diff options
Diffstat (limited to 'gnu/packages')
34 files changed, 744 insertions, 174 deletions
diff --git a/gnu/packages/admin.scm b/gnu/packages/admin.scm index 3a0361299e..ffaf6b4fc7 100644 --- a/gnu/packages/admin.scm +++ b/gnu/packages/admin.scm @@ -702,7 +702,9 @@ commands and their arguments.") ".tar.gz")) (sha256 (base32 - "0skvkl6c10ls4s48b2wmf47h9j1y40nlzxnzn8hyaw2j0prmpapa")))) + "0skvkl6c10ls4s48b2wmf47h9j1y40nlzxnzn8hyaw2j0prmpapa")) + (patches + (list (search-patch "wpa-supplicant-CVE-2015-1863.patch"))))) (build-system gnu-build-system) (arguments '(#:phases (alist-replace diff --git a/gnu/packages/audio.scm b/gnu/packages/audio.scm index 8fb3da7fa1..06f8bbdbea 100644 --- a/gnu/packages/audio.scm +++ b/gnu/packages/audio.scm @@ -236,6 +236,48 @@ bass section with five drawbars. A standalone JACK application and LV2 plugins are provided.") (license license:gpl2))) +(define-public calf + (package + (name "calf") + (version "0.0.60") + (source (origin + (method url-fetch) + (uri (string-append + "mirror://sourceforge/calf/calf/" + version "/calf-" version ".tar.gz")) + (sha256 + (base32 + "019fwg00jv217a5r767z7szh7vdrarybac0pr2sk26xp81kibrx9")))) + (build-system gnu-build-system) + (inputs + `(("fluidsynth" ,fluidsynth) + ("expat" ,expat) + ("glib" ,glib) + ("gtk" ,gtk+-2) + ("cairo" ,cairo) + ("lash" ,lash) + ("jack" ,jack-1) + ("lv2" ,lv2) + ("ladspa" ,ladspa) + ("fftw" ,fftw))) + (native-inputs + `(("pkg-config" ,pkg-config))) + (native-search-paths + (list (search-path-specification + (variable "LV2_PATH") + (files '("lib/lv2"))))) + (home-page "http://calf.sourceforge.net/") + (synopsis "Audio plug-in pack for LV2 and JACK environments") + (description + "Calf Studio Gear is an audio plug-in pack for LV2 and JACK environments. +The suite contains lots of effects (delay, modulation, signal processing, +filters, equalizers, dynamics, distortion and mastering effects), +instruments (SF2 player, organ simulator and a monophonic synthesizer) and +tools (analyzer, mono/stereo tools, crossovers).") + ;; calfjackhost is released under GPLv2+ + ;; The plugins are released under LGPLv2.1+ + (license (list license:lgpl2.1+ license:gpl2+)))) + (define-public csound (package (name "csound") @@ -314,6 +356,45 @@ language and software synthesizer.") ALSA PCM devices.") (license license:gpl2+))) +(define-public fluidsynth + (package + (name "fluidsynth") + (version "1.1.6") + (source (origin + (method url-fetch) + (uri (string-append + "mirror://sourceforge/fluidsynth/fluidsynth-" + version "/fluidsynth-" version ".tar.gz")) + (sha256 + (base32 + "070pwb7brdcn1mfvplkd56vjc7lbz4iznzkqvfsakvgbv68k71ah")))) + (build-system gnu-build-system) + (arguments + `(#:phases + (alist-cons-after + 'unpack + 'remove-broken-symlinks + (lambda _ (delete-file-recursively "m4") #t) + %standard-phases))) + (inputs + `(("libsndfile" ,libsndfile) + ("alsa-lib" ,alsa-lib) + ("jack" ,jack-1) + ("ladspa" ,ladspa) + ("lash" ,lash) + ("readline" ,readline) + ("glib" ,glib))) + (native-inputs + `(("pkg-config" ,pkg-config))) + (home-page "http://www.fluidsynth.org/") + (synopsis "SoundFont synthesizer") + (description + "FluidSynth is a real-time software synthesizer based on the SoundFont 2 +specifications. FluidSynth reads and handles MIDI events from the MIDI input +device. It is the software analogue of a MIDI synthesizer. FluidSynth can +also play midifiles using a Soundfont.") + (license license:gpl2+))) + (define-public faad2 (package (name "faad2") diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 4fd9459350..ccfda627f3 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -28,6 +28,7 @@ #:use-module (guix build-system trivial) #:use-module (gnu packages) #:use-module (gnu packages base) + #:use-module (gnu packages boost) #:use-module (gnu packages compression) #:use-module (gnu packages file) #:use-module (gnu packages java) @@ -37,6 +38,7 @@ #:use-module (gnu packages perl) #:use-module (gnu packages pkg-config) #:use-module (gnu packages popt) + #:use-module (gnu packages protobuf) #:use-module (gnu packages python) #:use-module (gnu packages statistics) #:use-module (gnu packages swig) @@ -46,6 +48,29 @@ #:use-module (gnu packages xml) #:use-module (gnu packages zip)) +(define-public bamtools + (package + (name "bamtools") + (version "2.3.0") + (source (origin + (method url-fetch) + (uri (string-append + "https://github.com/pezmaster31/bamtools/archive/v" + version ".tar.gz")) + (file-name (string-append name "-" version ".tar.gz")) + (sha256 + (base32 + "1brry29bw2xr2l9pqn240rkqwayg85b8qq78zk2zs6nlspk4d018")))) + (build-system cmake-build-system) + (arguments `(#:tests? #f)) ;no "check" target + (inputs `(("zlib" ,zlib))) + (home-page "https://github.com/pezmaster31/bamtools") + (synopsis "C++ API and command-line toolkit for working with BAM data") + (description + "BamTools provides both a C++ API and a command-line toolkit for handling +BAM files.") + (license license:expat))) + (define-public bedops (package (name "bedops") @@ -507,6 +532,51 @@ file formats including SAM/BAM, Wiggle/BigWig, BED, GFF/GTF, VCF.") other types of unwanted sequence from high-throughput sequencing reads.") (license license:expat))) +(define-public express + (package + (name "express") + (version "1.5.1") + (source (origin + (method url-fetch) + (uri + (string-append + "http://bio.math.berkeley.edu/eXpress/downloads/express-" + version "/express-" version "-src.tgz")) + (sha256 + (base32 + "03rczxd0gjp2l1jxcmjfmf5j94j77zqyxa6x063zsc585nj40n0c")))) + (build-system cmake-build-system) + (arguments + `(#:tests? #f ;no "check" target + #:phases + (alist-cons-after + 'unpack 'use-shared-boost-libs-and-set-bamtools-paths + (lambda* (#:key inputs #:allow-other-keys) + (substitute* "CMakeLists.txt" + (("set\\(Boost_USE_STATIC_LIBS ON\\)") + "set(Boost_USE_STATIC_LIBS OFF)") + (("\\$\\{CMAKE_CURRENT_SOURCE_DIR\\}/bamtools/include") + (string-append (assoc-ref inputs "bamtools") "/include/bamtools"))) + (substitute* "src/CMakeLists.txt" + (("\\$\\{CMAKE_CURRENT_SOURCE_DIR\\}/\\.\\./bamtools/lib") + (string-append (assoc-ref inputs "bamtools") "/lib/bamtools"))) + #t) + %standard-phases))) + (inputs + `(("boost" ,boost) + ("bamtools" ,bamtools) + ("protobuf" ,protobuf) + ("zlib" ,zlib))) + (home-page "http://bio.math.berkeley.edu/eXpress") + (synopsis "Streaming quantification for high-throughput genomic sequencing") + (description + "eXpress is a streaming tool for quantifying the abundances of a set of +target sequences from sampled subsequences. Example applications include +transcript-level RNA-Seq quantification, allele-specific/haplotype expression +analysis (from RNA-Seq), transcription factor binding quantification in +ChIP-Seq, and analysis of metagenomic data.") + (license license:artistic2.0))) + (define-public fastx-toolkit (package (name "fastx-toolkit") @@ -1386,6 +1456,45 @@ sequences.") ;; STAR is licensed under GPLv3 or later; htslib is MIT-licensed. (license license:gpl3+))) +(define-public subread + (package + (name "subread") + (version "1.4.6-p2") + (source (origin + (method url-fetch) + (uri (string-append + "mirror://sourceforge/subread/subread-" + version "-source.tar.gz")) + (sha256 + (base32 + "06sv9mpcsdj6p68y15d6gi70lca3lxmzk0dn61hg0kfsa7rxmsr3")))) + (build-system gnu-build-system) + (arguments + `(#:tests? #f ;no "check" target + #:make-flags '("-f" "Makefile.Linux") + #:phases + (alist-cons-after + 'unpack 'enter-dir + (lambda _ (chdir "src") #t) + (alist-replace + 'install + (lambda* (#:key outputs #:allow-other-keys) + (let ((bin (string-append (assoc-ref outputs "out") "/bin/"))) + (mkdir-p bin) + (copy-recursively "../bin" bin))) + ;; no "configure" script + (alist-delete 'configure %standard-phases))))) + (inputs `(("zlib" ,zlib))) + (home-page "http://bioinf.wehi.edu.au/subread-package/") + (synopsis "Tool kit for processing next-gen sequencing data") + (description + "The subread package contains the following tools: subread aligner, a +general-purpose read aligner; subjunc aligner: detecting exon-exon junctions +and mapping RNA-seq reads; featureCounts: counting mapped reads for genomic +features; exactSNP: a SNP caller that discovers SNPs by testing signals +against local background noises.") + (license license:gpl3+))) + (define-public shogun (package (name "shogun") diff --git a/gnu/packages/boost.scm b/gnu/packages/boost.scm index 10c88f3f2a..2bdd8f19f0 100644 --- a/gnu/packages/boost.scm +++ b/gnu/packages/boost.scm @@ -102,3 +102,25 @@ across a broad spectrum of applications.") (license (license:x11-style "http://www.boost.org/LICENSE_1_0.txt" "Some components have other similar licences.")))) + +(define-public mdds + (package + (name "mdds") + (version "0.12.0") + (source (origin + (method url-fetch) + (uri (string-append + "http://kohei.us/files/mdds/src/mdds_" version ".tar.bz2")) + (sha256 + (base32 + "10ar7r0gkdl2r7916jlkl5c38cynrh7x9s90a5i8d242r8ixw8ia")))) + (build-system gnu-build-system) + (propagated-inputs + `(("boost" ,boost))) ; inclusion of header files + (home-page "https://code.google.com/p/multidimalgorithm/") + (synopsis "Multi-dimensional C++ data structures and indexing algorithms") + (description "Mdds (multi-dimensional data structure) provides a +collection of multi-dimensional data structures and indexing algorithms +for C++. It includes flat segment trees, segment trees, rectangle sets, +point quad trees, multi-type vectors and multi-type matrices.") + (license license:expat))) diff --git a/gnu/packages/commencement.scm b/gnu/packages/commencement.scm index 65524091a9..da1b1ffd98 100644 --- a/gnu/packages/commencement.scm +++ b/gnu/packages/commencement.scm @@ -2,7 +2,7 @@ ;;; Copyright © 2012, 2013, 2014, 2015 Ludovic Courtès <ludo@gnu.org> ;;; Copyright © 2014 Andreas Enge <andreas@enge.fr> ;;; Copyright © 2012 Nikita Karetnikov <nikita@karetnikov.org> -;;; Copyright © 2014 Mark H Weaver <mhw@netris.org> +;;; Copyright © 2014, 2015 Mark H Weaver <mhw@netris.org> ;;; ;;; This file is part of GNU Guix. ;;; @@ -794,4 +794,7 @@ and binaries, plus debugging symbols in the 'debug' output), and Binutils.") (define-public gcc-toolchain-4.9 (gcc-toolchain gcc-4.9)) +(define-public gcc-toolchain-5.1 + (gcc-toolchain gcc-5.1)) + ;;; commencement.scm ends here diff --git a/gnu/packages/cups.scm b/gnu/packages/cups.scm index a74e4097eb..3acf9dfd46 100644 --- a/gnu/packages/cups.scm +++ b/gnu/packages/cups.scm @@ -36,7 +36,7 @@ (define-public cups-filters (package (name "cups-filters") - (version "1.0.61") + (version "1.0.68") (source (origin (method url-fetch) (uri @@ -44,7 +44,7 @@ "cups-filters-" version ".tar.xz")) (sha256 (base32 - "1bq48nnrarlbf6qc93bz1n5wlh6j420gppbck3r45sinwhz5wa7m")) + "0dx4assqzqdi0q4j7z5s7xzzvzxnd5c1njd9139a1h353qrcr5fi")) (modules '((guix build utils))) (snippet ;; install backends, banners and filters to cups-filters output diff --git a/gnu/packages/databases.scm b/gnu/packages/databases.scm index 9df4a14d26..aa0aa0d49f 100644 --- a/gnu/packages/databases.scm +++ b/gnu/packages/databases.scm @@ -228,14 +228,14 @@ as a drop-in replacement of MySQL.") (define-public postgresql (package (name "postgresql") - (version "9.3.5") + (version "9.3.6") (source (origin (method url-fetch) (uri (string-append "http://ftp.postgresql.org/pub/source/v" - version "/postgresql-" version ".tar.gz")) + version "/postgresql-" version ".tar.bz2")) (sha256 (base32 - "08kga00izykgvnx7hn995wc4zjqslspapaa8z63045p1ya14mr4g")))) + "056ass7nnfyv7blv02anv795kgpz77gipdpxggd835cdwrhwns13")))) (build-system gnu-build-system) (inputs `(("readline" ,readline) diff --git a/gnu/packages/enlightenment.scm b/gnu/packages/enlightenment.scm index 4a59e67ed8..c64230097d 100644 --- a/gnu/packages/enlightenment.scm +++ b/gnu/packages/enlightenment.scm @@ -156,15 +156,16 @@ full capabilities of EFL.") (define-public evas-generic-loaders (package (name "evas-generic-loaders") - (version "1.13.0") + (version "1.13.2") (source (origin (method url-fetch) (uri (string-append - "http://download.enlightenment.org/rel/libs/evas_generic_loaders/evas_generic_loaders-" - version ".tar.gz")) + "https://download.enlightenment.org/rel/libs/" + "evas_generic_loaders/evas_generic_loaders-" + version ".tar.xz")) (sha256 - (base32 "16yzjk58bxsd0rlnpzrr8as9fxjjiq01swzhpadsgkmq33abgg63")))) + (base32 "1z5vjabs3psvqs3251mpyl1wgbdv1grn30yf682vamdqc5ckfa69")))) (build-system gnu-build-system) (native-inputs `(("pkg-config" ,pkg-config))) diff --git a/gnu/packages/freedesktop.scm b/gnu/packages/freedesktop.scm index f65a5bbf9d..386f4c5972 100644 --- a/gnu/packages/freedesktop.scm +++ b/gnu/packages/freedesktop.scm @@ -53,14 +53,14 @@ freedesktop.org project.") (define-public libinput (package (name "libinput") - (version "0.13.0") + (version "0.14.1") (source (origin (method url-fetch) (uri (string-append "http://freedesktop.org/software/libinput/" name "-" version ".tar.xz")) (sha256 (base32 - "06n6ih2bfr957rprsgjxhi6f7m96wmf4kgac8y0ispsjvrzszv3c")))) + "0r0v5jqbnwgndq6ns3ss3kv1438ny302m7bg1najcl1dpqp21v9b")))) (build-system gnu-build-system) (native-inputs `(("pkg-config" ,pkg-config))) diff --git a/gnu/packages/gcc.scm b/gnu/packages/gcc.scm index ca85073ea4..dbce52e2f2 100644 --- a/gnu/packages/gcc.scm +++ b/gnu/packages/gcc.scm @@ -327,6 +327,18 @@ Go. It also includes runtime support libraries for these languages.") "1pbjp4blk2ycaa6r3jmw4ky5f1s9ji3klbqgv8zs2sl5jn1cj810")) (patches (list (search-patch "gcc-arm-link-spec-fix.patch"))))))) +(define-public gcc-5.1 + (package (inherit gcc-4.7) + (version "5.1.0") + (source (origin + (method url-fetch) + (uri (string-append "mirror://gnu/gcc/gcc-" + version "/gcc-" version ".tar.bz2")) + (sha256 + (base32 + "1bd5vj4px3s8nlakbgrh38ynxq4s654m6nxz7lrj03mvkkwgvnmp")) + (patches (list (search-patch "gcc-arm-link-spec-fix.patch"))))))) + (define* (custom-gcc gcc name languages #:key (separate-lib-output? #t)) "Return a custom version of GCC that supports LANGUAGES." (package (inherit gcc) diff --git a/gnu/packages/glib.scm b/gnu/packages/glib.scm index 688c0b61d0..1d43895f5c 100644 --- a/gnu/packages/glib.scm +++ b/gnu/packages/glib.scm @@ -207,14 +207,14 @@ dynamic loading, and an object system.") (define gobject-introspection (package (name "gobject-introspection") - (version "1.42.0") + (version "1.44.0") (source (origin (method url-fetch) - (uri (string-append "http://ftp.gnome.org/pub/GNOME/sources/" + (uri (string-append "mirror://gnome/sources/" "gobject-introspection/" (version-major+minor version) "/gobject-introspection-" version ".tar.xz")) (sha256 - (base32 "1xwm7wmr9r9wp6xljb3bckx3a4siybavaq39w46ly7gpskxfv8iv")) + (base32 "1b972qg2yb51sdavfvb6kc19akwc15c1bwnbg81vadxamql2q33g")) (patches (list (search-patch "gobject-introspection-cc.patch") (search-patch @@ -243,14 +243,7 @@ dynamic loading, and an object system.") (arguments `(;; The patch 'gobject-introspection-absolute-shlib-path.patch' causes ;; some tests to fail. - #:tests? #f - #:phases - (alist-cons-before - 'configure 'patch-paths - (lambda _ - (substitute* "giscanner/sourcescanner.py" - (("GUIX_GCC_PATH") (which "gcc")))) - %standard-phases))) + #:tests? #f)) (home-page "https://wiki.gnome.org/GObjectIntrospection") (synopsis "Generate interface introspection data for GObject libraries") (description @@ -313,14 +306,14 @@ The intltool collection can be used to do these things: (define itstool (package (name "itstool") - (version "1.2.0") + (version "2.0.2") (source (origin (method url-fetch) (uri (string-append "http://files.itstool.org/itstool/itstool-" version ".tar.bz2")) (sha256 (base32 - "1akq75aflihm3y7js8biy7b5mw2g11vl8yq90gydnwlwp0zxdzj6")))) + "0fh34wi52i0qikgvlmrcpf1vx6gc1xqdad4539l4d9hikfsrz45z")))) (build-system gnu-build-system) (propagated-inputs `(("libxml2" ,libxml2) @@ -350,7 +343,7 @@ translated.") (define dbus-glib (package (name "dbus-glib") - (version "0.102") + (version "0.104") (source (origin (method url-fetch) (uri @@ -358,7 +351,7 @@ translated.") version ".tar.gz")) (sha256 (base32 - "177j5p2vrvpmzk2xrrj6akn73kvpbvnmsjvlmca9l55qbdcfsr39")))) + "1xi1v1msz75qs0s4lkyf1psrksdppa3hwkg0mznc6gpw5flg3hdz")))) (build-system gnu-build-system) (inputs `(("dbus" ,dbus) @@ -377,14 +370,15 @@ by GDBus included in Glib.") (define libsigc++ (package (name "libsigc++") - (version "2.3.1") + (version "2.4.1") (source (origin (method url-fetch) - (uri (string-append "mirror://gnome/sources/libsigc++/2.3/libsigc++-" - version ".tar.xz")) + (uri (string-append "mirror://gnome/sources/libsigc++/" + (version-major+minor version) "/" + name "-" version ".tar.xz")) (sha256 (base32 - "14q3sq6d43f6wfcmwhw4v1aal4ba0h5x9v6wkxy2dnqznd95il37")))) + "1v0rvkzglzmf67y9nkcppwjwi68j1cy5yhldvcq7xrv8594l612l")))) (build-system gnu-build-system) (native-inputs `(("pkg-config" ,pkg-config) ("m4" ,m4))) @@ -403,7 +397,7 @@ has an ease of use unmatched by other C++ callback libraries.") (define glibmm (package (name "glibmm") - (version "2.42.0") + (version "2.44.0") (source (origin (method url-fetch) (uri (string-append "mirror://gnome/sources/glibmm/" @@ -411,7 +405,7 @@ has an ease of use unmatched by other C++ callback libraries.") "/glibmm-" version ".tar.xz")) (sha256 (base32 - "15rk3az8jh3rdwlc3lxjljbnh60drj3ka9574zd39lkqfgcq6l4q")))) + "1a1fczy7hcpn24fglyn4i79f4yjc8s50is70q03mb294bm1c02hv")))) (build-system gnu-build-system) (arguments `(#:phases (alist-cons-before @@ -485,8 +479,7 @@ useful for C++.") (define-public python-pygobject (package (name "python-pygobject") - (version "3.12.2") ;last version that works with - ;gobject-introspection 1.38 + (version "3.16.1") (source (origin (method url-fetch) @@ -495,8 +488,7 @@ useful for C++.") "/pygobject-" version ".tar.xz")) (sha256 (base32 - "08m5yad1hjdax4g39w6lgjk4124mcwpa8fc5iyvb8nygk8s3syky")))) - ;; 3.14.0: 0m1d75iwxa6k1xbkn6c6yq5r10pxnf7i5c2a5yvwsnab7ylzz7kp + "1hqyma73w0lnjcgx68kawhnq84aq92xlkdqphrlc2ppia38dm5kx")))) (build-system gnu-build-system) (native-inputs `(("which" ,which) @@ -549,14 +541,6 @@ useful for C++.") (base32 "1symyzbjmxvksn2ifdkk50lafjm2llf2sbmky062gq2pz3cg23cy")))) (build-system gnu-build-system) - (arguments - '(#:phases (alist-cons-before - 'build 'set-cc - (lambda _ - ;; Set $CC so that g-ir-scanner works. - (setenv "CC" "gcc") - #t) - %standard-phases))) (native-inputs `(("glib" ,glib "bin") ; uses glib-mkenums ("pkg-config" ,pkg-config) diff --git a/gnu/packages/gnome.scm b/gnu/packages/gnome.scm index 33ce2e8717..871cde8491 100644 --- a/gnu/packages/gnome.scm +++ b/gnu/packages/gnome.scm @@ -499,13 +499,6 @@ some form of information without getting in the user's way.") ("glib:bin" ,glib "bin") ("gobject-introspection" ,gobject-introspection) ("intltool" ,intltool))) - (arguments - `(#:phases - (alist-cons-before - 'build 'pre-build - (lambda* _ - (setenv "CC" "gcc")) - %standard-phases))) (home-page "https://wiki.gnome.org/Libpeas") (synopsis "GObject plugin system") (description @@ -675,11 +668,7 @@ dealing with different structured file formats.") (string-join (find-files (assoc-ref inputs "gdk-pixbuf") "libpixbufloader-.*\\.so") " ") "> " loaders-directory ".cache"))))) - (alist-cons-before - 'build 'pre-build - (lambda* _ - (setenv "CC" "gcc")) - %standard-phases))))) + %standard-phases)))) (native-inputs `(("pkg-config" ,pkg-config) ("glib" ,glib "bin") ; glib-mkenums, etc. @@ -1385,7 +1374,7 @@ engineering.") (define-public vala (package (name "vala") - (version "0.26.1") + (version "0.28.0") (source (origin (method url-fetch) (uri (string-append "mirror://gnome/sources/" name "/" @@ -1393,9 +1382,15 @@ engineering.") name "-" version ".tar.xz")) (sha256 (base32 - "0swyym2papln0f62ah05dpvq3vv6fssap26jq2zqp9dkkaqsn1w4")))) + "0zwpzhkhfk3piya14m7p2hl2vaabahprphppfm46ci91z39kp7hd")))) (build-system gnu-build-system) - (arguments '(#:make-flags '("CC=gcc"))) + (arguments + '(#:phases + (modify-phases %standard-phases + (add-before 'check 'set-cc + (lambda _ + (setenv "CC" "gcc") + #t))))) (native-inputs `(("pkg-config" ,pkg-config) ("flex" ,flex) @@ -1437,13 +1432,6 @@ libraries written in C.") (propagated-inputs `(("gtk+" ,gtk+) ;required by vte-2.91.pc ("gnutls" ,gnutls))) ;ditto - (arguments - `(#:phases - (alist-cons-before - 'build 'pre-build - (lambda* _ - (setenv "CC" "gcc")) - %standard-phases))) (home-page "http://www.gnome.org/") (synopsis "Virtual Terminal Emulator") (description @@ -1542,14 +1530,6 @@ configuration storage systems.") (base32 "02k66lpc4cmgygj66n8zcy59bggy7yzm3v4hni9xqplgva9d2yw8")))) (build-system gnu-build-system) - (arguments - '(#:phases (alist-cons-before - 'build 'set-cc - (lambda _ - ;; Set $CC so that g-ir-scanner works. - (setenv "CC" "gcc") - #t) - %standard-phases))) (native-inputs `(("glib" ,glib "bin") ;for glib-mkenums and glib-genmarshal ("gobject-introspection" ,gobject-introspection) @@ -1581,13 +1561,7 @@ JSON, such as arrays and objects.") '(#:configure-flags (list (string-append "--with-xkb-base=" (assoc-ref %build-inputs "xkeyboard-config") - "/share/X11/xkb")) - #:phases - (alist-cons-before - 'build 'set-cc - (lambda _ - (setenv "CC" "gcc")) ; for g-ir-scanner. - %standard-phases))) + "/share/X11/xkb")))) (native-inputs `(("glib:bin" ,glib "bin") ; for glib-mkenums, etc. ("gobject-introspection" ,gobject-introspection) @@ -1698,8 +1672,7 @@ library.") (build-system gnu-build-system) (outputs '("out" "doc")) (arguments - `(#:make-flags '("CC=gcc") ; for g-ir-scanner - #:configure-flags + `(#:configure-flags (list (string-append "--with-html-dir=" (assoc-ref %outputs "doc") "/share/gtk-doc/html") @@ -1762,7 +1735,6 @@ and the GLib main loop, to integrate well with GNOME applications.") (outputs '("out" "doc")) (arguments `(#:tests? #f ; FIXME: Testing hangs. - #:make-flags '("CC=gcc") ; for g-ir-scanner. #:configure-flags (list (string-append "--with-html-dir=" (assoc-ref %outputs "doc") @@ -1926,12 +1898,7 @@ keyboard shortcuts.") (("/bin/true") (which "true"))) (substitute* "src/Makefile.in" (("if test -w \\$\\(DESTDIR\\)\\$\\(prefix\\)/;") - "if test -w $(DESTDIR)$(localstatedir);")))) - (add-before 'build 'set-cc - (lambda _ - ;; Set $CC so that g-ir-scanner works. - (setenv "CC" "gcc") - #t))))) + "if test -w $(DESTDIR)$(localstatedir);"))))))) (native-inputs `(("pkg-config" ,pkg-config) ("gobject-introspection" ,gobject-introspection) @@ -2015,7 +1982,6 @@ permission from user. ") `(;; The tests want to write to $HOME/.cache/geocode-glib, which doesn't ;; work for the builder. Punt. #:tests? #f - #:make-flags '("CC=gcc") ; for g-ir-scanner )) (native-inputs `(("glib:bin" ,glib "bin") ; for glib-mkenums @@ -2103,7 +2069,6 @@ service via the system message bus.") `(;; The tests want to write to $HOME/.cache/geocode-glib, which doesn't ;; work for the builder. Punt. #:tests? #f - #:make-flags '("CC=gcc") ; for g-ir-scanner #:configure-flags `(;; No introspection for now, as it wants to install to ;; gobject-introspection's own directory and I don't know how to easily diff --git a/gnu/packages/gnupg.scm b/gnu/packages/gnupg.scm index 7a16b4161a..3b29d1abfa 100644 --- a/gnu/packages/gnupg.scm +++ b/gnu/packages/gnupg.scm @@ -286,7 +286,7 @@ libskba (working with X.509 certificates and CMS data).") (define-public gpgme (package (name "gpgme") - (version "1.5.3") + (version "1.5.4") (source (origin (method url-fetch) @@ -294,7 +294,7 @@ libskba (working with X.509 certificates and CMS data).") ".tar.bz2")) (sha256 (base32 - "1jgwmra6cf0i5x2prj92w77vl7hmj276qmmll3lwysbyn32l1c0d")))) + "0v7azxazsfakvhrxzj5ysvcxma0892c89d27c17fkj8mi3nc0f5v")))) (build-system gnu-build-system) (propagated-inputs ;; Needs to be propagated because gpgme.h includes gpg-error.h. @@ -434,7 +434,7 @@ PGP keysigning parties.") including tools for signing keys, keyring analysis, and party preparation. * caff: CA - Fire and Forget signs and mails a key - + * pgp-clean: removes all non-self signatures from key * pgp-fixkey: removes broken packets from keys diff --git a/gnu/packages/gtk.scm b/gnu/packages/gtk.scm index cd54cfc5b9..0f7ba863e8 100644 --- a/gnu/packages/gtk.scm +++ b/gnu/packages/gtk.scm @@ -30,6 +30,7 @@ #:use-module (guix build-system gnu) #:use-module (guix build-system python) #:use-module (guix build-system waf) + #:use-module (gnu packages) #:use-module (gnu packages check) #:use-module (gnu packages gettext) #:use-module (gnu packages compression) @@ -352,8 +353,7 @@ in the GNOME project.") (build-system gnu-build-system) (outputs '("out" "doc")) (arguments - '(#:make-flags '("CC=gcc") ; for g-ir-scanner - #:configure-flags + '(#:configure-flags (list (string-append "--with-html-dir=" (assoc-ref %outputs "doc") "/share/gtk-doc/html")) @@ -449,8 +449,7 @@ is part of the GNOME accessibility project.") ("pkg-config" ,pkg-config) ("python-wrapper" ,python-wrapper))) (arguments - `(#:make-flags '("CC=gcc") - #:configure-flags + `(#:configure-flags (list "--with-xinput=yes" (string-append "--with-html-dir=" (assoc-ref %outputs "doc") @@ -475,7 +474,7 @@ application suites.") (define-public gtk+ (package (inherit gtk+-2) (name "gtk+") - (version "3.16.0") + (version "3.16.2") (source (origin (method url-fetch) (uri (string-append "mirror://gnome/sources/" name "/" @@ -483,7 +482,7 @@ application suites.") name "-" version ".tar.xz")) (sha256 (base32 - "1si6ihl1wlvag8qq3166skr9fnm9i33dimbfry1j628qzqc76qff")))) + "1yhwg2l72l3khfkprydcjlpxjrg11ccqfc80sjl56llz3jk66fd0")))) (propagated-inputs `(("at-spi2-atk" ,at-spi2-atk) ("atk" ,atk) @@ -625,7 +624,7 @@ library.") (define-public pangomm (package (name "pangomm") - (version "2.34.0") + (version "2.36.0") (source (origin (method url-fetch) (uri (string-append "mirror://gnome/sources/" name "/" @@ -633,7 +632,7 @@ library.") name "-" version ".tar.xz")) (sha256 (base32 - "0hcyvv7c5zmivprdam6cp111i6hn2y5jsxzk00m6j9pncbzvp0hf")))) + "1w11d05nkxglzg67rfa81vqghm75xhy6j396xmmp5mq8qx96knd8")))) (build-system gnu-build-system) (native-inputs `(("pkg-config" ,pkg-config))) (propagated-inputs @@ -674,7 +673,7 @@ toolkit.") (define-public gtkmm (package (name "gtkmm") - (version "3.14.0") + (version "3.16.0") (source (origin (method url-fetch) (uri (string-append "mirror://gnome/sources/" name "/" @@ -682,7 +681,7 @@ toolkit.") name "-" version ".tar.xz")) (sha256 (base32 - "12z4g2in82nk92nfjs2hmrdcwbav8v3laz1813x2dhkf5jk2ixfr")))) + "036xn22jkaf3akpid7w23b8vkqa3xxqz93mwacmyar5vw7slm3cv")))) (build-system gnu-build-system) (native-inputs `(("pkg-config" ,pkg-config))) (propagated-inputs @@ -706,7 +705,7 @@ extensive documentation, including API reference and a tutorial.") (define-public gtkmm-2 (package (inherit gtkmm) (name "gtkmm") - (version "2.24.2") + (version "2.24.4") (source (origin (method url-fetch) (uri (string-append "mirror://gnome/sources/" name "/" @@ -714,7 +713,7 @@ extensive documentation, including API reference and a tutorial.") name "-" version ".tar.xz")) (sha256 (base32 - "0gcm91sc1a05c56kzh74l370ggj0zz8nmmjvjaaxgmhdq8lpl369")))) + "1vpmjqv0aqb1ds0xi6nigxnhlr0c74090xzi15b92amlzkrjyfj4")))) (propagated-inputs `(("pangomm" ,pangomm) ("cairomm" ,cairomm) @@ -733,29 +732,23 @@ extensive documentation, including API reference and a tutorial.") version ".tar.bz2")) (sha256 (base32 - "1gjkf8x6hyx1skq3hhwcbvwifxvrf9qxis5vx8x5igmmgs70g94s")))) - (build-system python-build-system) + "1gjkf8x6hyx1skq3hhwcbvwifxvrf9qxis5vx8x5igmmgs70g94s")) + (patches (list (search-patch "pycairo-wscript.patch"))))) + (build-system waf-build-system) (native-inputs - `(("pkg-config" ,pkg-config))) + `(("pkg-config" ,pkg-config) + ("python-waf" ,python-waf))) (propagated-inputs ;pycairo.pc references cairo `(("cairo" ,cairo))) (arguments `(#:tests? #f - #:phases (alist-cons-before - 'build 'configure - (lambda* (#:key outputs #:allow-other-keys) - (zero? (system* "./waf" "configure" - (string-append "--prefix=" - (assoc-ref outputs "out"))))) - (alist-replace - 'build - (lambda _ - (zero? (system* "./waf" "build"))) - (alist-replace - 'install - (lambda _ - (zero? (system* "./waf" "install"))) - %standard-phases))))) + #:phases + (modify-phases %standard-phases + (add-before + 'configure 'patch-waf + (lambda* (#:key inputs #:allow-other-keys) + ;; The bundled `waf' doesn't work with python-3.4.x. + (copy-file (assoc-ref %build-inputs "python-waf") "./waf")))))) (home-page "http://cairographics.org/pycairo/") (synopsis "Python bindings for cairo") (description @@ -776,7 +769,11 @@ extensive documentation, including API reference and a tutorial.") "0cblk919wh6w0pgb45zf48xwxykfif16qk264yga7h9fdkq3j16k")))) (arguments `(#:python ,python-2 - ,@(package-arguments python-pycairo))) + ,@(substitute-keyword-arguments (package-arguments python-pycairo) + ((#:phases phases) + `(alist-delete 'patch-waf ,phases)) + ((#:native-inputs native-inputs) + `(alist-delete "python-waf" ,native-inputs))))) ;; Dual-licensed under LGPL 2.1 or Mozilla Public License 1.1 (license (list license:lgpl2.1 license:mpl1.1)))) diff --git a/gnu/packages/java.scm b/gnu/packages/java.scm index 2a8cd99fe6..a77d1716bc 100644 --- a/gnu/packages/java.scm +++ b/gnu/packages/java.scm @@ -32,6 +32,7 @@ #:use-module (gnu packages fontutils) #:use-module (gnu packages gawk) #:use-module (gnu packages gcc) + #:use-module (gnu packages gl) #:use-module (gnu packages gnuzilla) ;nss #:use-module (gnu packages ghostscript) ;lcms #:use-module (gnu packages gnome) @@ -47,6 +48,88 @@ #:use-module (gnu packages zip) #:use-module (gnu packages texinfo)) +(define-public swt + (package + (name "swt") + (version "4.4.2") + (source (origin + (method url-fetch) + (uri (string-append + "http://ftp-stud.fht-esslingen.de/pub/Mirrors/" + "eclipse/eclipse/downloads/drops4/R-" version + "-201502041700/swt-" version "-gtk-linux-x86.zip")) + (sha256 + (base32 + "0lzyqr8k2zm5s8fmnrx5kxpslxfs0i73y26fwfms483x45izzwj8")))) + (build-system gnu-build-system) + (arguments + `(#:make-flags '("-f" "make_linux.mak") + #:tests? #f ; no "check" target + #:phases + (alist-replace + 'unpack + (lambda _ + (and (mkdir "swt") + (zero? (system* "unzip" (assoc-ref %build-inputs "source") "-d" "swt")) + (chdir "swt") + (mkdir "src") + (zero? (system* "unzip" "src.zip" "-d" "src")) + (chdir "src"))) + (alist-replace + 'build + (lambda* (#:key inputs outputs #:allow-other-keys) + (let ((lib (string-append (assoc-ref outputs "out") "/lib"))) + (setenv "JAVA_HOME" (assoc-ref inputs "icedtea6")) + + ;; Build shared libraries. Users of SWT have to set the system + ;; property swt.library.path to the "lib" directory of this + ;; package output. + (mkdir-p lib) + (setenv "OUTPUT_DIR" lib) + (zero? (system* "bash" "build.sh")) + + ;; build jar + (mkdir "build") + (for-each (lambda (file) + (format #t "Compiling ~s\n" file) + (system* "javac" "-d" "build" file)) + (find-files "." "\\.java")) + (zero? (system* "jar" "cvf" "swt.jar" "-C" "build" ".")))) + (alist-cons-after + 'install 'install-java-files + (lambda* (#:key outputs #:allow-other-keys) + (let ((java (string-append (assoc-ref outputs "out") + "/share/java"))) + (mkdir-p java) + (copy-file "swt.jar" (string-append java "/swt.jar"))) #t) + (alist-delete 'configure %standard-phases)))))) + (inputs + `(("xulrunner" ,icecat) + ("gtk" ,gtk+-2) + ("libxtst" ,libxtst) + ("libxt" ,libxt) + ("mesa" ,mesa) + ("glu" ,glu))) + (native-inputs + `(("pkg-config" ,pkg-config) + ("unzip" ,unzip) + ("icedtea6" ,icedtea6 "jdk"))) + (home-page "https://www.eclipse.org/swt/") + (synopsis "Widget toolkit for Java") + (description + "SWT is a widget toolkit for Java designed to provide efficient, portable +access to the user-interface facilities of the operating systems on which it +is implemented.") + ;; SWT code is licensed under EPL1.0 + ;; Gnome and Gtk+ bindings contain code licensed under LGPLv2.1 + ;; Cairo bindings contain code under MPL1.1 + ;; XULRunner 1.9 bindings contain code under MPL2.0 + (license (list + license:epl1.0 + license:mpl1.1 + license:mpl2.0 + license:lgpl2.1+)))) + (define-public ant (package (name "ant") diff --git a/gnu/packages/julia.scm b/gnu/packages/julia.scm index e5990441f5..c9428c4f12 100644 --- a/gnu/packages/julia.scm +++ b/gnu/packages/julia.scm @@ -118,7 +118,10 @@ ,(match (or (%current-target-system) (%current-system)) ("x86_64-linux" "MARCH=x86-64") - ("i686-linux" "MARCH=pentium4")) + ("i686-linux" "MARCH=pentium4") + ;; Prevent errors when querying this package on unsupported + ;; platforms, e.g. when running "guix package --search=" + (_ "MARCH=UNSUPPORTED")) "CONFIG_SHELL=bash" ;needed to build bundled libraries "USE_SYSTEM_LIBUV=0" ;Julia expects a modified libuv diff --git a/gnu/packages/libidn.scm b/gnu/packages/libidn.scm index 3e55618e53..49dafbeb6d 100644 --- a/gnu/packages/libidn.scm +++ b/gnu/packages/libidn.scm @@ -26,13 +26,13 @@ (define-public libidn (package (name "libidn") - (version "1.29") + (version "1.30") (source (origin (method url-fetch) (uri (string-append "mirror://gnu/libidn/libidn-" version ".tar.gz")) (sha256 (base32 - "0z3w5arlvyiyvzg76msg3n2px3c1glqr6wnj7rq6zczrpdyp90pv")))) + "0lxh5r1z8gsk4jxx3rv8aasjv8p53j4y04kvfn2w30a0syagrf9r")))) (build-system gnu-build-system) ;; FIXME: No Java and C# libraries are currently built. (synopsis "Internationalized string processing library") diff --git a/gnu/packages/lisp.scm b/gnu/packages/lisp.scm index 8f12efb9eb..feaa08af38 100644 --- a/gnu/packages/lisp.scm +++ b/gnu/packages/lisp.scm @@ -343,9 +343,13 @@ statistical profiler, a code coverage tool, and many other extensions.") (chdir (string-append "lisp-kernel/" ,(match (or (%current-target-system) (%current-system)) - ("i686-linux" "linuxx8632") + ("i686-linux" "linuxx8632") ("x86_64-linux" "linuxx8664") - ("armhf-linux" "linuxarm")))) + ("armhf-linux" "linuxarm") + ;; Prevent errors when querying this package + ;; on unsupported platforms, e.g. when running + ;; "guix package --search=" + (_ "UNSUPPORTED")))) (substitute* '("Makefile") (("/bin/rm") "rm")) (setenv "CC" "gcc") @@ -366,9 +370,13 @@ statistical profiler, a code coverage tool, and many other extensions.") (bash (assoc-ref inputs "bash")) (kernel ,(match (or (%current-target-system) (%current-system)) - ("i686-linux" "lx86cl") + ("i686-linux" "lx86cl") ("x86_64-linux" "lx86cl64") - ("armhf-linux" "armcl"))) + ("armhf-linux" "armcl") + ;; Prevent errors when querying this package + ;; on unsupported platforms, e.g. when running + ;; "guix package --search=" + (_ "UNSUPPORTED"))) (heap (string-append kernel ".image"))) (mkdir-p libdir) (mkdir-p bindir) diff --git a/gnu/packages/mail.scm b/gnu/packages/mail.scm index 9a61cf4580..170fbe4921 100644 --- a/gnu/packages/mail.scm +++ b/gnu/packages/mail.scm @@ -28,6 +28,7 @@ #:use-module (gnu packages autotools) #:use-module (gnu packages base) #:use-module (gnu packages backup) + #:use-module (gnu packages bash) #:use-module (gnu packages curl) #:use-module (gnu packages cyrus-sasl) #:use-module (gnu packages databases) @@ -361,27 +362,37 @@ attachments, create new maildirs, and so on.") (define-public notmuch (package (name "notmuch") - (version "0.18.1") + (version "0.19") (source (origin (method url-fetch) (uri (string-append "http://notmuchmail.org/releases/notmuch-" version ".tar.gz")) (sha256 (base32 - "1pdp9l7yv71d3fjb30qyccva8h03hvg88q4a00yi50v2j70kvmgj")))) + "1szf6c44g209pcjq5nvfhlp3nzcm3lrcwv4spsxmwy13hiaccvrr")))) (build-system gnu-build-system) (arguments '(#:tests? #f ;; FIXME: Test suite hangs and times out. #:phases (alist-replace 'configure (lambda* (#:key outputs #:allow-other-keys) + (setenv "CC" "gcc") (setenv "CONFIG_SHELL" (which "sh")) + + ;; XXX Should python-docutils make a symlink + ;; for "rst2man" and other similar programs? + (substitute* '("configure" "doc/prerst2man.py") + ((" rst2man ") " rst2man.py ")) + (let ((out (assoc-ref outputs "out"))) (zero? (system* "./configure" (string-append "--prefix=" out))))) %standard-phases))) (native-inputs - `(("pkg-config" ,pkg-config))) + `(("pkg-config" ,pkg-config) + ("python" ,python-2) + ("python2-docutils" ,python2-docutils) + ("bash-completion" ,bash-completion))) (inputs `(("emacs" ,emacs) ("glib" ,glib) diff --git a/gnu/packages/music.scm b/gnu/packages/music.scm index 0c83b0bd82..5795ecbb0d 100644 --- a/gnu/packages/music.scm +++ b/gnu/packages/music.scm @@ -29,6 +29,7 @@ #:use-module (gnu packages flex) #:use-module (gnu packages fonts) #:use-module (gnu packages fontutils) + #:use-module (gnu packages gcc) #:use-module (gnu packages gettext) #:use-module (gnu packages ghostscript) #:use-module (gnu packages gnome) @@ -36,6 +37,7 @@ #:use-module (gnu packages guile) #:use-module (gnu packages image) #:use-module (gnu packages imagemagick) + #:use-module (gnu packages java) #:use-module (gnu packages linux) ; for alsa-utils #:use-module (gnu packages man) #:use-module (gnu packages mp3) @@ -221,3 +223,54 @@ features a statistics overview so you can monitor your progress across several sessions. Solfege is also designed to be extensible so you can easily write your own lessons.") (license license:gpl3+))) + +(define-public tuxguitar + (package + (name "tuxguitar") + (version "1.2") + (source (origin + (method url-fetch) + (uri (string-append + "mirror://sourceforge/tuxguitar/TuxGuitar/TuxGuitar-" + version "/tuxguitar-src-" version ".tar.gz")) + (sha256 + (base32 + "1g1yf2gd06fzdhqb8kb8dmdcmr602s9y24f01kyl4940wimgr944")))) + (build-system gnu-build-system) + (arguments + `(#:make-flags (list (string-append "LDFLAGS=-Wl,-rpath=" + (assoc-ref %outputs "out") "/lib") + (string-append "PREFIX=" + (assoc-ref %outputs "out")) + (string-append "SWT_PATH=" + (assoc-ref %build-inputs "swt") + "/share/java/swt.jar")) + #:tests? #f ;no "check" target + #:parallel-build? #f ;not supported + #:phases + (alist-cons-before + 'build 'enter-dir-set-path-and-pass-ldflags + (lambda* (#:key inputs #:allow-other-keys) + (chdir "TuxGuitar") + (substitute* "GNUmakefile" + (("PROPERTIES\\?=") + (string-append "PROPERTIES?= -Dswt.library.path=" + (assoc-ref inputs "swt") "/lib")) + (("\\$\\(GCJ\\) -o") "$(GCJ) $(LDFLAGS) -o")) + #t) + (alist-delete 'configure %standard-phases)))) + (inputs + `(("swt" ,swt))) + (native-inputs + `(("gcj" ,gcj-4.8) + ("pkg-config" ,pkg-config))) + (home-page "http://tuxguitar.com.ar") + (synopsis "Multitrack tablature editor and player") + (description + "TuxGuitar is a guitar tablature editor with player support through midi. +It can display scores and multitrack tabs. TuxGuitar provides various +additional features, including autoscrolling while playing, note duration +management, bend/slide/vibrato/hammer-on/pull-off effects, support for +tuplets, time signature management, tempo management, gp3/gp4/gp5 import and +export.") + (license license:lgpl2.1+))) diff --git a/gnu/packages/ocr.scm b/gnu/packages/ocr.scm index b94a7f51cb..0d5fbcdc29 100644 --- a/gnu/packages/ocr.scm +++ b/gnu/packages/ocr.scm @@ -29,14 +29,14 @@ (define-public ocrad (package (name "ocrad") - (version "0.24") + (version "0.25") (source (origin (method url-fetch) (uri (string-append "mirror://gnu/ocrad/ocrad-" version ".tar.lz")) (sha256 (base32 - "0hhlx072d00bi9qia0nj5izsq4qkscpfz2mpbyfc72msl3hfvslv")))) + "1m2dblgvvjs48rsglfdwq0ib9zk8h9n34xsh67ibrg0g0ffbw477")))) (build-system gnu-build-system) (native-inputs `(("lzip" ,lzip))) (home-page "http://www.gnu.org/software/ocrad/") diff --git a/gnu/packages/package-management.scm b/gnu/packages/package-management.scm index 131cbcd9a7..75efd0c448 100644 --- a/gnu/packages/package-management.scm +++ b/gnu/packages/package-management.scm @@ -67,6 +67,9 @@ `(#:configure-flags (list "--localstatedir=/var" "--sysconfdir=/etc" + (string-append "--with-bash-completion-dir=" + (assoc-ref %outputs "out") + "/etc/bash_completion.d") (string-append "--with-libgcrypt-prefix=" (assoc-ref %build-inputs "libgcrypt"))) @@ -145,7 +148,7 @@ the Nix package manager.") ;; ;; Note: use a short commit id; when using the long one, the limit on socket ;; file names is exceeded while running the tests. - (let ((commit "0b13161")) + (let ((commit "fc34dee")) (package (inherit guix-0.8.1) (version (string-append "0.8.1." commit)) (source (origin @@ -155,7 +158,7 @@ the Nix package manager.") (commit commit))) (sha256 (base32 - "0h9yyfxs14di858hb9ypjvdjryv8nzll6f9vxkggcy40iyhp65sh")))) + "0nx60wwiar0s4bgwrm3nrskc54jig3vw7yzwxkwilc43cnlgpkja")))) (arguments (substitute-keyword-arguments (package-arguments guix-0.8.1) ((#:phases phases) diff --git a/gnu/packages/patches/gitolite-openssh-6.8-compat.patch b/gnu/packages/patches/gitolite-openssh-6.8-compat.patch new file mode 100644 index 0000000000..d7fc2e6b12 --- /dev/null +++ b/gnu/packages/patches/gitolite-openssh-6.8-compat.patch @@ -0,0 +1,25 @@ +From ed807a40c6683960e357bc995b3acf721ec088b4 Mon Sep 17 00:00:00 2001 +From: Sitaram Chamarty <sitaram@atc.tcs.com> +Date: Thu, 19 Mar 2015 05:17:59 +0530 +Subject: [PATCH] openssh 6.8 compat + +--- + src/triggers/post-compile/ssh-authkeys | 2 +- + 1 file changed, 1 insertion(+), 1 deletion(-) + +diff --git a/src/triggers/post-compile/ssh-authkeys b/src/triggers/post-compile/ssh-authkeys +index 84dda73..d5f5d8b 100755 +--- a/src/triggers/post-compile/ssh-authkeys ++++ b/src/triggers/post-compile/ssh-authkeys +@@ -115,7 +115,7 @@ sub fp_file { + my $f = shift; + my $fp = `ssh-keygen -l -f '$f'`; + chomp($fp); +- _die "fingerprinting failed for '$f'" unless $fp =~ /([0-9a-f][0-9a-f](:[0-9a-f][0-9a-f])+)/; ++ _die "fingerprinting failed for '$f'" unless $fp =~ /([0-9a-f][0-9a-f](:[0-9a-f][0-9a-f])+)/ or $fp =~ m(SHA256:([A-ZA-z0-9+/]+)); + $fp = $1; + return $fp; + } +-- +2.2.1 + diff --git a/gnu/packages/patches/gobject-introspection-cc.patch b/gnu/packages/patches/gobject-introspection-cc.patch index 38b919a746..d9cacf4ca7 100644 --- a/gnu/packages/patches/gobject-introspection-cc.patch +++ b/gnu/packages/patches/gobject-introspection-cc.patch @@ -1,14 +1,11 @@ ---- a/giscanner/sourcescanner.py 2013-12-15 23:03:54.002937000 +0100 -+++ b/giscanner/sourcescanner.py 2013-12-15 23:04:50.322937000 +0100 -@@ -277,6 +277,11 @@ - defines = ['__GI_SCANNER__'] - undefs = [] - cpp_args = os.environ.get('CC', 'cc').split() # support CC="ccache gcc" -+ if (cpp_args == ['cc'] and -+ not any(map(lambda x: os.access(os.path.join(x, 'cc'), os.X_OK), -+ os.environ.get('PATH').split(':')))): -+ cpp_args = ['GUIX_GCC_PATH'] -+ - if 'cl' in cpp_args: - # The Microsoft compiler/preprocessor (cl) does not accept - # source input from stdin (the '-' flag), so we need +Use gcc as the default C compiler if CC is not set. + + +--- gobject-introspection-1.44.0.orig/giscanner/__init__.py 2014-08-04 22:37:07.000000000 +0800 ++++ gobject-introspection-1.44.0/giscanner/__init__.py 2015-04-20 17:30:26.507697234 +0800 +@@ -22,3 +22,5 @@ + builddir = os.environ.get('UNINSTALLED_INTROSPECTION_BUILDDIR') + if builddir is not None: + __path__.append(os.path.join(builddir, 'giscanner')) ++if not 'CC' in os.environ: ++ os.environ['CC'] = 'gcc' diff --git a/gnu/packages/patches/pycairo-wscript.patch b/gnu/packages/patches/pycairo-wscript.patch new file mode 100644 index 0000000000..c49f0afcb3 --- /dev/null +++ b/gnu/packages/patches/pycairo-wscript.patch @@ -0,0 +1,31 @@ +Update the wscript to work with waf-1.8.8. Based on: +http://cgit.freedesktop.org/pycairo/commit/?id=c57cd129407c904f8c2f752a59d0183df7b01a5e + + +--- pycairo-1.10.0.orig/wscript 2011-04-18 15:42:29.000000000 +0800 ++++ pycairo-1.10.0/wscript 2015-04-20 13:01:45.383756898 +0800 +@@ -13,18 +13,18 @@ + + def options(ctx): + print(' %s/options()' %d) +- ctx.tool_options('gnu_dirs') +- ctx.tool_options('compiler_cc') +- ctx.tool_options('python') # options for disabling pyc or pyo compilation ++ ctx.load('gnu_dirs') ++ ctx.load('compiler_c') ++ ctx.load('python') # options for disabling pyc or pyo compilation + + + def configure(ctx): + print(' %s/configure()' %d) + + env = ctx.env +- ctx.check_tool('gnu_dirs') +- ctx.check_tool('compiler_cc') +- ctx.check_tool('python') ++ ctx.load('gnu_dirs') ++ ctx.load('compiler_c') ++ ctx.load('python') + ctx.check_python_version((3,1,0)) + ctx.check_python_headers() + ctx.check_cfg(package='cairo', atleast_version=cairo_version_required, diff --git a/gnu/packages/patches/wpa-supplicant-CVE-2015-1863.patch b/gnu/packages/patches/wpa-supplicant-CVE-2015-1863.patch new file mode 100644 index 0000000000..de1964ca76 --- /dev/null +++ b/gnu/packages/patches/wpa-supplicant-CVE-2015-1863.patch @@ -0,0 +1,42 @@ +From 9ed4eee345f85e3025c33c6e20aa25696e341ccd Mon Sep 17 00:00:00 2001 +From: Jouni Malinen <jouni@qca.qualcomm.com> +Date: Tue, 7 Apr 2015 11:32:11 +0300 +Subject: [PATCH] P2P: Validate SSID element length before copying it + (CVE-2015-1863) + +This fixes a possible memcpy overflow for P2P dev->oper_ssid in +p2p_add_device(). The length provided by the peer device (0..255 bytes) +was used without proper bounds checking and that could have resulted in +arbitrary data of up to 223 bytes being written beyond the end of the +dev->oper_ssid[] array (of which about 150 bytes would be beyond the +heap allocation) when processing a corrupted management frame for P2P +peer discovery purposes. + +This could result in corrupted state in heap, unexpected program +behavior due to corrupted P2P peer device information, denial of service +due to process crash, exposure of memory contents during GO Negotiation, +and potentially arbitrary code execution. + +Thanks to Google security team for reporting this issue and smart +hardware research group of Alibaba security team for discovering it. + +Signed-off-by: Jouni Malinen <jouni@qca.qualcomm.com> +--- + src/p2p/p2p.c | 1 + + 1 file changed, 1 insertion(+) + +diff --git a/src/p2p/p2p.c b/src/p2p/p2p.c +index f584fae..a45fe73 100644 +--- a/src/p2p/p2p.c ++++ b/src/p2p/p2p.c +@@ -778,6 +778,7 @@ int p2p_add_device(struct p2p_data *p2p, const u8 *addr, int freq, + if (os_memcmp(addr, p2p_dev_addr, ETH_ALEN) != 0) + os_memcpy(dev->interface_addr, addr, ETH_ALEN); + if (msg.ssid && ++ msg.ssid[1] <= sizeof(dev->oper_ssid) && + (msg.ssid[1] != P2P_WILDCARD_SSID_LEN || + os_memcmp(msg.ssid + 2, P2P_WILDCARD_SSID, P2P_WILDCARD_SSID_LEN) + != 0)) { +-- +1.9.1 + diff --git a/gnu/packages/pdf.scm b/gnu/packages/pdf.scm index 21fb39562b..bca577eb35 100644 --- a/gnu/packages/pdf.scm +++ b/gnu/packages/pdf.scm @@ -50,13 +50,13 @@ (define-public poppler (package (name "poppler") - (version "0.28.1") + (version "0.32.0") (source (origin (method url-fetch) (uri (string-append "http://poppler.freedesktop.org/poppler-" version ".tar.xz")) (sha256 (base32 - "01pxjdbhvpxf00ncf8d9wxc8gkcqcxz59lwrpa151ah988inxkrc")))) + "162vfbvbz0frvqyk00ldsbl49h4bj8i8wn0ngfl30xg1lldy6qs9")))) (build-system gnu-build-system) ;; FIXME: more dependencies could be added ;; cairo output: no (requires cairo >= 1.10.0) diff --git a/gnu/packages/python.scm b/gnu/packages/python.scm index d64f6331d9..050c0de402 100644 --- a/gnu/packages/python.scm +++ b/gnu/packages/python.scm @@ -3508,3 +3508,39 @@ It is written entirely in Python.") (define-public python2-singledispatch (package-with-python2 python-singledispatch)) + +(define-public python-waf + (package + (name "python-waf") + (version "1.8.8") + (source (origin + (method url-fetch) + (uri (string-append "https://waf.io/" + "waf-" version ".tar.bz2")) + (sha256 + (base32 + "0b5q307fgn6a5d8yjia2d1l4bk1q3ilvc0w8k4isfrrx2gbcw8wn")))) + (build-system python-build-system) + (arguments + '(#:phases + (modify-phases %standard-phases + (replace 'build + (lambda _ + (zero? (begin + (system* "python" "waf-light" "configure") + (system* "python" "waf-light" "build"))))) + (replace 'check + (lambda _ + (zero? (system* "python" "waf" "--version")))) + (replace 'install + (lambda _ + (copy-file "waf" %output)))))) + (home-page "https://waf.io/") + (synopsis "Python-based build system") + (description + "Waf is a Python-based framework for configuring, compiling and installing +applications.") + (license bsd-3))) + +(define-public python2-waf + (package-with-python2 python-waf)) diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 5fae6d7a3c..722e0dfa49 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -42,7 +42,7 @@ (define-public r (package (name "r") - (version "3.1.2") + (version "3.2.0") (source (origin (method url-fetch) (uri (string-append "mirror://cran/src/base/R-" @@ -50,10 +50,14 @@ version ".tar.gz")) (sha256 (base32 - "0ypsm11c7n49pgh2ricyhhpfhas3famscdazzdp2zq70rapm1ldw")))) + "0dagyqgvi8i3nw158qi2zpwm04s4ffzvnmk5niaksvxs30zrbbpm")))) (build-system gnu-build-system) (arguments - `(#:phases + `(#:make-flags + (list (string-append "LDFLAGS=-Wl,-rpath=" + (assoc-ref %outputs "out") + "/lib/R/lib")) + #:phases (alist-cons-before 'check 'set-timezone ;; Some tests require the timezone to be set. diff --git a/gnu/packages/version-control.scm b/gnu/packages/version-control.scm index 2094ec0554..3cbd12f635 100644 --- a/gnu/packages/version-control.scm +++ b/gnu/packages/version-control.scm @@ -48,6 +48,7 @@ #:use-module (gnu packages nano) #:use-module (gnu packages ncurses) #:use-module (gnu packages openssl) + #:use-module (gnu packages ssh) #:use-module (gnu packages perl) #:use-module (gnu packages pkg-config) #:use-module (gnu packages python) @@ -401,6 +402,65 @@ linear. It will test every change between two points in the DAG. It will also walk each side of a merge and test those changes individually.") (license (x11-style "file://LICENSE"))))) +(define-public gitolite + (package + (name "gitolite") + (version "3.6.2") + (source (origin + (method url-fetch) + (uri (string-append + "https://github.com/sitaramc/gitolite/archive/v" + version ".tar.gz")) + (file-name (string-append name "-" version ".tar.gz")) + ;; Commit ed807a4 upstream + (patches + (list (search-patch "gitolite-openssh-6.8-compat.patch"))) + (sha256 + (base32 + "1gsgzi9ayb4rablki3mqr11b0h8db4xg43df660marfpacmkfb01")))) + (build-system gnu-build-system) + (arguments + '(#:tests? #f ; no tests + #:phases (modify-phases %standard-phases + (delete 'configure) + (delete 'build) + (add-before 'install 'patch-scripts + (lambda* (#:key inputs #:allow-other-keys) + (let ((perl (string-append (assoc-ref inputs "perl") + "/bin/perl"))) + ;; This seems to take care of every shell script that + ;; invokes Perl. + (substitute* (find-files "." ".*") + ((" perl -") + (string-append " " perl " -")))))) + (replace 'install + (lambda* (#:key outputs #:allow-other-keys) + (let* ((output (assoc-ref outputs "out")) + (sharedir (string-append output "/share/gitolite")) + (bindir (string-append output "/bin"))) + (mkdir-p sharedir) + (mkdir-p bindir) + (system* "./install" "-to" sharedir) + ;; Create symlinks for executable scripts in /bin. + (for-each (lambda (script) + (symlink (string-append sharedir "/" script) + (string-append bindir "/" script))) + '("gitolite" "gitolite-shell")) + #t)))))) + (inputs + `(("perl" ,perl))) + ;; git and openssh are propagated because trying to patch the source via + ;; regexp matching is too brittle and prone to false positives. + (propagated-inputs + `(("git" ,git) + ("openssh" ,openssh))) + (home-page "http://gitolite.com") + (synopsis "Git access control layer") + (description + "Gitolite is an access control layer on top of Git, providing fine access +control to Git repositories.") + (license gpl2))) + (define-public mercurial (package (name "mercurial") diff --git a/gnu/packages/video.scm b/gnu/packages/video.scm index 822d9021cb..8868713ba1 100644 --- a/gnu/packages/video.scm +++ b/gnu/packages/video.scm @@ -570,13 +570,13 @@ treaming protocols.") '("--enable-runtime-cpudetection" "--target=i686-linux")) ("mips64el-linux" - '("--target=mips3-linux"))) - "--disable-armv5te" - "--disable-armv6" - "--disable-armv6t2" - "--disable-armvfp" + '("--target=mips3-linux")) + (_ (list (string-append + "--target=" + (or (%current-target-system) + (nix-system->gnu-triplet + (%current-system))))))) "--disable-neon" - "--disable-thumb" "--disable-iwmmxt")))) %standard-phases))) (home-page "http://www.mplayerhq.hu/design7/news.html") diff --git a/gnu/packages/web.scm b/gnu/packages/web.scm index 0c22562aa6..fb3ff2d149 100644 --- a/gnu/packages/web.scm +++ b/gnu/packages/web.scm @@ -94,14 +94,14 @@ and its related documentation.") (define-public nginx (package (name "nginx") - (version "1.6.2") + (version "1.8.0") (source (origin (method url-fetch) (uri (string-append "http://nginx.org/download/nginx-" version ".tar.gz")) (sha256 (base32 - "060s77qxhkn02fjkcndsr0xppj2bppjzkj0gn84svrykb4lqqq5m")))) + "1mgkkmmwkhmpn68sdvbd73ssv6lpqhh864fsyvc1ij4hk4is3k13")))) (build-system gnu-build-system) (inputs `(("pcre" ,pcre) ("openssl" ,openssl) @@ -132,7 +132,12 @@ and its related documentation.") (%current-system)) ("x86_64-linux" "x86_64") ("i686-linux" "i686") - ("mips64el-linux" "mips64")))) + ("mips64el-linux" "mips64") + ;; Prevent errors when querying + ;; this package on unsupported + ;; platforms, e.g. when running + ;; "guix package --search=" + (_ "UNSUPPORTED")))) (string-append "--crossbuild=" system ":" release ":" machine))))) (setenv "CC" "gcc") diff --git a/gnu/packages/xfce.scm b/gnu/packages/xfce.scm index b39b903e9b..37f09579fe 100644 --- a/gnu/packages/xfce.scm +++ b/gnu/packages/xfce.scm @@ -397,8 +397,11 @@ allows you to shutdown the computer from Xfce.") ("libnotify" ,libnotify) ("libxcursor", libxcursor) ("libxi" ,libxi) + ("libxklavier" ,libxklavier) ("libxrandr" ,libxrandr) - ("libxfce4ui" ,libxfce4ui))) + ("libxfce4ui" ,libxfce4ui) + ("upower" ,upower) + ("xf86-input-libinput" ,xf86-input-libinput))) (home-page "http://www.xfce.org/") (synopsis "Xfce settings manager") (description diff --git a/gnu/packages/xorg.scm b/gnu/packages/xorg.scm index 998f0803fc..dc04bee20a 100644 --- a/gnu/packages/xorg.scm +++ b/gnu/packages/xorg.scm @@ -45,7 +45,8 @@ #:use-module (gnu packages python) #:use-module (gnu packages xml) #:use-module (gnu packages ncurses) - #:use-module (gnu packages xdisorg)) + #:use-module (gnu packages xdisorg) + #:use-module (gnu packages freedesktop)) @@ -2220,6 +2221,35 @@ devices, thus making direct access unnecessary.") (description "X.org provides an implementation of the X Window System") (license license:x11))) +(define-public xf86-input-libinput + (package + (name "xf86-input-libinput") + (version "0.8.0") + (source (origin + (method url-fetch) + (uri (string-append + "mirror://xorg/individual/driver/" + name "-" version ".tar.bz2")) + (sha256 + (base32 + "0fm4vrkw7azipbnwvc2l18g65z77pllsznaajd8q3zpg9ycb0li1")))) + (build-system gnu-build-system) + (arguments + '(#:configure-flags + (list (string-append "--with-sdkdir=" + %output "/include/xorg")))) + (native-inputs + `(("pkg-config" ,pkg-config))) + (inputs + `(("libinput" ,libinput) + ("xorg-server" ,xorg-server))) + (home-page "http://www.x.org/wiki/") + (synopsis "Xorg input driver") + (description + "This is an Xorg input driver based on libinput. It therefore supports +all input devices that libinput can handle, including most mice, keyboards, +tablets and touchscreens.") + (license license:x11))) (define-public xf86-input-joystick (package @@ -4271,7 +4301,7 @@ graphics cards.") (define-public libxfont (package (name "libxfont") - (version "1.5.0") + (version "1.5.1") (source (origin (method url-fetch) @@ -4281,7 +4311,7 @@ graphics cards.") ".tar.bz2")) (sha256 (base32 - "0py2c498lrq6wrj9al6nj57v2ypid9cz0zzhc0hjndgrmp254g1s")))) + "1630v3sfvwwlimb2ja10c84ql6v1mw9bdfhvan7pbybkgi99h25p")))) (build-system gnu-build-system) (propagated-inputs `(("fontsproto" ,fontsproto) |