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authorGregory Becker <becker33@llnl.gov>2016-01-08 15:02:29 -0800
committerGregory Becker <becker33@llnl.gov>2016-01-08 15:02:29 -0800
commit6ca1e5c4b07e1677363cf0f3787144f67af688c8 (patch)
treeb92293ed20366c0ccac36dc7d3eef664f9bcd769 /var
parent86230b9ac8ed42f3f3b309a0a8a77483978a306c (diff)
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Revert "added a bunch of packages and added submodule"
This reverts commit 79808da760eabcb3e692c88e29ea3c7c558b131d.
Diffstat (limited to 'var')
-rw-r--r--var/spack/packages/asciidoc/package.py18
-rw-r--r--var/spack/packages/boost/package.py4
-rw-r--r--var/spack/packages/bowtie2/bowtie2-2.5.patch16
-rw-r--r--var/spack/packages/bowtie2/package.py24
-rw-r--r--var/spack/packages/cscope/package.py17
-rw-r--r--var/spack/packages/czmq/package.py19
-rw-r--r--var/spack/packages/docbook-xml/package.py19
-rw-r--r--var/spack/packages/doxygen/package.py25
-rw-r--r--var/spack/packages/eigen/package.py17
-rw-r--r--var/spack/packages/elfutils/package.py26
-rw-r--r--var/spack/packages/fish/package.py18
-rw-r--r--var/spack/packages/flux/package.py36
-rw-r--r--var/spack/packages/gflags/package.py21
-rw-r--r--var/spack/packages/ghostscript/package.py17
-rw-r--r--var/spack/packages/glog/package.py15
-rw-r--r--var/spack/packages/graphviz/package.py19
-rw-r--r--var/spack/packages/leveldb/package.py29
-rw-r--r--var/spack/packages/libdrm/package.py5
-rw-r--r--var/spack/packages/libelf/package.py2
-rw-r--r--var/spack/packages/libffi/package.py6
-rw-r--r--var/spack/packages/libjson-c/package.py14
-rw-r--r--var/spack/packages/libpciaccess/package.py17
-rw-r--r--var/spack/packages/libsodium/package.py19
-rw-r--r--var/spack/packages/libxml2/package.py5
-rw-r--r--var/spack/packages/lmdb/package.py39
-rw-r--r--var/spack/packages/lua/package.py26
-rw-r--r--var/spack/packages/mesa/package.py5
-rw-r--r--var/spack/packages/mpich/package.py1
-rw-r--r--var/spack/packages/munge/package.py20
-rw-r--r--var/spack/packages/ncurses/package.py8
-rw-r--r--var/spack/packages/netlib-blas/package.py6
-rw-r--r--var/spack/packages/netlib-lapack/package.py (renamed from var/spack/packages/lapack/package.py)18
-rw-r--r--var/spack/packages/pidx/package.py21
-rw-r--r--var/spack/packages/pkg-config/package.py17
-rw-r--r--var/spack/packages/protobuf/package.py16
-rw-r--r--var/spack/packages/py-Cython/package.py12
-rw-r--r--var/spack/packages/py-Distutils2/package.py15
-rw-r--r--var/spack/packages/py-astroML/package.py12
-rw-r--r--var/spack/packages/py-astropy/package.py12
-rw-r--r--var/spack/packages/py-autopep8/package.py12
-rw-r--r--var/spack/packages/py-certifi/package.py12
-rw-r--r--var/spack/packages/py-decorator/package.py12
-rw-r--r--var/spack/packages/py-emcee/package.py12
-rw-r--r--var/spack/packages/py-fitsio/package.py13
-rw-r--r--var/spack/packages/py-gnureadline/package.py12
-rw-r--r--var/spack/packages/py-ipython/package.py21
-rwxr-xr-xvar/spack/packages/py-ipython/package.py.backup27
-rw-r--r--var/spack/packages/py-ipython_genutils/package.py12
-rw-r--r--var/spack/packages/py-joblib/package.py12
-rw-r--r--var/spack/packages/py-jsonschema/package.py16
-rw-r--r--var/spack/packages/py-matplotlib/package.py1
-rw-r--r--var/spack/packages/py-mock/package.py17
-rw-r--r--var/spack/packages/py-numexpr/package.py12
-rw-r--r--var/spack/packages/py-numpy/package.py15
-rw-r--r--var/spack/packages/py-pandas/package.py2
-rw-r--r--var/spack/packages/py-pep8/package.py12
-rw-r--r--var/spack/packages/py-pickleshare/package.py12
-rw-r--r--var/spack/packages/py-pip/package.py12
-rw-r--r--var/spack/packages/py-py/package.py12
-rw-r--r--var/spack/packages/py-py4j/package.py15
-rw-r--r--var/spack/packages/py-pyside/package.py5
-rw-r--r--var/spack/packages/py-pytest/package.py12
-rw-r--r--var/spack/packages/py-python-dateutil/package.py12
-rw-r--r--var/spack/packages/py-pytz/package.py2
-rw-r--r--var/spack/packages/py-pyzmq/package.py16
-rw-r--r--var/spack/packages/py-scikit-learn/package.py3
-rw-r--r--var/spack/packages/py-scipy/package.py4
-rw-r--r--var/spack/packages/py-seaborn/package.py12
-rw-r--r--var/spack/packages/py-setuptools/package.py9
-rw-r--r--var/spack/packages/py-six/package.py2
-rw-r--r--var/spack/packages/py-statsmodels/package.py12
-rw-r--r--var/spack/packages/py-tables/package.py12
-rw-r--r--var/spack/packages/py-tornado/package.py17
-rw-r--r--var/spack/packages/py-traitlets/package.py14
-rw-r--r--var/spack/packages/py-triangle-plot/package.py12
-rw-r--r--var/spack/packages/samtools/package.py18
-rw-r--r--var/spack/packages/samtools/samtools1.2.patch20
-rw-r--r--var/spack/packages/scorep/package.py15
-rw-r--r--var/spack/packages/snappy/package.py15
-rw-r--r--var/spack/packages/stat/package.py11
-rw-r--r--var/spack/packages/vim/package.py23
-rw-r--r--var/spack/packages/zeromq/package.py20
82 files changed, 685 insertions, 488 deletions
diff --git a/var/spack/packages/asciidoc/package.py b/var/spack/packages/asciidoc/package.py
new file mode 100644
index 0000000000..828f3b3f4f
--- /dev/null
+++ b/var/spack/packages/asciidoc/package.py
@@ -0,0 +1,18 @@
+from spack import *
+
+class Asciidoc(Package):
+ """ A presentable text document format for writing articles, UNIX man
+ pages and other small to medium sized documents."""
+ homepage = "http://asciidoc.org"
+ url = "http://downloads.sourceforge.net/project/asciidoc/asciidoc/8.6.9/asciidoc-8.6.9.tar.gz"
+
+ version('8.6.9', 'c59018f105be8d022714b826b0be130a')
+
+ depends_on('libxml2')
+ depends_on('libxslt')
+
+ def install(self, spec, prefix):
+ configure('--prefix=%s' % prefix)
+
+ make()
+ make("install")
diff --git a/var/spack/packages/boost/package.py b/var/spack/packages/boost/package.py
index 254d1afda1..35824d53a2 100644
--- a/var/spack/packages/boost/package.py
+++ b/var/spack/packages/boost/package.py
@@ -14,6 +14,10 @@ class Boost(Package):
list_url = "http://sourceforge.net/projects/boost/files/boost/"
list_depth = 2
+ version('1.59.0', '6aa9a5c6a4ca1016edd0ed1178e3cb87')
+ version('1.58.0', 'b8839650e61e9c1c0a89f371dd475546')
+ version('1.57.0', '1be49befbdd9a5ce9def2983ba3e7b76')
+ version('1.56.0', 'a744cf167b05d72335f27c88115f211d')
version('1.55.0', 'd6eef4b4cacb2183f2bf265a5a03a354')
version('1.54.0', '15cb8c0803064faef0c4ddf5bc5ca279')
version('1.53.0', 'a00d22605d5dbcfb4c9936a9b35bc4c2')
diff --git a/var/spack/packages/bowtie2/bowtie2-2.5.patch b/var/spack/packages/bowtie2/bowtie2-2.5.patch
new file mode 100644
index 0000000000..290be39c73
--- /dev/null
+++ b/var/spack/packages/bowtie2/bowtie2-2.5.patch
@@ -0,0 +1,16 @@
+--- Makefile 2015-02-26 10:50:00.000000000 -0800
++++ Makefile.new 2015-07-29 18:03:59.891357399 -0700
+@@ -22,10 +22,10 @@
+ #
+
+ INC =
+-GCC_PREFIX = $(shell dirname `which gcc`)
++GCC_PREFIX =
+ GCC_SUFFIX =
+-CC = $(GCC_PREFIX)/gcc$(GCC_SUFFIX)
+-CPP = $(GCC_PREFIX)/g++$(GCC_SUFFIX)
++CC = cc
++CPP = c++
+ CXX = $(CPP)
+ HEADERS = $(wildcard *.h)
+ BOWTIE_MM = 1
diff --git a/var/spack/packages/bowtie2/package.py b/var/spack/packages/bowtie2/package.py
new file mode 100644
index 0000000000..339aab6598
--- /dev/null
+++ b/var/spack/packages/bowtie2/package.py
@@ -0,0 +1,24 @@
+from spack import *
+from glob import glob
+class Bowtie2(Package):
+ """Description"""
+ homepage = "bowtie-bio.sourceforge.net/bowtie2/index.shtml"
+ version('2.2.5','51fa97a862d248d7ee660efc1147c75f', url = "http://downloads.sourceforge.net/project/bowtie-bio/bowtie2/2.2.5/bowtie2-2.2.5-source.zip")
+
+ patch('bowtie2-2.5.patch',when='@2.2.5', level=0)
+
+ def install(self, spec, prefix):
+ make()
+ mkdirp(prefix.bin)
+ for bow in glob("bowtie2*"):
+ install(bow, prefix.bin)
+ # install('bowtie2',prefix.bin)
+ # install('bowtie2-align-l',prefix.bin)
+ # install('bowtie2-align-s',prefix.bin)
+ # install('bowtie2-build',prefix.bin)
+ # install('bowtie2-build-l',prefix.bin)
+ # install('bowtie2-build-s',prefix.bin)
+ # install('bowtie2-inspect',prefix.bin)
+ # install('bowtie2-inspect-l',prefix.bin)
+ # install('bowtie2-inspect-s',prefix.bin)
+
diff --git a/var/spack/packages/cscope/package.py b/var/spack/packages/cscope/package.py
new file mode 100644
index 0000000000..9aac0f7304
--- /dev/null
+++ b/var/spack/packages/cscope/package.py
@@ -0,0 +1,17 @@
+from spack import *
+
+class Cscope(Package):
+ """Cscope is a developer's tool for browsing source code."""
+ homepage = "http://http://cscope.sourceforge.net/"
+ url = "http://downloads.sourceforge.net/project/cscope/cscope/15.8b/cscope-15.8b.tar.gz"
+
+ version('15.8b', '8f9409a238ee313a96f9f87fe0f3b176')
+
+ # Can be configured to use flex (not necessary)
+ # ./configure --with-flex
+
+ def install(self, spec, prefix):
+ configure('--prefix=%s' % prefix)
+
+ make()
+ make("install")
diff --git a/var/spack/packages/czmq/package.py b/var/spack/packages/czmq/package.py
new file mode 100644
index 0000000000..a2f1947554
--- /dev/null
+++ b/var/spack/packages/czmq/package.py
@@ -0,0 +1,19 @@
+from spack import *
+
+class Czmq(Package):
+ """ A C interface to the ZMQ library """
+ homepage = "http://czmq.zeromq.org"
+ url = "https://github.com/zeromq/czmq/archive/v3.0.2.tar.gz"
+
+ version('3.0.2', '23e9885f7ee3ce88d99d0425f52e9be1', url='https://github.com/zeromq/czmq/archive/v3.0.2.tar.gz')
+
+ depends_on('zeromq')
+
+ def install(self, spec, prefix):
+ bash = which("bash")
+ bash("./autogen.sh")
+ configure("--prefix=%s" % prefix)
+
+ make()
+ make("install")
+
diff --git a/var/spack/packages/docbook-xml/package.py b/var/spack/packages/docbook-xml/package.py
new file mode 100644
index 0000000000..fce1de7deb
--- /dev/null
+++ b/var/spack/packages/docbook-xml/package.py
@@ -0,0 +1,19 @@
+import os
+import glob
+from spack import *
+
+
+class DocbookXml(Package):
+ """Docbook DTD XML files."""
+ homepage = "http://www.oasis-open.org/docbook"
+ url = "http://www.oasis-open.org/docbook/xml/4.5/docbook-xml-4.5.zip"
+
+ version('4.5', '03083e288e87a7e829e437358da7ef9e')
+
+ def install(self, spec, prefix):
+ cp = which('cp')
+
+ install_args = ['-a', '-t', prefix]
+ install_args.extend(glob.glob('*'))
+
+ cp(*install_args)
diff --git a/var/spack/packages/doxygen/package.py b/var/spack/packages/doxygen/package.py
new file mode 100644
index 0000000000..3d4a4e47a7
--- /dev/null
+++ b/var/spack/packages/doxygen/package.py
@@ -0,0 +1,25 @@
+#------------------------------------------------------------------------------
+# Author: Justin Too <justin@doubleotoo.com>
+# Date: September 11, 2015
+#------------------------------------------------------------------------------
+
+from spack import *
+
+class Doxygen(Package):
+ """Doxygen is the de facto standard tool for generating documentation
+ from annotated C++ sources, but it also supports other popular programming
+ languages such as C, Objective-C, C#, PHP, Java, Python, IDL (Corba,
+ Microsoft, and UNO/OpenOffice flavors), Fortran, VHDL, Tcl, and to some extent D..
+ """
+ homepage = "http://www.stack.nl/~dimitri/doxygen/"
+ url = "http://ftp.stack.nl/pub/users/dimitri/doxygen-1.8.10.src.tar.gz"
+
+ version('1.8.10', '79767ccd986f12a0f949015efb5f058f')
+
+ depends_on("cmake@2.8.12:")
+
+ def install(self, spec, prefix):
+ cmake('.', *std_cmake_args)
+
+ make()
+ make("install")
diff --git a/var/spack/packages/eigen/package.py b/var/spack/packages/eigen/package.py
deleted file mode 100644
index b4d89ea3a0..0000000000
--- a/var/spack/packages/eigen/package.py
+++ /dev/null
@@ -1,17 +0,0 @@
-from spack import *
-
-class Eigen(Package):
- """Eigen is a C++ template library for linear algebra: matrices, vectors,
- numerical solvers, and related algorithms.."""
- homepage = "http://eigen.tuxfamily.org/"
- url = "http://bitbucket.org/eigen/eigen/get/3.2.5.tar.gz"
-
- version('3.2.5', '8cc513ac6ec687117acadddfcacf551b')
-
- def install(self, spec, prefix):
- import os
- os.system("mkdir ./build_dir && cd ./build_dir")
- cmake('../', *std_cmake_args)
-
- make()
- make("install")
diff --git a/var/spack/packages/elfutils/package.py b/var/spack/packages/elfutils/package.py
new file mode 100644
index 0000000000..926d234584
--- /dev/null
+++ b/var/spack/packages/elfutils/package.py
@@ -0,0 +1,26 @@
+from spack import *
+
+class Elfutils(Package):
+ """elfutils is a collection of various binary tools such as
+ eu-objdump, eu-readelf, and other utilities that allow you to
+ inspect and manipulate ELF files. Refer to Table 5.Tools Included
+ in elfutils for Red Hat Developer for a complete list of binary
+ tools that are distributed with the Red Hat Developer Toolset
+ version of elfutils."""
+
+ homepage = "https://fedorahosted.org/elfutils/"
+
+ version('0.163',
+ git='git://git.fedorahosted.org/git/elfutils.git',
+ tag='elfutils-0.163')
+
+ provides('elf')
+
+ def install(self, spec, prefix):
+ autoreconf = which('autoreconf')
+ autoreconf('-if')
+
+ configure('--prefix=%s' % prefix, '--enable-maintainer-mode')
+ make()
+ make("install")
+
diff --git a/var/spack/packages/fish/package.py b/var/spack/packages/fish/package.py
new file mode 100644
index 0000000000..1225558705
--- /dev/null
+++ b/var/spack/packages/fish/package.py
@@ -0,0 +1,18 @@
+from spack import *
+
+class Fish(Package):
+ """fish is a smart and user-friendly command line shell for OS X, Linux, and
+ the rest of the family.
+ """
+
+ homepage = "http://fishshell.com/"
+ url = "http://fishshell.com/files/2.2.0/fish-2.2.0.tar.gz"
+ list_url = homepage
+
+ version('2.2.0', 'a76339fd14ce2ec229283c53e805faac48c3e99d9e3ede9d82c0554acfc7b77a')
+
+ def install(self, spec, prefix):
+ configure('--prefix=%s' % prefix)
+
+ make()
+ make("install")
diff --git a/var/spack/packages/flux/package.py b/var/spack/packages/flux/package.py
new file mode 100644
index 0000000000..c128f46be8
--- /dev/null
+++ b/var/spack/packages/flux/package.py
@@ -0,0 +1,36 @@
+from spack import *
+import os
+
+class Flux(Package):
+ """ A next-generation resource manager (pre-alpha) """
+
+ homepage = "https://github.com/flux-framework/flux-core"
+ url = "https://github.com/flux-framework/flux-core"
+
+ version('master', branch='master', git='https://github.com/flux-framework/flux-core')
+
+ # Also needs autotools, but should use the system version if available
+ depends_on("zeromq@4.0.4:")
+ depends_on("czmq@2.2:")
+ depends_on("lua@5.1:5.1.99")
+ depends_on("munge")
+ depends_on("libjson-c")
+ depends_on("libxslt")
+ # TODO: This provides a catalog, hacked with environment below for now
+ depends_on("docbook-xml")
+ depends_on("asciidoc")
+ depends_on("python")
+ depends_on("py-cffi")
+
+ def install(self, spec, prefix):
+ # Bootstrap with autotools
+ bash = which('bash')
+ bash('./autogen.sh')
+
+ # Fix asciidoc dependency on xml style sheets and whatnot
+ os.environ['XML_CATALOG_FILES'] = os.path.join(spec['docbook-xml'].prefix,
+ 'catalog.xml')
+ # Configure, compile & install
+ configure("--prefix=" + prefix)
+ make("install", "V=1")
+
diff --git a/var/spack/packages/gflags/package.py b/var/spack/packages/gflags/package.py
new file mode 100644
index 0000000000..62dd80a094
--- /dev/null
+++ b/var/spack/packages/gflags/package.py
@@ -0,0 +1,21 @@
+import os
+from spack import *
+
+class Gflags(Package):
+ """The gflags package contains a C++ library that implements
+ commandline flags processing. It includes built-in support for
+ standard types such as string and the ability to define flags
+ in the source file in which they are used. Online documentation
+ available at: https://gflags.github.io/gflags/"""
+
+ homepage = "https://gflags.github.io/gflags"
+ url = "https://github.com/gflags/gflags/archive/v2.1.2.tar.gz"
+
+ version('2.1.2', 'ac432de923f9de1e9780b5254884599f')
+
+ def install(self, spec, prefix):
+ cmake("-DCMAKE_INSTALL_PREFIX=" + prefix,
+ "-DBUILD_SHARED_LIBS=ON")
+ make()
+ make("test")
+ make("install")
diff --git a/var/spack/packages/ghostscript/package.py b/var/spack/packages/ghostscript/package.py
new file mode 100644
index 0000000000..0ab49d425f
--- /dev/null
+++ b/var/spack/packages/ghostscript/package.py
@@ -0,0 +1,17 @@
+from spack import *
+
+class Ghostscript(Package):
+ """an interpreter for the PostScript language and for PDF. """
+ homepage = "http://ghostscript.com/"
+ url = "http://downloads.ghostscript.com/public/ghostscript-9.16.tar.gz"
+
+ version('9.16', '829319325bbdb83f5c81379a8f86f38f')
+
+ parallel = False
+
+ def install(self, spec, prefix):
+ configure("--prefix=%s" %prefix, "--enable-shared")
+
+ make()
+ make("install")
+
diff --git a/var/spack/packages/glog/package.py b/var/spack/packages/glog/package.py
new file mode 100644
index 0000000000..d73386b394
--- /dev/null
+++ b/var/spack/packages/glog/package.py
@@ -0,0 +1,15 @@
+import os
+from spack import *
+
+class Glog(Package):
+ """C++ implementation of the Google logging module."""
+
+ homepage = "https://github.com/google/glog"
+ url = "https://github.com/google/glog/archive/v0.3.3.tar.gz"
+
+ version('0.3.3', 'c1f86af27bd9c73186730aa957607ed0')
+
+ def install(self, spec, prefix):
+ configure("--prefix=" + prefix)
+ make()
+ make("install")
diff --git a/var/spack/packages/graphviz/package.py b/var/spack/packages/graphviz/package.py
index 8244feccfd..7af7da1881 100644
--- a/var/spack/packages/graphviz/package.py
+++ b/var/spack/packages/graphviz/package.py
@@ -1,24 +1,21 @@
from spack import *
class Graphviz(Package):
- """graph visualization software."""
+ """Graph Visualization Software"""
homepage = "http://www.graphviz.org"
url = "http://www.graphviz.org/pub/graphviz/stable/SOURCES/graphviz-2.38.0.tar.gz"
version('2.38.0', '5b6a829b2ac94efcd5fa3c223ed6d3ae')
- version('2.36.0', '1f41664dba0c93109ac8b71216bf2b57')
- depends_on("cairo@1.1.10")
- depends_on("freetype@2.1.10")
- depends_on("fontconfig")
- depends_on("zlib@1.2.3")
- # depends_on("libpng@1.2.10")
- # depends_on("expat@2.0.0")
- # depends_on("gd@2.0.34")
+ parallel = False
+
+ depends_on("swig")
+ depends_on("python")
+ depends_on("ghostscript")
def install(self, spec, prefix):
- configure('--prefix=%s' % prefix)
+ configure("--prefix=%s" %prefix)
- # FIXME: Add logic to build and install here
make()
make("install")
+
diff --git a/var/spack/packages/leveldb/package.py b/var/spack/packages/leveldb/package.py
new file mode 100644
index 0000000000..da68a9cbcb
--- /dev/null
+++ b/var/spack/packages/leveldb/package.py
@@ -0,0 +1,29 @@
+import os
+import glob
+from spack import *
+
+class Leveldb(Package):
+ """LevelDB is a fast key-value storage library written at Google
+ that provides an ordered mapping from string keys to string values."""
+
+ homepage = "https://github.com/google/leveldb"
+ url = "https://github.com/google/leveldb/archive/v1.18.tar.gz"
+
+ version('1.18', '73770de34a2a5ab34498d2e05b2b7fa0')
+
+ depends_on("snappy")
+
+ def install(self, spec, prefix):
+ make()
+
+ mkdirp(prefix.include)
+ mkdirp(prefix.lib)
+
+ cp = which('cp')
+
+ # cp --preserve=links libleveldb.* prefix/lib
+ args = glob.glob('libleveldb.*')
+ args.append(prefix + '/lib')
+ cp('--preserve=links', *args)
+
+ cp('-r', 'include/leveldb', prefix + '/include')
diff --git a/var/spack/packages/libdrm/package.py b/var/spack/packages/libdrm/package.py
index 1cab5372be..00736b7811 100644
--- a/var/spack/packages/libdrm/package.py
+++ b/var/spack/packages/libdrm/package.py
@@ -2,7 +2,7 @@ from spack import *
class Libdrm(Package):
"""A userspace library for accessing the DRM, direct
- rendering manager, on Linux, BSD and other operating
+ rendering manager, on Linux, BSD and other operating
systems that support the ioctl interface."""
homepage = "http://dri.freedesktop.org/libdrm/" # no real website...
@@ -11,11 +11,8 @@ class Libdrm(Package):
version('2.4.59', '105ac7af1afcd742d402ca7b4eb168b6')
version('2.4.33', '86e4e3debe7087d5404461e0032231c8')
- depends_on("libpciaccess")
-
def install(self, spec, prefix):
configure("--prefix=%s" % prefix)
- make("clean")
make()
make("install")
diff --git a/var/spack/packages/libelf/package.py b/var/spack/packages/libelf/package.py
index bf2fefabd5..9338b8f393 100644
--- a/var/spack/packages/libelf/package.py
+++ b/var/spack/packages/libelf/package.py
@@ -36,6 +36,8 @@ class Libelf(Package):
version('0.8.13', '4136d7b4c04df68b686570afa26988ac')
version('0.8.12', 'e21f8273d9f5f6d43a59878dc274fec7')
+ provides('elf')
+
def install(self, spec, prefix):
configure("--prefix=" + prefix,
"--enable-shared",
diff --git a/var/spack/packages/libffi/package.py b/var/spack/packages/libffi/package.py
index 2c1c4eed4d..18acabb00c 100644
--- a/var/spack/packages/libffi/package.py
+++ b/var/spack/packages/libffi/package.py
@@ -6,9 +6,9 @@ class Libffi(Package):
to call any function specified by a call interface description at
run time."""
homepage = "https://sourceware.org/libffi/"
- url = "ftp://sourceware.org/pub/libffi/libffi-3.1.tar.gz"
-
- version('3.1', 'f5898b29bbfd70502831a212d9249d10')
+
+ version('3.2.1','83b89587607e3eb65c70d361f13bab43',url = "ftp://sourceware.org/pub/libffi/libffi-3.2.1.tar.gz")
+ #version('3.1', 'f5898b29bbfd70502831a212d9249d10',url = "ftp://sourceware.org/pub/libffi/libffi-3.1.tar.gz") # Has a bug $(lib64) instead of ${lib64} in libffi.pc
def install(self, spec, prefix):
configure("--prefix=%s" % prefix)
diff --git a/var/spack/packages/libjson-c/package.py b/var/spack/packages/libjson-c/package.py
new file mode 100644
index 0000000000..c0801cce9c
--- /dev/null
+++ b/var/spack/packages/libjson-c/package.py
@@ -0,0 +1,14 @@
+from spack import *
+
+class LibjsonC(Package):
+ """ A JSON implementation in C """
+ homepage = "https://github.com/json-c/json-c/wiki"
+ url = "https://s3.amazonaws.com/json-c_releases/releases/json-c-0.11.tar.gz"
+
+ version('0.11', 'aa02367d2f7a830bf1e3376f77881e98')
+
+ def install(self, spec, prefix):
+ configure('--prefix=%s' % prefix)
+
+ make()
+ make("install")
diff --git a/var/spack/packages/libpciaccess/package.py b/var/spack/packages/libpciaccess/package.py
index 371fbb6685..6022fc34a3 100644
--- a/var/spack/packages/libpciaccess/package.py
+++ b/var/spack/packages/libpciaccess/package.py
@@ -1,16 +1,21 @@
from spack import *
class Libpciaccess(Package):
- """Generic PCI access library"""
+ """Generic PCI access library."""
+
homepage = "http://cgit.freedesktop.org/xorg/lib/libpciaccess/"
- url = "http://pkgs.fedoraproject.org/repo/pkgs/libpciaccess/libpciaccess-0.13.2.tar.bz2/b7c0d3afce14eedca57312a3141ec13a/libpciaccess-0.13.2.tar.bz2"
+ url = "http://cgit.freedesktop.org/xorg/lib/libpciaccess/"
+
+ version('0.13.4', git='http://anongit.freedesktop.org/git/xorg/lib/libpciaccess.git',
+ tag='libpciaccess-0.13.4')
- version('0.13.2', 'b7c0d3afce14eedca57312a3141ec13a')
+ depends_on('autoconf')
+ depends_on('libtool')
def install(self, spec, prefix):
- import os
- os.system("autoconf")
- configure('--prefix=%s' % prefix)
+ from subprocess import call
+ call(["./autogen.sh"])
+ configure("--prefix=%s" % prefix)
make()
make("install")
diff --git a/var/spack/packages/libsodium/package.py b/var/spack/packages/libsodium/package.py
new file mode 100644
index 0000000000..1c8a16d998
--- /dev/null
+++ b/var/spack/packages/libsodium/package.py
@@ -0,0 +1,19 @@
+from spack import *
+
+class Libsodium(Package):
+ """Sodium is a modern, easy-to-use software library for encryption,
+ decryption, signatures, password hashing and more."""
+ homepage = "https://download.libsodium.org/doc/"
+ url = "https://download.libsodium.org/libsodium/releases/libsodium-1.0.3.tar.gz"
+
+ version('1.0.3', 'b3bcc98e34d3250f55ae196822307fab')
+ version('1.0.2', 'dc40eb23e293448c6fc908757738003f')
+ version('1.0.1', '9a221b49fba7281ceaaf5e278d0f4430')
+ version('1.0.0', '3093dabe4e038d09f0d150cef064b2f7')
+ version('0.7.1', 'c224fe3923d1dcfe418c65c8a7246316')
+
+ def install(self, spec, prefix):
+ configure("--prefix=%s" % prefix)
+
+ make()
+ make("install")
diff --git a/var/spack/packages/libxml2/package.py b/var/spack/packages/libxml2/package.py
index 72199d8def..3a0af6b368 100644
--- a/var/spack/packages/libxml2/package.py
+++ b/var/spack/packages/libxml2/package.py
@@ -9,11 +9,12 @@ class Libxml2(Package):
version('2.9.2', '9e6a9aca9d155737868b3dc5fd82f788')
+ extends('python')
depends_on('zlib')
depends_on('xz')
def install(self, spec, prefix):
- configure("--prefix=%s" % prefix,
- "--without-python")
+ configure("--prefix=%s" % prefix)
+
make()
make("install")
diff --git a/var/spack/packages/lmdb/package.py b/var/spack/packages/lmdb/package.py
new file mode 100644
index 0000000000..875b8100c5
--- /dev/null
+++ b/var/spack/packages/lmdb/package.py
@@ -0,0 +1,39 @@
+import os
+from spack import *
+
+class Lmdb(Package):
+ """Read-only mirror of official repo on openldap.org. Issues and
+ pull requests here are ignored. Use OpenLDAP ITS for issues.
+ http://www.openldap.org/software/repo.html"""
+
+
+ homepage = "http://www.openldap.org/software/repo.html"
+ url = "https://github.com/LMDB/lmdb/archive/LMDB_0.9.16.tar.gz"
+
+ version('0.9.16', '0de89730b8f3f5711c2b3a4ba517b648')
+
+ def install(self, spec, prefix):
+ os.chdir('libraries/liblmdb')
+
+ make()
+
+ mkdirp(prefix.bin)
+ mkdirp(prefix + '/man/man1')
+ mkdirp(prefix.lib)
+ mkdirp(prefix.include)
+
+ bins = ['mdb_stat', 'mdb_copy', 'mdb_dump', 'mdb_load']
+ for f in bins:
+ install(f, prefix.bin)
+
+ mans = ['mdb_stat.1', 'mdb_copy.1', 'mdb_dump.1', 'mdb_load.1']
+ for f in mans:
+ install(f, prefix + '/man/man1')
+
+ libs = ['liblmdb.a', 'liblmdb.so']
+ for f in libs:
+ install(f, prefix.lib)
+
+ includes = ['lmdb.h']
+ for f in includes:
+ install(f, prefix.include)
diff --git a/var/spack/packages/lua/package.py b/var/spack/packages/lua/package.py
new file mode 100644
index 0000000000..57c443cc2d
--- /dev/null
+++ b/var/spack/packages/lua/package.py
@@ -0,0 +1,26 @@
+from spack import *
+import os
+
+class Lua(Package):
+ """ The Lua programming language interpreter and library """
+ homepage = "http://www.lua.org"
+ url = "http://www.lua.org/ftp/lua-5.1.5.tar.gz"
+
+ version('5.3.1', '797adacada8d85761c079390ff1d9961')
+ version('5.3.0', 'a1b0a7e92d0c85bbff7a8d27bf29f8af')
+ version('5.2.4', '913fdb32207046b273fdb17aad70be13')
+ version('5.2.3', 'dc7f94ec6ff15c985d2d6ad0f1b35654')
+ version('5.2.2', 'efbb645e897eae37cad4344ce8b0a614')
+ version('5.2.1', 'ae08f641b45d737d12d30291a5e5f6e3')
+ version('5.2.0', 'f1ea831f397214bae8a265995ab1a93e')
+ version('5.1.5', '2e115fe26e435e33b0d5c022e4490567')
+ version('5.1.4', 'd0870f2de55d59c1c8419f36e8fac150')
+ version('5.1.3', 'a70a8dfaa150e047866dc01a46272599')
+
+ depends_on('ncurses')
+
+ def install(self, spec, prefix):
+ make('INSTALL_TOP=%s' % prefix,
+ 'MYLDFLAGS=-L%s/lib' % spec['ncurses'].prefix,
+ 'linux',
+ 'install')
diff --git a/var/spack/packages/mesa/package.py b/var/spack/packages/mesa/package.py
index 2dba878a77..2a04a8fd51 100644
--- a/var/spack/packages/mesa/package.py
+++ b/var/spack/packages/mesa/package.py
@@ -1,7 +1,7 @@
from spack import *
class Mesa(Package):
- """Mesa is an open-source implementation of the OpenGL
+ """Mesa is an open-source implementation of the OpenGL
specification - a system for rendering interactive 3D graphics."""
homepage = "http://www.mesa3d.org"
@@ -11,9 +11,10 @@ class Mesa(Package):
# version('10.4.4', '8d863a3c209bf5116b2babfccccc68ce')
version('8.0.5', 'cda5d101f43b8784fa60bdeaca4056f2')
- # mesa 7.x, 8.x, 9.x
+ # mesa 7.x, 8.x, 9.x
depends_on("libdrm@2.4.33")
depends_on("llvm@3.0")
+ depends_on("libxml2")
# patch("llvm-fixes.patch") # using newer llvm
diff --git a/var/spack/packages/mpich/package.py b/var/spack/packages/mpich/package.py
index ce07335bba..dfff22152d 100644
--- a/var/spack/packages/mpich/package.py
+++ b/var/spack/packages/mpich/package.py
@@ -38,7 +38,6 @@ class Mpich(Package):
provides('mpi@:3', when='@3:')
provides('mpi@:1', when='@1:')
-
def setup_dependent_environment(self, module, spec, dep_spec):
"""For dependencies, make mpicc's use spack wrapper."""
os.environ['MPICH_CC'] = 'cc'
diff --git a/var/spack/packages/munge/package.py b/var/spack/packages/munge/package.py
new file mode 100644
index 0000000000..c737ca0354
--- /dev/null
+++ b/var/spack/packages/munge/package.py
@@ -0,0 +1,20 @@
+from spack import *
+import os
+
+class Munge(Package):
+ """ MUNGE Uid 'N' Gid Emporium """
+ homepage = "https://code.google.com/p/munge/"
+ url = "https://github.com/dun/munge/releases/download/munge-0.5.11/munge-0.5.11.tar.bz2"
+
+ version('0.5.11', 'bd8fca8d5f4c1fcbef1816482d49ee01', url='https://github.com/dun/munge/releases/download/munge-0.5.11/munge-0.5.11.tar.bz2')
+
+ depends_on('openssl')
+ depends_on('libgcrypt')
+
+ def install(self, spec, prefix):
+ os.makedirs(os.path.join(prefix, "lib/systemd/system"))
+ configure("--prefix=%s" % prefix)
+
+ make()
+ make("install")
+
diff --git a/var/spack/packages/ncurses/package.py b/var/spack/packages/ncurses/package.py
index a22e83503f..8f5763bfdd 100644
--- a/var/spack/packages/ncurses/package.py
+++ b/var/spack/packages/ncurses/package.py
@@ -21,3 +21,11 @@ class Ncurses(Package):
make()
make("install")
+ configure("--prefix=%s" % prefix,
+ "--with-shared",
+ "--disable-widec",
+ "--disable-pc-files",
+ "--without-ada")
+ make()
+ make("install")
+
diff --git a/var/spack/packages/netlib-blas/package.py b/var/spack/packages/netlib-blas/package.py
index 0a6cdb0442..85e97323d3 100644
--- a/var/spack/packages/netlib-blas/package.py
+++ b/var/spack/packages/netlib-blas/package.py
@@ -9,6 +9,8 @@ class NetlibBlas(Package):
version('3.5.0', 'b1d3e3e425b2e44a06760ff173104bdf')
+ variant('fpic', default=False, description="Build with -fpic compiler option")
+
# virtual dependency
provides('blas')
@@ -23,6 +25,10 @@ class NetlibBlas(Package):
mf.filter('^LOADER.*', 'LOADER = f90')
mf.filter('^CC =.*', 'CC = cc')
+ if '+fpic' in self.spec:
+ mf.filter('^OPTS.*=.*', 'OPTS = -O2 -frecursive -fpic')
+ mf.filter('^CFLAGS =.*', 'CFLAGS = -O3 -fpic')
+
def install(self, spec, prefix):
make('blaslib')
diff --git a/var/spack/packages/lapack/package.py b/var/spack/packages/netlib-lapack/package.py
index d9d37e3e4a..fb6b99e27c 100644
--- a/var/spack/packages/lapack/package.py
+++ b/var/spack/packages/netlib-lapack/package.py
@@ -1,6 +1,6 @@
from spack import *
-class Lapack(Package):
+class NetlibLapack(Package):
"""
LAPACK version 3.X is a comprehensive FORTRAN library that does
linear algebra operations including matrix inversions, least
@@ -18,9 +18,16 @@ class Lapack(Package):
version('3.4.0', '02d5706ec03ba885fc246e5fa10d8c70')
version('3.3.1', 'd0d533ec9a5b74933c2a1e84eedc58b4')
+ variant('shared', default=False, description="Build shared library version")
+
+ # virtual dependency
+ provides('lapack')
+
# blas is a virtual dependency.
depends_on('blas')
+ depends_on('cmake')
+
# Doesn't always build correctly in parallel
parallel = False
@@ -39,7 +46,14 @@ class Lapack(Package):
def install(self, spec, prefix):
blas_libs = ";".join(self.get_blas_libs())
- cmake(".", '-DBLAS_LIBRARIES=' + blas_libs, *std_cmake_args)
+ cmake_args = [".", '-DBLAS_LIBRARIES=' + blas_libs]
+
+ if '+shared' in spec:
+ cmake_args.append('-DBUILD_SHARED_LIBS=ON')
+
+ cmake_args += std_cmake_args
+
+ cmake(*cmake_args)
make()
make("install")
diff --git a/var/spack/packages/pidx/package.py b/var/spack/packages/pidx/package.py
new file mode 100644
index 0000000000..81aed62fb1
--- /dev/null
+++ b/var/spack/packages/pidx/package.py
@@ -0,0 +1,21 @@
+from spack import *
+
+class Pidx(Package):
+ """PIDX Parallel I/O Library.
+
+ PIDX is an efficient parallel I/O library that reads and writes
+ multiresolution IDX data files.
+ """
+
+ homepage = "http://www.cedmav.com/pidx"
+
+ version('1.0', git='https://github.com/sci-visus/PIDX.git',
+ commit='6afa1cf71d1c41263296dc049c8fabaf73c296da')
+
+ depends_on("mpi")
+
+ def install(self, spec, prefix):
+ with working_dir('spack-build', create=True):
+ cmake('..', *std_cmake_args)
+ make()
+ make("install")
diff --git a/var/spack/packages/pkg-config/package.py b/var/spack/packages/pkg-config/package.py
new file mode 100644
index 0000000000..9964c6ce34
--- /dev/null
+++ b/var/spack/packages/pkg-config/package.py
@@ -0,0 +1,17 @@
+from spack import *
+
+class PkgConfig(Package):
+ """pkg-config is a helper tool used when compiling applications and libraries"""
+ homepage = "http://www.freedesktop.org/wiki/Software/pkg-config/"
+ url = "http://pkgconfig.freedesktop.org/releases/pkg-config-0.28.tar.gz"
+
+ version('0.28', 'aa3c86e67551adc3ac865160e34a2a0d')
+
+ parallel = False
+
+ def install(self, spec, prefix):
+ configure("--prefix=%s" %prefix, "--enable-shared")
+
+ make()
+ make("install")
+
diff --git a/var/spack/packages/protobuf/package.py b/var/spack/packages/protobuf/package.py
new file mode 100644
index 0000000000..34085c7ce9
--- /dev/null
+++ b/var/spack/packages/protobuf/package.py
@@ -0,0 +1,16 @@
+import os
+from spack import *
+
+class Protobuf(Package):
+ """Google's data interchange format."""
+
+ homepage = "https://developers.google.com/protocol-buffers"
+ url = "https://github.com/google/protobuf/releases/download/v2.5.0/protobuf-2.5.0.tar.bz2"
+
+ version('2.5.0', 'a72001a9067a4c2c4e0e836d0f92ece4')
+
+ def install(self, spec, prefix):
+ configure("--prefix=" + prefix)
+ make()
+ make("check")
+ make("install")
diff --git a/var/spack/packages/py-Cython/package.py b/var/spack/packages/py-Cython/package.py
deleted file mode 100644
index c250139114..0000000000
--- a/var/spack/packages/py-Cython/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyCython(Package):
- """The Cython compiler for writing C extensions for the Python language."""
- homepage = "http://www.cython.org"
- version("0.21.2", "d21adb870c75680dc857cd05d41046a4",
- url="https://pypi.python.org/packages/source/C/Cython/Cython-0.21.2.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-Distutils2/package.py b/var/spack/packages/py-Distutils2/package.py
deleted file mode 100644
index 8690f569fe..0000000000
--- a/var/spack/packages/py-Distutils2/package.py
+++ /dev/null
@@ -1,15 +0,0 @@
-from spack import *
-
-class PyDistutils2(Package):
- """Python Packaging Library."""
-
- homepage = "https://hg.python.org/distutils2"
- url = "https://pypi.python.org/packages/source/D/Distutils2/Distutils2-1.0a4.tar.gz"
-
- version('1.0a4', '52bc9dffb394970c27e02853ae3a3241')
-
- depends_on("python")
-
- def install(self, spec, prefix):
- python('setup.py', 'install', '--prefix=%s' % prefix)
-
diff --git a/var/spack/packages/py-astroML/package.py b/var/spack/packages/py-astroML/package.py
deleted file mode 100644
index 1583e249d2..0000000000
--- a/var/spack/packages/py-astroML/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyAstroml(Package):
- """tools for machine learning and data mining in Astronomy"""
- homepage = "http://astroML.github.com"
- version("0.2", "85f558368546660564f20b30efafb024",
- url="https://pypi.python.org/packages/source/a/astroML/astroML-0.2.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-astropy/package.py b/var/spack/packages/py-astropy/package.py
deleted file mode 100644
index 5d2d0619cc..0000000000
--- a/var/spack/packages/py-astropy/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyAstropy(Package):
- """Community-developed python astronomy tools"""
- homepage = "http://astropy.org"
- version("0.4.2", "6dc4f643cde37ba0a8b4967dc8becee8",
- url="https://pypi.python.org/packages/source/a/astropy/astropy-0.4.2.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-autopep8/package.py b/var/spack/packages/py-autopep8/package.py
deleted file mode 100644
index 39a2288ea0..0000000000
--- a/var/spack/packages/py-autopep8/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyAutopep8(Package):
- """A tool that automatically formats Python code to conform to the PEP 8 style guide"""
- homepage = "https://github.com/hhatto/autopep8"
- version("1.1", "7998358d8f0efd77dcb2cc8e34e3cb5c",
- url="https://pypi.python.org/packages/source/a/autopep8/autopep8-1.1.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-certifi/package.py b/var/spack/packages/py-certifi/package.py
deleted file mode 100644
index 442903e6a0..0000000000
--- a/var/spack/packages/py-certifi/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyCertifi(Package):
- """Python package for providing Mozilla's CA Bundle."""
- homepage = "http://python-requests.org"
- version("14.05.14", "315ea4e50673a16ab047099f816fd32a",
- url="https://pypi.python.org/packages/source/c/certifi/certifi-14.05.14.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-decorator/package.py b/var/spack/packages/py-decorator/package.py
deleted file mode 100644
index 00c1c541d4..0000000000
--- a/var/spack/packages/py-decorator/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyDecorator(Package):
- """Better living through Python with decorators"""
- homepage = "https://github.com/micheles/decorator"
- version("4.0.4", "dd3a0669e1e6f09699eefa2c7fbd9756",
- url="https://pypi.python.org/packages/source/d/decorator/decorator-4.0.4.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-emcee/package.py b/var/spack/packages/py-emcee/package.py
deleted file mode 100644
index 544066b92d..0000000000
--- a/var/spack/packages/py-emcee/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyEmcee(Package):
- """Kick ass affine-invariant ensemble MCMC sampling"""
- homepage = "http://dan.iel.fm/emcee/"
- version("2.1.0", "c6b6fad05c824d40671d4a4fc58dfff7",
- url="https://pypi.python.org/packages/source/e/emcee/emcee-2.1.0.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-fitsio/package.py b/var/spack/packages/py-fitsio/package.py
deleted file mode 100644
index 046bc386d5..0000000000
--- a/var/spack/packages/py-fitsio/package.py
+++ /dev/null
@@ -1,13 +0,0 @@
-from spack import *
-
-class PyFitsio(Package):
- """A full featured python library to read from and write to FITS files."""
- homepage = "https://github.com/esheldon/fitsio"
- version("0.9.7", "75fa05f999ae8f55c8290bd78ada49e7",
- url="https://pypi.python.org/packages/source/f/fitsio/fitsio-0.9.7.tar.gz")
-
- extends("python")
- depends_on("py-numpy")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-gnureadline/package.py b/var/spack/packages/py-gnureadline/package.py
deleted file mode 100644
index 51d1c6227e..0000000000
--- a/var/spack/packages/py-gnureadline/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyGnureadline(Package):
- """The standard Python readline extension statically linked against the GNU readline library."""
- homepage = "http://github.com/ludwigschwardt/python-gnureadline"
- version("6.3.3", "c4af83c9a3fbeac8f2da9b5a7c60e51c",
- url="https://pypi.python.org/packages/source/g/gnureadline/gnureadline-6.3.3.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-ipython/package.py b/var/spack/packages/py-ipython/package.py
index 3b94b71f29..8d0e64a07f 100644
--- a/var/spack/packages/py-ipython/package.py
+++ b/var/spack/packages/py-ipython/package.py
@@ -3,29 +3,14 @@ from spack import *
class PyIpython(Package):
"""IPython provides a rich toolkit to help you make the most out of using Python interactively."""
homepage = "https://pypi.python.org/pypi/ipython"
+ url = "https://pypi.python.org/packages/source/i/ipython/ipython-2.3.1.tar.gz"
- version('3.0.0','b3f00f3c0be036fafef3b0b9d663f27e',
- url='https://pypi.python.org/packages/source/i/ipython/ipython-3.0.0.tar.gz')
- version('4.0.0','c2fecbcf1c0fbdc82625c77a50733dd6',
- url='https://pypi.python.org/packages/source/i/ipython/ipython-4.0.0.tar.gz')
- version('2.3.1', '2b7085525dac11190bfb45bb8ec8dcbf',
- url="https://pypi.python.org/packages/source/i/ipython/ipython-2.3.1.tar.gz")
+ version('2.3.1', '2b7085525dac11190bfb45bb8ec8dcbf')
version('3.1.0', 'a749d90c16068687b0ec45a27e72ef8f')
- version('3.2.1', 'f4c93d67ac4b2d4fc69df693b6f3c9e0',
- url='https://github.com/ipython/ipython/archive/rel-3.2.1.tar.gz')
extends('python')
depends_on('py-pygments')
- depends_on('py-setuptools@18.1')
- depends_on('py-traitlets')
- depends_on('py-pyzmq')
- depends_on('py-pexpect')
- depends_on('py-tornado')
- depends_on('py-jinja2')
+ depends_on('py-setuptools')
def install(self, spec, prefix):
- import os
- # os.system("spack activate py-setuptools@18.1")
- # os.system("easy_install pip")
- # os.system("pip install ipython[notebook]")
python('setup.py', 'install', '--prefix=%s' % prefix)
diff --git a/var/spack/packages/py-ipython/package.py.backup b/var/spack/packages/py-ipython/package.py.backup
deleted file mode 100755
index 1ed8b57e60..0000000000
--- a/var/spack/packages/py-ipython/package.py.backup
+++ /dev/null
@@ -1,27 +0,0 @@
-from spack import *
-
-class PyIpython(Package):
- """IPython provides a rich toolkit to help you make the most out of using Python interactively."""
- homepage = "https://pypi.python.org/pypi/ipython"
-
- version('2.3.1', '2b7085525dac11190bfb45bb8ec8dcbf',
- url="https://pypi.python.org/packages/source/i/ipython/ipython-2.3.1.tar.gz")
- version('3.1.0', 'a749d90c16068687b0ec45a27e72ef8f')
- version('3.2.1', 'f4c93d67ac4b2d4fc69df693b6f3c9e0',
- url='https://github.com/ipython/ipython/archive/rel-3.2.1.tar.gz')
-
- extends('python')
- depends_on('py-pygments')
- depends_on('py-setuptools@18.1')
- depends_on('py-traitlets')
- depends_on('py-pyzmq')
- depends_on('py-pexpect')
- depends_on('py-tornado')
- depends_on('py-Jinja2')
-
- def install(self, spec, prefix):
- import os
- # os.system("spack activate py-setuptools@18.1")
- # os.system("easy_install pip")
- # os.system("pip install ipython[notebook]")
- python('setup.py', 'install', '--prefix=%s' % prefix)
diff --git a/var/spack/packages/py-ipython_genutils/package.py b/var/spack/packages/py-ipython_genutils/package.py
deleted file mode 100644
index 39b15eec73..0000000000
--- a/var/spack/packages/py-ipython_genutils/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyIpythonGenutils(Package):
- """Vestigial utilities from IPython"""
- homepage = "http://ipython.org"
- version("0.1.0", "9a8afbe0978adbcbfcb3b35b2d015a56",
- url="https://pypi.python.org/packages/source/i/ipython_genutils/ipython_genutils-0.1.0.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-joblib/package.py b/var/spack/packages/py-joblib/package.py
deleted file mode 100644
index 10672314de..0000000000
--- a/var/spack/packages/py-joblib/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyJoblib(Package):
- """Lightweight pipelining: using Python functions as pipeline jobs."""
- homepage = "http://packages.python.org/joblib/"
- version("0.8.4", "90a1c25cc4dc4a8e3536093dbc35cff3",
- url="https://pypi.python.org/packages/source/j/joblib/joblib-0.8.4.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-jsonschema/package.py b/var/spack/packages/py-jsonschema/package.py
deleted file mode 100644
index 9a7fc21862..0000000000
--- a/var/spack/packages/py-jsonschema/package.py
+++ /dev/null
@@ -1,16 +0,0 @@
-from spack import *
-
-class PyJsonschema(Package):
- """implementation of JSON Schema validation for Python"""
- homepage = "https://github.com/Julian/jsonschema"
- url = "https://pypi.python.org/packages/source/j/jsonschema/jsonschema-2.5.1.tar.gz"
-
- version('2.4.0','661f85c3d23094afbb9ac3c0673840bf',
- url='https://pypi.python.org/packages/source/j/jsonschema/jsonschema-2.4.0.tar.gz')
- version('2.5.1', '374e848fdb69a3ce8b7e778b47c30640')
-
- extends("python")
- depends_on("py-setuptools@18.1")
-
- def install(self, spec, prefix):
- python('setup.py', 'install', '--prefix=%s' % prefix)
diff --git a/var/spack/packages/py-matplotlib/package.py b/var/spack/packages/py-matplotlib/package.py
index b9244daf56..e7ce3dfd24 100644
--- a/var/spack/packages/py-matplotlib/package.py
+++ b/var/spack/packages/py-matplotlib/package.py
@@ -12,6 +12,7 @@ class PyMatplotlib(Package):
extends('python', ignore=r'bin/nosetests.*$')
depends_on('py-pyside')
+ depends_on('py-ipython')
depends_on('py-pyparsing')
depends_on('py-six')
depends_on('py-dateutil')
diff --git a/var/spack/packages/py-mock/package.py b/var/spack/packages/py-mock/package.py
index c43842c187..3b08428ba0 100644
--- a/var/spack/packages/py-mock/package.py
+++ b/var/spack/packages/py-mock/package.py
@@ -1,12 +1,17 @@
from spack import *
class PyMock(Package):
- """A Python Mocking and Patching Library for Testing"""
- homepage = "http://www.voidspace.org.uk/python/mock/"
- version("1.0.1", "c3971991738caa55ec7c356bbc154ee2",
- url="https://pypi.python.org/packages/source/m/mock/mock-1.0.1.tar.gz")
+ """mock is a library for testing in Python. It allows you to replace parts
+ of your system under test with mock objects and make assertions about how
+ they have been used."""
- extends("python")
+ homepage = "https://github.com/testing-cabal/mock"
+ url = "https://pypi.python.org/packages/source/m/mock/mock-1.3.0.tar.gz"
+
+ version('1.3.0', '73ee8a4afb3ff4da1b4afa287f39fdeb')
+
+ extends('python')
+ depends_on('py-setuptools@17.1:')
def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
+ python('setup.py', 'install', '--prefix=%s' % prefix)
diff --git a/var/spack/packages/py-numexpr/package.py b/var/spack/packages/py-numexpr/package.py
deleted file mode 100644
index 283ea18772..0000000000
--- a/var/spack/packages/py-numexpr/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyNumexpr(Package):
- """Fast numerical expression evaluator for NumPy"""
- homepage = "https://github.com/pydata/numexpr"
- version("2.4", "df7e8d9e9dbb145b56d43c465c2bf854",
- url="https://pypi.python.org/packages/source/n/numexpr/numexpr-2.4.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-numpy/package.py b/var/spack/packages/py-numpy/package.py
index 6534e063d2..efa109a3e9 100644
--- a/var/spack/packages/py-numpy/package.py
+++ b/var/spack/packages/py-numpy/package.py
@@ -7,9 +7,22 @@ class PyNumpy(Package):
version('1.9.1', '78842b73560ec378142665e712ae4ad9')
version('1.9.2', 'a1ed53432dbcd256398898d35bc8e645')
-
+
extends('python')
depends_on('py-nose')
+ depends_on('netlib-blas+fpic')
+ depends_on('netlib-lapack+shared')
+
+ def patch(self):
+ filter_file(
+ "possible_executables = \['(gfortran|g77|ifort|efl)",
+ "possible_executables = ['fc",
+ "numpy/distutils/fcompiler/gnu.py",
+ "numpy/distutils/fcompiler/intel.py")
def install(self, spec, prefix):
+ with open('site.cfg', 'w') as f:
+ f.write('[DEFAULT]\n')
+ f.write('libraries=lapack,blas\n')
+ f.write('library_dirs=%s/lib:%s/lib\n' % (spec['blas'].prefix, spec['lapack'].prefix))
python('setup.py', 'install', '--prefix=%s' % prefix)
diff --git a/var/spack/packages/py-pandas/package.py b/var/spack/packages/py-pandas/package.py
index 07ee12782f..5b9997faa9 100644
--- a/var/spack/packages/py-pandas/package.py
+++ b/var/spack/packages/py-pandas/package.py
@@ -6,8 +6,6 @@ class PyPandas(Package):
homepage = "http://pandas.pydata.org/"
url = "https://pypi.python.org/packages/source/p/pandas/pandas-0.16.0.tar.gz#md5=bfe311f05dc0c351f8955fbd1e296e73"
- version('0.15.1','f6fd8d49fc801f6f3fa48f9117a6290b',
- url='https://pypi.python.org/packages/source/p/pandas/pandas-0.15.1.tar.gz')
version('0.16.0', 'bfe311f05dc0c351f8955fbd1e296e73')
version('0.16.1', 'fac4f25748f9610a3e00e765474bdea8')
diff --git a/var/spack/packages/py-pep8/package.py b/var/spack/packages/py-pep8/package.py
deleted file mode 100644
index 0bcf416922..0000000000
--- a/var/spack/packages/py-pep8/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyPep8(Package):
- """Python style guide checker"""
- homepage = "http://pep8.readthedocs.org/"
- version("1.6.1", "76cf60b245f8549cb458ffcd85710738",
- url="https://pypi.python.org/packages/source/p/pep8/pep8-1.6.1.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-pickleshare/package.py b/var/spack/packages/py-pickleshare/package.py
deleted file mode 100644
index cf9ddb7db8..0000000000
--- a/var/spack/packages/py-pickleshare/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyPickleshare(Package):
- """Tiny 'shelve'-like database with concurrency support"""
- homepage = "https://github.com/vivainio/pickleshare"
- version("0.5", "25337740507cb855ad58bfcf60f7710e",
- url="https://pypi.python.org/packages/source/p/pickleshare/pickleshare-0.5.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-pip/package.py b/var/spack/packages/py-pip/package.py
deleted file mode 100644
index 89b8570fe4..0000000000
--- a/var/spack/packages/py-pip/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyPip(Package):
- """The PyPA recommended tool for installing Python packages."""
- homepage = "https://pip.pypa.io/"
- version("7.1.2", "3823d2343d9f3aaab21cf9c917710196",
- url="https://pypi.python.org/packages/source/p/pip/pip-7.1.2.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-py/package.py b/var/spack/packages/py-py/package.py
deleted file mode 100644
index 0ef0403124..0000000000
--- a/var/spack/packages/py-py/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyPy(Package):
- """library with cross-python path, ini-parsing, io, code, log facilities"""
- homepage = "http://pylib.readthedocs.org/"
- version("1.4.26", "30c3fd92a53f1a5ed6f3591c1fe75c0e",
- url="https://pypi.python.org/packages/source/p/py/py-1.4.26.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-py4j/package.py b/var/spack/packages/py-py4j/package.py
deleted file mode 100644
index 4c31f57298..0000000000
--- a/var/spack/packages/py-py4j/package.py
+++ /dev/null
@@ -1,15 +0,0 @@
-from spack import *
-
-
-class PyPy4j(Package):
- """Enables Python programs to dynamically access arbitrary Java objects"""
- homepage = "https://www.py4j.org/"
- url = "https://pypi.python.org/packages/source/p/py4j/py4j-0.9.tar.gz"
-
- version('0.9', 'b6fed5faef81a5368e3d50a91a5c9a60')
-
- extends("python")
- depends_on("py-setuptools@18.1")
-
- def install(self, spec, prefix):
- python('setup.py', 'install', '--prefix=%s' % prefix)
diff --git a/var/spack/packages/py-pyside/package.py b/var/spack/packages/py-pyside/package.py
index 8d093efd2c..bb5da44d02 100644
--- a/var/spack/packages/py-pyside/package.py
+++ b/var/spack/packages/py-pyside/package.py
@@ -8,9 +8,12 @@ class PyPyside(Package):
version('1.2.2', 'c45bc400c8a86d6b35f34c29e379e44d')
+ # TODO: make build dependency
+ # depends_on("cmake")
+
extends('python')
depends_on('py-setuptools')
- depends_on('qt@5.4.0')
+ depends_on('qt@:4')
def patch(self):
"""Undo PySide RPATH handling and add Spack RPATH."""
diff --git a/var/spack/packages/py-pytest/package.py b/var/spack/packages/py-pytest/package.py
deleted file mode 100644
index 3611b68862..0000000000
--- a/var/spack/packages/py-pytest/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyPytest(Package):
- """pytest: simple powerful testing with Python"""
- homepage = "http://pytest.org"
- version("2.6.4", "14341e122f7e9031a0948eb6b01a2640",
- url="https://pypi.python.org/packages/source/p/pytest/pytest-2.6.4.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-python-dateutil/package.py b/var/spack/packages/py-python-dateutil/package.py
deleted file mode 100644
index 8efa114db1..0000000000
--- a/var/spack/packages/py-python-dateutil/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyPythonDateutil(Package):
- """Extensions to the standard Python datetime module"""
- homepage = "http://labix.org/python-dateutil"
- version("2.2", "c1f654d0ff7e33999380a8ba9783fd5c",
- url="https://pypi.python.org/packages/source/p/python-dateutil/python-dateutil-2.2.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-pytz/package.py b/var/spack/packages/py-pytz/package.py
index f67bb42854..da6311a784 100644
--- a/var/spack/packages/py-pytz/package.py
+++ b/var/spack/packages/py-pytz/package.py
@@ -5,8 +5,6 @@ class PyPytz(Package):
homepage = "https://pypi.python.org/pypi/pytz"
url = "https://pypi.python.org/packages/source/p/pytz/pytz-2014.10.tar.gz"
- version('2014.9','d42bda2f4c1e873e02fbd1e4acfd1b8c',
- url='https://pypi.python.org/packages/source/p/pytz/pytz-2014.9.tar.gz')
version('2014.10', 'eb1cb941a20c5b751352c52486aa1dd7')
version('2015.4', '417a47b1c432d90333e42084a605d3d8')
diff --git a/var/spack/packages/py-pyzmq/package.py b/var/spack/packages/py-pyzmq/package.py
deleted file mode 100644
index f5551182b3..0000000000
--- a/var/spack/packages/py-pyzmq/package.py
+++ /dev/null
@@ -1,16 +0,0 @@
-from spack import *
-
-class PyPyzmq(Package):
- """official Python binding for the ZeroMQ Messaging Library"""
- homepage = "https://github.com/zeromq/pyzmq"
- url = "https://pypi.python.org/packages/source/p/pyzmq/pyzmq-14.7.0.tar.gz"
-
- version('14.4.1','a6a7fb6950b1bf5333c6795f3edf196c',
- url='https://pypi.python.org/packages/source/p/pyzmq/pyzmq-14.4.1.tar.gz')
- version('14.7.0', '87e3abb33af5794db5ae85c667bbf324')
-
- extends('python')
- depends_on('py-setuptools@18.1')
-
- def install(self, spec, prefix):
- python('setup.py', 'install', '--prefix=%s' % prefix)
diff --git a/var/spack/packages/py-scikit-learn/package.py b/var/spack/packages/py-scikit-learn/package.py
index 744b37e7e0..5b078ce901 100644
--- a/var/spack/packages/py-scikit-learn/package.py
+++ b/var/spack/packages/py-scikit-learn/package.py
@@ -9,9 +9,6 @@ class PyScikitLearn(Package):
version('0.16.1', '363ddda501e3b6b61726aa40b8dbdb7e')
extends('python')
- depends_on('python@2.7.10')
- depends_on('py-numpy@1.9.2')
- depends_on('py-scipy@0.15.1')
def install(self, spec, prefix):
python('setup.py', 'install', '--prefix=%s' % prefix)
diff --git a/var/spack/packages/py-scipy/package.py b/var/spack/packages/py-scipy/package.py
index bcbdb2100f..3a1124cc15 100644
--- a/var/spack/packages/py-scipy/package.py
+++ b/var/spack/packages/py-scipy/package.py
@@ -5,14 +5,14 @@ class PyScipy(Package):
homepage = "https://pypi.python.org/pypi/scipy"
url = "https://pypi.python.org/packages/source/s/scipy/scipy-0.15.0.tar.gz"
- version('0.14.0','d7c7f4ccf8b07b08d6fe49d5cd51f85d',
- url='https://pypi.python.org/packages/source/s/scipy/scipy-0.14.0.tar.gz')
version('0.15.0', '639112f077f0aeb6d80718dc5019dc7a')
version('0.15.1', 'be56cd8e60591d6332aac792a5880110')
extends('python')
depends_on('py-nose')
depends_on('py-numpy')
+ depends_on('blas')
+ depends_on('lapack')
def install(self, spec, prefix):
python('setup.py', 'install', '--prefix=%s' % prefix)
diff --git a/var/spack/packages/py-seaborn/package.py b/var/spack/packages/py-seaborn/package.py
deleted file mode 100644
index 1e228b0622..0000000000
--- a/var/spack/packages/py-seaborn/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PySeaborn(Package):
- """Seaborn: statistical data visualization"""
- homepage = "http://stanford.edu/~mwaskom/software/seaborn/"
- version("0.5.1", "2ce6ea7d3c67858c0b1f5793fa2043b8",
- url="https://pypi.python.org/packages/source/s/seaborn/seaborn-0.5.1.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-setuptools/package.py b/var/spack/packages/py-setuptools/package.py
index 053fe1ba80..760ad4d6db 100644
--- a/var/spack/packages/py-setuptools/package.py
+++ b/var/spack/packages/py-setuptools/package.py
@@ -3,12 +3,11 @@ from spack import *
class PySetuptools(Package):
"""Easily download, build, install, upgrade, and uninstall Python packages."""
homepage = "https://pypi.python.org/pypi/setuptools"
+ url = "https://pypi.python.org/packages/source/s/setuptools/setuptools-11.3.tar.gz"
- version('18.1', 'f72e87f34fbf07f299f6cb46256a0b06',
- url='https://pypi.python.org/packages/source/s/setuptools/setuptools-18.1.tar.gz')
- version('11.3.1', '01f69212e019a2420c1693fb43593930',
- url="https://pypi.python.org/packages/source/s/setuptools/setuptools-11.3.tar.gz")
- version('16.0', '0ace0b96233516fc5f7c857d086aa3ad',)
+ version('11.3.1', '01f69212e019a2420c1693fb43593930')
+ version('16.0', '0ace0b96233516fc5f7c857d086aa3ad')
+ version('18.1', 'f72e87f34fbf07f299f6cb46256a0b06')
extends('python')
diff --git a/var/spack/packages/py-six/package.py b/var/spack/packages/py-six/package.py
index e9946a1e56..05c5bd00a9 100644
--- a/var/spack/packages/py-six/package.py
+++ b/var/spack/packages/py-six/package.py
@@ -5,8 +5,6 @@ class PySix(Package):
homepage = "https://pypi.python.org/pypi/six"
url = "https://pypi.python.org/packages/source/s/six/six-1.9.0.tar.gz"
- version('1.8.0','1626eb24cc889110c38f7e786ec69885',
- url='https://pypi.python.org/packages/source/s/six/six-1.8.0.tar.gz')
version('1.9.0', '476881ef4012262dfc8adc645ee786c4')
extends('python')
diff --git a/var/spack/packages/py-statsmodels/package.py b/var/spack/packages/py-statsmodels/package.py
deleted file mode 100644
index 393c772738..0000000000
--- a/var/spack/packages/py-statsmodels/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyStatsmodels(Package):
- """Statistical computations and models for use with SciPy"""
- homepage = "http://statsmodels.sourceforge.net/"
- version("0.6.1", "f7580ebf7d2a2c9b87abfad190dcb9a3",
- url="https://pypi.python.org/packages/source/s/statsmodels/statsmodels-0.6.1.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-tables/package.py b/var/spack/packages/py-tables/package.py
deleted file mode 100644
index 637ccf34cd..0000000000
--- a/var/spack/packages/py-tables/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyTables(Package):
- """Hierarchical datasets for Python"""
- homepage = "http://www.pytables.org/"
- version("3.1.1", "38d917f0c6dfb0bc28ce9ea0c3492524",
- url="https://pypi.python.org/packages/source/t/tables/tables-3.1.1.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/py-tornado/package.py b/var/spack/packages/py-tornado/package.py
deleted file mode 100644
index 4fc2d42c7b..0000000000
--- a/var/spack/packages/py-tornado/package.py
+++ /dev/null
@@ -1,17 +0,0 @@
-from spack import *
-
-class PyTornado(Package):
- """Python web framework and asynchronous networking library"""
- homepage = "http://www.tornadoweb.org/"
- url = "https://pypi.python.org/packages/source/t/tornado/tornado-4.2.1.tar.gz"
-
- version('4.0.2','985c0e704b765c33a6193d49d1935588',
- url='https://pypi.python.org/packages/source/t/tornado/tornado-4.0.2.tar.gz')
- version('4.2.1', 'd523204389cfb70121bb69709f551b20')
-
- extends('python')
- depends_on('py-certifi')
- depends_on('py-setuptools@18.1')
-
- def install(self, spec, prefix):
- python('setup.py', 'install', '--prefix=%s' % prefix)
diff --git a/var/spack/packages/py-traitlets/package.py b/var/spack/packages/py-traitlets/package.py
deleted file mode 100644
index 7b7f5c64cc..0000000000
--- a/var/spack/packages/py-traitlets/package.py
+++ /dev/null
@@ -1,14 +0,0 @@
-from spack import *
-
-class PyTraitlets(Package):
- """A lightweight Traits like module"""
- homepage = "http://traitlets.readthedocs.org/"
- url = "https://github.com/ipython/traitlets/archive/4.0.0.tar.gz"
-
- version('4.0.0', 'b5b95ea5941fd9619b4704dfd8201568')
-
- extends('python')
- depends_on("py-setuptools@18.1")
-
- def install(self, spec, prefix):
- python('setup.py', 'install', '--prefix=%s' % prefix)
diff --git a/var/spack/packages/py-triangle-plot/package.py b/var/spack/packages/py-triangle-plot/package.py
deleted file mode 100644
index 29c5f92857..0000000000
--- a/var/spack/packages/py-triangle-plot/package.py
+++ /dev/null
@@ -1,12 +0,0 @@
-from spack import *
-
-class PyTrianglePlot(Package):
- """Make some beautiful corner plots of samples."""
- homepage = "https://github.com/dfm/triangle.py"
- version("0.0.6", "970a35a9bde6002d673e3188fe39f0ed",
- url="https://pypi.python.org/packages/source/t/triangle_plot/triangle_plot-0.0.6.tar.gz")
-
- extends("python")
-
- def install(self, spec, prefix):
- python("setup.py", "install", "--prefix=%s" % prefix)
diff --git a/var/spack/packages/samtools/package.py b/var/spack/packages/samtools/package.py
new file mode 100644
index 0000000000..72900398d8
--- /dev/null
+++ b/var/spack/packages/samtools/package.py
@@ -0,0 +1,18 @@
+from spack import *
+
+class Samtools(Package):
+ """SAM Tools provide various utilities for manipulating alignments in the SAM format,
+ including sorting, merging, indexing and generating
+ alignments in a per-position format"""
+
+ homepage = "www.htslib.org"
+ version('1.2','988ec4c3058a6ceda36503eebecd4122',url = "https://github.com/samtools/samtools/releases/download/1.2/samtools-1.2.tar.bz2")
+
+ depends_on("zlib")
+ depends_on("mpc")
+ parallel=False
+ patch("samtools1.2.patch",level=0)
+
+ def install(self, spec, prefix):
+ make("prefix=%s" % prefix, "install")
+
diff --git a/var/spack/packages/samtools/samtools1.2.patch b/var/spack/packages/samtools/samtools1.2.patch
new file mode 100644
index 0000000000..ead3ab4e2c
--- /dev/null
+++ b/var/spack/packages/samtools/samtools1.2.patch
@@ -0,0 +1,20 @@
+--- Makefile 2015-02-03 08:27:34.000000000 -0800
++++ Makefile.new 2015-07-21 10:38:27.881406892 -0700
+@@ -26,7 +26,7 @@
+ CFLAGS = -g -Wall -O2
+ LDFLAGS =
+ LDLIBS =
+-DFLAGS= -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_CURSES_LIB=1
++DFLAGS= -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_CURSES_LIB=0
+ LOBJS= bam_aux.o bam.o bam_import.o sam.o \
+ sam_header.o bam_plbuf.o
+ AOBJS= bam_index.o bam_plcmd.o sam_view.o \
+@@ -37,7 +37,7 @@
+ faidx.o stats.o stats_isize.o bam_flags.o bam_split.o \
+ bam_tview.o bam_tview_curses.o bam_tview_html.o bam_lpileup.o
+ INCLUDES= -I. -I$(HTSDIR)
+-LIBCURSES= -lcurses # -lXCurses
++#LIBCURSES= -lcurses # -lXCurses
+
+ prefix = /usr/local
+ exec_prefix = $(prefix)
diff --git a/var/spack/packages/scorep/package.py b/var/spack/packages/scorep/package.py
index 32a772e3db..f013bd1cbb 100644
--- a/var/spack/packages/scorep/package.py
+++ b/var/spack/packages/scorep/package.py
@@ -1,11 +1,10 @@
# FIXME: Add copyright statement
from spack import *
-from contextlib import closing
class Scorep(Package):
- """The Score-P measurement infrastructure is a highly scalable and
- easy-to-use tool suite for profiling, event tracing, and online
+ """The Score-P measurement infrastructure is a highly scalable and
+ easy-to-use tool suite for profiling, event tracing, and online
analysis of HPC applications."""
# FIXME: add a proper url for your package's homepage here.
@@ -20,7 +19,7 @@ class Scorep(Package):
depends_on("mpi")
depends_on("papi")
# depends_on("otf2@1.2:1.2.1") # only Score-P 1.2.x
- depends_on("otf2")
+ depends_on("otf2")
depends_on("opari2")
depends_on("cube@4.2:4.2.3")
@@ -53,12 +52,12 @@ MPI_CXXFLAGS=-fPIC
# Use a custom compiler configuration, otherwise the score-p
# build system messes with spack's compiler settings.
# Create these three files in the build directory
- with closing(open("platform-backend-user-provided", "w")) as backend_file:
+ with open("platform-backend-user-provided", "w") as backend_file:
backend_file.write(self.backend_user_provided)
- with closing(open("platform-frontend-user-provided", "w")) as frontend_file:
+ with open("platform-frontend-user-provided", "w") as frontend_file:
frontend_file.write(self.frontend_user_provided)
- with closing(open("platform-mpi-user-provided", "w")) as mpi_file:
- mpi_file.write(self.mpi_user_provided)
+ with open("platform-mpi-user-provided", "w") as mpi_file:
+ mpi_file.write(self.mpi_user_provided)
configure_args = ["--prefix=%s" % prefix,
"--with-custom-compilers",
diff --git a/var/spack/packages/snappy/package.py b/var/spack/packages/snappy/package.py
new file mode 100644
index 0000000000..c8f9ceef7d
--- /dev/null
+++ b/var/spack/packages/snappy/package.py
@@ -0,0 +1,15 @@
+import os
+from spack import *
+
+class Snappy(Package):
+ """A fast compressor/decompressor: https://code.google.com/p/snappy"""
+
+ homepage = "https://code.google.com/p/snappy"
+ url = "https://github.com/google/snappy/releases/download/1.1.3/snappy-1.1.3.tar.gz"
+
+ version('1.1.3', '7358c82f133dc77798e4c2062a749b73')
+
+ def install(self, spec, prefix):
+ configure("--prefix=" + prefix)
+ make()
+ make("install")
diff --git a/var/spack/packages/stat/package.py b/var/spack/packages/stat/package.py
index c40d65ae78..5d81e62731 100644
--- a/var/spack/packages/stat/package.py
+++ b/var/spack/packages/stat/package.py
@@ -9,17 +9,20 @@ class Stat(Package):
version('2.1.0', 'ece26beaf057aa9134d62adcdda1ba91')
version('2.0.0', 'c7494210b0ba26b577171b92838e1a9b')
+ variant('dysect', default=False, description="enable DySectAPI")
+
depends_on('libelf')
depends_on('libdwarf')
depends_on('dyninst')
depends_on('graphlib')
+ depends_on('graphviz')
depends_on('launchmon')
depends_on('mrnet')
patch('configure_mpicxx.patch', when='@2.1.0')
def install(self, spec, prefix):
- configure(
+ configure_args = [
"--enable-gui",
"--prefix=%s" % prefix,
"--disable-examples", # Examples require MPI: avoid this dependency.
@@ -27,7 +30,11 @@ class Stat(Package):
"--with-mrnet=%s" % spec['mrnet'].prefix,
"--with-graphlib=%s" % spec['graphlib'].prefix,
"--with-stackwalker=%s" % spec['dyninst'].prefix,
- "--with-libdwarf=%s" % spec['libdwarf'].prefix)
+ "--with-libdwarf=%s" % spec['libdwarf'].prefix
+ ]
+ if '+dysect' in spec:
+ configure_args.append('--enable-dysectapi')
+ configure(*configure_args)
make(parallel=False)
make("install")
diff --git a/var/spack/packages/vim/package.py b/var/spack/packages/vim/package.py
index d0cf80b898..4099b3257f 100644
--- a/var/spack/packages/vim/package.py
+++ b/var/spack/packages/vim/package.py
@@ -35,15 +35,26 @@ class Vim(Package):
variant('ruby', default=False, description="build with Ruby")
depends_on('ruby', when='+ruby')
+ variant('cscope', default=False, description="build with cscope support")
+ depends_on('cscope', when='+cscope')
+
+ variant('gui', default=False, description="build with gui (gvim)")
+ # virtual dependency?
+
def install(self, spec, prefix):
feature_set = None
for fs in self.feature_sets:
if "+" + fs in spec:
if feature_set is not None:
- tty.error("Only one feature set allowed, both {} and {} specified".format(
- feature_set,
- fs))
+ tty.error("Only one feature set allowed, both %s and %s specified"
+ % (feature_set, fs))
feature_set = fs
+ if '+gui' in spec:
+ if feature_set is not None:
+ if feature_set is not 'huge':
+ tty.error("+gui variant requires 'huge' feature set, %s was specified"
+ % feature_set)
+ feature_set = 'huge'
if feature_set is None:
feature_set = 'normal'
@@ -60,6 +71,12 @@ class Vim(Package):
else:
configure_args.append("--enable-rubyinterp=dynamic")
+ if '+gui' in spec:
+ configure_args.append("--enable-gui=auto")
+
+ if '+cscope' in spec:
+ configure_args.append("--enable-cscope")
+
configure("--prefix=%s" % prefix, *configure_args)
make()
diff --git a/var/spack/packages/zeromq/package.py b/var/spack/packages/zeromq/package.py
new file mode 100644
index 0000000000..b5a1e3d4cd
--- /dev/null
+++ b/var/spack/packages/zeromq/package.py
@@ -0,0 +1,20 @@
+from spack import *
+
+class Zeromq(Package):
+ """ The ZMQ networking/concurrency library and core API """
+ homepage = "http://zguide.zeromq.org/"
+ url = "http://download.zeromq.org/zeromq-4.1.2.tar.gz"
+
+ version('4.1.2', '159c0c56a895472f02668e692d122685')
+ version('4.1.1', '0a4b44aa085644f25c177f79dc13f253')
+ version('4.0.7', '9b46f7e7b0704b83638ef0d461fd59ab')
+ version('4.0.6', 'd47dd09ed7ae6e7fd6f9a816d7f5fdf6')
+ version('4.0.5', '73c39f5eb01b9d7eaf74a5d899f1d03d')
+
+ depends_on("libsodium")
+
+ def install(self, spec, prefix):
+ configure("--with-libsodium","--prefix=%s" % prefix)
+
+ make()
+ make("install")