Nikolay Amiantov
bd4297dc4d
r-modules: regenerate CRAN, BIOC and IRKernel
2015-11-25 11:39:28 +01:00
Nikolay Amiantov
287f99bada
r-modules: use HTTPS, allow passing args from generated set, use MRAN
2015-11-25 11:39:28 +01:00
Peter Simons
fa5de61315
r-tikzDevice: update to new texlive
2015-11-24 17:30:28 +01:00
Vladimír Čunát
333d69a5f0
Merge staging into closure-size
...
The most complex problems were from dealing with switches reverted in
the meantime (gcc5, gmp6, ncurses6).
It's likely that darwin is (still) broken nontrivially.
2015-11-20 14:32:58 +01:00
Peter Simons
d7e6a46770
r-modules: update list of broken builds to avoid Hydra errors
2015-11-18 15:23:46 +01:00
Michel Kuhlmann
cab1f3de5e
R: regenerate CRAN packages
2015-11-17 14:34:27 +01:00
Asko Soukka
d8e3a981c5
r-modules: init IRkernel packages
2015-10-30 03:48:23 +02:00
Vladimír Čunát
99e4371526
curl: split into multiple outputs
...
Also use pkgconfig to be safer and fix (some) referrers.
2015-10-13 20:18:48 +02:00
Michel Kuhlmann
ec8f31d26c
R: fix some modules with configure-shebang-error
...
- xml2: fix configure script
- rversion, devtools: mark as unbroken
dependency R-curl was fixed in 513e31185b
2015-10-12 10:02:48 +02:00
Peter Simons
7c516259e7
r-modules: update list of broken packages
2015-10-05 14:15:41 +02:00
Vladimír Čunát
38313d5d87
libxml2,libxslt: split into multiple outputs
...
Fixed all references, hopefully.
libxml2Python is slightly hacky now, but it seems to work.
2015-10-05 13:44:16 +02:00
Karn Kallio
94629aa57d
R: regenerate CRAN and BIOC packages
2015-10-04 20:06:49 +02:00
Nikolay Amiantov
513e31185b
R-curl: fix configure script
2015-10-04 20:06:49 +02:00
Vladimír Čunát
88c9f8b574
xlibs: replace occurrences by xorg
...
This seems to have been confusing people, using both xlibs and xorg, etc.
- Avoided renaming local (and different) xlibs binding in gcc*.
- Fixed cases where both xorg and xlibs were used.
Hopefully everything still works as before.
2015-09-15 12:54:34 +02:00
Vladimír Čunát
21e3ff658a
x11: replace its usage by xlibsWrapper directly
...
Scilab note: the parameters already had pointed to nonexistent dirs
before this set of refactoring. But that config wasn't even used by
default.
2015-09-15 12:08:24 +02:00
Bjørn Forsman
22321f2e58
cudatoolkit: don't move $out/include to $out/usr_include
...
This effectively reverts 86c283824f
("If cuda headers are presented to nix [...]") and all the following
workarounds that was added due to that commit.
As far as I can tell[1] this hack isn't needed anymore. And moving
includes to $out/usr_include causes pain for cudatoolkit users, so
better get rid of it.
In patches that did more than the $out/usr_include workaround, I only
changed the line back to $out/include instead of re-generating the
patches and fully removing the changed line.
[1]: I build tested blender and caffe, and temporarily added
recurseIntoAttrs to rPackages and haskellPackages so that nox-review
could get proper coverage. However, many of the packages do not build
even before this patch. I also built CUDA samples with cudatoolkit7
that ran fine.
2015-09-10 10:35:40 +02:00
Peter Simons
5d1bcf2f4e
R: fix Hydra build & evaluation errors
2015-08-06 20:13:50 +02:00
Peter Simons
36fc26c0fc
R: regenerate CRAN and BIOC packages
2015-08-06 20:13:50 +02:00
Peter Simons
7a0fa8f898
r-modules: fix evaluation errors
2015-08-06 20:13:49 +02:00
Michel Kuhlmann
18cff91fb7
R: regenerate CRAN and BIOC packages
...
Closes https://github.com/NixOS/nixpkgs/pull/9037 .
2015-08-06 20:13:49 +02:00
Peter Simons
73ad191afb
r-modules: fix Hydra evaluation errors
2015-08-06 20:13:49 +02:00
Nikolay Amiantov
e3461ce259
rPackages.stringi: add ICU data tables
2015-07-28 12:33:29 +03:00
Peter Simons
b59685de83
r-stringi: fix build
2015-07-12 02:38:42 +02:00
Michel Kuhlmann
bb2b683e63
R: regenerate CRAN and BIOC packages
2015-07-09 14:52:17 +02:00
Peter Simons
bb42c215e2
R: improve support for CRAN and Bioconductor package sets
...
- Update the instructions for re-generating each of the package set files.
- Provide test-evaluation.nix expression to verify that the package sets evaluates.
- Update list of known broken packages.
2015-06-17 23:19:56 +02:00
Jeffrey David Johnson
93a742fd28
R: add support for Bioconductor packages
2015-06-17 23:19:56 +02:00
Peter Simons
362e60a5dc
r-modules: fix rapportools
2015-06-16 12:48:50 +02:00
Peter Simons
21c18c4f0a
r-modules: fix rapport
2015-06-16 12:48:50 +02:00
Peter Simons
ccd6988b3d
r-modules: fix xml2
2015-06-16 12:48:50 +02:00
Peter Simons
8ac6350ce7
r-modules: fix pander
2015-06-16 12:48:50 +02:00
Peter Simons
9fc5317055
r-modules: fix curl
2015-06-16 12:48:50 +02:00
Peter Simons
d4c810cccd
r-modules: disable broken packages to avoid Hydra evaluation errors
2015-06-16 12:48:49 +02:00
Peter Simons
b667cb6163
Merge pull request #8298 from abbradar/r-updates
...
R updates
2015-06-15 20:31:57 +02:00
Nikolay Amiantov
29779ae642
R: regenerate CRAN packages
2015-06-12 03:44:39 +03:00
Nikolay Amiantov
9bb5e7edbd
generate-cran-packages: make executable
2015-06-12 03:44:38 +03:00
Thomas Tuegel
8245caedf1
rPackages.SamplerCompare: build with openblas
2015-06-09 11:47:40 -05:00
Thomas Tuegel
58754130cc
rPackages.slfm: build with openblas
2015-06-09 11:47:26 -05:00
Thomas Tuegel
77aa1c990e
rPackages.Mposterior: build with openblas
2015-06-09 11:47:12 -05:00
Thomas Tuegel
b120a737fd
rPackages.BayesLogit: build with openblas
2015-06-09 11:43:00 -05:00
Peter Simons
949746f9f5
r-modules: disable broken builds
2015-05-15 13:48:38 +02:00
Peter Simons
278df52729
r-xml2: fix build
2015-05-15 13:47:27 +02:00
Peter Simons
aaa9f837a9
r-modules: fix Hydra evaluation errors
2015-05-13 11:31:39 +02:00
Michel Kuhlmann
aabee7eb46
r-modules: regenerate 2015-05-11T14:48:00+0100
2015-05-12 07:47:41 +02:00
Peter Simons
e313cd711e
r-modules: disable broken builds on Hydra
2015-04-20 17:38:46 +02:00
Peter Simons
0b088ce581
r-modules: revert "disable builds that depend on broken gdal library"
...
This reverts commit 9e9b5e6e69
. gdal has
been fixed in 1645795c53
.
2015-04-19 17:52:50 +02:00
Peter Simons
9e9b5e6e69
r-modules: disable builds that depend on broken gdal library
2015-04-17 20:02:46 +02:00
Michel Kuhlmann
cc5f5f0fd3
r-modules: update from CRAN state at 2015-04-16T11:23:00+0100
...
Closes https://github.com/NixOS/nixpkgs/pull/7411 .
2015-04-17 15:38:12 +02:00
William A. Kennington III
758319f67f
One more mysql fix
2015-04-01 16:52:38 -07:00
Peter Simons
aed1895643
r-modules: remedy remaining Hydra failures
2015-03-29 00:17:55 +01:00
Peter Simons
f6886c62dc
r-modules: disable broken builds on Hydra
2015-03-28 10:36:54 +01:00
Michel Kuhlmann
c96bc1e507
r-modules: fixing rggobi by adding initial expression for ggobi
2015-03-26 12:20:07 +01:00
Peter Simons
5238bfb73f
r-modules: fix evaluation errors
2015-03-21 23:33:50 +01:00
Peter Simons
701251e435
r-modules: update from CRAN state at 2015-03-21T20:01:16+0100)
2015-03-21 23:33:50 +01:00
Joachim Fasting
0e52c562b5
RAppArmor: use AppArmor 2.9
2015-03-19 14:14:28 +01:00
Peter Simons
d388855731
r-SID: mark broken
2015-03-09 21:14:00 +01:00
Peter Simons
e8b33876af
r-Cell: drop obsolete package
2015-03-09 16:43:37 +01:00
Peter Simons
a591dbac3b
r-modules: update from CRAN state at 2015-03-09T16:32:24+0100
2015-03-09 16:37:05 +01:00
Peter Simons
eaf728c3d3
r-modules: fix git2r, TAQMNGR, and WhopGenome
2015-03-06 11:21:21 +01:00
Peter Simons
030bd26af3
r-modules: mark daff and rjade broken
2015-03-04 12:51:43 +01:00
Adam Vogt
2397f96d92
CRAN MASS_7.3-39 was uploaded twice, so use the newer checksum
...
The two dates are:
Packaged: 2015-02-20 08:29:38 UTC; ripley
Packaged: 2015-02-24 10:34:20 UTC; ripley
There were with changes to tests/Examples/MASS-Ex.Rout.save,
but the rest of the code seems unaffected.
2015-02-26 19:16:55 -05:00
Adam Vogt
5adab4cbc9
remove some packages marked broken for cran-packages.nix
...
those packages were removed from cran (and cran-packages.nix)
2015-02-26 16:17:15 -05:00
Adam Vogt
f8d0a412d6
update cran packages
2015-02-25 17:50:42 -05:00
Adam Vogt
8365753a43
let generate-cran-packages.R read checksums from cran-packages.nix
...
this lets "Rscript generate-cran-packages.R > cran-packages.nix"
complete much quicker, because we only have to download packages
with new versions.
2015-02-25 17:43:43 -05:00
Peter Simons
80101c8329
Disable some broken R packages.
2015-02-22 18:22:35 +01:00
Peter Simons
7afe039842
pkgs/development/r-modules: fix evaluation errors
2015-02-20 15:08:18 +01:00
Nikolay Amiantov
8450ff3ab8
rPackages: fix broken packages
2015-02-19 23:53:36 +03:00
Nikolay Amiantov
3e6531c174
rPackages: add packagesWithRDepends
2015-02-19 23:51:24 +03:00
Nikolay Amiantov
88ab59eb73
rPackages: nicer override* functions
2015-02-19 23:50:42 +03:00
Nikolay Amiantov
0f9c0348af
rPackages: remove Xvfb where it's not needed
2015-02-19 23:49:41 +03:00
Nikolay Amiantov
6c2a607112
R: update archive url
2015-02-18 15:41:46 +03:00
Nikolay Amiantov
75ce44a95c
r-modules: regenerate
2015-02-18 15:41:46 +03:00
Peter Simons
6b261cc4d4
rPackages: allow users to override the version of R to be used for building
2015-01-27 14:04:54 +01:00
Peter Simons
282fd58c85
r-curl: help the package find curl's headers
2015-01-26 10:23:34 +01:00
Peter Simons
7fa0fa6450
r-modules: fix evaluation and minor cleanups
2015-01-22 11:39:00 +01:00
Michel Kuhlmann
4a3be6c787
rPackages: overall update and cleaning default.nix
2015-01-21 11:15:38 +01:00
Peter Simons
1b50c50432
r-modules: enable packages that were broken by the missing gdal dependency
2015-01-14 11:24:28 +01:00
Peter Simons
9489dac1d3
r-modules: update list of broken packages
2015-01-13 12:44:11 +01:00
Peter Simons
844828afad
r-caret: update hash
2015-01-13 12:44:11 +01:00
Peter Simons
f09fec34e9
r-skmeans: update hash
2015-01-13 12:44:11 +01:00
Peter Simons
d2d868534f
r-OceanView: update hash
2015-01-13 12:44:11 +01:00
Peter Simons
1f49c1cef7
Mark R packages h2o, jvmr, and qtbase as broken.
...
This also breaks dependent packages qtutils, qtpaint, and bamboo.
2014-12-04 15:00:54 +01:00
Peter Simons
7ee70a1644
R-defaults: add obsolete package temporarily
2014-12-04 14:45:09 +01:00
Peter Simons
1897946daf
r-selectspm: cannot be built because it depends on the broken package ecespa
2014-12-03 16:28:29 +01:00
Peter Simons
d9f1968cab
r-modules: always set meta.platforms when meta.hydraPlatforms is set, too
...
By default, we take both values from the R derivation.
2014-12-03 16:28:28 +01:00
Peter Simons
1c15a4122b
r-modules: fix reference to cran-packages.nix
2014-12-03 16:28:28 +01:00
taku0
2d3dd68d27
cran-packages: combined packages definition files further
2014-12-03 16:28:28 +01:00
taku0
916e36940b
cran-packages: combined packages definition files
2014-12-03 16:28:28 +01:00
taku0
4647743ed7
cran-packages: updated sources
2014-12-03 16:28:28 +01:00
taku0
2532844fb5
cran-packages: marks broken packages broken
instead of removeing them
2014-12-03 16:28:28 +01:00
taku0
8f0d6091bb
cran-packages: uses common variable names, doCheck and installFlags
2014-12-03 16:28:28 +01:00
taku0
dc1a3ed9b2
cran-packages: makes packages overridable
2014-12-03 16:28:28 +01:00
taku0
ea3c59907f
cran-packages: sets hydraPlatforms of rpud and CARramps to none since those packages require non-free NVidia drivers
2014-12-03 16:28:28 +01:00
taku0
a28a6999b4
cran-packages: renamed the files from camelCase to kebab-case
2014-12-03 16:28:28 +01:00
taku0
2a1d9ddbf2
cran-packages: restructured
2014-12-03 16:28:28 +01:00
Peter Simons
7bc300570b
r-RcmdrPlugin.ROC: disable broken build
2014-11-02 17:09:54 +01:00
Peter Simons
c573e2d97b
r-PoweR: fix build
2014-11-02 14:09:53 +01:00
Peter Simons
9707459112
r-nloptr: add missing dependency on nlopt library
2014-11-02 14:05:40 +01:00
Peter Simons
fdee0ec8e7
r-RcppArmadillo: fix download URL
2014-11-02 14:05:40 +01:00
Peter Simons
e1d2e1dd6f
r-Defaults: add version 1.1-1 again
...
The package is obsolete, but I still need it. :-(
2014-11-01 21:39:12 +01:00
Peter Simons
f773ebc016
cran-packages: update all packages to their respecitve latest version
2014-11-01 16:30:57 +01:00
Aristid Breitkreuz
71806b7cba
Merge pull request #4368 from michelk/r-XML
...
r-XML: adding system-dependency libxml2
2014-10-04 19:56:18 +02:00
Michel Kuhlmann
29b2a1fbd3
r-XML: adding system-dependency libxml2
2014-10-02 08:03:50 +02:00
Michel Kuhlmann
03ca349691
rJava: adding missing dependencies and JAVA-env-variables
2014-09-23 11:28:57 +02:00
Michel Kuhlmann
911d0d5b12
rPackages: prefixing package-system-dependencies with 'pkgs.'
...
Closes #4217
2014-09-23 07:47:37 +01:00
Peter Simons
bbca3a51a7
Merge pull request #4090 from michelk/r-jsonlite
...
r-jsonlite: update to 0.9.11
2014-09-19 12:41:00 +02:00
Michel Kuhlmann
cb152d9ed0
r-rgdal/rgeos: adding gdal geos and proj as dependency
2014-09-15 11:15:51 +02:00
Michel Kuhlmann
67ba8bbbf9
r-jsonlite: update to 0.9.11
2014-09-15 10:22:17 +02:00
Justin Bedo
28af151e1a
Added missing curl dependency to RCurl package
2014-09-03 15:48:33 +10:00
Peter Simons
610f31fe92
RcmdrPlugin_ROC: remove broken package
...
This build goes into an endless loop and produces gigabytes of useless
output. :-(
2014-08-15 18:51:47 +02:00
Peter Simons
d612cbdccf
cran-packages.nix: drop trailing whitespace
2014-08-15 14:36:58 +02:00
Peter Simons
d306fdd88e
cran-packages.nix: added missing sha256 fields
2014-08-15 14:36:58 +02:00
Peter Simons
4669d7ca61
r-RcppArmadillo: update to version 0.4.300.0
2014-08-15 14:36:58 +02:00
Adam Vogt
4402eb3061
manually fix dplyr and png cran-packages
2014-08-15 14:36:58 +02:00
Adam Vogt
371c8dd0bb
update cran packages
2014-08-15 14:36:58 +02:00
Justin Bedo
57f1baa66d
Added CRAN archive to R package derivation to prevent R expressions from
...
breaking when any package is updated.
2014-07-08 11:02:05 +10:00
Peter Simons
977d43f6c5
cran-packages.nix: fix a couple of builds
2014-06-09 12:58:48 +02:00
Peter Simons
36e6eda5fc
r-modules: set meta.hydraPlatforms for all R packages
2014-06-07 12:28:54 +02:00
Justin Bedo
3c4b9b26cf
Updated some CRAN packages and fixed dependencies
2014-05-15 09:05:09 +10:00
Peter Simons
cdf7d6a66f
r-RcppArmadillo: fix build (and update to 0.4.300.0)
2014-05-07 12:30:29 +02:00
Peter Simons
262aecef74
r-generic-builder.nix: build packages from the extracted $srcdir so that we have a chance to patch them
2014-05-07 12:30:29 +02:00
Peter Simons
c8f4775b8b
r-curl: fix build
2014-05-05 10:22:10 +02:00
Peter Simons
97262a59b5
cran-packages.nix: provide meta.homepage links for all modules
2014-05-05 00:33:51 +02:00
Peter Simons
f31f57c32d
r-generic-builder: don't let derivation override the naming scheme
2014-05-05 00:33:51 +02:00
Peter Simons
66bcd77f0e
R: simplify the generic builder
2014-05-04 23:54:11 +02:00
Peter Simons
4e1e248cf1
r-generic-builder: clean up the expression
2014-05-04 22:24:57 +02:00
Peter Simons
a9258080b1
R: don't install the "recommended packages"
...
These packages come with R, but if we install them as part of this build, then
we cannot update them without re-building R as well. Instead, we add those
packages to the R environment through the r-wrapper. This means that
recommended packages can be updated in cran-packgaes.nix, and those updates
have an effect on the installation without re-building R itself.
2014-05-04 21:12:34 +02:00
Peter Simons
a329900977
Move r-packages.nix into the r-modules directory.
2014-05-04 21:09:38 +02:00
Peter Simons
ac6bcc7836
cosmetic: move the R-wrapper into its own directory
2014-05-04 21:07:54 +02:00
Peter Simons
7c6a730e0b
R: added wrapper script that provides "R" and "Rscript" binaries that know about extra libraries
...
Configure an override in ~/.nixpkgs/config.nix as follows:
{
packageOverrides = pkgs: {
rWrapper = pkgs.rWrapper.override {
packages = with pkgs.rPackages; [ Defaults dataTable foreach xtable ];
};
};
}
2014-05-04 15:33:15 +02:00
Justin Bedo
fdc6e4372f
Wrapped R's package system similarly to perlPackages
2013-09-28 13:19:43 +02:00