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316 commits

Author SHA1 Message Date
Hartmut Goebel
3bf4280659
Merge branch 'master' into python-build-system 2016-11-29 18:47:16 +01:00
Ricardo Wurmus
419a8a186f
gnu: Add r-rocr. 
* gnu/packages/statistics.scm (r-rocr): New variable.
 2016-11-28 22:43:18 +01:00
Ricardo Wurmus
0cfe0570f2
gnu: Add r-gplots. 
* gnu/packages/statistics.scm (r-gplots): New variable.
 2016-11-28 22:43:18 +01:00
Ricardo Wurmus
6034cd905e
gnu: Add r-gdata. 
* gnu/packages/statistics.scm (r-gdata): New variable.
 2016-11-28 22:43:18 +01:00
Ricardo Wurmus
1571f90e35
gnu: Add r-gtools. 
* gnu/packages/statistics.scm (r-gtools): New variable.
 2016-11-28 22:43:17 +01:00
Ricardo Wurmus
6335bf1c80
gnu: Add r-sfsmisc. 
* gnu/packages/statistics.scm (r-sfsmisc): New variable.
 2016-11-28 22:43:17 +01:00
Ricardo Wurmus
1bd46f5520
gnu: Add r-fastcluster. 
* gnu/packages/statistics.scm (r-fastcluster): New variable.
 2016-11-28 22:43:16 +01:00
Ricardo Wurmus
c4708783ee
gnu: Add r-preprocesscore. 
* gnu/packages/statistics.scm (r-preprocesscore): New variable.
 2016-11-28 22:43:16 +01:00
Ricardo Wurmus
c9a6671490
gnu: Add r-dynamictreecut. 
* gnu/packages/statistics.scm (r-dynamictreecut): New variable.
 2016-11-28 22:43:16 +01:00
Ricardo Wurmus
e7d16ad161
gnu: Add r-spams. 
* gnu/packages/statistics.scm (r-spams): New variable.
 2016-11-28 22:43:16 +01:00
Ricardo Wurmus
9f5435d963
gnu: Add r-googlesheets. 
* gnu/packages/statistics.scm (r-googlesheets): New variable.
 2016-11-28 22:43:16 +01:00
Ricardo Wurmus
d427e03eee
gnu: Add r-cellranger. 
* gnu/packages/statistics.scm (r-cellranger): New variable.
 2016-11-28 22:43:15 +01:00
Ricardo Wurmus
58612fd2c8
gnu: Add r-rematch. 
* gnu/packages/statistics.scm (r-rematch): New variable.
 2016-11-28 22:43:15 +01:00
Hartmut Goebel
25b2c47d75
gnu: python-statsmodels: Fix build 
* gnu/packages/statistics.scm (python-statsmodels): [check] set
  PYTHONPATH prior to running tests.
 2016-11-15 22:31:33 +01:00
Hartmut Goebel
b41a05ce49
gnu: Remove work-arounds for bug 20765 (ensure uncompressed eggs). 
Bug 20765 is solved since we build all Python packages using
option "--single-version-externally-managed".

* gnu/packages/bioinformatics.scm (pbtranscript-tofu): Remove
  configure-flags. (pepr): remove phase "disable-egg-generation".
* gnu/packages/pdf.scm (reportlab): Remove configure-flags.
* gnu/packages/python.scm (python-sphinx-rtd-theme, python2-elib.intl,
  python-pkgconfig, python-pytest-pep8, python-pytest-flakes): Remove
  configure-flags. (python-pillow) remove phase
  "disable-egg-generation". (python-libarchive-c) Remove patching
  setup.cfg.
* gnu/packages/statistics.scm (python-patsy): remove phase
  "prevent-generation-of-egg-archive".
* gnu/packages/tls.scm (python-acme): remove phase
  "disable-egg-compression".
* gnu/packages/tor.scm (onionshare): Remove configure-flags.
 2016-11-15 22:31:02 +01:00
Hartmut Goebel
5c31f4aa7c
gnu: Remove python-setuptools and python2-setuptools from inputs (part 4a) 
This patch contains the changes for all modules beside python.scm where
setuptools are used in an inherited package and removing this input also
removes the need for inheriting the package. This is the case if adding
setuptools in the inherited package was the only change.

Change this to not inherit and remove the new needless call to
"strip-python2-variant (if applicable).

* gnu/packages/bioinformatics.scm (python-biopython, python2-biopython,
  python-twobitreader, python2-twobitreader,
  python-plastid, python2-plastid,
  python2-pybigwig,
  python2-screed,
  sra-tools): No longer "inherit" Python 2 packages
  inheriting from a Python 3 package if the sole reason for inheriting was
  adding python-setuptools respective python2-setuptools to [inputs],
  [native-inputs] or [propagated-inputs]. Remove now needless [properties]
  "python2-variant" where applicable.
* gnu/packages/django.scm (python-pytest-django, python2-pytest-django,
  python-django-filter, python2-django-filter): Likewise.
* gnu/packages/gnupg.scm (python2-pygpgme): Likewise.
* gnu/packages/mail.scm (python-mailmanclient, python2-mailmanclient):
  Likewise.
* gnu/packages/mpd.scm (python-msp, python2-mpd2): Likewise.
* gnu/packages/music.scm (python-pylast, python2-pylast): Likewise.
* gnu/packages/openstack.scm (python-requests-mock, python2-requests-mock,
  python2-git-review): Likewise.
* gnu/packages/password-utils.scm (python2-bcrypt): Likewise.
* gnu/packages/protobuf.scm (python-protobuf, python2-protobuf): Likewise.
* gnu/packages/statistics.scm (python-patsy, python2-patsy): Likewise.
* gnu/packages/web.scm (python2-feedparser): Likewise.
 2016-11-15 22:28:59 +01:00
Hartmut Goebel
00e10c6e67
gnu: Remove python-setuptools and python2-setuptools from inputs (part 3) 
This patch contains the changes where setuptools are used in an inherited
package and removing this input keeps the need for inheriting the package.

* gnu/packages/bioinformatics.scm (python2-biom-format): Remove
  python-setuptools respective python2-setuptools from [inputs],
  [native-inputs] and [propagated-inputs] in Python 2 packages inheriting from
  a Python 3 package.
* gnu/packages/python.scm (python2-pytest-mock,
  python2-oauthlib,
  python2-seaborn,
  python2-tornado,
  python2-terminado,
  python2-rauth,
  python2-anyjson,
  python2-amqp,
  python2-kombu,
  python2-billiard,
  python2-celery,
  python2-jellyfish,
  python2-binaryornot,
  python2-natsort,
  python2-graphene): Likewise.
* gnu/packages/statistics.scm (python2-statsmodels): Likewise.
 2016-11-15 22:28:38 +01:00
Ludovic Courtès
2cab1dd58b
Merge branch 'core-updates' 2016-11-13 00:34:16 +01:00
Ricardo Wurmus
b8deffe2b2
gnu: r-rmarkdown: Remove phase "copy-files-without-mode". 
This phase is no longer needed as upstream has merged the fix in the
current release.

* gnu/packages/statistics.scm (r-rmarkdown)[arguments]: Remove build
phase "copy-files-without-mode".
 2016-11-10 18:49:49 +01:00
Mark H Weaver
71e21fb26d
Merge branch 'master' into core-updates 2016-11-07 00:33:16 -05:00
ng0
73ea83f517
gnu: r-proto: Update project's home-page. 
* gnu/packages/statistics.scm (r-proto)[home-page]: Update project's home-page.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2016-11-06 14:35:21 +02:00
Mark H Weaver
8b6ad165d1
Merge branch 'master' into core-updates 2016-11-06 03:29:06 -05:00
Roel Janssen
8af47ef603
gnu: r-nmf: Use bigmemory. 
* gnu/packages/statistics.scm (r-nmf)[propagated-inputs]: Add
r-bigmemory and r-synchronicity.
 2016-11-04 14:53:24 +01:00
Roel Janssen
59523c4cf5
gnu: Add r-bigmemory. 
* gnu/packages/statistics.scm (r-bigmemory): New variable.
 2016-11-04 14:46:47 +01:00
Roel Janssen
4a83865286
gnu: Add r-synchronicity. 
* gnu/packages/statistics.scm (r-synchronicity): New variable.
 2016-11-04 14:40:13 +01:00
Roel Janssen
c6105d69c0
gnu: Add r-bigmemory-sri. 
gnu/packages/statistics.scm (r-bigmemory-sri): New variable.
 2016-11-04 14:35:04 +01:00
Ricardo Wurmus
e71659162b
gnu: r-hmisc: Update to 4.0.0. 
* gnu/packages/statistics.scm (r-hmisc): Update to 4.0.0.
[propagated-inputs]: Add r-htmltable, r-htmltools, r-viridis,
r-survival.
 2016-11-03 19:01:45 +01:00
Ricardo Wurmus
f158b92caf
gnu: r-r-oo: Update to 1.21.0. 
* gnu/packages/statistics.scm (r-r-oo): Update to 1.21.0.
 2016-11-03 19:01:45 +01:00
Ricardo Wurmus
f890981690
gnu: r-openssl: Update to 0.9.5. 
* gnu/packages/statistics.scm (r-openssl): Update to 0.9.5.
 2016-11-03 19:01:45 +01:00
Ricardo Wurmus
fbe5161c7d
gnu: r-checkmate: Update to 1.8.2. 
* gnu/packages/statistics.scm (r-checkmate): Update to 1.8.2.
 2016-11-03 19:01:45 +01:00
Ricardo Wurmus
572e1a0ca7
gnu: r-acepack: Update to 1.4.1. 
* gnu/packages/statistics.scm (r-acepack): Update to 1.4.1.
 2016-11-03 19:01:44 +01:00
Ricardo Wurmus
054a9a786b
gnu: r-gdtools: Update to 0.1.1. 
* gnu/packages/statistics.scm (r-gdtools): Update to 0.1.1.
[propagated-inputs]: Add r-withr.
 2016-11-03 19:01:44 +01:00
Ricardo Wurmus
d13a4e2575
gnu: r-proto: Update to 1.0.0. 
* gnu/packages/statistics.scm (r-proto): Update to 1.0.0.
 2016-11-03 19:01:44 +01:00
Ricardo Wurmus
ebbd4d0bfd
gnu: Add r-survival. 
* gnu/packages/statistics.scm (r-survival): New variable.
 2016-11-03 19:01:44 +01:00
Mark H Weaver
3d82676919
Merge branch 'master' into core-updates 2016-10-27 20:21:26 -04:00
Roel Janssen
b5ce25cc0e
gnu: r: Use uname from Guix 
* gnu/packages/statistics.scm (r): Use uname from Guix.
 2016-10-27 16:37:24 +02:00
Leo Famulari
02c73adcdf
Merge branch 'master' into core-updates 2016-10-26 19:00:06 -04:00
Ricardo Wurmus
aba6463975
gnu: r: Update to 3.3.1. 
* gnu/packages/statistics.scm (r): Update to 3.3.1.
 2016-10-26 18:14:17 +02:00
Ricardo Wurmus
a8e893b0b8
gnu: r-matrixstats: Update to 0.51.0. 
* gnu/packages/statistics.scm (r-matrixstats): Update to 0.51.0.
 2016-10-26 16:23:32 +02:00
Ricardo Wurmus
fd54f65e72
gnu: r-r-utils: Update to 2.4.0. 
* gnu/packages/statistics.scm (r-r-utils): Update to 2.4.0.
 2016-10-26 16:23:32 +02:00
Ricardo Wurmus
89242ea47f
gnu: r-irlba: Update to 2.1.2. 
* gnu/packages/statistics.scm (r-irlba): Update to 2.1.2.
 2016-10-26 16:23:31 +02:00
Ricardo Wurmus
4f2ebc16ce
gnu: r-codetools: Update to 0.2-15. 
* gnu/packages/statistics.scm (r-codetools): Update to 0.2-15.
 2016-10-26 16:23:31 +02:00
Ricardo Wurmus
cf738e961e
gnu: r-snow: Update to 0.4-2. 
* gnu/packages/statistics.scm (r-snow): Update to 0.4-2.
 2016-10-26 16:23:31 +02:00
Ricardo Wurmus
41bc22a7de
gnu: r-backports: Update to 1.0.4. 
* gnu/packages/statistics.scm (r-backports): Update to 1.0.4.
 2016-10-26 16:23:30 +02:00
Ricardo Wurmus
72263db73d
gnu: r-foreign: Update to 0.8-67. 
* gnu/packages/statistics.scm (r-foreign): Update to 0.8-67.
 2016-10-26 16:23:30 +02:00
Ricardo Wurmus
130410d941
gnu: r-cluster: Update to 2.0.5. 
* gnu/packages/statistics.scm (r-cluster): Update to 2.0.5.
 2016-10-26 16:23:29 +02:00
Ricardo Wurmus
e7622804aa
gnu: r-acepack: Update to 1.4.0. 
* gnu/packages/statistics.scm (r-acepack): Update to 1.4.0.
 2016-10-26 16:23:29 +02:00
Ricardo Wurmus
bff4dc6324
gnu: r-r6: Update to 2.2.0. 
* gnu/packages/statistics.scm (r-r6): Update to 2.2.0.
 2016-10-26 16:23:29 +02:00
Ricardo Wurmus
e0a9093139
gnu: r-evaluate: Update to 0.10. 
* gnu/packages/statistics.scm (r-evaluate): Update to 0.10.
 2016-10-26 16:23:28 +02:00
Ricardo Wurmus
2d9da70bbe
gnu: r-reshape2: Update to 1.4.2. 
* gnu/packages/statistics.scm (r-reshape2): Update to 1.4.2.
 2016-10-26 16:23:28 +02:00