new file: d/Doris/Doris-5.0beta-foss-2017a.eb

new file:   d/Doris/core_configure.patch
	new file:   d/Doris/envisat_Makefile.patch
	new file:   d/Doris/sartools_Makefile.patch
	new file:   l/LAPACK/LAPACK-3.7.1-gompi-2017a.eb
	modified:   p/Python/Python-2.7.9-intel-2015b.eb
	new file:   p/phonopy/phonopy-1.11.12.5-intel-2015b-Python-2.7.9.eb
	modified:   t/Trilinos/Trilinos-12.10.1-intel-2017a-Python-2.7.11.eb
	modified:   t/Trilinos/Trilinos-12.4.2-intel-2017a-Python-2.7.11.eb
	modified:   t/Trilinos/Trilinos-12.8.1-intel-2017a-Python-2.7.11.eb

d/Doris/Doris-5.0beta-foss-2017a.eb

@@ -0,0 +1,21 @@
+name = 'Doris'
+version = '5.0beta'
+versionsuffix = '-test'
+
+homepage = 'https://github.com/TUDelftGeodesy/Doris'
+description = "Delft object-oriented radar interferometric software"
+
+toolchain = {'name': 'foss', 'version': '2017a'}
+
+source_urls = ['https://github.com/TUDelftGeodesy/Doris/archive/']
+sources = ['v%(version)s.tar.gz']
+
+patches = [
+    'core_configure.patch',
+    'sartools_Makefile.patch',
+    'envisat_Makefile.patch',
+]
+
+preconfigopts = 'export INSTALLDIR="%(installdir)s/bin" && '
+
+moduleclass = 'geo'

d/Doris/core_configure.patch

@@ -0,0 +1,10 @@
+--- doris_core/configure.orig	2017-06-30 08:31:18.746447724 +0200
++++ doris_core/configure	2017-06-30 08:31:25.833183690 +0200
+@@ -622,7 +622,6 @@
+ SCRIPTS	=	helpdoris \
+ 		baseline.doris.sh \
+ 		baseline.doris.csh \
+-                construct_dem.sh \
+ 		coregpm.doris \
+ 		doris* \
+ 		heightamb \

d/Doris/envisat_Makefile.patch

@@ -0,0 +1,16 @@
+--- envisat_tools/Makefile.orig	2017-06-30 08:23:02.000000000 +0200
++++ envisat_tools/Makefile	2017-06-30 08:26:54.000000000 +0200
+@@ -17,11 +17,11 @@
+ ### Check if you agree with the options below (install_dir OK?)
+ ### then simply type: "make install"
+ SHELL = 	/bin/sh
+-CC = 		gcc
++CC = 		${CC}
+ #CFLAGS =	-O3
+ #CFLAGS =        -m32         # for 64-bit systems, it requires compatibility lib32, no need for epr_api v2.2
+ LFLAGS =	-lm
+-INSTALL_DIR =	/home/gertmulder/bin/doris/doris_v5_wu_branch
++INSTALL_DIR =	${INSTALLDIR}
+ 
+ 
+ 

d/Doris/sartools_Makefile.patch

@@ -0,0 +1,15 @@
+--- sar_tools/Makefile.orig	2017-06-30 08:24:34.000000000 +0200
++++ sar_tools/Makefile	2017-06-30 08:26:23.000000000 +0200
+@@ -23,10 +23,10 @@
+ 
+ ### Installdirdef should exist!
+ #INSTALL_DIR =	/usr/local/bin
+-INSTALL_DIR =	/home/dlevelt/src/Doris_s1_git/bin
++INSTALL_DIR =   ${INSTALLDIR}	
+ 
+ ### GCC compiler
+-CC 	=	g++
++CC 	=	${CXX}
+ CFLAGS  =       -O3 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE  -D_LARGEFILE64_SOURCE #-m32 to force 32bit on 64bit platform
+ 
+ ### Intel compiler

l/LAPACK/LAPACK-3.7.1-gompi-2017a.eb

@@ -0,0 +1,15 @@
+name = 'LAPACK'
+version = "3.7.1"
+
+homepage = 'http://www.netlib.org/lapack/'
+description = """LAPACK is written in Fortran90 and provides routines for solving systems of
+ simultaneous linear equations, least-squares solutions of linear systems of equations, eigenvalue
+ problems, and singular value problems."""
+
+toolchain = {'name': 'gompi', 'version': '2017a'}
+toolchainopts = {'pic': True}
+
+sources = [SOURCELOWER_TGZ]
+source_urls = [homepage]
+
+moduleclass = 'numlib'

p/Python/Python-2.7.9-intel-2015b.eb

@@ -38,15 +38,6 @@ exts_list = [
     ('nose', '1.3.4', {
         'source_urls': ['http://pypi.python.org/packages/source/n/nose/'],
     }),
-    ('numpy', numpyversion, {
-        'source_urls': [('http://sourceforge.net/projects/numpy/files/NumPy/%s' % numpyversion, 'download')],
-        'patches': [
-            'numpy-1.8.0-mkl.patch', # % numpyversion,
-        ],
-    }),
-    ('scipy', scipyversion, {
-        'source_urls': [('http://sourceforge.net/projects/scipy/files/scipy/%s' % scipyversion, 'download')],
-    }),
     ('blist', '1.3.6', {
         'source_urls': ['http://pypi.python.org/packages/source/b/blist/'],
     }),
@@ -110,9 +101,6 @@ exts_list = [
     ('pytz', '2014.10', {
         'source_urls': ['https://pypi.python.org/packages/source/p/pytz'],
     }),
-    ('pandas', '0.16.0', {
-        'source_urls': ['https://pypi.python.org/packages/source/p/pandas'],
-    }),
 ]
 
 moduleclass = 'lang'

p/phonopy/phonopy-1.11.12.5-intel-2015b-Python-2.7.9.eb

@@ -0,0 +1,29 @@
+easyblock = 'PythonPackage'
+
+name = 'phonopy'
+version = '1.11.12.5'
+
+homepage = 'http://phonopy.sourceforge.net/'
+description = """Phonopy is an open source package of phonon calculations based on the supercell approach."""
+
+toolchain = {'name': 'intel', 'version': '2015b'}
+
+source_urls = ['https://pypi.python.org/packages/4b/25/effde7ab68249fbed654dc317354a028597bfd4a4f804d7cb3ed987c55b7/']
+sources = ['%(name)s-%(version)s.tar.gz']
+
+python = 'Python'
+pythonversion = '2.7.9'
+pythonshortversion = '.'.join(pythonversion.split('.')[:-1])
+
+versionsuffix = "-%s-%s" % (python, pythonversion)
+
+dependencies = [
+    (python, pythonversion),
+    ('matplotlib', '1.4.3', versionsuffix),
+    ('lxml', '3.4.4', versionsuffix),
+    ('PyYAML', '3.11', versionsuffix),
+]
+
+pylibdir = "lib/python%s/site-packages/%%(name)s" % pythonshortversion
+
+moduleclass = 'phys'

t/Trilinos/Trilinos-12.10.1-intel-2017a-Python-2.7.11.eb

@@ -15,22 +15,27 @@ sources = ['%(namelower)s-%(version)s-Source.tar.gz']
 
 #patches = ['fix-parmetis.patch']
 
+builddependencies = [
+    ('CMake', '3.5.2', '', True),
+]
+
 dependencies = [
     ('Boost', '1.63.0', versionsuffix),
     ('SCOTCH', '6.0.4'),
     ('SuiteSparse', '4.5.3', '-ParMETIS-4.0.3'),
     ('ParMETIS', '4.0.3'),
-    ('netCDF', '4.4.1'),
+    ('netCDF', '4.4.1.1'),
     ('MATIO', '1.5.2'),
     ('GLM', '0.9.7.2'),
-    ('CMake', '3.7.2'),
 ]
 
 # STK Classic is deprecated/broken, STKDoc_tests needs to be disabled too because of it
 # see https://trilinos.org/oldsite/release_notes-11.10.html and https://github.com/trilinos/Trilinos/issues/19
 #skip_exts = ['STKClassic', 'STKDoc_tests']
 
+prebuildopts = 'for NAME in `find -name link.txt`; do cat $NAME | sed -e "s/libcholmod.a/libcholmod.a -lmetis -lcamd -lccolamd/g" | tee $NAME; done &&'                                                                                         
+
 # too parallel is too slow, and may cause build/tests to fail
-maxparallel = 10 
+maxparallel = 1 
 
 moduleclass = 'numlib'

t/Trilinos/Trilinos-12.4.2-intel-2017a-Python-2.7.11.eb

@@ -27,6 +27,8 @@ dependencies = [
 
 builddependencies = [('CMake', '3.7.2')]
 
+
+
 # STK Classic is deprecated/broken, STKDoc_tests needs to be disabled too because of it
 # see https://trilinos.org/oldsite/release_notes-11.10.html and https://github.com/trilinos/Trilinos/issues/19
 skip_exts = ['STKClassic', 'STKDoc_tests']

t/Trilinos/Trilinos-12.8.1-intel-2017a-Python-2.7.11.eb

@@ -20,7 +20,7 @@ dependencies = [
     ('SCOTCH', '6.0.4'),
     ('SuiteSparse', '4.5.3', '-ParMETIS-4.0.3'),
     ('ParMETIS', '4.0.3'),
-    ('netCDF', '4.4.1'),
+    ('netCDF', '4.4.1.1'),
     ('MATIO', '1.5.2'),
     ('GLM', '0.9.7.2'),
 ]
@@ -32,6 +32,6 @@ builddependencies = [('CMake', '3.7.2')]
 skip_exts = ['STKClassic', 'STKDoc_tests']
 
 # too parallel is too slow, and may cause build/tests to fail
-maxparallel = 10
+maxparallel = 8
 
 moduleclass = 'numlib'