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Author SHA1 Message Date
Marius Bakke
6fda3a6cb4
gnu: pocl: Build with LLVM@9. 
* gnu/packages/opencl.scm (pocl)[inputs]: Change from LLVM-8 to LLVM.
 2020-02-26 21:52:46 +01:00
Evan Straw
b68f5a68f8
gnu: Add emacs-company-emoji. 
[[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.
 2020-02-26 15:44:28 +01:00
Ricardo Wurmus
146430ea0e
gnu: proteinortho: Update to 6.0.14. 
* 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+
 2020-02-26 14:07:32 +01:00
Ricardo Wurmus
9207575669
gnu: diamond: Update to 0.9.30. 
* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.30.
 2020-02-26 14:07:32 +01:00
Ricardo Wurmus
b38dd34f40
gnu: crossmap: Update to 0.3.8. 
* 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.
 2020-02-26 14:07:32 +01:00
Valentin Ignatev
a86fc40dc3
gnu: Add rust-libressl-pnacl-sys-2. 
* gnu/packages/crates-io.scm (rust-libressl-pnacl-sys-2): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:55 +02:00
Valentin Ignatev
754917c903
gnu: Add rust-pnacl-build-helper-1.4. 
* gnu/packages/crates-io.scm (rust-pnacl-build-helper-1.4):
New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:55 +02:00
Valentin Ignatev
b7c40a9713
gnu: Add rust-zip-0.5. 
* gnu/packages/crates-io.scm (rust-zip-0.5): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:55 +02:00
Valentin Ignatev
f4b8c27297
gnu: Add rust-bzip2-0.3. 
* gnu/packages/crates-io.scm (rust-bzip2-0.3): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:55 +02:00
Valentin Ignatev
66d27f5d77
gnu: Add rust-partial-io-0.2. 
* gnu/packages/crates-io.scm (rust-partial-io-0.2): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:55 +02:00
Valentin Ignatev
63502072bd
gnu: Add rust-winpty-sys-0.4. 
* gnu/packages/crates-io.scm (rust-winpty-sys-0.4): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:54 +02:00
Valentin Ignatev
bb088feeff
gnu: Add rust-bindgen-0.33. 
* gnu/packages/crates-io.scm (rust-bindgen-0.33): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:54 +02:00
Valentin Ignatev
d1e647e363
gnu: Add rust-cexpr-0.2. 
* gnu/packages/crates-io.scm (rust-cexpr-0.2): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:54 +02:00
Valentin Ignatev
389f9ab6ab
gnu: Add rust-clang-sys-0.11. 
* gnu/packages/crates-io.scm (rust-clang-sys-0.11): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:54 +02:00
Valentin Ignatev
a83d31ef84
gnu: Add rust-libloading-0.3. 
* gnu/packages/crates-io.scm (rust-libloading-0.3): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:54 +02:00
Valentin Ignatev
f6a57eecbe
gnu: Add rust-target-build-utils-0.3. 
* gnu/packages/crates-io.scm (rust-target-build-utils-0.3):
New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:53 +02:00
Valentin Ignatev
c7d5b98dd9
gnu: Add rust-serde-json-0.9. 
* gnu/packages/crates-io.scm (rust-serde-json-0.9): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:53 +02:00
Valentin Ignatev
6b11c1e401
gnu: Add rust-linked-hash-map-0.4. 
* gnu/packages/crates-io.scm (rust-linked-hash-map-0.4): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:53 +02:00
Valentin Ignatev
537f998be7
gnu: Add rust-serde-macros-0.4. 
* gnu/packages/crates-io.scm (rust-serde-macros-0.4): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:53 +02:00
Valentin Ignatev
be9655d96d
gnu: Add rust-serde-test-0.9. 
* gnu/packages/crates-io.scm (rust-serde-test-0.9): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:52 +02:00
Valentin Ignatev
87c1e7f5c9
gnu: Add rust-serde-0.4. 
* gnu/packages/crates-io.scm (rust-serde-0.4): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:52 +02:00
Valentin Ignatev
1516f20a27
gnu: Add rust-serde-0.9. 
* gnu/packages/crates-io.scm (rust-serde-0.9): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:52 +02:00
Valentin Ignatev
7881fc114e
gnu: Add rust-serde-derive-0.9. 
* gnu/packages/crates-io.scm (rust-serde-derive-0.9): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:52 +02:00
Valentin Ignatev
8119352ffa
gnu: Add rust-serde-codegen-internals-0.14. 
* gnu/packages/crates-io.scm (rust-serde-codegen-internals-0.14):
New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-02-26 14:00:52 +02:00
Ricardo Wurmus
640d910427
gnu: macs: Update to 2.2.6. 
* 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.
 2020-02-26 12:53:23 +01:00
Guillaume Le Vaillant
0e9fc3d61f
gnu: Add cl-dbd-sqlite3. 
* gnu/packages/lisp-xyz.scm (sbcl-dbd-sqlite3, cl-dbd-sqlite3): New variables.
 2020-02-26 11:29:28 +01:00
Guillaume Le Vaillant
af469826e2
gnu: Add cl-dbd-postgres. 
* gnu/packages/lisp-xyz.scm (sbcl-dbd-postgres, cl-dbd-postgres): New
  variables.
 2020-02-26 11:29:28 +01:00
Guillaume Le Vaillant
903d0e81a1
gnu: Add cl-dbd-mysql. 
* gnu/packages/lisp-xyz.scm (sbcl-dbd-mysql, cl-dbd-mysql): New variables.
 2020-02-26 11:29:28 +01:00
Guillaume Le Vaillant
47a6cde09c
gnu: Add cl-dbi. 
* gnu/packages/lisp-xyz.scm (sbcl-dbi, cl-dbi): New variables.
 2020-02-26 11:29:28 +01:00
Guillaume Le Vaillant
add1a3561f
gnu: Add cl-postmodern. 
* gnu/packages/lisp-xyz.scm (sbcl-postmodern, cl-postmodern): New variables.
 2020-02-26 11:29:27 +01:00
Guillaume Le Vaillant
88dbe39b16
gnu: Add cl-s-sql. 
* gnu/packages/lisp-xyz.scm (sbcl-s-sql, cl-s-sql): New variables.
 2020-02-26 11:29:27 +01:00
Guillaume Le Vaillant
acba62d9bd
gnu: Add cl-simple-date-postgres-glue. 
* gnu/packages/lisp-xyz.scm (sbcl-simple-date-postgres-glue,
  cl-simple-date-postgres-glue): New variables.
 2020-02-26 11:29:27 +01:00
Guillaume Le Vaillant
f5203d2584
gnu: Add cl-postgres. 
* gnu/packages/lisp-xyz.scm (sbcl-cl-postgres, cl-postgres): New variables.
 2020-02-26 11:29:27 +01:00
Guillaume Le Vaillant
c79ea1a217
gnu: Add cl-simple-date. 
* gnu/packages/lisp-xyz.scm (sbcl-simple-date, cl-simple-date,
  ecl-simple-date): New variables.
 2020-02-26 11:29:27 +01:00
Guillaume Le Vaillant
8a6c0f5515
gnu: Add cl-mysql. 
* gnu/packages/lisp-xyz.scm (sbcl-cl-mysql, cl-mysql): New variables.
 2020-02-26 11:29:27 +01:00
Ricardo Wurmus
849f6bc20b
gnu: Add r-rstanarm. 
* gnu/packages/cran.scm (r-rstanarm): New variable.
 2020-02-26 10:12:36 +01:00
Ricardo Wurmus
f3de8b6c8a
gnu: Add r-rstan. 
* gnu/packages/cran.scm (r-rstan): New variable.
 2020-02-26 10:12:28 +01:00
Ricardo Wurmus
762d3ca3dd
gnu: Add r-loo. 
* gnu/packages/cran.scm (r-loo): New variable.
 2020-02-26 10:12:14 +01:00
Ricardo Wurmus
70af390f62
gnu: Add r-rstantools. 
* gnu/packages/cran.scm (r-rstantools): New variable.
 2020-02-26 10:12:02 +01:00
Ricardo Wurmus
410cfa78be
gnu: Add r-shinystan. 
* gnu/packages/cran.scm (r-shinystan): New variable.
 2020-02-26 10:11:51 +01:00
Ricardo Wurmus
0ecb3a8bb4
gnu: Add r-dygraphs. 
* gnu/packages/cran.scm (r-dygraphs): New variable.
 2020-02-26 09:18:17 +01:00
Ricardo Wurmus
59c5f85d06
gnu: Remove python-loompy-for-pigx-scrnaseq. 
* gnu/packages/bioinformatics.scm (python-loompy-for-pigx-scrnaseq): Remove
variable.
 2020-02-26 08:59:11 +01:00
Ricardo Wurmus
4f19106770
gnu: pigx-scrnaseq: Update to 1.1.3. 
* gnu/packages/bioinformatics.scm (pigx-scrnaseq): Update to 1.1.3.
[arguments]: Remove.
[inputs]: Remove dropseq-tools and java-picard; add flexbar, jellyfish, and
r-seurat; replace python-loompy-for-pigx-scrnaseq with python-loompy.
 2020-02-26 08:58:06 +01:00
Ricardo Wurmus
290b55c55a
gnu: clang-runtime-3.5: Fix build. 
* gnu/packages/llvm.scm (clang-runtime-3.5)
[inputs]: Add libtirpc.
[arguments]: Add phase to find rpc headers.
 2020-02-25 22:49:20 +01:00
Ricardo Wurmus
d2ebdb795d
gnu: Add r-rsconnect. 
* gnu/packages/cran.scm (r-rsconnect): New variable.
 2020-02-25 22:49:20 +01:00
Ricardo Wurmus
91f242357d
gnu: Add r-packrat. 
* gnu/packages/cran.scm (r-packrat): New variable.
 2020-02-25 22:49:20 +01:00
Alexandros Theodotou
6616b22b12
gnu: zrythm: Update to 0.7.573. 
* gnu/packages/music.scm (zrythm): Update to 0.7.573.

Signed-off-by: Jakub Kądziołka <kuba@kadziolka.net>
 2020-02-25 20:16:55 +01:00
Marius Bakke
dcc3f21586
gnu: libzip: Update to 1.6.1. 
* gnu/packages/compression.scm (libzip): Update to 1.6.1.
[inputs]: Add XZ.
 2020-02-25 18:35:34 +01:00
Marius Bakke
93f71b29a5
gnu: python-xmlschema: Update to 1.1.1. 
* gnu/packages/xml.scm (python-xmlschema): Update to 1.1.1.
 2020-02-25 18:35:34 +01:00
Marius Bakke
cce5903672
gnu: xapian: Update to 1.4.15. 
* gnu/packages/search.scm (xapian, python-xapian-bindings): Update to 1.4.15.
 2020-02-25 18:35:34 +01:00