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585 commits

Author SHA1 Message Date
Justin Bedo f5e7c1c474
rPackages.data_table: add required pkg-config dependency 2023-06-08 09:21:23 +10:00
Justin Bedo 8ac4225a0e
rPackages.rvg: add dependency 2023-06-02 16:12:10 +10:00
Justin Bedo 63d60675b2
rPackages.rhdf5filters: update patch 2023-06-01 08:28:33 +10:00
Justin Bedo 7798454aae
rPackages: CRAN and BioC update 2023-05-30 17:51:17 +10:00
Justin Bedő 9fed7877db
Merge pull request #226447 from savyajha/radian-wrapper-fix 
radianWrapper: Explicitly set R_HOME and always have R in buildInputs
 2023-04-30 08:18:09 +10:00
Savyasachee Jha e7c6fb0f86 radianWrapper: Explicitly set R_HOME and always have R in buildInputs 
Before this commit, `wrapR = false` (the default) would lead to
situations where the `RHOME` variable would not be found. Adding `--set
R_HOME ${R}/lib/R` so that the wrapper explicitly exports `R_HOME` fixes
this issue. In addition, R is also made part of `buildInputs` by default
so that package loading works correctly.
 2023-04-29 18:24:06 +05:30
Weijia Wang 19b7602cbd rPackages.textshaping: fix build on darwin 2023-04-26 10:48:33 +03:00
Justin Bedo 0963a3a36b
rPackages: CRAN and BioC update 2023-04-06 09:11:41 +10:00
Justin Bedo bb87f24392
rPackages: regenerate CRAN hashes 2023-04-05 13:25:07 +10:00
Justin Bedo 3e6b47a007
rPackages: switch to official CRAN mirrors 2023-04-05 13:25:06 +10:00
Justin Bedo d8d5d73bac
rPackages.Rhdf5lib: enable cxx bindings 2023-03-24 09:47:44 +11:00
Justin Bedo 445df9ef48
rPackages.Rhdflib: patch linking flags 2023-03-23 15:19:58 +11:00
Justin Bedo 14db22f868
rPackages.rhdf5: fix build 
use nixpkgs provided hdf5 instead of vendored library
 2023-03-22 09:48:06 +11:00
Justin Bedo 442e1b87d1
rPackages.rhdf5filters: fix build 
- use hdf5-blosc from nixpkgs to fix failing vendored build
- add missing build dependencies
 2023-03-22 09:47:58 +11:00
Justin Bedo ccfbc19630
rPackages.Rhdf5lib: fix build 
use nixpkgs provided hdf5 and libaec to resolve failing vendored code
 2023-03-22 09:47:48 +11:00
Justin Bedo a10887cb3f
rPackages.purrr: patch configure shebang 2023-03-16 22:10:42 +11:00
Justin Bedo 0c0c6908b9
rPackages: CRAN and BioC update 2023-03-16 21:32:06 +11:00
Sandro 46e5d1e231
Merge pull request #217517 from savyajha/radian 2023-03-10 23:11:26 +01:00
Justin Bedő 4f4a054dd2
Merge pull request #219439 from nviets/sparklyr 
rPackages: sparklyr environment variables
 2023-03-08 03:52:05 +00:00
Nathan Viets 2f430da1c6 Replacing MRAN mirror with posit 2023-03-07 18:23:26 +01:00
nviets 7939447527
Update pkgs/development/r-modules/default.nix 
Co-authored-by: Justin Bedő <cu@cua0.org>
 2023-03-07 11:08:38 +01:00
nviets 62821edd2e This PR sets default SPARK_HOME and JAVA_HOME for R's sparklyr package using a patch in .onload. Preset value take precedence. SPARK_HOME points to python3Packages.pyspark rather than pkgs.spark because the former is actively maintained. 2023-03-06 12:03:04 +01:00
Savyasachee Jha e730867dc0 python310Packages.radian: init at 0.6.4 and provide radianWrapper 2023-03-05 19:12:32 +05:30
K900 3dccc7c365 r-modules: fix eval 
Not sure how this worked before. Now it at least evals.
 2023-02-24 22:45:28 +03:00
Artturin 5110d8b6fb rPackages: s/overrideDerivation/overrideAttrs 
and attrs.NIX_CFLAGS_COMPILE to attrs.env.NIX_CFLAGS_COMPILE

https://nixos.org/manual/nixpkgs/stable/#sec-pkg-overrideDerivation

> Do not use this function in Nixpkgs as it evaluates a Derivation before modifying it, which breaks package abstraction and removes error-checking of function arguments
 2023-02-23 18:45:41 +02:00
Artturin f9fdf2d402 treewide: move NIX_CFLAGS_COMPILE to the env attrset 
with structuredAttrs lists will be bash arrays which cannot be exported
which will be a issue with some patches and some wrappers like cc-wrapper

this makes it clearer that NIX_CFLAGS_COMPILE must be a string as lists
in env cause a eval failure
 2023-02-22 21:23:04 +02:00
nviets dcd759fe65
rPackages.quarto: add quarto dependency 2023-02-17 03:25:35 +00:00
Justin Bedő d92d0a1e54
Merge pull request #212537 from nviets/nanonext 
nng: 1.5.2 -> 1.6.0-prerelease and to rPackages.nanonext dependencies
 2023-02-07 02:07:00 +00:00
Nathan Viets 67e898c12e nng: 1.5.2 -> 1.6.0-prerelease and rPackages.nanonext dependency 2023-02-06 18:49:06 -06:00
Nathan Viets 3f5c9df651
rPackages: added libiconv to darwin builds and removed redundant package level calls 2023-02-07 09:39:53 +11:00
Chris Warburton 802527baa2 rPackages.classInt: add libiconv dependency to fix build on darwin 
Avoids 'ld: library not found for -liconv' on x86_64-darwin
 2023-01-06 12:05:12 +00:00
Justin Bedo 7ed992a3fb
rPackages: CRAN and BioC update 2022-12-15 08:51:33 +11:00
Justin Bedő e442f93a8c
Merge pull request #204684 from trofi/rPackages.devEMF-without-xlibsWrapper 
rPackages.devEMF: use xorg.* packages directly instead of xlibsWrappe…
 2022-12-06 07:22:53 +00:00
Justin Bedő 43f39630df
Merge pull request #204550 from trofi/rPackages.imager-without-xlibsWrapper 
rPackages.imager: use xorg.* packages directly instead of xlibsWrappe…
 2022-12-06 07:16:01 +00:00
Sergei Trofimovich b2b5c4db0b rPackages.Cairo: use xorg.* packages directly instead of xlibsWrapper indirection 
Validated as no change in `out` output with `diffoscope`.
 2022-12-05 21:22:13 +00:00
Sergei Trofimovich a2fbaae04a rPackages.devEMF: use xorg.* packages directly instead of xlibsWrapper indirection 
Validated as no change in `out` output with `diffoscope`.
 2022-12-05 21:16:38 +00:00
Sergei Trofimovich c5b0d1ec8e rPackages.imager: use xorg.* packages directly instead of xlibsWrapper indirection 
Validated as no change in `out` output with `diffoscope`.
 2022-12-04 22:36:36 +00:00
Sergei Trofimovich 2d36d576f8 rPackages.rgl: use xorg.* packages directly instead of xlibsWrapper indirection 
Validated as no change in `out` output with `diffoscope`.
 2022-12-04 18:44:31 +00:00
Mario Rodas e76e9ed99c rPackages.bigmemory: fix evaluation on darwin 
On Darwin pkgs.libuuid is null, hence evaluating `.dev` fails.
 2022-11-24 01:46:29 -05:00
Justin Bedo 1249b08676
rPackages.RNifti: fix build 2022-11-02 10:14:57 +11:00
Justin Bedo 644b5a7ac7
rPackages.bigmemory: add missing dependency 2022-11-02 10:11:53 +11:00
Justin Bedo 3f86920ae8
rPackages: CRAN and BioC update 2022-10-31 13:46:43 +11:00
Justin Bedő abe366dd5c
Merge pull request #196979 from Et7f3/fix-deldir 
deldir: specify iconv library for darwin.
 2022-10-23 23:57:56 +00:00
Et7f3 e8327603e1 rPackages.interp: specify iconv library for darwin 2022-10-21 21:21:34 +02:00
Et7f3 a88371fb6d rPackages.deldir: specify iconv library for darwin 2022-10-20 23:45:16 +02:00
Nicolas Benes 7396451d6c rPackages.mzR: unpin boost 
`mzR` currently ships and builds its own copy of boost-176, see
https://github.com/sneumann/mzR/blob/master/src/README.updateboost
 2022-10-20 17:41:35 +02:00
Matthieu Coudron 8e7161ed80 rPackages.rmarkdown: add pandoc as buildInput 
https://github.com/rstudio/rmarkdown/blob/main/DESCRIPTION#L91 requires pandoc from system
 2022-09-30 12:40:07 +02:00
Theodore Ni e0a5a1c3a0
rPackages: reenable stackprotector on aarch64-darwin 
The original error that required disabling the stack protector on
aarch64-darwin has been fixed in GCC.
 2022-09-04 11:47:02 -07:00
Justin Bedo ba3564f74b
rPackages.s2: fix openssl linking 2022-08-22 11:41:09 +10:00
Justin Bedo d7bf754c96
rPackages: CRAN and BioC update 2022-08-18 07:11:43 +10:00