{cae} [intel-2015a] GATE-7.0, Geant4-9.6.p04, root-5.34.26, clhep-2.1.3.1 (REVIEW)

easybuild/easyconfigs/c/CFITSIO/CFITSIO-3.37-intel-2015a.eb

@@ -0,0 +1,22 @@
+easyblock = 'ConfigureMake'
+
+name = 'CFITSIO'
+version = '3.37'
+
+homepage = 'http://heasarc.gsfc.nasa.gov/fitsio/'
+description = """CFITSIO is a library of C and Fortran subroutines for reading and writing data files in
+FITS (Flexible Image Transport System) data format."""
+
+toolchain = {'name': 'intel', 'version': '2015a'}
+toolchainopts = {'optarch': True, 'pic': True}
+
+srcversion = '%s0' % version.replace('.', '')
+source_urls = ['ftp://heasarc.gsfc.nasa.gov/software/fitsio/c/']
+sources = ['%%(namelower)s%s.tar.gz' % srcversion]
+
+sanity_check_paths = {
+    'files': ["lib/libcfitsio.a"],
+    'dirs': ["include"],
+}
+
+moduleclass = 'lib'

easybuild/easyconfigs/c/CLHEP/CLHEP-2.1.3.1-intel-2015a.eb

@@ -0,0 +1,31 @@
+easyblock = 'CMakeMake'
+
+name = 'CLHEP'
+version = '2.1.3.1'
+
+homepage = 'http://proj-clhep.web.cern.ch/proj-clhep/'
+description = """The CLHEP project is intended to be a set of HEP-specific foundation and
+ utility classes such as random generators, physics vectors, geometry and linear algebra.
+ CLHEP is structured in a set of packages independent of any external package."""
+
+
+toolchain = {'name': 'intel', 'version': '2015a'}
+toolchainopts = {'pic': True}
+
+sources = [SOURCELOWER_TGZ]
+source_urls = ['http://proj-clhep.web.cern.ch/proj-clhep/DISTRIBUTION/tarFiles/']
+
+dependencies = [('CMake', '3.1.3')]
+
+# build dir should not be in the source tree!
+ext_bldd = '../../builddir'
+preconfigopts = 'mkdir %s && cd %s &&' % (ext_bldd,ext_bldd)
+prebuildopts = 'cd %s &&' % ext_bldd
+preinstallopts = 'cd %s &&' % ext_bldd
+
+configopts = '-DCMAKE_BUILD_TYPE=Release' 
+
+# build dir should not be in the source tree!
+srcdir = '../%s/%s/' % (version,name)
+
+moduleclass = 'numlib'

easybuild/easyconfigs/g/GATE/GATE-7.0-intel-2015a.eb

@@ -0,0 +1,26 @@
+name = 'GATE'
+version = '7.0'
+
+homepage = 'http://www.opengatecollaboration.org/'
+description = """GATE is an advanced opensource software developed by the international OpenGATE collaboration and
+ dedicated to the numerical simulations in medical imaging. It currently supports simulations of Emission Tomography
+  (Positron Emission Tomography - PET and Single Photon Emission Computed Tomography - SPECT), and Computed Tomography"""
+
+toolchain = {'name': 'intel', 'version': '2015a'}
+
+sources = [('%(namelower)s_v%(version)s.tar_.gz' , "tar xfvz %s")]
+source_urls = ['http://www.opengatecollaboration.org/sites/opengatecollaboration.org/files/']
+
+patches = [
+    'GATE-%(version)s_Makefile-prefix.patch',
+    'GATE-%(version)s_unistdh.patch',
+]
+
+dependencies = [
+    ('Geant4', '9.6.p04'),
+    ('CLHEP', '2.1.3.1'),
+    ('ROOT', 'v5.34.26'),
+    ('CMake', '3.1.3'),
+]
+
+moduleclass = 'cae'

easybuild/easyconfigs/g/GATE/GATE-7.0_Makefile-prefix.patch

@@ -0,0 +1,46 @@
+--- gate_v7.0/cluster_tools/filemerger/Makefile.orig	2014-05-12 11:18:16.000000000 +0200
++++ gate_v7.0/cluster_tools/filemerger/Makefile	2015-03-04 10:54:55.461301152 +0100
+@@ -16,6 +16,8 @@
+ INCLUDE := -I./include `geant4-config --cflags` `root-config --cflags`
+ LDFLAGS := `geant4-config --libs` `root-config --glibs`
+
++PREFIX := /usr/local
++
+ TARGET := gjm
+
+ .PHONY: all clean directories cleanall install uninstall
+@@ -49,8 +51,9 @@
+
+ install:
+ 	@echo Installing ...
+-	@$(CP) $(TARGET) /usr/local/bin
++	mkdir -p $(PREFIX)/bin
++	@$(CP) $(TARGET) $(PREFIX)/bin
+
+ uninstall:
+ 	@echo Uninstalling...
+-	@$(RM) /usr/local/bin/$(TARGET)
++	@$(RM) $(PREFIX)/bin/$(TARGET)
+--- gate_v7.0/cluster_tools/jobsplitter/Makefile.orig	2014-05-12 11:18:16.000000000 +0200
++++ gate_v7.0/cluster_tools/jobsplitter/Makefile	2015-03-04 10:54:55.461301152 +0100
+@@ -16,6 +16,8 @@
+ INCLUDE := -I./include `geant4-config --cflags`
+ LDFLAGS := `geant4-config --libs`
+
++PREFIX := /usr/local
++
+ TARGET := gjs
+
+ .PHONY: all clean directories cleanall install uninstall
+@@ -57,8 +59,9 @@
+
+ install:
+ 	@echo Installing ...
+-	@$(CP) $(TARGET) /usr/local/bin
++	mkdir -p $(PREFIX)/bin
++	@$(CP) $(TARGET) $(PREFIX)/bin
+
+ uninstall:
+ 	@echo Uninstalling...
+-	@$(RM) /usr/local/bin/$(TARGET)
++	@$(RM) $(PREFIX)/bin/$(TARGET)

easybuild/easyconfigs/g/GATE/GATE-7.0_unistdh.patch

@@ -0,0 +1,10 @@
+--- gate_v7.0/cluster_tools/jobsplitter/include/GateMacfileParser.hh.org	2014-05-12 11:18:16.000000000 +0200
++++ gate_v7.0/cluster_tools/jobsplitter/include/GateMacfileParser.hh	2015-03-04 10:32:24.416298472 +0100
+@@ -19,6 +19,7 @@
+ #include <sstream> 
+ #include <fstream> 
+ #include <math.h>
++#include <unistd.h>
+
+ using namespace std;
+

easybuild/easyconfigs/g/Geant4/Geant4-9.6.p04-intel-2015a.eb

@@ -0,0 +1,24 @@
+name = 'Geant4'
+version = '9.6.p04'
+
+homepage = 'http://geant4.cern.ch/'
+description = """Geant4 is a toolkit for the simulation of the passage of particles through matter.
+ Its areas of application include high energy, nuclear and accelerator physics, 
+ as well as studies in medical and space science."""
+
+toolchain = {'name': 'intel', 'version': '2015a'}
+
+source_urls = ['http://geant4.cern.ch/support/source']
+sources = ['%(namelower)s.%(version)s.tar.gz']
+
+dependencies = [
+    ('expat', '2.1.0'),
+    ('CLHEP', '2.1.3.1'),
+]
+
+builddependencies = [('CMake', '3.1.3')]
+
+configopts = "-DEXPAT_LIBRARY=$EBROOTEXPAT/lib/libexpat.so -DEXPAT_INCLUDE_DIR=$EBROOTEXPAT/include"
+configopts += "-DGEANT4_INSTALL_DATA=OFF"
+
+moduleclass = 'phys'

easybuild/easyconfigs/l/LLVM/LLVM-3.6.2-intel-2015a-Python-2.7.9.eb

@@ -0,0 +1,38 @@
+easyblock = 'CMakeMake'
+
+name = 'LLVM'
+version = '3.6.2'
+python = 'Python'
+pyver = '2.7.9'
+versionsuffix = '-%s-%s' % (python, pyver)
+
+homepage = "http://llvm.org/"
+description = """The LLVM Core libraries provide a modern source- and target-independent
+ optimizer, along with code generation support for many popular CPUs
+ (as well as some less common ones!) These libraries are built around a well
+ specified code representation known as the LLVM intermediate representation
+ ("LLVM IR"). The LLVM Core libraries are well documented, and it is
+ particularly easy to invent your own language (or port an existing compiler)
+ to use LLVM as an optimizer and code generator."""
+
+toolchain = {'name': 'intel', 'version': '2015a'}
+toolchainopts = {'cstd': 'gnu++11'}
+
+source_urls = ["http://llvm.org/releases/%(version)s"]
+sources = ["llvm-%(version)s.src.tar.xz"]
+
+builddependencies = [
+    ('CMake', '3.2.3'),
+    (python, pyver),
+]
+
+configopts = '-DBUILD_SHARED_LIBS=ON '
+
+sanity_check_paths = {
+    'files' : ['bin/llvm-ar'],
+    'dirs' : ['include/llvm', 'include/llvm-c'],
+}
+
+separate_build_dir = True
+
+moduleclass = 'compiler'

easybuild/easyconfigs/l/libXdamage/libXdamage-1.1.4-intel-2015a.eb

@@ -0,0 +1,26 @@
+easyblock = 'ConfigureMake'
+
+name = 'libXdamage'
+version = '1.1.4'
+pyver = '-Python-2.7.9'
+
+homepage = "http://www.freedesktop.org/wiki/Software/xlibs"
+description = """X Damage extension library"""
+
+toolchain = {'name': 'intel', 'version': '2015a'}
+
+sources = [SOURCE_TAR_GZ]
+source_urls = [XORG_LIB_SOURCE]
+
+dependencies = [
+    ('libX11', '1.6.3', pyver),
+    ('libxcb', '1.11', pyver),
+    ('libXau', '1.0.8'),
+]
+
+sanity_check_paths = {
+    'files': ['include/X11/extensions/Xdamage.h', 'lib/libXdamage.so', 'lib/libXdamage.a'],
+    'dirs': [],
+}
+
+moduleclass = 'vis'

easybuild/easyconfigs/l/libXfont/libXfont-1.5.1-intel-2015a.eb

@@ -0,0 +1,29 @@
+easyblock = 'ConfigureMake'
+
+name = 'libXfont'
+version = '1.5.1'
+
+homepage = "http://www.freedesktop.org/wiki/Software/xlibs"
+description = """X font libary"""
+
+toolchain = {'name': 'intel', 'version': '2015a'}
+
+sources = [SOURCE_TAR_GZ]
+source_urls = [XORG_LIB_SOURCE]
+
+builddependencies = [
+    ('fontsproto', '2.1.3'),
+    ('xproto', '7.0.27'),
+    ('xtrans', '1.3.5'),
+    ('libfontenc', '1.1.3'),
+]
+dependencies = [
+    ('libX11', '1.6.3', '-Python-2.7.9'),
+]
+
+sanity_check_paths = {
+    'files': ['lib/libXfont.so', 'lib/libXfont.a'],
+    'dirs': ['include/X11/fonts'],
+}
+
+moduleclass = 'vis'

easybuild/easyconfigs/l/libpciaccess/libpciaccess-0.13.3-intel-2015a.eb

@@ -0,0 +1,26 @@
+easyblock = 'ConfigureMake'
+
+name = 'libpciaccess'
+version = '0.13.3'
+
+homepage = 'http://cgit.freedesktop.org/xorg/lib/libpciaccess/'
+description = """Generic PCI access library."""
+
+source_urls = ['http://cgit.freedesktop.org/xorg/lib/libpciaccess/snapshot']
+sources = [SOURCE_TAR_GZ]
+
+toolchain = {'name': 'intel', 'version': '2015a'}
+
+builddependencies = [
+    ('Autoconf', '2.69'),
+    ('xorg-macros', '1.19.0'),
+]
+
+preconfigopts = "ACLOCAL='aclocal -I $EBROOTXORGMINMACROS/share/aclocal' ./autogen.sh && "
+
+sanity_check_paths = {
+    'files': ['include/pciaccess.h', 'lib/libpciaccess.a'],
+    'dirs': ['lib/pkgconfig'],
+}
+
+moduleclass = 'system'

easybuild/easyconfigs/l/libtool/libtool-2.4.5-intel-2015a.eb

@@ -0,0 +1,17 @@
+easyblock = 'ConfigureMake'
+
+name = 'libtool'
+version = '2.4.5'
+
+homepage = 'http://www.gnu.org/software/libtool'
+description = """GNU libtool is a generic library support script. Libtool hides the complexity of using shared libraries
+ behind a consistent, portable interface."""
+
+toolchain = {'name': 'intel', 'version': '2015a'} 
+
+sources = [SOURCELOWER_TAR_GZ]
+source_urls = [GNU_SOURCE]
+
+dependencies = [('M4', '1.4.17')]
+
+moduleclass = 'lib'

easybuild/easyconfigs/m/Mesa/Mesa-10.4.5-intel-2015a-Python-2.7.9.eb

@@ -0,0 +1,76 @@
+easyblock = 'ConfigureMake'
+
+name = 'Mesa'
+version = '10.4.5'
+
+homepage = 'http://www.mesa3d.org/'
+description = """Mesa is an open-source implementation of the OpenGL specification -
+ a system for rendering interactive 3D graphics."""
+
+
+toolchain = {'name': 'intel', 'version': '2015a'}
+toolchainopts = {'optarch': True}
+
+sources = ['%sLib-%s.tar.gz' % (name, version)]
+source_urls = [
+    'ftp://ftp.freedesktop.org/pub/mesa/%(version)s',
+    'ftp://ftp.freedesktop.org/pub/mesa/older-versions/%(version_major)s.x/%(version)s',
+]
+
+patches = ['Mesa-10.4.5_sse4_1.patch']
+
+pythonver = '2.7.9'
+pythonshortver = '.'.join(pythonver.split('.')[0:2])
+versionsuffix = '-%s-%s' % ('Python', pythonver)
+
+builddependencies = [
+    ('flex', '2.5.39'),
+    ('Bison', '3.0.2'),
+    ('Automake', '1.15'),
+    ('makedepend', '1.0.5'),
+    ('kbproto', '1.0.6'),
+    ('xextproto', '7.3.0'),
+    ('xproto', '7.0.27'),
+    ('libtool', '2.4.5'),
+    ('pkg-config', '0.28'),
+    ('glproto', '1.4.17'),
+    ('M4', '1.4.17')
+]
+
+dependencies = [
+    ('Python', pythonver),
+    ('libxml2', '2.9.2', versionsuffix),
+    ('libdrm', '2.4.59'),
+    ('libX11', '1.6.3', versionsuffix),
+    ('libXext', '1.3.3'),
+    ('libXfixes', '5.0.1'),
+    ('libXdamage', '1.1.4'),
+    ('libXfont', '1.5.1'),
+    ('LLVM', '3.6.2', versionsuffix),
+    ('eudev', '3.0'),
+]
+
+#Use the os provided libudev or the EB provided eudev
+#osdependencies = ['libudev']
+
+# GLU is not part anymore of Mesa package!
+configopts = " --disable-osmesa --disable-gallium-llvm --enable-glx --disable-dri --enable-xlib-glx"
+configopts += " --disable-driglx-direct --with-gallium-drivers='' --disable-egl"""
+
+# package-config files for os dependencies are in an os specific place
+#preconfigopts = ' PKG_CONFIG_PATH="$PKG_CONFIG_PATH:/usr/lib64/pkgconfig/:/usr/share/pkgconfig" '
+
+prebuildopts = 'CPATH="$EBROOTLIBDRM/include/libdrm" '
+
+sanity_check_paths = {
+    'files': ['lib/libGL.so', 'include/GL/glext.h', 'include/GL/gl_mangle.h',
+              'include/GL/glx.h', 'include/GL/osmesa.h',
+              'include/GL/wglext.h', 'include/GL/gl.h',
+              'include/GL/glxext.h', 'include/GL/glx_mangle.h',
+              'include/GL/wmesa.h'],
+    'dirs': []
+}
+
+maxparallel = 1
+
+moduleclass = 'vis'