
"numcodecs/lz4.c"
"numcodecs/vlen.c"
@@ -29998,7 +29984,7 @@ applications and daemons.")
(define-public python-qtsass
(package
(name "python-qtsass")
- (version "0.3.0")
+ (version "0.4.0")
(source
(origin
;; There are no tests in the PyPI tarball.
@@ -30008,7 +29994,7 @@ applications and daemons.")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
- (base32 "09s04aa14d8jqbh71clrb5y7vcmkxlp94mwmvzrkxahry3bk03cb"))))
+ (base32 "1skdihfby2f41zxgwa5zv44vdxjrw301rh88rjmzj4xbdlix6cig"))))
(build-system python-build-system)
(arguments
`(#:test-target "pytest"
@@ -30020,7 +30006,7 @@ applications and daemons.")
(for-each make-file-writable (find-files "."))
#t)))))
(native-inputs
- (list python-pytest python-pytest-cov python-pytest-runner))
+ (list python-flaky python-pytest python-pytest-cov python-pytest-runner))
(propagated-inputs
(list python-libsass))
(home-page "https://github.com/spyder-ide/qtsass")
diff --git a/gnu/packages/racket.scm b/gnu/packages/racket.scm
index 03abd7cc41..1e97f19dbb 100644
--- a/gnu/packages/racket.scm
+++ b/gnu/packages/racket.scm
@@ -29,6 +29,7 @@
#:use-module (guix build-system gnu)
#:use-module (guix diagnostics)
#:use-module (guix i18n)
+ #:use-module ((guix search-paths) #:select ($SSL_CERT_DIR $SSL_CERT_FILE))
#:use-module (srfi srfi-1)
#:use-module (srfi srfi-26)
#:use-module (srfi srfi-34)
@@ -190,7 +191,7 @@
;;
;; CODE:
-(define %racket-version "8.9") ; Remember to update chez-scheme-for-racket!
+(define %racket-version "8.10") ; Remember to update chez-scheme-for-racket!
(define %zuo-version "1.6") ; defined in racket/src/zuo/zuo.c
(define %racket-commit
(string-append "v" %racket-version))
@@ -201,10 +202,10 @@
(url "https://github.com/racket/racket")
(commit %racket-commit)))
(sha256
- (base32 "120djvscm2x1nv46is0kzwahd22rcc8gc0ssf12jnj7w290dpmra"))
+ (base32 "0xhra47lnz5aq2shvsil4vcravai4n86r4v1lza7r07n6s1pb9s5"))
(file-name (git-file-name "racket" %racket-version))
(patches (search-patches "racket-chez-scheme-bin-sh.patch"
- "racket-rktboot-riscv64-support.patch"
+ "racket-backport-8.10-rktboot.patch"
"racket-rktio-bin-sh.patch"
"racket-zuo-bin-sh.patch"))
(modules '((guix build utils)))
@@ -553,6 +554,7 @@ used to build the name of the resulting store item."
"base" %racket-origin
'(("base" "pkgs/base")
("racket-lib" "pkgs/racket-lib")))))
+ (native-search-paths (list $SSL_CERT_DIR $SSL_CERT_FILE))
(build-system gnu-build-system)
(arguments
;; Here and for the `racket` package, we're using #:configure-flags
@@ -699,7 +701,7 @@ DrRacket IDE, are not included.")
"contract-profile" (base32 "1xm2z8g0dpv5d9h2sg680vx1a8ix9gbsdpxxb8qv1w7akp73paj3")
'(("contract-profile" ".")))
(simple-racket-origin
- "data" (base32 "08sj4m0g0cp7gwb0nq90m770f0c21b7ydif7nljc8rxmcdprfisc")
+ "data" (base32 "1pml8g3zgvnaiqb659psh99m70v96m6nh9zash2vfgir46j4rjnh")
'("data" "data-doc" "data-enumerate-lib" "data-lib"))
(simple-racket-origin
"datalog" (base32 "0nf6cy4djpyhfvgpa6yn72apbz9s83gp0qg95pzjd0az4v6qwq1s")
@@ -708,7 +710,7 @@ DrRacket IDE, are not included.")
"db" (base32 "0xx0k8yw2vb9b4vk2dwjfbpixnmriqsv7kpv3fvfxbwyg42y0db5")
'("db" "db-doc" "db-lib"))
(simple-racket-origin
- "deinprogramm" (base32 "0iv14kig8w6kwxxmcfsxskk6x7a4kgzppzgyznzgy1mk6p5rxbjg")
+ "deinprogramm" (base32 "0889154ssw56aq6iqxnzgjram9x6c64sscjzrhr4077vnv4h1c93")
'("deinprogramm" "deinprogramm-signature"))
(simple-racket-origin
"distributed-places" (base32 "1dajpkj9balqcpv6cdk9hwjz592h1vq8rrx5vncariiac4vbdpa0")
@@ -717,7 +719,7 @@ DrRacket IDE, are not included.")
"draw" (base32 "0vf40hp6h14zgs0gx40jzdzxm4ai1vxwpmg65y00lwmdxc97b2ji")
'("draw" "draw-doc" "draw-lib"))
(simple-racket-origin
- "drracket" (base32 "1b2fammrkb01kglf0n1rzdq2ngay4adnjh3gdmnza7mxz09y35m2")
+ "drracket" (base32 "0haban4fysr8i2w071nra9s97zkrrx5f5c874r9pr2k9bhqcp4jq")
'("drracket"
"drracket-plugin-lib"
"drracket-tool"
@@ -751,13 +753,13 @@ DrRacket IDE, are not included.")
"games" (base32 "0kpn3izlx1ccd0pj0dnvmnrhny51b85xy418a7psj70lz8j8415d")
'(("games" ".")))
(simple-racket-origin
- "gui" (base32 "01ydlr10gkdm66x1gx3im5lwiap0ssiph8nmaisv0xrnrirbnp51")
+ "gui" (base32 "1s2a8qgm7dqpxyi9plshdbaxzd8klc80i8ppjpc5i5xyhcfmzyvf")
'("gui" "gui-doc" "gui-lib" "tex-table"))
(simple-racket-origin
"gui-pkg-manager" (base32 "1ji9448d723nklqvycwdswj0ni28sabrncag14f9mx47did5myb5")
'("gui-pkg-manager-lib"))
(simple-racket-origin
- "htdp" (base32 "1qnnnh9d9kjzlaasql7gi0h8z893bzb9kffay00mwg2j0bfzsf2s")
+ "htdp" (base32 "0kd92rg8m8my11pq1dxvv6dyban77j6kvs368xsl6fr52jd7zbkl")
'("htdp" "htdp-doc" "htdp-lib"))
(simple-racket-origin
"html" (base32 "18n1jnjgzfknc8nv8dppi85nb8q08gqdwkg6hfjk08x0p00anx2x")
@@ -781,7 +783,7 @@ DrRacket IDE, are not included.")
"make" (base32 "10852fj30bz5r46c3d99s37fkgy5yh44gb01j29sf3kxnhi0g2sa")
'(("make" ".")))
(simple-racket-origin
- "math" (base32 "1qz4k6iwbrf9l7dhivrznghrpbqhxx14yczkgqpkz6yqawi642x9")
+ "math" (base32 "1l0r4xpbbjz0b2s6v3kn490zgs2q1dnj3ga95y1505jmcwgb2hl9")
'("math" "math-doc" "math-lib"))
(simple-racket-origin
"mysterx" (base32 "11p9jzrafw0hizhl0cs4sxx7rv281185q8hryic2rpk0kzjdyr48")
@@ -799,7 +801,7 @@ DrRacket IDE, are not included.")
(url "https://github.com/RenaissanceBug/racket-cookies")
(commit %racket-commit)))
(sha256 (base32
- "0k0hifxhywl5c3hjcaiizc098dpyk001d981p572gly116yvjxc1"))
+ "05lnml9nszcq72k8bi4iwdyplp2iv23ywb2gmrs2hr8837fqi65y"))
(file-name
(git-file-name "RenaissanceBug-racket-cookies" %racket-version)))
'("net-cookies" "net-cookies-doc" "net-cookies-lib"))
@@ -825,7 +827,7 @@ DrRacket IDE, are not included.")
"pconvert" (base32 "00czi0p399mmyrvxyrs5kniizpkqfxyz2ncxqi2jy79a7wk79pb1")
'("pconvert-lib"))
(simple-racket-origin
- "pict" (base32 "0j6m95pq523pz526d7my8b3cg8a3jssag2mafxcq531prlnzq9sq")
+ "pict" (base32 "1vsn91r167wssaflzz080nsrcf0jfhl2a48zcj9hvdb77arbj8kc")
'("pict" "pict-doc" "pict-lib"))
(simple-racket-origin
"pict-snip" (base32 "081nwiy4a0n4f7xws16hqbhf0j3kz5alizndi3nnyr3chm4kng6x")
@@ -840,7 +842,7 @@ DrRacket IDE, are not included.")
"planet" (base32 "0r2yqrzrmdjjyr14k6hhlzc5kzrcx3583m1s02mhrcmpfw0s85w9")
'("planet" "planet-doc" "planet-lib"))
(simple-racket-origin
- "plot" (base32 "13i6cwkscb4j6zmdc122iidmykwpxfk8xjmq09c6gv77slfynivl")
+ "plot" (base32 "1p0jxrwdwkb7z6ppp2ccpdzmizjimfpkdgilvbgv8x6mmqf0bf6q")
'("plot" "plot-compat" "plot-doc" "plot-gui-lib" "plot-lib"))
(simple-racket-origin
"preprocessor" (base32 "1p5aid58ifnjy4xl0ysh85cq39k25661v975jrpk182z3k5621mg")
@@ -876,7 +878,7 @@ DrRacket IDE, are not included.")
(git-file-name "jeapostrophe-racket-cheat" %racket-version)))
'(("racket-cheat" ".")))
(simple-racket-origin
- "racklog" (base32 "0fbq0fpfb3l6h7h772dvkmlzlk2dnq5f8296xx1qxhhwypibqzr9")
+ "racklog" (base32 "0fr8xij0sssfnmwn6dfdi4jj3l62f2yj3jrjljv13kaycrfls032")
'(("racklog" ".")))
(simple-racket-origin
"rackunit" (base32 "03v1yvqgk3f65caqiwnadq00sjbg813ic949hys29f4c8mxz6gic")
@@ -895,7 +897,7 @@ DrRacket IDE, are not included.")
"realm" (base32 "0rlvwyd6rpyl0zda4a5p8dp346fvqzc8555dgfnrhliymkxb6x4g")
'(("realm" ".")))
(simple-racket-origin
- "redex" (base32 "16kyi4nxxi4a05gjarb9dayysg032vsad5mmwn1j6d6yxxhbw9jr")
+ "redex" (base32 "00pm0pj3h19a9dar4pzdn8q5l7bvl92q9gkh04k1ddlcx4af1m10")
'("redex"
"redex-benchmark"
"redex-doc"
@@ -910,7 +912,7 @@ DrRacket IDE, are not included.")
"scheme-lib" (base32 "0pcf0y8rp4qyjhaz5ww5sr5diq0wpcdfrrnask7zapyklzx1jx8x")
'(("scheme-lib" ".")))
(simple-racket-origin
- "scribble" (base32 "06q5jhfblps47ly9fv5pkcz3nk8akfgad9ank32dh1svagq9plzf")
+ "scribble" (base32 "1jnbvl98yn8dhblcx411jybd879g4aj6d136xi23i4zwwrbsiy6m")
'("scribble"
"scribble-doc"
"scribble-html-lib"
@@ -936,13 +938,13 @@ DrRacket IDE, are not included.")
"slatex" (base32 "0pkm2isbbdk63slrbsxcql7rr0wdrw5kapw1xq4ps5k8dhlzv8x0")
'(("slatex" ".")))
(simple-racket-origin
- "slideshow" (base32 "0phq0mvy0dh8hhbhxhmsini286dyggy6cgxq7mcwj4n2sbw38sas")
+ "slideshow" (base32 "0hmg5184cpxjb0ni6v2zkf4l29j8yyzm9pzv1gvmw2fm1rlrry4f")
'("slideshow" "slideshow-doc" "slideshow-exe" "slideshow-lib" "slideshow-plugin"))
(simple-racket-origin
- "snip" (base32 "1j7sk364w2cggr4i5my1p2ibyvslrnj45xwxhihx6zypkbk59c3m")
+ "snip" (base32 "1b90ccqilnyszbphms3svm3c7dbk7870ifybjjipss5srb32mj2d")
'("snip" "snip-lib"))
(simple-racket-origin
- "typed-racket" (base32 "0iz62xy2grkwyi4krz0chi3fswg74zd5s5jpdqyhxhdqq3gcscp0")
+ "typed-racket" (base32 "1721qgk1fplzwcgidg342anvykr88prvl1jag4vg8qxz8m28wi08")
'("source-syntax"
"typed-racket"
"typed-racket-compatibility"
@@ -953,13 +955,13 @@ DrRacket IDE, are not included.")
"srfi" (base32 "0rvx49ni1v8ikbx1a6qg97pprpkxmy7cgl918f52hq7jlx91b71x")
'("srfi" "srfi-doc" "srfi-lib" "srfi-lite-lib"))
(simple-racket-origin
- "string-constants" (base32 "1lxab9323xmxqs4mxbgr504xgcgsf9dvx2xsb4p92fjzsif0d64y")
+ "string-constants" (base32 "1jxbh91x1r65lahjlix61rmkjikcam2k5w97xj8r7p7z05240dih")
'("string-constants" "string-constants-doc" "string-constants-lib"))
(simple-racket-origin
"swindle" (base32 "1q8vdxpzczzwdw2mys2caab45yvadmqkixsr29k8pl03n8dsg8j9")
'(("swindle" ".")))
(simple-racket-origin
- "syntax-color" (base32 "03fjmpww2958sryicrrcrpqwq6ibslfxd86ckl1mgafm3kr02qhp")
+ "syntax-color" (base32 "0lcv6glhsx27lkz7wwalzgfr0nb0hdqjic54z3rcfxhag4p6sg8i")
'("syntax-color" "syntax-color-doc" "syntax-color-lib"))
(simple-racket-origin
"trace" (base32 "070ihla5j796hdarn5wxdwn4xj0xnkm50shgh49jy994mribvhia")
@@ -968,7 +970,7 @@ DrRacket IDE, are not included.")
"unix-socket" (base32 "02dfwas5ynbpyz74w9kwb4wgb37y5wys7svrlmir8k0n9ph9vq0y")
'("unix-socket" "unix-socket-doc" "unix-socket-lib"))
(simple-racket-origin
- "web-server" (base32 "0xfg0n0rg1g5rbqq4mm0qjgqkkrgm3ilzkffga2bjx253jrrrcai")
+ "web-server" (base32 "0sizb50rbnqmdx8igpqshj0hzsqyg30faf7wb9fs08sjs0lqkgsf")
'("web-server" "web-server-doc" "web-server-lib"))
(simple-racket-origin
"wxme" (base32 "1qp5gr9gqsakiq3alw6m4yyv5vw4i3hp4y4nhq8vl2nkjmirvn0b")
diff --git a/gnu/packages/rust-apps.scm b/gnu/packages/rust-apps.scm
index a291282325..76d48e55f1 100644
--- a/gnu/packages/rust-apps.scm
+++ b/gnu/packages/rust-apps.scm
@@ -1780,9 +1780,10 @@ background agent taking care of maintaining the necessary state.")
"1ci85bp8xwqrk8nqr8sh6yj8njgd98nhgnhaks2g00c77wwyra41"))))
(build-system cargo-build-system)
(arguments
- `(#:install-source? #f ; virtual manifest
+ `(#:rust ,rust-1.64
+ #:install-source? #f ; virtual manifest
#:cargo-test-flags
- '("--release" "--"
+ '("--release" "--lib" "--tests" "--"
"--skip=tests::test_version_check" ;it need rustc's version
;; FIXME: Guix's rust does not install source in
;; %out/lib/rustlib/src/rust so "can't load standard library from
@@ -1793,18 +1794,25 @@ background agent taking care of maintaining the necessary state.")
"--skip=tests::sourcegen::sourcegen_assists_docs" ;need rustfmt
"--skip=tests::sourcegen_ast::sourcegen_ast" ;same
- "--skip=tidy::cargo_files_are_tidy" ;not needed
"--skip=tidy::check_licenses" ;it runs cargo metadata
"--skip=tidy::check_merge_commits" ;it runs git rev-list
"--skip=tidy::check_code_formatting" ;need rustfmt as cargo fmt
- "--skip=tidy::generate_grammar" ;same
- "--skip=tidy::generate_assists_tests") ;same
+
+ ;; These tests require rust <= 1.60 and too many packages
+ ;; has as dependency rust-serde-json-1 that use indexmap2
+ ;; and it need rust >= 1.64
+ "--skip=tests::list_test_macros"
+ "--skip=tests::test_derive_empty"
+ "--skip=tests::test_attr_macro"
+ "--skip=tests::test_fn_like_macro"
+ "--skip=tests::test_fn_like_macro2"
+ "--skip=tests::test_derive_error")
#:cargo-development-inputs
(("rust-arbitrary" ,rust-arbitrary-1)
("rust-derive-arbitrary" ,rust-derive-arbitrary-1)
("rust-expect-test" ,rust-expect-test-1)
("rust-oorandom" ,rust-oorandom-11.1)
- ("rust-quote" ,rust-quote-1)
+ ("rust-quote" ,rust-quote-1.0.10)
("rust-rayon" ,rust-rayon-1)
("rust-tracing" ,rust-tracing-0.1)
("rust-tracing-subscriber" ,rust-tracing-subscriber-0.3)
@@ -1815,7 +1823,6 @@ background agent taking care of maintaining the necessary state.")
("rust-anyhow" ,rust-anyhow-1)
("rust-anymap" ,rust-anymap-0.12)
("rust-arrayvec" ,rust-arrayvec-0.7)
- ("rust-backtrace" ,rust-backtrace-0.3)
("rust-cargo-metadata" ,rust-cargo-metadata-0.14)
("rust-cfg-if" ,rust-cfg-if-1)
("rust-chalk-ir" ,rust-chalk-ir-0.75)
@@ -1824,17 +1831,16 @@ background agent taking care of maintaining the necessary state.")
("rust-countme" ,rust-countme-3)
("rust-cov-mark" ,rust-cov-mark-2)
("rust-crossbeam-channel" ,rust-crossbeam-channel-0.5)
- ("rust-dashmap" ,rust-dashmap-4)
("rust-dissimilar" ,rust-dissimilar-1)
("rust-dot" ,rust-dot-0.1)
("rust-drop-bomb" ,rust-drop-bomb-0.1)
- ("rust-either" ,rust-either-1)
+ ("rust-either" ,rust-either-1.6.0)
("rust-ena" ,rust-ena-0.14)
("rust-env-logger" ,rust-env-logger-0.8)
("rust-flate2" ,rust-flate2-1)
("rust-fst" ,rust-fst-0.4)
("rust-home" ,rust-home-0.5)
- ("rust-indexmap" ,rust-indexmap-1)
+ ("rust-indexmap" ,rust-indexmap-1.7)
("rust-itertools" ,rust-itertools-0.10)
("rust-jod-thread" ,rust-jod-thread-0.1)
("rust-libc" ,rust-libc-0.2)
@@ -1845,12 +1851,12 @@ background agent taking care of maintaining the necessary state.")
("rust-memmap2" ,rust-memmap2-0.5)
("rust-mimalloc" ,rust-mimalloc-0.1)
("rust-miow" ,rust-miow-0.4)
- ("rust-notify" ,rust-notify-5)
+ ("rust-notify" ,rust-notify-5-pre.13)
("rust-object" ,rust-object-0.28)
("rust-once-cell" ,rust-once-cell-1)
("rust-parking-lot" ,rust-parking-lot-0.11)
("rust-perf-event" ,rust-perf-event-0.4)
- ("rust-proc-macro2" ,rust-proc-macro2-1)
+ ("rust-proc-macro2" ,rust-proc-macro2-1.0.34)
("rust-pulldown-cmark" ,rust-pulldown-cmark-0.8)
("rust-pulldown-cmark-to-cmark" ,rust-pulldown-cmark-to-cmark-7)
("rust-rowan" ,rust-rowan-0.15)
@@ -1859,7 +1865,7 @@ background agent taking care of maintaining the necessary state.")
("rust-salsa" ,rust-salsa-0.17)
("rust-scoped-tls" ,rust-scoped-tls-1)
("rust-serde" ,rust-serde-1)
- ("rust-serde-json" ,rust-serde-json-1)
+ ("rust-serde-json" ,rust-serde-json-1.0.73)
("rust-serde-path-to-error" ,rust-serde-path-to-error-0.1)
("rust-typed-arena" ,rust-typed-arena-2)
("rust-smallvec" ,rust-smallvec-1)
@@ -1927,7 +1933,7 @@ exec -a \"$0\" \"~a\" \"$@\""
(chdir "../..")
(install-file "LICENSE-MIT" doc)
(install-file "LICENSE-APACHE" doc)))))))
- (native-inputs (list rust-src))
+ (native-inputs (list rust-src-1.64))
(home-page "https://rust-analyzer.github.io/")
(synopsis "Experimental Rust compiler front-end for IDEs")
(description "Rust-analyzer is a modular compiler frontend for the Rust
diff --git a/gnu/packages/rust.scm b/gnu/packages/rust.scm
index 4ee5ded5de..5cfdeffa81 100644
--- a/gnu/packages/rust.scm
+++ b/gnu/packages/rust.scm
@@ -652,7 +652,7 @@ safety and thread safety guarantees.")
(rust-bootstrapped-package
rust-1.62 "1.63.0" "1l4rrbzhxv88pnfq94nbyb9m6lfnjwixma3mwjkmvvs2aqlq158z"))
-(define rust-1.64
+(define-public rust-1.64
(let ((base-rust
(rust-bootstrapped-package
rust-1.63 "1.64.0" "018j720b2n12slp4xk64jc6shkncd46d621qdyzh2a8s3r49zkdk")))
@@ -891,10 +891,10 @@ safety and thread safety guarantees.")
`("procps" ,procps)
(package-native-inputs base-rust))))))
-(define-public rust-src
+(define-public rust-src-1.64
(hidden-package
(package
- (inherit rust)
+ (inherit rust-1.64)
(name "rust-src")
(build-system copy-build-system)
(native-inputs '())
diff --git a/gnu/packages/scheme.scm b/gnu/packages/scheme.scm
index 44e0130573..ad06d7db06 100644
--- a/gnu/packages/scheme.scm
+++ b/gnu/packages/scheme.scm
@@ -42,8 +42,8 @@
(define-module (gnu packages scheme)
#:use-module (gnu packages)
#:use-module ((guix licenses)
- #:select (gpl2+ lgpl2.0+ lgpl2.1 lgpl2.1+ lgpl3+ asl2.0 bsd-3
- cc-by-sa4.0 non-copyleft expat public-domain))
+ #:select (gpl2 gpl2+ lgpl2.0+ lgpl2.1 lgpl2.1+ lgpl3+ asl2.0
+ bsd-3 cc-by-sa4.0 non-copyleft expat public-domain))
#:use-module (guix gexp)
#:use-module (guix packages)
#:use-module (guix download)
@@ -1235,3 +1235,44 @@ time compilation and compiled macros.")
(description
"Gerbil mode provides font-lock, indentation, navigation, and REPL for
Gerbil code within Emacs.")))
+
+(define-public stklos
+ (package
+ (name "stklos")
+ (version "1.70")
+ (source (origin
+ (method url-fetch)
+ ;; TODO: Unbundle pcre, libgc, and libffi.
+ (uri (string-append "https://stklos.net/download/stklos-"
+ version ".tar.gz"))
+ (sha256
+ (base32
+ "1iw3pgycjz3kz3jd1855v2ngf8ib2almpf8v058n1mkj1qd2b88m"))))
+ (build-system gnu-build-system)
+ (arguments
+ (list
+ #:modules `((ice-9 ftw)
+ ,@%gnu-build-system-modules)
+ #:phases
+ #~(modify-phases %standard-phases
+ (add-before 'configure 'patch-sh-references
+ (lambda* (#:key inputs #:allow-other-keys)
+ (let ((bash (which "bash")))
+ (substitute* "configure"
+ (("/bin/sh") bash)))))
+ (add-after 'configure 'patch-rm-references
+ (lambda _
+ (let ((rm (which "rm")))
+ (substitute* (find-files "." "^Makefile$")
+ (("/bin/rm") rm))))))))
+ (properties
+ '((release-monitoring-url . "https://stklos.net/download.html")))
+ (home-page "https://stklos.net")
+ (synopsis "R7RS Scheme with CLOS-like object system")
+ (description
+ "STklos is a free Scheme system mostly compliant with the languages
+features defined in R7RS small. The aim of this implementation is to be fast
+as well as light. The implementation is based on an ad-hoc Virtual
+Machine. STklos can also be compiled as a library and embedded in an
+application.")
+ (license gpl2+)))
diff --git a/gnu/packages/serialization.scm b/gnu/packages/serialization.scm
index 9c114aaf39..c17d417d5e 100644
--- a/gnu/packages/serialization.scm
+++ b/gnu/packages/serialization.scm
@@ -811,6 +811,17 @@ game development and other performance-critical applications.")
(base32
"1z3a6l8g2y53i5xzraswfs2i0i3kk52zv7nzc2q3fgisbyiri3pz"))))))
+(define-public flatbuffers-next-shared
+ (package
+ (inherit flatbuffers-next)
+ (name "flatbuffers-shared")
+ (version "23.1.21")
+ (arguments
+ (substitute-keyword-arguments (package-arguments flatbuffers-next)
+ ((#:configure-flags flags)
+ ;; Compile with -fPIC, needed for shared lib.
+ #~(cons "-DFLATBUFFERS_CXX_FLAGS=-fPIC" #$flags))))))
+
(define-public python-feather-format
(package
(name "python-feather-format")
diff --git a/gnu/packages/skarnet.scm b/gnu/packages/skarnet.scm
index 2c7b0f9c23..6781e2eb58 100644
--- a/gnu/packages/skarnet.scm
+++ b/gnu/packages/skarnet.scm
@@ -49,6 +49,7 @@
(substitute* "Makefile"
(("\\$\\(wildcard src/lib\\*/\\*.c\\)")
"$(sort $(wildcard src/lib*/*.c))")))))))
+ (supported-systems (delete "i586-gnu" %supported-systems))
(home-page "https://skarnet.org/software/skalibs/")
(synopsis "Platform abstraction libraries for skarnet.org software")
(description
diff --git a/gnu/packages/sqlite.scm b/gnu/packages/sqlite.scm
index 2e727bd933..a4db47270d 100644
--- a/gnu/packages/sqlite.scm
+++ b/gnu/packages/sqlite.scm
@@ -115,10 +115,10 @@ is in the public domain.")
(define-public sqlite-next
(package
(inherit sqlite)
- (version "3.40.0")
+ (version "3.42.0")
(source (origin
(method url-fetch)
(uri (sqlite-uri version 2022))
(sha256
(base32
- "1rw0i63822pdkb3a16sqj4jdcp5zg0ffjmi26mshqw6jfqh5acq3"))))))
+ "19lc11fwl7jfv94hnjih0gr41jakz38ra23cbk5449vf3hbgvg3s"))))))
diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index db99f4c7f2..d8fde36cd3 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -603,14 +603,14 @@ code for possible problems.")
(define-public r-foreign
(package
(name "r-foreign")
- (version "0.8-84")
+ (version "0.8-85")
(source
(origin
(method url-fetch)
(uri (cran-uri "foreign" version))
(sha256
(base32
- "0jc5r5wiqqbkni2xjdd24hic1xvfi151m9lnqhni52jnqw1g7v8p"))))
+ "1azca97fhwb1pzgrjw2xscfh2k7bfryp6wjsdcx2y4h7305d4ych"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/foreign")
(synopsis "Read data stored by other statistics software")
@@ -1005,13 +1005,13 @@ non-estimable cases correctly.")
(define-public r-labeling
(package
(name "r-labeling")
- (version "0.4.2")
+ (version "0.4.3")
(source
(origin
(method url-fetch)
(uri (cran-uri "labeling" version))
(sha256
- (base32 "0rfikd9gy70b8qz87q9axcwv8nmn9mbxfdwypxi0sghpfs9df8p0"))))
+ (base32 "1wk4wa1s8f17b5lf8vs5hxsmyadp2ccmyg4hamq7sdvlrk14yby6"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/labeling")
(synopsis "Axis labeling algorithms")
@@ -1576,13 +1576,13 @@ emitter (http://pyyaml.org/wiki/LibYAML) for R.")
(define-public r-knitr
(package
(name "r-knitr")
- (version "1.43")
+ (version "1.44")
(source (origin
(method url-fetch)
(uri (cran-uri "knitr" version))
(sha256
(base32
- "0g6m9s53qyf34ba4db97k31sxg2ikndfp747229sm6ilikmbla9x"))))
+ "015ylljvx0q2himch4k813021nvh0l7p5x3aqdkj3w0ax8x8k3ki"))))
(build-system r-build-system)
(propagated-inputs
(list r-evaluate r-highr r-xfun r-yaml))
@@ -1827,13 +1827,13 @@ and printing capabilities than traditional data frames.")
(define-public r-dplyr
(package
(name "r-dplyr")
- (version "1.1.2")
+ (version "1.1.3")
(source (origin
(method url-fetch)
(uri (cran-uri "dplyr" version))
(sha256
(base32
- "1qwn00ai7k6km0z9kl6aa1qjkfz8j3prlgdfxr1pr5s47a5c6862"))))
+ "0hhpzv66rqz7z8vdryzjdkp4flmjvzxrx1pwpxnbmjqgvd3s4hv8"))))
(build-system r-build-system)
(propagated-inputs
(list r-cli
@@ -2963,13 +2963,13 @@ well as additional utilities such as panel and axis annotation functions.")
(define-public r-rcpparmadillo
(package
(name "r-rcpparmadillo")
- (version "0.12.6.1.0")
+ (version "0.12.6.4.0")
(source (origin
(method url-fetch)
(uri (cran-uri "RcppArmadillo" version))
(sha256
(base32
- "0saga8anaahyrvvynggg168756rv8d9gyq8sryjgnx5pp4jbz6ck"))))
+ "1k7xq2yl4pkc7krz1bcdnx5kfj6n4zjmnm40nly2da2ji87agv49"))))
(properties `((upstream-name . "RcppArmadillo")))
(build-system r-build-system)
(propagated-inputs
@@ -3837,13 +3837,13 @@ using the multicore functionality of the parallel package.")
extensions)))))
(package
(name "r-dt")
- (version "0.28")
+ (version "0.29")
(source (origin
(method url-fetch)
(uri (cran-uri "DT" version))
(sha256
(base32
- "0khdl21kvgi9k7dlpfshk1xz9bkly5lq6p41plfh4g2jv1yxaxfr"))
+ "1b9qshrjv9xaak92rvg65vkak4pyci9js4j7nkfcg0p19ghnvlm8"))
(modules '((guix build utils)
(ice-9 match)))
(snippet
@@ -3917,6 +3917,7 @@ using the multicore functionality of the parallel package.")
(list r-crosstalk
r-htmltools
r-htmlwidgets
+ r-httpuv
r-jquerylib
r-jsonlite
r-magrittr
@@ -4716,14 +4717,14 @@ distribution).")
(define-public r-rematch
(package
(name "r-rematch")
- (version "1.0.1")
+ (version "2.0.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "rematch" version))
(sha256
(base32
- "0y3mshvpvz9csmq8hk8jbabx4nxlv5sckvfzvm6920ndg34xw2d4"))))
+ "09jwg3glp32q4ml4khhzi8j7bzg9zhqqdg1m6r8gibh756zzgnhm"))))
(build-system r-build-system)
(home-page "https://github.com/MangoTheCat/rematch")
(synopsis "Match regular expressions with a nicer API")
@@ -4875,13 +4876,13 @@ package instead.")
(define-public r-hmisc
(package
(name "r-hmisc")
- (version "5.1-0")
+ (version "5.1-1")
(source
(origin
(method url-fetch)
(uri (cran-uri "Hmisc" version))
(sha256
- (base32 "0y10hnglid78gnaapmdy3ihjih4i2kvaycn2c60r2wr43nv7wl0q"))))
+ (base32 "0laan26ja6m9k3spkk1ymalwb181ramzjq6ii3b0404xv2kfywa9"))))
(properties `((upstream-name . "Hmisc")))
(build-system r-build-system)
(native-inputs
@@ -4896,9 +4897,9 @@ package instead.")
r-ggplot2
r-gridextra
r-gtable
- r-knitr
r-htmltable
r-htmltools
+ r-knitr
r-nnet
r-rmarkdown
r-rpart
@@ -5585,14 +5586,14 @@ data for species delimitation, nearest neighbor based noise detection.")
(define-public r-deoptimr
(package
(name "r-deoptimr")
- (version "1.1-1")
+ (version "1.1-2")
(source
(origin
(method url-fetch)
(uri (cran-uri "DEoptimR" version))
(sha256
(base32
- "1appp5xgayafda6f5pcdsxaskqs831rb21znx44r8nyb9gvg0f6z"))))
+ "0swycypiyxkvhn1438q0wysz2c4ky6zjw89w62dggbciqwk8xdbq"))))
(properties `((upstream-name . "DEoptimR")))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/DEoptimR")
@@ -5825,18 +5826,18 @@ showing the progress is useful e.g. bootstrap.")
(define-public r-minqa
(package
(name "r-minqa")
- (version "1.2.5")
+ (version "1.2.6")
(source
(origin
(method url-fetch)
(uri (cran-uri "minqa" version))
(sha256
(base32
- "1gpli7f3piz3jqjj63a6bk9v1jlygjdaqqqvqsr083crj0imd0wv"))))
+ "0421b4ysslaqmdgwlz080abis8m4xkcvjq7lx1wywbsz1s2vi9si"))))
(build-system r-build-system)
(propagated-inputs
(list r-rcpp))
- (inputs
+ (native-inputs
(list gfortran))
(home-page "https://optimizer.r-forge.r-project.org")
(synopsis "Derivative-free optimization algorithms by quadratic approximation")
@@ -7231,13 +7232,13 @@ Annealing\" @url{doi:10.1145/3025453.3025912}.")
(define-public r-lmom
(package
(name "r-lmom")
- (version "2.9")
+ (version "3.0")
(source
(origin
(method url-fetch)
(uri (cran-uri "lmom" version))
(sha256
- (base32 "145va4dhl767mywk36xcmqilm21sfkqhcqi0s07qgq3k39sn4gin"))))
+ (base32 "1482kbb4cm65m2d1xlxml93yjd3d43iiap6nvzg5vd33i9iyh2jb"))))
(properties `((upstream-name . "lmom")))
(build-system r-build-system)
(native-inputs (list gfortran))
@@ -7315,13 +7316,13 @@ Calculates confidence intervals for the difference in proportion.")
(define-public r-desctools
(package
(name "r-desctools")
- (version "0.99.49")
+ (version "0.99.50")
(source
(origin
(method url-fetch)
(uri (cran-uri "DescTools" version))
(sha256
- (base32 "0s2zh8xz06c45rbwcypgsa8shby66nm6sj90cb9d1bwb60mws8j5"))))
+ (base32 "1awfhbv7klvkwxki4lvxj086yiwqyys95jnss8q5qqn7wyfz170v"))))
(properties `((upstream-name . "DescTools")))
(build-system r-build-system)
(propagated-inputs
@@ -7552,16 +7553,16 @@ generating and manipulating colors in R.")
(define-public r-reghelper
(package
(name "r-reghelper")
- (version "1.1.1")
+ (version "1.1.2")
(source (origin
(method url-fetch)
(uri (cran-uri "reghelper" version))
(sha256
(base32
- "0v1987rs6kcpizfhrp3hxsyx9arn5vsbapjfgj9478j73mm844ji"))))
+ "1vd8kd719kyjp65zym6zx3vax1q2kbhpl6la71d5aa59s54ylri3"))))
(properties `((upstream-name . "reghelper")))
(build-system r-build-system)
- (propagated-inputs (list r-ggplot2 r-lme4 r-mass r-nlme))
+ (propagated-inputs (list r-ggplot2 r-lme4 r-mass r-nlme r-rlang))
(home-page "https://github.com/jeff-hughes/reghelper")
(synopsis "Helper Functions for Regression Analysis")
(description
diff --git a/gnu/packages/syncthing.scm b/gnu/packages/syncthing.scm
index 414395251b..fd30360006 100644
--- a/gnu/packages/syncthing.scm
+++ b/gnu/packages/syncthing.scm
@@ -46,7 +46,7 @@
(define-public syncthing
(package
(name "syncthing")
- (version "1.23.6")
+ (version "1.23.7")
(source (origin
(method url-fetch)
(uri (string-append "https://github.com/syncthing/syncthing"
@@ -54,7 +54,7 @@
"/syncthing-source-v" version ".tar.gz"))
(sha256
(base32
- "03myinspq61aiis29mq0xjigj5rh5jd8m0d9xakf43vi7pqgwjbc"))))
+ "1891dqcsg5r034bw19qjm6qg0zi1g0djcllp2c550zq7v1sdvn0q"))))
(build-system go-build-system)
;; The primary Syncthing executable goes to "out", while the auxiliary
;; server programs and utility tools go to "utils". This reduces the size
@@ -64,7 +64,7 @@
(list #:modules '((srfi srfi-26) ; for cut
(guix build utils)
(guix build go-build-system))
- #:go go-1.19
+ #:go go-1.20
#:import-path "github.com/syncthing/syncthing"
;; We don't need to install the source code for end-user applications.
#:install-source? #f
@@ -101,7 +101,7 @@
"stdisco" "stdiscosrv" "stevents" "stfileinfo"
"stfinddevice" "stfindignored" "stgenfiles"
"strelaypoolsrv" "strelaysrv" "stsigtool"
- "stvanity" "stwatchfile" "uraggregate" "ursrv")))))
+ "stvanity" "stwatchfile" "ursrv")))))
(add-after 'install 'install-docs
(lambda _
diff --git a/gnu/packages/terminals.scm b/gnu/packages/terminals.scm
index 43aeac9fd7..a67ec97859 100644
--- a/gnu/packages/terminals.scm
+++ b/gnu/packages/terminals.scm
@@ -35,6 +35,7 @@
;;; Copyright © 2022 jgart <jgart@dismail.de>
;;; Copyright © 2023 Aaron Covrig <aaron.covrig.us@ieee.org>
;;; Copyright © 2023 Foundation Devices, Inc. <hello@foundationdevices.com>
+;;; Copyright © 2023 Zheng Junjie <873216071@qq.com>
;;;
;;; This file is part of GNU Guix.
;;;
@@ -629,23 +630,29 @@ should be thread-safe.")
(define-public libvterm
(package
(name "libvterm")
- (version "0.3.1")
+ (version "0.3.3")
(source
(origin
(method url-fetch)
- (uri (string-append "https://www.leonerd.org.uk/code/libvterm/"
- "libvterm-" version ".tar.gz"))
+ (uri (string-append
+ "https://launchpad.net/libvterm/trunk/v"
+ (version-major+minor version)
+ "/+download/libvterm-" version ".tar.gz"))
(sha256
- (base32 "15y3y23kfpcda7n79ym3gp1abzn8mshxrad8s3gnhls82nfava15"))))
+ (base32 "1q16fbznm54p24hqvw8c9v3347apk86ybsxyghsbsa11vm1ny589"))))
(build-system gnu-build-system)
(arguments
- `(#:make-flags
- (list "CC=gcc"
- (string-append "PREFIX=" (assoc-ref %outputs "out")))
- #:test-target "test"
- #:phases
- (modify-phases %standard-phases
- (delete 'configure))))
+ (list #:make-flags
+ #~(list
+ ;; FIXME: cross build fails.
+ ;; ld: src/.libs/encoding.o: error adding symbols: file in wrong format
+ ;; collect2: error: ld returned 1 exit status
+ (string-append "CC=" #$(cc-for-target))
+ (string-append "PREFIX=" #$output))
+ #:test-target "test"
+ #:phases
+ #~(modify-phases %standard-phases
+ (delete 'configure))))
(native-inputs
(list libtool perl))
(home-page "https://www.leonerd.org.uk/code/libvterm/")
diff --git a/gnu/packages/tor.scm b/gnu/packages/tor.scm
index 7fec88656f..44e62b63cc 100644
--- a/gnu/packages/tor.scm
+++ b/gnu/packages/tor.scm
@@ -63,18 +63,20 @@
(define-public tor
(package
(name "tor")
- (version "0.4.7.14")
+ (version "0.4.8.5")
(source (origin
(method url-fetch)
(uri (string-append "https://dist.torproject.org/tor-"
version ".tar.gz"))
(sha256
(base32
- "1y2xwrji1rvk6h0k15705yra5s74h72h2g84x02zr0338vv6gb55"))))
+ "06g1awb4piqvgxa97pyswxgjzkpj8rx3iy2jbiaygvi99b8wymv9"))
+ (patches (search-patches "tor-remove-defensive-assert.patch"))))
(build-system gnu-build-system)
(arguments
(list #:configure-flags
- #~(list "--enable-lzma"
+ #~(list "--enable-gpl"
+ "--enable-lzma"
"--enable-zstd")
#:phases
#~(modify-phases %standard-phases
diff --git a/gnu/packages/upnp.scm b/gnu/packages/upnp.scm
index bc93f51563..1602136e29 100644
--- a/gnu/packages/upnp.scm
+++ b/gnu/packages/upnp.scm
@@ -96,14 +96,14 @@ over IRC, instant messaging, network games, and most server software.")
(define-public libupnp
(package
(name "libupnp")
- (version "1.14.17")
+ (version "1.14.18")
(source
(origin
(method url-fetch)
(uri (string-append "https://github.com/pupnp/pupnp/releases/download"
"/release-" version "/libupnp-" version".tar.bz2"))
(sha256
- (base32 "1yvgrfdhvsz6br3i7k37pigcw25rnzkxdx4sjizqqhm0xd1751wv"))))
+ (base32 "1sywi1l0sc9s55hryfwqb5y5fhyyqx6ida5i7bk8m1p27klwx9qn"))))
(native-inputs
(list pkg-config))
(build-system gnu-build-system)
diff --git a/gnu/packages/video.scm b/gnu/packages/video.scm
index 153fe354d5..e8cee27382 100644
--- a/gnu/packages/video.scm
+++ b/gnu/packages/video.scm
@@ -5255,7 +5255,7 @@ transcode or reformat the videos in any way, producing perfect backups.")
(define-public svt-av1
(package
(name "svt-av1")
- (version "1.3.0")
+ (version "1.7.0")
(source
(origin
(method git-fetch)
@@ -5264,7 +5264,7 @@ transcode or reformat the videos in any way, producing perfect backups.")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
- (base32 "0blnla32yz665bx0xyx8lrjs2wqd2xhpbqwwpz72mq7zf341j8vv"))))
+ (base32 "1308g0nqxq65h76a7h91999cbglkwihgrpid64kdn0r9vh6399sq"))))
(build-system cmake-build-system)
(arguments
;; The test suite tries to download test data and git clone a 3rd-party
diff --git a/gnu/packages/vim.scm b/gnu/packages/vim.scm
index d58b022123..122f0f8ee7 100644
--- a/gnu/packages/vim.scm
+++ b/gnu/packages/vim.scm
@@ -13,6 +13,7 @@
;;; Copyright © 2021 Tissevert <tissevert+guix@marvid.fr>
;;; Copyright © 2021 Foo Chuan Wei <chuanwei.foo@hotmail.com>
;;; Copyright © 2022, 2023 Luis Henrique Gomes Higino <luishenriquegh2701@gmail.com>
+;;; Copyright © 2023 Charles Jackson <charles.b.jackson@protonmail.com>
;;;
;;; This file is part of GNU Guix.
;;;
@@ -30,7 +31,7 @@
;;; along with GNU Guix. If not, see <http://www.gnu.org/licenses/>.
(define-module (gnu packages vim)
- #:use-module ((guix licenses) #:prefix license:)
+ #:use-module ((guix licenses) #:prefix license:)
#:use-module (guix packages)
#:use-module (guix gexp)
#:use-module (guix utils)
@@ -60,6 +61,7 @@
#:use-module (gnu packages jemalloc)
#:use-module (gnu packages libevent)
#:use-module (gnu packages linux)
+ #:use-module (gnu packages lisp-xyz)
#:use-module (gnu packages lua)
#:use-module (gnu packages ncurses)
#:use-module (gnu packages perl)
@@ -1113,6 +1115,58 @@ getting some of these features into Vim. It works with any REPL and isn't tied
to Lisp.")
(license license:expat))))
+(define-public vim-vlime
+ ;; The last tag is very outdated.
+ (let ((commit "c1ac16c1a50bec4c30da87cd4ce2af12e26fb022")
+ (revision "1"))
+ (package
+ (name "vim-vlime")
+ (version (git-version "0.4.0" revision commit))
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/vlime/vlime")
+ (commit commit)))
+ (sha256
+ (base32 "1dfc1wyjsgkckrklkzvk4whaz3ahaka59rvm7rc724mabmk83pmp"))
+ (file-name (git-file-name name version))))
+ (build-system copy-build-system)
+ (arguments
+ '(#:install-plan
+ '(("vim/autoload" "share/vim/vimfiles/")
+ ("vim/doc" "share/vim/vimfiles/")
+ ("vim/ftplugin" "share/vim/vimfiles/")
+ ("vim/syntax" "share/vim/vimfiles/")
+ ("vim/test" "share/vim/vimfiles/")
+ ;; This is so the Vimscript part of Vlime can find the lisp files.
+ ("lisp" "share/vim/")
+ ;; This is so lisp can load Vlime without the Vim part.
+ ("lisp" "share/common-lisp/source/vlime"))
+ #:phases
+ (modify-phases %standard-phases
+ ;; Create a symbolic link to the .asd file so that
+ ;; (asdf:load-system "vlime") finds the system.
+ (add-after 'install 'link-asd
+ (lambda* (#:key outputs #:allow-other-keys)
+ (let ((out (assoc-ref outputs "out")))
+ (mkdir-p (string-append out "/share/common-lisp/systems/"))
+ (symlink (string-append out "/share/common-lisp/source/vlime/vlime.asd")
+ (string-append out "/share/common-lisp/systems/vlime.asd"))))))))
+ (propagated-inputs
+ (list cl-alexandria
+ cl-slime-swank
+ cl-usocket
+ cl-vom
+ cl-yason))
+ (home-page "https://github.com/vlime/vlime")
+ (synopsis "Common Lisp dev environment for Vim (and Neovim)")
+ (description "Vlime is similar to SLIME for Emacs and SLIMV for Vim. It
+provides REPL integration, as well as omni-completions, cross reference
+utilities, a nice inspector, debugger support, and many other great facilities
+to aid you in your glorious Common Lisp hacking quest.")
+ (license license:expat))))
+
(define-public vim-paredit
;; The last tagged version is from August 2013.
(let ((commit "97d51d099523b37bb35cbcf3564cbfb46e66e4ec")
diff --git a/gnu/packages/virtualization.scm b/gnu/packages/virtualization.scm
index 4ae0049269..f5bdedd45e 100644
--- a/gnu/packages/virtualization.scm
+++ b/gnu/packages/virtualization.scm
@@ -385,6 +385,14 @@
(cut string-suffix?
"-linux-user" <>))))))))
+ (add-before 'check 'set-SOCK_DIR
+ (lambda _
+ ;; The default value for SOCK_DIR is TMPDIR, which can be long
+ ;; in the build chroot (e.g.:
+ ;; /tmp/guix-build-qemu-minimal-drv-0); set it to SOCK_DIR to
+ ;; avoid using more than 109 characters for socket files (the
+ ;; limit when using the kernel Linux).
+ (setenv "SOCK_DIR" "/tmp")))
(add-after 'install 'delete-firmwares
(lambda _
;; Delete firmares that are accessible on --firmwarepath.
@@ -542,14 +550,7 @@ server and embedded PowerPC, and S390 guests.")
#~(modify-phases #$phases
(delete 'configure-user-static)
(delete 'build-user-static)
- (delete 'install-user-static)
- (add-after 'disable-unusable-tests 'disable-extra-tests
- (lambda _
- ;; Interesting, the iothreads-commit-active test only fails in
- ;; qemu-minimal, not the complete variant (see:
- ;; https://gitlab.com/qemu-project/qemu/-/issues/1855).
- (delete-file
- "tests/qemu-iotests/tests/iothreads-commit-active")))))))
+ (delete 'install-user-static)))))
;; Remove dependencies on optional libraries, notably GUI libraries.
(native-inputs (filter (lambda (input)
@@ -668,7 +669,13 @@ firmware blobs. You can
"ganeti-shepherd-master-failover.patch"
"ganeti-haskell-pythondir.patch"
"ganeti-pyyaml-compat.patch"
- "ganeti-disable-version-symlinks.patch"))))
+ "ganeti-procps-compat.patch"
+ "ganeti-disable-version-symlinks.patch"
+ "ganeti-lens-compat.patch"
+ "ganeti-template-haskell-2.17.patch"
+ "ganeti-template-haskell-2.18.patch"
+ "ganeti-reorder-arbitrary-definitions.patch"
+ "ganeti-relax-dependencies.patch"))))
(build-system gnu-build-system)
(arguments
`(#:imported-modules (,@%gnu-build-system-modules
diff --git a/gnu/packages/web-browsers.scm b/gnu/packages/web-browsers.scm
index 55bbc51578..d0b4e9f971 100644
--- a/gnu/packages/web-browsers.scm
+++ b/gnu/packages/web-browsers.scm
@@ -586,7 +586,7 @@ driven and does not detract you from your daily work.")
(define-public nyxt
(package
(name "nyxt")
- (version "3.6.1")
+ (version "3.7.0")
(source
(origin
(method git-fetch)
@@ -595,7 +595,7 @@ driven and does not detract you from your daily work.")
(commit version)))
(sha256
(base32
- "0gf4akrkp15c3z3v3i5c94ga282ygqxb0rqxwm9ivchby0xv9lmd"))
+ "0mar3y69b62jby4kfdsm2xsnb830v1d468zspa3frpnphwxv4a5y"))
(file-name (git-file-name "nyxt" version))
(modules '((guix build utils)))
(snippet
diff --git a/gnu/packages/web.scm b/gnu/packages/web.scm
index 96dc5d9301..1b4eafeab8 100644
--- a/gnu/packages/web.scm
+++ b/gnu/packages/web.scm
@@ -6110,13 +6110,13 @@ deployments.")
(package
(name "varnish")
(home-page "https://varnish-cache.org/")
- (version "7.2.1")
+ (version "7.3.0")
(source (origin
(method url-fetch)
(uri (string-append home-page "_downloads/varnish-" version ".tgz"))
(sha256
(base32
- "0h590kr7rhp57a4kfx6apyvqk60w78qdjwpr6g2ikv5840bpv4sd"))))
+ "1rsay4vrg0dvf8d7bpj8dvaax4v949p6x1l6qd3hdabhq87bpnz2"))))
(build-system gnu-build-system)
(arguments
`(#:configure-flags (list (string-append "LDFLAGS=-Wl,-rpath=" %output "/lib")
diff --git a/gnu/packages/wm.scm b/gnu/packages/wm.scm
index aaff618248..9ef60ec668 100644
--- a/gnu/packages/wm.scm
+++ b/gnu/packages/wm.scm
@@ -789,7 +789,7 @@ desktop environment.")
(define-public icewm
(package
(name "icewm")
- (version "3.3.4")
+ (version "3.4.1")
(source (origin
(method url-fetch)
(uri (string-append
@@ -797,7 +797,7 @@ desktop environment.")
version "/icewm-" version ".tar.lz"))
(sha256
(base32
- "124w00yq35mj859nf321bpy36ij7a0kblcg95axxahz4l6fhxfxf"))))
+ "0fr79i6r2sjr27lv4wik8lvcnrrapd28lzhy4gnqffzds0sqx64r"))))
(build-system gnu-build-system)
(native-inputs (list pkg-config))
(inputs (list fontconfig
diff --git a/gnu/packages/xfce.scm b/gnu/packages/xfce.scm
index 3292db4f58..cb2121f338 100644
--- a/gnu/packages/xfce.scm
+++ b/gnu/packages/xfce.scm
@@ -1082,7 +1082,7 @@ features playback of local media files, DVD/CD and live streams.")
(define-public xfce4-terminal
(package
(name "xfce4-terminal")
- (version "1.0.4")
+ (version "1.1.0")
(source (origin
(method url-fetch)
(uri (string-append "https://archive.xfce.org/src/apps/" name "/"
@@ -1090,7 +1090,7 @@ features playback of local media files, DVD/CD and live streams.")
name "-" version ".tar.bz2"))
(sha256
(base32
- "1x5saijxykxmn2hksf4qvaj965b6i0wy62z9hgrc2vvwmxbmkrbq"))))
+ "18yl792x617qa90g6caw4cy1arfl847majjxkxs0k6rb4ivk70j0"))))
(build-system gnu-build-system)
(arguments
(list