new file: c/CGAL/CGAL-4.14.1-foss-2020a-Python-3.7.8.eb

new file:   l/LLVM/LLVM-6.0.0-GCCcore-9.3.0.eb
	new file:   l/LLVM/LLVM-8.0.1-GCCcore-9.3.0.eb
	new file:   m/Mako/Mako-1.0.6-GCCcore-9.3.0-Python-2.7.18.eb
	new file:   m/Mesa/Mesa-18.1.1-foss-2020a.eb
	new file:   m/Mesa/Mesa-18.3.6-GCCcore-9.3.0.eb
	modified:   o/OpenFOAM/OpenFOAM-7-foss-2020a.eb
	modified:   p/ParaView/ParaView-5.6.2-foss-2020a-Python-3.7.8-mpi.eb
	modified:   r/R/R-4.0.0-foss-2020a.eb

c/CGAL/CGAL-4.14.1-foss-2020a-Python-3.7.8.eb

@@ -0,0 +1,40 @@
+# JH 2020
+
+name = 'CGAL'
+version = '4.14.1'
+versionsuffix = '-Python-%(pyver)s'
+
+homepage = 'https://www.cgal.org/'
+description = """The goal of the CGAL Open Source Project is to provide easy access to efficient
+ and reliable geometric algorithms in the form of a C++ library."""
+
+toolchain = {'name': 'foss', 'version': '2020a'}
+toolchainopts = {'strict': True}
+
+source_urls = ['https://github.com/CGAL/cgal/releases/download/releases%2FCGAL-%(version)s']
+sources = [SOURCE_TAR_XZ]
+checksums = ['d4ec2528b88a7c3a07b0b86db96c216822f85b951bf4bc7f9d1f26bf6c369afe']
+
+builddependencies = [
+    ('CMake', '3.16.4'),
+    ('Eigen', '3.3.7'),
+]
+
+dependencies = [
+    ('zlib', '1.2.11'),
+    ('Python', '3.7.8'),
+    ('Boost', '1.72.0'),
+    ('MPFR', '4.0.2'),
+    ('GMP', '6.2.0'),
+    ('Mesa', '18.1.1'),
+    ('libGLU', '9.0.1'),
+    ('Qt5', '5.14.1'),
+]
+
+configopts = "-DOPENGL_INCLUDE_DIR=$EBROOTMESA/include\;$EBROOTLIBGLU/include "
+configopts += "-DOPENGL_gl_LIBRARY=$EBROOTMESA/lib/libGL.%s " % SHLIB_EXT
+configopts += "-DOPENGL_glu_LIBRARY=$EBROOTLIBGLU/lib/libGLU.%s " % SHLIB_EXT
+configopts += "-DWITH_ZLIB=ON -DWITH_MPFR=ON -DWITH_OpenGL=ON -DWITH_Eigen3=ON "
+configopts += "-DWITH_GMPXX=ON -DWITH_LAPACK=ON -DWITH_BLAS=ON "
+
+moduleclass = 'numlib'

l/LLVM/LLVM-6.0.0-GCCcore-9.3.0.eb

@@ -0,0 +1,40 @@
+# JH 2020
+
+name = 'LLVM'
+version = '6.0.0'
+
+homepage = "https://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': 'GCCcore', 'version': '9.3.0'}
+toolchainopts = {'cstd': 'gnu++11'}
+
+source_urls = ["https://llvm.org/releases/%(version)s"]
+sources = ["llvm-%(version)s.src.tar.xz"]
+checksums = ['1ff53c915b4e761ef400b803f07261ade637b0c269d99569f18040f3dcee4408']
+
+builddependencies = [
+    ('binutils', '2.34'),
+    ('CMake', '3.16.4'),
+    ('Python', '2.7.18'),
+]
+
+dependencies = [
+    ('ncurses', '6.2'),
+    ('zlib', '1.2.11'),
+]
+
+build_shared_libs = True
+
+sanity_check_paths = {
+    'files': ['bin/llvm-ar', 'bin/FileCheck'],
+    'dirs': ['include/llvm', 'include/llvm-c'],
+}
+
+moduleclass = 'compiler'

l/LLVM/LLVM-8.0.1-GCCcore-9.3.0.eb

@@ -0,0 +1,40 @@
+# JH 2020
+
+name = 'LLVM'
+version = '8.0.1'
+
+homepage = "https://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': 'GCCcore', 'version': '9.3.0'}
+toolchainopts = {'cstd': 'gnu++11'}
+
+source_urls = ['https://github.com/llvm/llvm-project/releases/download/llvmorg-%(version)s']
+sources = ['llvm-%(version)s.src.tar.xz']
+checksums = ['44787a6d02f7140f145e2250d56c9f849334e11f9ae379827510ed72f12b75e7']
+
+builddependencies = [
+    ('binutils', '2.34'),
+    ('CMake', '3.16.4'),
+    ('Python', '3.7.8'),
+]
+
+dependencies = [
+    ('ncurses', '6.2'),
+    ('zlib', '1.2.11'),
+]
+
+build_shared_libs = True
+
+sanity_check_paths = {
+    'files': ['bin/llvm-ar', 'bin/FileCheck'],
+    'dirs': ['include/llvm', 'include/llvm-c'],
+}
+
+moduleclass = 'compiler'

m/Mako/Mako-1.0.6-GCCcore-9.3.0-Python-2.7.18.eb

@@ -0,0 +1,24 @@
+# JH 2020
+
+easyblock = 'PythonPackage'
+
+name = 'Mako'
+version = '1.0.6'
+versionsuffix = '-Python-%(pyver)s'
+
+homepage = 'http://www.makotemplates.org'
+description = """A super-fast templating language that borrows the best ideas from the existing templating languages"""
+
+toolchain = {'name': 'GCCcore', 'version': '9.3.0'} 
+
+source_urls = [PYPI_SOURCE]
+sources = [SOURCE_TAR_GZ]
+
+dependencies = [('Python', '2.7.18')]
+
+sanity_check_paths = {
+    'files': ['bin/mako-render'],
+    'dirs': ['lib/python%(pyshortver)s/site-packages/%(name)s-%(version)s-py%(pyshortver)s.egg'],
+}
+
+moduleclass = 'devel'

m/Mesa/Mesa-18.1.1-foss-2020a.eb

@@ -0,0 +1,81 @@
+# JH 2020
+
+# Automatically converted from Mesa-17.2.4-intel-2017b.eb
+# Original message:
+# the purpose of the easyconfig is to build a Mesa for software rendering,
+# not hardware rendering. This means you want at least SSE4.2. We build:
+# - llvmpipe: the high-performance Gallium LLVM driver
+# - swr: Intel's OpenSWR
+# it will try to use the llvmpipe by default. It you want swr, do:
+# GALLIUM_DRIVER=swr
+
+easyblock = 'ConfigureMake'
+
+name = 'Mesa'
+version = '18.1.1'
+
+homepage = 'https://www.mesa3d.org/'
+description = """Mesa is an open-source implementation of the OpenGL specification -
+ a system for rendering interactive 3D graphics."""
+
+toolchain = {'name': 'foss', 'version': '2020a'}
+# swr detects and builds parts specific for AVX and AVX2. If we use
+# -xHost, this always gets overwritten and will fail.
+toolchainopts = {'optarch': False}
+
+source_urls = [
+    'https://mesa.freedesktop.org/archive/',
+    'https://mesa.freedesktop.org/archive/%(version)s',
+    'ftp://ftp.freedesktop.org/pub/mesa/%(version)s',
+    'ftp://ftp.freedesktop.org/pub/mesa/older-versions/%(version_major)s.x/%(version)s',
+    'ftp://ftp.freedesktop.org/pub/mesa/older-versions/%(version_major)s.x',
+]
+sources = [SOURCELOWER_TAR_XZ]
+patches = [
+    'Mesa-17.3.6_fix-strip-llvm-flags.patch',
+    'Mesa-18.1.1-query-mit-shm.patch',
+]
+checksums = [
+    'd3312a2ede5aac14a47476b208b8e3a401367838330197c4588ab8ad420d7781',  # mesa-18.1.1.tar.xz
+    '5aa4e92ed96e3d47ffbecd1ec3a1642407dff11995c5585eb5e06c396654ee30',  # Mesa-17.3.6_fix-strip-llvm-flags.patch
+    'a9df2759758318d917debbfcc2cb15f6525b3dce41bd1e481d16e2eaa592a24e',  # Mesa-18.1.1-query-mit-shm.patch
+]
+
+builddependencies = [
+    ('flex', '2.6.4'),
+    ('Bison', '3.5.3'),
+    ('Autotools', '20180311'),
+    ('pkg-config', '0.29.2'),
+    ('Mako', '1.0.6', '-Python-2.7.18'),
+    ('libxml2', '2.9.10'),
+    ('expat', '2.2.9'),
+]
+
+dependencies = [
+    ('zlib', '1.2.11'),
+    ('nettle', '3.5.1'),
+    ('libdrm', '2.4.100'),
+    ('LLVM', '6.0.0'),
+    ('X11', '20200222'),
+    ('libunwind', '1.3.1'),
+]
+
+# GLU is not part anymore of Mesa package!
+configopts = " --disable-osmesa --enable-gallium-osmesa --enable-gallium-llvm --enable-glx --disable-dri"
+configopts += " --disable-gbm --disable-driglx-direct --with-gallium-drivers='swrast,swr' --disable-egl"
+configopts += " --with-osmesa-bits=32 --enable-texture-float --enable-llvm-shared-libs "
+
+buildopts = 'V=1'
+
+sanity_check_paths = {
+    'files': ['lib/libGL.%s' % SHLIB_EXT, 'lib/libOSMesa.%s' % SHLIB_EXT,
+              'lib/libGLESv1_CM.%s' % SHLIB_EXT, 'lib/libGLESv2.%s' % SHLIB_EXT,
+              'include/GL/glext.h', 'include/GL/gl_mangle.h',
+              'include/GL/glx.h', 'include/GL/osmesa.h',
+              'include/GL/gl.h', 'include/GL/glxext.h',
+              'include/GL/glx_mangle.h', 'include/GLES/gl.h',
+              'include/GLES2/gl2.h', 'include/GLES3/gl3.h'],
+    'dirs': []
+}
+
+moduleclass = 'vis'

m/Mesa/Mesa-18.3.6-GCCcore-9.3.0.eb

@@ -0,0 +1,74 @@
+# JH 2020
+
+easyblock = 'ConfigureMake'
+
+name = 'Mesa'
+version = '18.3.6'
+
+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': 'GCCcore', 'version': '9.3.0'}
+# swr detects and builds parts specific for AVX and AVX2. If we use
+# -xHost, this always gets overwritten and will fail.
+toolchainopts = {'optarch': False}
+
+sources = [SOURCELOWER_TAR_XZ]
+source_urls = [
+    'https://mesa.freedesktop.org/archive/',
+    'https://mesa.freedesktop.org/archive/%(version)s',
+    'ftp://ftp.freedesktop.org/pub/mesa/%(version)s',
+    'ftp://ftp.freedesktop.org/pub/mesa/older-versions/%(version_major)s.x/%(version)s',
+]
+#patches = ['Mesa-17.0.2_fix-strip-llvm-flags.patch']
+
+builddependencies = [
+    ('binutils', '2.34'),
+    ('flex', '2.6.4'),
+    ('Bison', '3.5.3'),
+    ('Autotools', '20180311'),
+    ('pkg-config', '0.29.2'),
+    ('Mako', '1.1.2'),
+    ('libxml2', '2.9.10'),
+    ('expat', '2.2.9'),
+]
+
+dependencies = [
+    ('zlib', '1.2.11'),
+    ('nettle', '3.5.1'),
+    ('libdrm', '2.4.100'),
+    ('LLVM', '8.0.1'),
+    ('X11', '20200222'),
+]
+
+# GLU is not part anymore of Mesa package!
+configopts = " --disable-osmesa --enable-gallium-osmesa --enable-gallium-llvm --enable-glx --disable-dri"
+configopts += " --disable-gbm --disable-driglx-direct --with-gallium-drivers='swrast,swr' --disable-egl"
+configopts += " --with-osmesa-bits=32 --enable-texture-float --enable-llvm-shared-libs "
+
+buildopts = 'V=1'
+
+sanity_check_paths = {
+    'files': [
+        'lib/libGL.%s' %
+        SHLIB_EXT,
+        'lib/libOSMesa.%s' %
+        SHLIB_EXT,
+        'lib/libGLESv1_CM.%s' %
+        SHLIB_EXT,
+        'lib/libGLESv2.%s' %
+        SHLIB_EXT,
+        'include/GL/glext.h',
+        'include/GL/gl_mangle.h',
+        'include/GL/glx.h',
+        'include/GL/osmesa.h',
+        'include/GL/gl.h',
+        'include/GL/glxext.h',
+        'include/GL/glx_mangle.h',
+        'include/GLES/gl.h',
+        'include/GLES2/gl2.h',
+        'include/GLES3/gl3.h'],
+    'dirs': []}
+
+moduleclass = 'vis'

o/OpenFOAM/OpenFOAM-7-foss-2020a.eb

@@ -35,8 +35,8 @@ dependencies = [
     # OpenFOAM requires 64 bit METIS using 32 bit indexes (array indexes)
     ('METIS', '5.1.0'),
     ('SCOTCH', '6.0.9'),
-    ('CGAL', '4.14.3', '-Python-3.8.2'),
+    ('CGAL', '4.14.1', '-Python-3.7.8'),
-    ('ParaView', '5.8.0', '-Python-3.8.2-mpi'),
+    ('ParaView', '5.6.2', '-Python-3.7.8-mpi'),
 ]
 
 builddependencies = [

p/ParaView/ParaView-5.6.2-foss-2020a-Python-3.7.8-mpi.eb

@@ -25,7 +25,7 @@ dependencies = [
     ('netCDF', '4.7.4'),
     ('libGLU', '9.0.1'),
     ('X11', '20200222'),
-    ('Mesa', '20.0.2'),
+    ('Mesa', '18.1.1'), # Needen for libGL.so
     ('Qt5', '5.14.1'),
     ('zlib', '1.2.11'),
     ('FFmpeg', '4.2.2'),

r/R/R-4.0.0-foss-2020a.eb

@@ -68,6 +68,7 @@ exts_default_options = {
         'https://cran.r-project.org/src/contrib/',  # current version of packages
         'https://cran.freestatistics.org/src/contrib',  # mirror alternative for current packages
         'https://bioconductor.org/packages/release/bioc/src/contrib',
+        'http://bioconductor.org/packages/3.11/bioc/src/contrib/Archive/%(name)s',
     ],
     'source_tmpl': '%(name)s_%(version)s.tar.gz',
 }