Fix memory leaks in Simulation.get_eigenmode and enable building with…

…out MPB (NanoComp#558)

* Fix memory leaks in Simulation.get_eigenmode

* Enable building without MPB

* Wrong macro name in meep.i

* Build without MPB in travis

* Fix .travis syntax

* Include config.h

* Typo

* Stub out _get_eigenmode and pass preprocessor directives through SWIG

* Make config.h available to SWIG preprocessor

* Run make clean before building without MPB

.travis.yml

@@ -57,6 +57,7 @@ matrix:
       - MKCHECKFLAGS="-j 2"
       - CPPFLAGS="${HDF5_SERIAL_CPPFLAGS} ${CPPFLAGS}"
       - LDFLAGS="${HDF5_SERIAL_LDFLAGS} ${LDFLAGS}"
+      - BUILD_WITHOUT_MPB="1"
     addons:
       apt:
         packages:
@@ -164,6 +165,12 @@ script:
       make ${MKCHECKFLAGS} check &&
       popd;
     fi
+  - >
+    if [[ "${BUILD_WITHOUT_MPB}" == "1" ]]; then
+      ../configure --enable-maintainer-mode --prefix=$HOME/local --with-libctl=$HOME/local/share/libctl ${MPICONF} ac_cv_header_mpb_h=no &&
+      make clean &&
+      make;
+    fi
   # Kill background sleep loop
   - kill %1
 

configure.ac

@@ -525,7 +525,7 @@ else
           have_python=no],[#include <Python.h>])
 
         AC_MSG_CHECKING([for coverage module])
-        $PYTHON -c 'import coverage'
+        $PYTHON -c 'import coverage' 2>/dev/null
         if test $? = 0; then
           AC_MSG_RESULT([yes])
           have_coverage=yes

python/Makefile.am

@@ -7,14 +7,16 @@ HPPFILES=                                    \
  $(top_srcdir)/libmeepgeom/meepgeom.hpp      \
  $(top_srcdir)/libmeepgeom/material_data.hpp
 
-BUILT_SOURCES = meep-python.cpp mpb-python.cpp __init__.py mpb.py
-EXTRA_DIST = $(BUILT_SOURCES) typemap_utils.cpp solver.py mpb_data.py materials.py examples tests
+BUILT_SOURCES = meep-python.cpp __init__.py
+EXTRA_DIST = $(BUILT_SOURCES) typemap_utils.cpp materials.py examples tests
 
 CLEANFILES = $(BUILT_SOURCES) meep.py .coverage
 
 if WITH_MPB
   PYMPBINCLUDE=-I$(top_srcdir)/libpympb
   LIBPYMPB=$(top_builddir)/libpympb/libpympb.la
+  BUILT_SOURCES += mpb-python.cpp mpb.py
+  EXTRA_DIST += solver.py mpb_data.py
 endif
 
 LIBMEEPGEOM = $(top_builddir)/libmeepgeom/libmeepgeom.la
@@ -30,27 +32,49 @@ _meep_la_LIBADD = $(LIBMEEP) $(LIBMEEPGEOM) $(PYTHON_LIBS) @LIBCTLGEOM_LIBS@
 _meep_la_LDFLAGS = -module -version-info @SHARED_VERSION_INFO@
 _meep_la_CPPFLAGS = $(PYTHON_INCLUDES) $(AM_CPPFLAGS)
 
+if WITH_MPB
 _mpb_la_SOURCES = mpb-python.cpp
 _mpb_la_LIBADD = $(LIBMEEPGEOM) $(PYTHON_LIBS) $(LIBPYMPB) @LIBCTLGEOM_LIBS@
 _mpb_la_LDFLAGS = -module -version-info @SHARED_VERSION_INFO@
 _mpb_la_CPPFLAGS = $(PYTHON_INCLUDES) $(AM_CPPFLAGS)
+MPB_LA = _mpb.la
+endif # WITH_MPB
+
+TEST_DIR = tests
 
 # material_dispersion.py test must be excluded from test suite for MPI build
 if WITH_MPI
   MDPYTEST=
   MPBPYTEST=
 else
   MDPYTEST=$(TEST_DIR)/material_dispersion.py
+if WITH_MPB
   MPBPYTEST=$(TEST_DIR)/mpb.py
+else
+  MPBPYTEST=
+endif # WITH_MPB
+endif # WITH_MPI
+
+if WITH_MPB
+  BINARY_GRATING_TEST = $(TEST_DIR)/binary_grating.py
+  KDOM_TEST = $(TEST_DIR)/kdom.py
+  MODE_COEFFS_TEST = $(TEST_DIR)/mode_coeffs.py
+  MODE_DECOMPOSITION_TEST = $(TEST_DIR)/mode_decomposition.py
+  WVG_SRC_TEST = $(TEST_DIR)/wvg_src.py
+else
+  BINARY_GRATING_TEST =
+  KDOM_TEST =
+  MODE_COEFFS_TEST =
+  MODE_DECOMPOSITION_TEST =
+  WVG_SRC_TEST =
 endif
 
-TEST_DIR = tests
 TESTS =                                   \
     $(TEST_DIR)/3rd_harm_1d.py            \
     $(TEST_DIR)/absorber_1d.py            \
     $(TEST_DIR)/antenna_radiation.py      \
     $(TEST_DIR)/bend_flux.py              \
-    $(TEST_DIR)/binary_grating.py         \
+    $(BINARY_GRATING_TEST)                \
     $(TEST_DIR)/cavity_arrayslice.py      \
     $(TEST_DIR)/chunks.py                 \
     $(TEST_DIR)/cyl_ellipsoid.py          \
@@ -61,12 +85,12 @@ TESTS =                                   \
     $(TEST_DIR)/geom.py                   \
     $(TEST_DIR)/holey_wvg_bands.py        \
     $(TEST_DIR)/holey_wvg_cavity.py       \
-    $(TEST_DIR)/kdom.py                   \
+    $(KDOM_TEST)                          \
     $(TEST_DIR)/ldos.py                   \
     $(MDPYTEST)                           \
     $(MPBPYTEST)                          \
-    $(TEST_DIR)/mode_coeffs.py            \
-    $(TEST_DIR)/mode_decomposition.py     \
+    $(MODE_COEFFS_TEST)                   \
+    $(MODE_DECOMPOSITION_TEST)            \
     $(TEST_DIR)/multilevel_atom.py        \
     $(TEST_DIR)/physical.py               \
     $(TEST_DIR)/pw_source.py              \
@@ -76,7 +100,7 @@ TESTS =                                   \
     $(TEST_DIR)/simulation.py             \
     $(TEST_DIR)/source.py                 \
     $(TEST_DIR)/user_defined_material.py  \
-    $(TEST_DIR)/wvg_src.py
+    $(WVG_SRC_TEST)
 
 if WITH_COVERAGE
   PY_LOG_COMPILER = coverage run -a --omit=$(top_srcdir)/python/tests/*,${HOME}/virtualenv/*,$(top_srcdir)/python/examples/*
@@ -88,18 +112,22 @@ TEST_EXTENSIONS = .py
 TESTS_ENVIRONMENT = export PYTHONPATH=$(abs_top_builddir)/python:$$PYTHONPATH;
 
 if WITH_PYTHON
-  pympbdir = $(pkgpythondir)/mpb
   pkgpython_PYTHON = geom.py __init__.py source.py simulation.py materials.py
   pkgpyexec_LTLIBRARIES = _meep.la
+if WITH_MPB
+  pympbdir = $(pkgpythondir)/mpb
   pympb_DATA = mpb.py solver.py mpb_data.py
   pympb_LTLIBRARIES = _mpb.la
-endif
+endif # WITH_MPB
+endif # WITH_PYTHON
 
+if WITH_MPB
 install-data-hook:
 	mv $(DESTDIR)$(pkgpythondir)/mpb/mpb.py $(DESTDIR)$(pkgpythondir)/mpb/__init__.py
 
 uninstall-hook:
 	rm -f $(DESTDIR)$(pkgpythondir)/mpb/__init__.py
+endif
 
 if MAINTAINER_MODE
 
@@ -110,32 +138,37 @@ MEEP_SWIG_SRC = meep.i numpy.i vec.i
 meep-python.cpp: $(MEEP_SWIG_SRC) $(HPPFILES)
 	$(SWIG) -Wextra $(AM_CPPFLAGS) -outdir $(builddir) -c++ -python -o $@ $(srcdir)/meep.i
 
+if WITH_MPB
 MPB_SWIG_SRC = mpb.i
-
 mpb-python.cpp: $(MPB_SWIG_SRC) $(top_srcdir)/libpympb/pympb.hpp
 	$(SWIG) -Wextra $(AM_CPPFLAGS) $(PYMPBINCLUDE) -outdir $(builddir) -c++ -python -o $@ $(srcdir)/mpb.i
 
-meep.py: meep-python.cpp
-
 mpb.py: mpb-python.cpp
+MPB_PY = mpb.py
+endif # WITH_MPB
+
+meep.py: meep-python.cpp
 
-__init__.py: meep.py mpb.py
+__init__.py: meep.py $(MPB_PY)
 	cp $< $@
 	echo "__version__ = '$(shell git describe --tags | sed 's/^v//')'" >> $@
 	if [[ "${SWIG_VERSION}" = 3.0.12 ]]; then \
 		sed -i.bak '/^if _swig_python_version_info >= (2, 7, 0):/,/^else:/d' $@; \
 		sed -i.bak 's/    import _meep/from . import _meep/' $@; \
+	fi
+if WITH_MPB
+	if [[ "${SWIG_VERSION}" == 3.0.12 ]]; then \
 		sed -i.bak '/^if _swig_python_version_info >= (2, 7, 0):/,/^else:/d' mpb.py; \
 		sed -i.bak 's/    import _mpb/from . import _mpb/' mpb.py; \
 	fi
-
+endif
 
 INIT_PY = __init__.py
-MPB_PY = $(builddir)/mpb.py
+MPB_PY_PATH = $(builddir)/mpb.py
 else
 
 INIT_PY = $(srcdir)/__init__.py
-MPB_PY = $(srcdir)/mpb.py
+MPB_PY_PATH = $(srcdir)/mpb.py
 
 endif # MAINTAINER_MODE
 
@@ -150,12 +183,15 @@ PY_PKG_FILES =      \
     $(HL_IFACE)     \
     .libs/_meep.so
 
-meep: _meep.la _mpb.la __init__.py $(HL_IFACE)
-	mkdir -p meep/mpb
+meep: _meep.la $(MPB_LA) __init__.py $(HL_IFACE)
+	mkdir -p meep
 	cp $(PY_PKG_FILES) meep
+if WITH_MPB
+	mkdir -p meep/mpb
 	cp .libs/_mpb.so meep/mpb
-	cp $(MPB_PY) meep/mpb/__init__.py
+	cp $(MPB_PY_PATH) meep/mpb/__init__.py
 	cp $(srcdir)/solver.py $(srcdir)/mpb_data.py meep/mpb
+endif
 
 all-local: meep