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Clean up R extensions

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Run the existing R extension packages through autopep8 to clean up.
This commit is contained in:
Glenn Johnson 2016-05-28 22:31:47 -05:00
parent 6649f9edc2
commit cb3505769b
4 changed files with 16 additions and 8 deletions
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6
var/spack/repos/builtin/packages/r-BiocGenerics/package.py
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@ -24,15 +24,17 @@
############################################################################## ##############################################################################
from spack import * from spack import *
class RBiocgenerics(Package): class RBiocgenerics(Package):
"""S4 generic functions needed by many Bioconductor packages.""" """S4 generic functions needed by many Bioconductor packages."""
homepage = 'https://www.bioconductor.org/packages/release/bioc/html/BiocGenerics.html' homepage = 'https://www.bioconductor.org/packages/release/bioc/html/BiocGenerics.html'
url = "https://www.bioconductor.org/packages/release/bioc/src/contrib/BiocGenerics_0.16.1.tar.gz" url = "https://www.bioconductor.org/packages/release/bioc/src/contrib/BiocGenerics_0.16.1.tar.gz"
version('0.16.1', 'c2148ffd86fc6f1f819c7f68eb2c744f', expand=False) version('0.16.1', 'c2148ffd86fc6f1f819c7f68eb2c744f', expand=False)
extends('R') extends('R')
def install(self, spec, prefix): def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library=%s' % self.module.r_lib_dir, '%s' % self.stage.archive_file) R('CMD', 'INSTALL', '--library=%s' %
self.module.r_lib_dir, '%s' % self.stage.archive_file)

6
var/spack/repos/builtin/packages/r-abind/package.py
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@ -24,6 +24,7 @@
############################################################################## ##############################################################################
from spack import * from spack import *
class RAbind(Package): class RAbind(Package):
"""Combine multidimensional arrays into a single array. This is a """Combine multidimensional arrays into a single array. This is a
generalization of 'cbind' and 'rbind'. Works with vectors, matrices, and generalization of 'cbind' and 'rbind'. Works with vectors, matrices, and
@ -31,7 +32,7 @@ class RAbind(Package):
'afill' for manipulating, extracting and replacing data in arrays.""" 'afill' for manipulating, extracting and replacing data in arrays."""
homepage = "https://cran.r-project.org/" homepage = "https://cran.r-project.org/"
url = "https://cran.r-project.org/src/contrib/abind_1.4-3.tar.gz" url = "https://cran.r-project.org/src/contrib/abind_1.4-3.tar.gz"
version('1.4-3', '10fcf80c677b991bf263d38be35a1fc5', expand=False) version('1.4-3', '10fcf80c677b991bf263d38be35a1fc5', expand=False)
@ -39,4 +40,5 @@ class RAbind(Package):
def install(self, spec, prefix): def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library=%s' % self.module.r_lib_dir, '%s' % self.stage.archive_file) R('CMD', 'INSTALL', '--library=%s' %
self.module.r_lib_dir, '%s' % self.stage.archive_file)

6
var/spack/repos/builtin/packages/r-filehash/package.py
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@ -24,6 +24,7 @@
############################################################################## ##############################################################################
from spack import * from spack import *
class RFilehash(Package): class RFilehash(Package):
"""Implements a simple key-value style database where character string keys """Implements a simple key-value style database where character string keys
are associated with data values that are stored on the disk. A simple are associated with data values that are stored on the disk. A simple
@ -36,11 +37,12 @@ class RFilehash(Package):
parties for use in the 'filehash' framework.""" parties for use in the 'filehash' framework."""
homepage = 'https://cran.r-project.org/' homepage = 'https://cran.r-project.org/'
url = "https://cran.r-project.org/src/contrib/filehash_2.3.tar.gz" url = "https://cran.r-project.org/src/contrib/filehash_2.3.tar.gz"
version('2.3', '01fffafe09b148ccadc9814c103bdc2f', expand=False) version('2.3', '01fffafe09b148ccadc9814c103bdc2f', expand=False)
extends('R') extends('R')
def install(self, spec, prefix): def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library=%s' % self.module.r_lib_dir, '%s' % self.stage.archive_file) R('CMD', 'INSTALL', '--library=%s' %
self.module.r_lib_dir, '%s' % self.stage.archive_file)

6
var/spack/repos/builtin/packages/r-magic/package.py
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@ -24,6 +24,7 @@
############################################################################## ##############################################################################
from spack import * from spack import *
class RMagic(Package): class RMagic(Package):
"""A collection of efficient, vectorized algorithms for the creation and """A collection of efficient, vectorized algorithms for the creation and
investigation of magic squares and hypercubes, including a variety of investigation of magic squares and hypercubes, including a variety of
@ -31,7 +32,7 @@ class RMagic(Package):
arrays.""" arrays."""
homepage = "https://cran.r-project.org/" homepage = "https://cran.r-project.org/"
url = "https://cran.r-project.org/src/contrib/magic_1.5-6.tar.gz" url = "https://cran.r-project.org/src/contrib/magic_1.5-6.tar.gz"
version('1.5-6', 'a68e5ced253b2196af842e1fc84fd029', expand=False) version('1.5-6', 'a68e5ced253b2196af842e1fc84fd029', expand=False)
@ -40,4 +41,5 @@ class RMagic(Package):
depends_on('r-abind') depends_on('r-abind')
def install(self, spec, prefix): def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library=%s' % self.module.r_lib_dir, '%s' % self.stage.archive_file) R('CMD', 'INSTALL', '--library=%s' %
self.module.r_lib_dir, '%s' % self.stage.archive_file)