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* guix: pack: Only wrap executable files.series-3031Eric Bavier2020-02-27
| | | | | | | | | | | | | | | | | | | | Hello Guix, This patch fixes some uses of relocatable git (e.g. octopus merge). Previously, guix pack would wrap all files in "bin", "sbin", and "libexec", even non-executable files. This would cause issues for git when its shell scripts in libexec would try to source other shell files that had been wrapped and were no longer a valid shell file. I feel like a test should be added to tests/guix-pack-relocatable.sh, but I'm not sure how to do that while keeping the test lightweight. Suggestions welcome. Cheers, `~Eric * guix/scripts/pack.scm (wrapped-package)<build>: Build wrappers for executable files and symlink others.
* gnu: Add emacs-org-superstar.base-for-series-3031Nicolas Goaziou2020-02-26
| | | | * gnu/packages/emacs-xyz.scm (emacs-org-superstar): New variable.
* gnu: icecat: Remove about:buildconfig store references.Jakub Kądziołka2020-02-26
| | | | | | | * gnu/packages/gnuzilla.scm (icecat)[arguments]: New ‘neutralise-store-references’ phase. Co-authored-by: Tobias Geerinckx-Rice <me@tobias.gr>
* git-authenticate: Remove duplicate entry.base-for-series-3028Ludovic Courtès2020-02-26
| | | | * build-aux/git-authenticate.scm (%committers): Remove duplicate of snape.
* git-authenticate: Add sub-key for thomasd.Ludovic Courtès2020-02-26
| | | | | | | | This is a followup to commit 7dc0f1d5a8c248addfcaadf76e45bf601bc51411, signed with sub-key "3D2C DA58 819C 08C2 A649 D43D 5C3B 064C 724A 5726". * build-aux/git-authenticate.scm (%committers): Provide fingerprint of subkey for thomasd.
* scripts: Emit GC hint if free space is lower than absolute and relative ↵Pierre Neidhardt2020-02-26
| | | | | | | | | | threshold. * guix/scripts.scm (%disk-space-warning-absolute): New variable. (warn-about-disk-space): Test against %disk-space-warning-absolute. Fix error in display-hint due to extraneous 'profile' argument. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* daemon: Drop 'AT_STATX_DONT_SYNC' flag upon EINVAL.Ludovic Courtès2020-02-26
| | | | | | | | | Fixes <https://bugs.gnu.org/39727>. Reported by Paul Garlick <pgarlick@tourbillion-technology.com>. * nix/libstore/gc.cc (LocalStore::removeUnusedLinks) [HAVE_STATX]: Add 'statx_flags' static variables. Clear 'AT_STATX_DONT_SYNC' flag from 'statx_flags' when 'statx' returns EINVAL.
* gnu: awscli: Update to 1.18.6.Evan Straw2020-02-26
| | | | | | * gnu/packages/python-web.scm (awscli): Update to 1.18.6. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
* gnu: vim-full: Describe differences from vim.Jack Hill2020-02-26
| | | | | | | * gnu/packages/vim.scm (vim-full)[description]: New field. Explain what vim-full provides over vim. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
* gnu: musl: Update to 1.2.0.Vincent Legoll2020-02-26
| | | | | | * gnu/packages/musl (musl): Update to 1.2.0. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
* gnu: benchmark: Add bonnie++.Vincent Legoll2020-02-26
| | | | | | * gnu/packages/benchmark.scm (bonnie++): New variable. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
* gnu: emacs-eacl: Fix typo in description.Kyle Meyer2020-02-26
| | | | | | | * gnu/packages/emacs-xyz.scm (emacs-eacl)[description]: Correct misspelling of "commands". Signed-off-by: Marius Bakke <mbakke@fastmail.com>
* gnu: emacs-elixir-mode: Fix capitalization in description.Kyle Meyer2020-02-26
| | | | | | | * gnu/packages/emacs-xyz.scm (emacs-elixir-mode)[description]: Downcase incorrectly capitalized word. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
* gnu: clang: Move version conditionals out of the builder.Marius Bakke2020-02-26
| | | | | | * gnu/packages/llvm.scm (clang-from-llvm)[arguments]: Rewrite phase 'set-glibc-file-names' to use VERSION>=? from (guix utils) and splice in the relevant build code, instead of doing the comparison at build time.
* gnu: clang: Fix C++ search path handling on non-x86_64.Marius Bakke2020-02-26
| | | | | * gnu/packages/llvm.scm (clang-from-llvm)[arguments]: Add phase 'add-missing-triplets'.
* gnu: node: Disable failing tests on armhf-linux.Marius Bakke2020-02-26
| | | | | * gnu/packages/node.scm (node)[arguments]: When building on armhf-linux, disable several zlib tests.
* gnu: node: Update to 10.19.0.Marius Bakke2020-02-26
| | | | | | * gnu/packages/node.scm (node): Update to 10.19.0. [inputs]: Remove LIBUV and NGHTTP2:LIB. Add LIBUV/LATEST and NGHTTP2-1.40:LIB.
* gnu: nghttp2: Add version 1.40.0.Marius Bakke2020-02-26
| | | | * gnu/packages/web.scm (nghttp2-1.40): New public variable.
* gnu: LibUV: Add version 1.34.2.Marius Bakke2020-02-26
| | | | * gnu/packages/libevent.scm (libuv/latest): New public variable.
* gnu: pocl: Build with LLVM@9.Marius Bakke2020-02-26
| | | | * gnu/packages/opencl.scm (pocl)[inputs]: Change from LLVM-8 to LLVM.
* gnu: Add emacs-company-emoji.Evan Straw2020-02-26
| | | | | | | | | | [[PGP Signed Part:No public key for F530C3B4A2A9F06D created at 2020-02-23T04:48:54+0100 using RSA]] From 6c23c5966a3c7ed01c784874e410d5fe3009bfc5 Mon Sep 17 00:00:00 2001 From: Evan Straw <evan.straw99@gmail.com> Date: Sat, 22 Feb 2020 19:47:19 -0800 Subject: [PATCH] gnu: Add emacs-company-emoji. * gnu/packages/emacs-xyz.scm (emacs-company-emoji): New variable.
* gnu: proteinortho: Update to 6.0.14.Ricardo Wurmus2020-02-26
| | | | | | | | | | * gnu/packages/bioinformatics.scm (proteinortho): Update to 6.0.14. [source]: Fetch from git; remove pre-built scripts. [arguments]: Set make-flags; update wrap-programs phase to wrap all scripts. [inputs]: Add guile-3.0, diamond, python-wrapper, lapack, and openblas; remove python-2. [native-inputs]: Add which. [license]: Update to GPLv3+
* gnu: diamond: Update to 0.9.30.Ricardo Wurmus2020-02-26
| | | | * gnu/packages/bioinformatics.scm (diamond): Update to 0.9.30.
* gnu: crossmap: Update to 0.3.8.Ricardo Wurmus2020-02-26
| | | | | | | | | * gnu/packages/bioinformatics.scm (crossmap): Update to 0.3.8. [arguments]: Remove to build with default Python. [inputs]: Add python-pybigwig; replace python2-bx-python, python2-numpy, and python2-pysam with their Python 3 variants. [native-inputs]: Replace python2-cython and python2-nose with their Python 3 variants.
* gnu: Add rust-libressl-pnacl-sys-2.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-libressl-pnacl-sys-2): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-pnacl-build-helper-1.4.Valentin Ignatev2020-02-26
| | | | | | | * gnu/packages/crates-io.scm (rust-pnacl-build-helper-1.4): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-zip-0.5.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-zip-0.5): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-bzip2-0.3.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-bzip2-0.3): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-partial-io-0.2.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-partial-io-0.2): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-winpty-sys-0.4.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-winpty-sys-0.4): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-bindgen-0.33.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-bindgen-0.33): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-cexpr-0.2.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-cexpr-0.2): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-clang-sys-0.11.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-clang-sys-0.11): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-libloading-0.3.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-libloading-0.3): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-target-build-utils-0.3.Valentin Ignatev2020-02-26
| | | | | | | * gnu/packages/crates-io.scm (rust-target-build-utils-0.3): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-serde-json-0.9.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-serde-json-0.9): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-linked-hash-map-0.4.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-linked-hash-map-0.4): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-serde-macros-0.4.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-serde-macros-0.4): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-serde-test-0.9.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-serde-test-0.9): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-serde-0.4.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-serde-0.4): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-serde-0.9.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-serde-0.9): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-serde-derive-0.9.Valentin Ignatev2020-02-26
| | | | | | * gnu/packages/crates-io.scm (rust-serde-derive-0.9): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: Add rust-serde-codegen-internals-0.14.Valentin Ignatev2020-02-26
| | | | | | | * gnu/packages/crates-io.scm (rust-serde-codegen-internals-0.14): New variable. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: macs: Update to 2.2.6.Ricardo Wurmus2020-02-26
| | | | | | | | * gnu/packages/bioinformatics.scm (macs): Update to 2.2.6. [source]: Fetch from git. [arguments]: Enable tests, build with default Python. [inputs]: Replace python2-numpy with python-numpy. [native-inputs]: Add python-pytest.
* gnu: Add cl-dbd-sqlite3.base-for-series-3022Guillaume Le Vaillant2020-02-26
| | | | * gnu/packages/lisp-xyz.scm (sbcl-dbd-sqlite3, cl-dbd-sqlite3): New variables.
* gnu: Add cl-dbd-postgres.Guillaume Le Vaillant2020-02-26
| | | | | * gnu/packages/lisp-xyz.scm (sbcl-dbd-postgres, cl-dbd-postgres): New variables.
* gnu: Add cl-dbd-mysql.Guillaume Le Vaillant2020-02-26
| | | | * gnu/packages/lisp-xyz.scm (sbcl-dbd-mysql, cl-dbd-mysql): New variables.
* gnu: Add cl-dbi.Guillaume Le Vaillant2020-02-26
| | | | * gnu/packages/lisp-xyz.scm (sbcl-dbi, cl-dbi): New variables.
* gnu: Add cl-postmodern.Guillaume Le Vaillant2020-02-26
| | | | * gnu/packages/lisp-xyz.scm (sbcl-postmodern, cl-postmodern): New variables.
* gnu: Add cl-s-sql.Guillaume Le Vaillant2020-02-26
| | | | * gnu/packages/lisp-xyz.scm (sbcl-s-sql, cl-s-sql): New variables.
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