JakeHillion/nixpkgs
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374 Commits

Author SHA1 Message Date
Phil Dyer
364de6ddd2 r-modules: fix clustermq and rzmq build 
rzmq uses pkgconfig.

clustermq now incorporates ZMQ libs directly, rather than using
the rzmq package. clustermq now uses zeromq and pkgconfig.

Both packages needed patchShebangs, due to pkgconfig.
 2021-01-18 15:30:28 +10:00
Pavol Rusnak
cf2a67fef3
pkgs/development: stdenv.lib -> lib 
this takes care of the following folders in pkgs/development:
* arduino
* chez-modules
* go-packages
* guile-modules
* idris-modules
* perl-modules
* r-modules
* ruby-modules
 2021-01-17 19:11:59 +01:00
Tikhon Jelvis
4203a4dabc Added suggested macOS fix and fixed data.table package. 
`data.table` had a `postInstall` step to rename `data.table.so` to `datatable.so`, but after the package bump the file was already called `datatable.so` and `mv` command would fail.
 2021-01-04 18:20:10 -08:00
Tikhon Jelvis
70cd2cb336 r-modules: update cran and bioc packages 
The last snapshot was 4 months ago (2020-08-19). I also found that I needed newer definitions when I was trying to fix the R arrow package.

This update required a couple of manual changes:

  1. Removing a few deleted packages from default.nix
  2. Renaming the "assert" package to "r_assert" in generate-r-packages.R because "assert" is a keyword in Nix
 2021-01-02 15:03:06 -08:00
Sandro
a3f9335ed2
Merge pull request #101451 from moritzschaefer/fix-r-mirror-path 
fix package path for bioc server
 2020-11-27 01:58:30 +01:00
Graham Christensen
bc49a0815a
utillinux: rename to util-linux 2020-11-24 12:42:06 -05:00
Moritz Schaefer
dfba5e1c9b Fixes missing configure script 2020-10-23 14:40:18 +02:00
Moritz Schaefer
2eda0fbc5b fix package path for bioc server (http://mirrors.ustc.edu.cn/bioc/3.11/bioc/src/contrib/Archive/) 2020-10-23 11:46:53 +02:00
Justin Bedo
6bec22ee40
r-modules: bioc and cran update 2020-08-20 16:46:22 +10:00
Michele Guerini Rocco
bb395a9a47
Merge pull request #91288 from rnhmjoj/zeromq 
Remove old zeromq 3.x packages
 2020-07-26 17:37:10 +02:00
cfhammill
3c503aa733 rpackages.RcppParallel: Patch shebang 
Fixes hydra build error
 2020-07-13 14:21:34 -04:00
rnhmjoj
c7b3e54dff
rzmq: use default zeromq 2020-06-22 15:37:36 +02:00
Matt Wittmann
5b3f0c4f4a
r-statmod: Add libiconv to buildInputs 2020-05-14 20:00:58 -07:00
Peter Simons
ec5d1a79d1
Merge pull request #82504 from mcwitt/fix/r-mvtnorm 
r-mvtnorm: add libiconv to buildInputs
 2020-05-11 20:38:42 +02:00
Alex Branham
cb1a13ad98
R: Update CRAN and bioconductor packages 2020-04-26 17:16:34 -04:00
Matthew Bauer
1c8aba8334 treewide: use blas and lapack 
This makes packages use lapack and blas, which can wrap different
BLAS/LAPACK implementations.

treewide: cleanup from blas/lapack changes

A few issues in the original treewide:

- can’t assume blas64 is a bool
- unused commented code
 2020-04-17 16:24:09 -05:00
Alex Branham
f5afc20d06
R: Update CRAN and bioconductor packages 2020-04-08 10:01:19 -04:00
Matt Wittmann
dcda9df724
r-mvtnorm: add libiconv to buildInputs 
Fixes build failure with `ld: library not found for -liconv`
 2020-03-13 10:33:27 -07:00
Edward Tjörnhammar
d5b5ff5ae5
rPackages.ggbio: patch away spelling mistake 2020-02-26 09:45:23 +01:00
tricktron
e97ac66410
r-modules/generic-builder: Add missing iconv library to fix build on darwin (#78965) 
Add missing iconv dependency to fix builds of several r-modules on darwin.
 2020-02-07 10:50:43 +01:00
Maximilian Bosch
3c525b702a
r-packages: update 
This update was primarily done to update rPackages.V8 to 3.0 which
doesn't depend on an ancient version of v8 anymore.

Also dropped the `-lv8_libplatform` linker flag. It seems as this now
part of `v8.so` as `v8_libplatform.so` doesn't exist anymore on recent
v8 versions in nixpkgs, but the headers are still there and there aren't
any "undefined reference to" errors while linking.
 2020-01-28 20:11:00 +01:00
Alex Branham
e206c37550
R: Update CRAN and bioconductor packages 2020-01-23 21:22:55 -05:00
Linus Heckemann
1e840fc421 rgl: fix build 
It seems that the dev output of libGLU needs to be included explicitly
for this to work. I've also moved the libraries from nativeBuildInputs
to buildInputs to be more semantically correct (and maybe support
cross compilation, not tested though).
 2020-01-01 20:37:38 +01:00
Alex Branham
b9a558aaa4 R: Update CRAN and bioconductor packages 
Closes https://github.com/NixOS/nixpkgs/pull/75010.
 2019-12-16 18:56:49 +01:00
Peter Simons
9be0d6d4ae
Merge pull request #75021 from mnacamura/r-websocket 
rPackages.websocket: fix build
 2019-12-10 11:00:16 +01:00
Mitsuhiro Nakamura
350d358dea rPackages.websocket: fix build 2019-12-05 13:00:19 +09:00
adisbladis
c9d8624ccd
treewide: Get rid of libGLU_combined 2019-11-18 20:10:43 +00:00
Nick Partridge
4d54c9e368 rPackages.glmnet: Add missing dependency 
Fixes the error:
    ld: library not found for -liconv
 2019-11-01 08:14:25 +10:00
Nick Partridge
f21ac0e4dc rPackages.ModelMetrics: fix darwin build 
This fixes the error:

	auc_.cpp:2:10: fatal error: 'omp.h' file not found
	#include <omp.h>
 2019-10-31 10:10:55 +10:00
Peter Simons
7deb982d6a r-systemfonts: fix shebang of configure script 
Closes https://github.com/NixOS/nixpkgs/pull/70813.
 2019-10-10 20:50:49 +02:00
Dylan Simon
13085f13aa r-systemfonts: fix package dependencies 2019-10-10 20:50:49 +02:00
Peter Simons
ca05a50d83 r-data.table: add missing zlib dependency to fix the build 2019-10-06 14:38:07 +02:00
Alex Branham
24f0ef530e R: Update CRAN and bioconductor packages 2019-10-06 14:38:07 +02:00
Vladimír Čunát
eab41878ac
Merge branch 'master' into staging-next 2019-09-24 08:14:34 +02:00
Jörg Thalheim
c89df5544e
Merge pull request #69333 from mnacamura/r-ucminf 
r-ucminf: fix build on Darwin
 2019-09-24 03:36:25 +01:00
Jörg Thalheim
b47d81393d
Merge pull request #69330 from mnacamura/r-rf 
r-randomForest: fix build on Darwin
 2019-09-24 03:24:06 +01:00
Jörg Thalheim
adc066fec9
Merge pull request #69332 from mnacamura/r-minqa 
r-minqa: fix build on Darwin
 2019-09-24 03:23:19 +01:00
Mitsuhiro Nakamura
8d64b03b0c r-ucminf: fix build on Darwin 2019-09-24 09:36:22 +09:00
Mitsuhiro Nakamura
aefe6bc2e1 r-minqa: fix build on Darwin 2019-09-24 08:06:26 +09:00
Mitsuhiro Nakamura
3001a1f3ff r-pan: fix build on Darwin 2019-09-24 07:59:04 +09:00
Mitsuhiro Nakamura
8df7139996 r-randomForest: fix build on Darwin 2019-09-24 07:23:25 +09:00
Vladimír Čunát
22a216849b
Re-Revert "Merge branch 'staging-next'" 
This reverts commit f8a8fc6c7c.
 2019-09-22 09:38:09 +02:00
Vladimír Čunát
f8a8fc6c7c
Revert "Merge branch 'staging-next'" 
This reverts commit 41af38f372, reversing
changes made to f0fec244ca.

Let's delay this.  We have some serious regressions.
 2019-09-21 20:05:09 +02:00
Izorkin
329a88efa7 treewide: replace mysql.connector-c to libmysqlclient 2019-09-09 15:55:34 +03:00
volth
7b8fb5c06c treewide: remove redundant quotes 2019-09-08 23:38:31 +00:00
cfhammill
8e5aae5a19 Fix broken builds for rgdal and sf R packages 
Builds were failing to include PROJ, depending on proj.dev
appears to fix it.
 2019-09-02 16:23:24 +03:00
Peter Simons
8ac6b77eff
Merge pull request #66204 from jabranham/r-pkgs 
R: Update CRAN and bioconductor packages
 2019-08-07 10:24:37 +02:00
Alex Branham
eab786451f
R: Update CRAN and bioconductor packages 2019-08-06 08:49:39 -05:00
Dominic Steinitz
4788c7eb28 Ensure sundialr builds on macos. 2019-08-06 13:45:44 +01:00
Frederik Rietdijk
7cf5909fad Merge staging-next into staging 2019-07-09 15:44:08 +02:00