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makefile
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SRCDIR := src/main
TESTDIR := src/test
JDK_INCLUDE ?= ${JAVA_HOME}/include
LD_OPTS := -fPIC -lm -fno-exceptions
# Detect OS flavors as required according to https://stackoverflow.com/questions/714100/os-detecting-makefile/14777895#14777895
ifeq ($(OS),Windows_NT) # is Windows_NT on XP, 2000, 7, Vista, 10...
# Windows flavor of operating systems
FixPath = $(subst /,\,$1) # replace slashes by backslashes. Might not be needed.
LD_OPTS += -lole32
DETECTED_OS := Windows
# If path to javah is non-empty then it's safe to use it
ifneq ($(realpath ${JAVA_HOME}/bin/javah.exe),)
JAVAH := TRUE
endif
KILL_AT = -Wl,--kill-at
JDK_MACHINE_INCLUDE ?= ${JAVA_HOME}/include/win32
MACHINE_DIR := win32
GCC = i686-w64-mingw32-gcc
ifeq ($(BITS),32)
# Set cross compiler down to generate 32 bit artefacts
CC := $(GCC) -m32 -Wno-unused-but-set-variable -Wno-char-subscripts -Wno-misleading-indentation
LD := $(GCC) -m32 ${LD_OPTS} -static
WININCDIRS := ${SRCDIR}/C/include
else
# Assuming the current architecture is 64 bit if BITS was anything other than 32
BITS := 64
# Patch to care for missing typedef of __int64
CC := $(GCC) -D__int64="long long" -Wno-unused-but-set-variable -Wno-char-subscripts -Wno-misleading-indentation
LD := $(GCC) -D__int64="long long" ${LD_OPTS} -static
endif
LIB_PREFIX := lib
EXE := .exe
OBJ_EXT := obj
SHARED_LIB_EXT := dll
STATIC_LIB_EXT := a
CLASS_PATH := "build/classes;lib/*"
INCLUDEDIRS := ${SRCDIR}/C/include/
else
DETECTED_OS := $(shell sh -c 'uname 2>/dev/null || echo Unknown')
# If path to javah is non-empty then it's safe to use it
ifneq ($(realpath ${JAVA_HOME}/bin/javah),)
JAVAH := TRUE
endif
ifeq ($(DETECTED_OS),Darwin) # Mac OS X
JDK_MACHINE_INCLUDE ?= ${JAVA_HOME}/include/darwin
MACHINE_DIR := darwin
else
STATIC_LIB_FLAGS := -static-libgcc
DETECTED_OS := Linux
JDK_MACHINE_INCLUDE ?= ${JAVA_HOME}/include/linux
MACHINE_DIR := linux
endif
LIB_PREFIX := lib
ifeq ($(shell uname), Linux)
RM = rm -f
FixPath = $1
endif
ANT_HOME ?= /usr
EXE :=
OBJ_EXT := o
SHARED_LIB_EXT := so
STATIC_LIB_EXT := a
CLASS_PATH := "build/classes:lib/*"
INCLUDEDIRS := ${SRCDIR}/C/include
CC := gcc -fPIC -fno-exceptions
LD := gcc ${LD_OPTS} ${STATIC_LIB_FLAGS}
endif
CSRCDIR := ${SRCDIR}/C/common
WINDIR := ${SRCDIR}/C/mswindows
LIBSRCDIR := ${SRCDIR}/C/library
PRGSRCDIR := ${SRCDIR}/C/programs
JNISRCDIR := ${SRCDIR}/C/jni
JAVASRCDIR := ${SRCDIR}/java
ANT := ${ANT_HOME}/bin/ant
include makefile.defs
BUILDDIR := build
LIBDIR := lib
TARGETDIR := target
EXETARGETS := ${TARGETDIR}/executables
LIBTARGETS := ${TARGETDIR}/libraries
JNIINCDIR := ${BUILDDIR}/jni_include
SMI2MOL_TARGETS := ${EXETARGETS}/smi2mol${EXE} ${EXETARGETS}/smi2rdf${EXE} ${EXETARGETS}/sma2mol${EXE} ${EXETARGETS}/mol2smi${EXE} ${EXETARGETS}/mol2sma${EXE} ${EXETARGETS}/mol2tbl${EXE}
#
PROGRAMS := ${EXETARGETS}/struchk${EXE} ${EXETARGETS}/canonizer${EXE} ${EXETARGETS}/matchtest${EXE} ${EXETARGETS}/test.exe ${SMI2MOL_TARGETS}
COMMON_OBJECTS := \
${BUILDDIR}/forio.${OBJ_EXT} \
${BUILDDIR}/geometry.${OBJ_EXT} \
${BUILDDIR}/graph.${OBJ_EXT} \
${BUILDDIR}/layout.${OBJ_EXT} \
${BUILDDIR}/pattern.${OBJ_EXT} \
${BUILDDIR}/perceive.${OBJ_EXT} \
${BUILDDIR}/reaccsio.${OBJ_EXT} \
${BUILDDIR}/set.${OBJ_EXT} \
${BUILDDIR}/stereo.${OBJ_EXT} \
${BUILDDIR}/symbol_lists.${OBJ_EXT} \
${BUILDDIR}/symboltable.${OBJ_EXT} \
${BUILDDIR}/utilities.${OBJ_EXT} \
${BUILDDIR}/local.${OBJ_EXT}
RDKIT_OBJECTS := \
${BUILDDIR}/layout.${OBJ_EXT} \
${BUILDDIR}/symboltable.${OBJ_EXT} \
${BUILDDIR}/patclean.${OBJ_EXT} \
${BUILDDIR}/utilities.${OBJ_EXT} \
${BUILDDIR}/symbol_lists.${OBJ_EXT} \
${BUILDDIR}/stereo.${OBJ_EXT} \
${BUILDDIR}/set.${OBJ_EXT} \
${BUILDDIR}/perceive.${OBJ_EXT} \
${BUILDDIR}/local.${OBJ_EXT} \
${BUILDDIR}/graph.${OBJ_EXT} \
${BUILDDIR}/geometry.${OBJ_EXT} \
${BUILDDIR}/forio.${OBJ_EXT} \
${BUILDDIR}/depictutil.${OBJ_EXT} \
${BUILDDIR}/denormal.${OBJ_EXT} \
${BUILDDIR}/casutils.${OBJ_EXT} \
${BUILDDIR}/ssmatch.${OBJ_EXT} \
${BUILDDIR}/rtutils.${OBJ_EXT} \
${BUILDDIR}/smi2mol.${OBJ_EXT} \
${BUILDDIR}/didepict.${OBJ_EXT} \
${BUILDDIR}/pattern.${OBJ_EXT} \
${BUILDDIR}/canonizer.${OBJ_EXT} \
${BUILDDIR}/aacheck.${OBJ_EXT} \
${BUILDDIR}/fixcharges.${OBJ_EXT} \
${BUILDDIR}/struchk.${OBJ_EXT} \
${BUILDDIR}/reaccsio.${OBJ_EXT} \
${BUILDDIR}/hashcode.${OBJ_EXT}
# Build all targets that create artifacts. There are two further targets for Docker to
# start the depicter service directly. Note: The Docker system needs to be on the PATH
# for these additional targets to work.
all: clean variables download programs javaclasses archives jni_libraries tomcat_lib
#
ifdef OS
readme :
sed 's/\.exe/.exe/' <${SRCDIR}/resources/readme_platform.txt \
>${TARGETDIR}/readme_windows.txt
#
jni_libraries : ${LIBTARGETS}/toolkit${BITS}.${SHARED_LIB_EXT} ${LIBTARGETS}/depict${BITS}.${SHARED_LIB_EXT} \
${LIBTARGETS}/${LIB_PREFIX}JNIDepict.${SHARED_LIB_EXT} ${LIBTARGETS}/${LIB_PREFIX}JNIMatch.${SHARED_LIB_EXT} \
${LIBTARGETS}/avalon_jni_JNISmi2Mol.${SHARED_LIB_EXT} ${LIBTARGETS}/JNIWinTools.${SHARED_LIB_EXT}
javaclasses :
"${JAVA_HOME}/bin/javac" -cp ${CLASS_PATH} -d build/classes -sourcepath ${JAVASRCDIR} ${JAVASRCDIR}/avalon/jsp/servlets/*.java ${JAVASRCDIR}/jni/JNIWinTools.java
#
else
readme :
sed 's/\.exe//' <${SRCDIR}/resources/readme_platform.txt \
>${TARGETDIR}/readme_linux.txt
#
jni_libraries : ${LIBTARGETS}/${LIB_PREFIX}JNIDepict.${SHARED_LIB_EXT} ${LIBTARGETS}/${LIB_PREFIX}JNIMatch.${SHARED_LIB_EXT} ${LIBTARGETS}/${LIB_PREFIX}rohde_clib.${SHARED_LIB_EXT} \
${LIBTARGETS}/avalon_jni_JNISmi2Mol.${SHARED_LIB_EXT}
javaclasses :
"${JAVA_HOME}/bin/javac" -cp ${CLASS_PATH} -d build/classes -sourcepath ${JAVASRCDIR} ${JAVASRCDIR}/avalon/jsp/servlets/*.java ${JAVASRCDIR}/jni/UnixTools.java
#
endif
#
variables: readme
echo CLASS_PATH=${CLASS_PATH}
echo OS=${OS}
echo CYGWIN=${CYGWIN}
echo BITS=${BITS}
echo CC=${CC}
echo LD=${LD}
echo WINDIR=${WINDIR}
echo DETECTED_OS=${DETECTED_OS}
echo JAVAH=${JAVAH}
echo 0: `which javac.exe`
$(eval JAVAC=$(shell which javac.exe))
echo 1: JAVAC=${JAVAC}
programs: ${PROGRAMS} ${LIBTARGETS}/avalon4rdkit.${STATIC_LIB_EXT} ${LIBTARGETS}/avalon_tools.${STATIC_LIB_EXT}
run_tests: programs
${EXETARGETS}/canonizer${EXE} <${TESTDIR}/resources/canonizer.in >canonizer.out
diff -Z ${TESTDIR}/resources/canonizer.out canonizer.out
#
ifdef JAVAH
javastubs : javastubs_javah
else
javastubs : javastubs_nojavah
endif
#
# Create header files for C code (pre-Java8)
javastubs_javah : download javaclasses
"${JAVA_HOME}/bin/javah" -classpath "${BUILDDIR}/classes" -d ${JNIINCDIR} jni.JNIDepict
"${JAVA_HOME}/bin/javah" -classpath "${BUILDDIR}/classes" -d ${JNIINCDIR} jni.JNIMatch
test ! -f "${BUILDDIR}/classes/jni/JNIWinTools.class" || "${JAVA_HOME}/bin/javah" -classpath "${BUILDDIR}/classes" -d ${JNIINCDIR} jni.JNIWinTools
"${JAVA_HOME}/bin/javah" -classpath "${BUILDDIR}/classes" -d ${JNIINCDIR} avalon.jni.JNISmi2Mol
#
# Create header files for C code (post-Java8)
javastubs_nojavah : download javaclasses
"${JAVA_HOME}/bin/javac" -h ${JNIINCDIR} -d "${BUILDDIR}/classes" -cp "${BUILDDIR}/classes" ${JAVASRCDIR}/jni/JNIDepict.java
"${JAVA_HOME}/bin/javac" -h ${JNIINCDIR} -d "${BUILDDIR}/classes" -cp "${BUILDDIR}/classes" ${JAVASRCDIR}/jni/JNIMatch.java
test ! -f "${BUILDDIR}/classes/jni/JNIWinTools.class" || "${JAVA_HOME}/bin/javac" -h ${JNIINCDIR} -d "${BUILDDIR}/classes" -cp "${BUILDDIR}/classes" ${JAVASRCDIR}/jni/JNIWinTools.java
"${JAVA_HOME}/bin/javac" -h ${JNIINCDIR} -d "${BUILDDIR}/classes" -cp "${BUILDDIR}/classes" ${JAVASRCDIR}/avalon/jni/JNISmi2Mol.java
#
archives :
cp ${SRCDIR}/resources/build.properties ${BUILDDIR}/classes
${ANT_HOME}/bin/ant depictJar depictjniJar depictWar depictWarWithCORS
#
tomcat_lib : archives ${LIBTARGETS}/${LIB_PREFIX}JNIDepict.${SHARED_LIB_EXT} ${LIBTARGETS}/${LIB_PREFIX}JNIMatch.${SHARED_LIB_EXT} ${LIBTARGETS}/avalon_jni_JNISmi2Mol.${SHARED_LIB_EXT}
cp ${TARGETDIR}/archives/depictjni.jar $(TARGETDIR)/tomcat_lib
cp ${LIBTARGETS}/${LIB_PREFIX}JNIDepict.${SHARED_LIB_EXT} $(TARGETDIR)/tomcat_lib
cp ${LIBTARGETS}/${LIB_PREFIX}JNIMatch.${SHARED_LIB_EXT} $(TARGETDIR)/tomcat_lib
cp ${LIBTARGETS}/avalon_jni_JNISmi2Mol.${SHARED_LIB_EXT} $(TARGETDIR)/tomcat_lib
# make sure Linux systems also find the file
cp ${LIBTARGETS}/avalon_jni_JNISmi2Mol.${SHARED_LIB_EXT} $(TARGETDIR)/tomcat_lib/${LIB_PREFIX}JNISmi2Mol.${SHARED_LIB_EXT}
#
# Build the Docker image to be run by the tomcat_run target
tomcat_build : tomcat_lib
docker build -f Dockerfile -t depicter:1.0.0 .
#
# Run the Tomcat Docker image serving depicter on the host's port 80
# The image is run detached, which means the Docker system needs to be used to stop it.
tomcat_run : tomcat_build
docker run --rm -d --publish 80:8080 depicter:1.0.0
#
download :
test -f ${LIBDIR}/log4j-1.2.8.jar || curl -o ${LIBDIR}/log4j-1.2.8.jar ${LOG4J_URL}
test -f ${LIBDIR}/commons-logging-1.0.3.jar || curl -o ${LIBDIR}/commons-logging-1.0.3.jar ${COMMONS_URL}
test -f ${LIBDIR}/cors-filter-1.3.2.jar || curl -o ${LIBDIR}/cors-filter-1.3.2.jar ${CORS_URL}
test -f ${LIBDIR}/java-property-utils-1.6.jar || curl -o ${LIBDIR}/java-property-utils-1.6.jar ${PROP_UTILS_URL}
test -f ${LIBDIR}/servlet-api-2.4.jar || curl -o ${LIBDIR}/servlet-api-2.4.jar ${SERVLET_URL}
test -f ${LIBDIR}/jstl-1.2.jar || curl -o ${LIBDIR}/jstl-1.2.jar ${JSTL_URL}
#
clean:
@echo " Cleaning..."
@echo " $(RM) -r $(BUILDDIR) $(TARGETDIR) $(LIBDIR)"; $(RM) -r $(BUILDDIR) $(TARGETDIR) $(LIBDIR)
@mkdir -p $(BUILDDIR)
@mkdir -p $(LIBDIR)
@mkdir -p $(BUILDDIR)/classes
@mkdir -p $(TARGETDIR)
@mkdir -p $(TARGETDIR)/tomcat_lib
@mkdir -p $(EXETARGETS)
@mkdir -p $(LIBTARGETS)
#
# Individual object files
${BUILDDIR}/struchk.${OBJ_EXT}: ${PRGSRCDIR}/struchk.c
${CC} -I${INCLUDEDIRS} -c -o $@ $<
#
# Catch-all object files
${BUILDDIR}/%.${OBJ_EXT} : ${CSRCDIR}/%.c
${CC} -I${INCLUDEDIRS} -c $(CFLAGS) $< -o $@
#
${EXETARGETS}/struchk${EXE} : ${PRGSRCDIR}/struchk.c ${COMMON_OBJECTS} \
${BUILDDIR}/hashcode.${OBJ_EXT} \
${BUILDDIR}/patclean.${OBJ_EXT} \
${BUILDDIR}/aacheck.${OBJ_EXT} \
${BUILDDIR}/fixcharges.${OBJ_EXT} \
${BUILDDIR}/ssmatch.${OBJ_EXT}
${CC} -DMAIN -I${INCLUDEDIRS} -o ${EXETARGETS}/struchk${EXE} \
${PRGSRCDIR}/struchk.c ${COMMON_OBJECTS} \
${BUILDDIR}/hashcode.${OBJ_EXT} \
${BUILDDIR}/patclean.${OBJ_EXT} \
${BUILDDIR}/aacheck.${OBJ_EXT} \
${BUILDDIR}/fixcharges.${OBJ_EXT} \
${BUILDDIR}/ssmatch.${OBJ_EXT} ${LD_OPTS}
#
${LIBTARGETS}/avalon4rdkit.${STATIC_LIB_EXT} : ${RDKIT_OBJECTS}
ar rcs ${LIBTARGETS}/libavalon4rdkit.${STATIC_LIB_EXT} ${RDKIT_OBJECTS}
#
${LIBTARGETS}/avalon_tools.${STATIC_LIB_EXT} : ${BUILDDIR}/*.${OBJ_EXT}
ar rcs ${LIBTARGETS}/libavalon_tools.${STATIC_LIB_EXT} ${BUILDDIR}/*.${OBJ_EXT}
#
${EXETARGETS}/matchtest${EXE} : ${PRGSRCDIR}/matchtest.c ${COMMON_OBJECTS} \
${BUILDDIR}/hashcode.${OBJ_EXT} \
${BUILDDIR}/patclean.${OBJ_EXT} \
${BUILDDIR}/fixcharges.${OBJ_EXT} \
${BUILDDIR}/ssmatch.${OBJ_EXT} \
${BUILDDIR}/casutils.${OBJ_EXT} \
${BUILDDIR}/denormal.${OBJ_EXT} \
${BUILDDIR}/rtutils.${OBJ_EXT} \
${BUILDDIR}/smi2mol.${OBJ_EXT}
${CC} -I${INCLUDEDIRS} -o ${EXETARGETS}/matchtest${EXE} \
${PRGSRCDIR}/matchtest.c ${COMMON_OBJECTS} \
${BUILDDIR}/hashcode.${OBJ_EXT} \
${BUILDDIR}/patclean.${OBJ_EXT} \
${BUILDDIR}/fixcharges.${OBJ_EXT} \
${BUILDDIR}/ssmatch.${OBJ_EXT} \
${BUILDDIR}/casutils.${OBJ_EXT} \
${BUILDDIR}/denormal.${OBJ_EXT} \
${BUILDDIR}/rtutils.${OBJ_EXT} \
${BUILDDIR}/smi2mol.${OBJ_EXT} ${LD_OPTS}
#
${EXETARGETS}/canonizer${EXE} : ${PRGSRCDIR}/canonizer_main.c ${COMMON_OBJECTS} \
${BUILDDIR}/canonizer.${OBJ_EXT} \
${BUILDDIR}/casutils.${OBJ_EXT} \
${BUILDDIR}/denormal.${OBJ_EXT} \
${BUILDDIR}/rtutils.${OBJ_EXT} \
${BUILDDIR}/smi2mol.${OBJ_EXT}
${CC} -I${INCLUDEDIRS} -o ${EXETARGETS}/canonizer${EXE} \
${PRGSRCDIR}/canonizer_main.c ${COMMON_OBJECTS} \
${BUILDDIR}/canonizer.${OBJ_EXT} \
${BUILDDIR}/casutils.${OBJ_EXT} \
${BUILDDIR}/denormal.${OBJ_EXT} \
${BUILDDIR}/rtutils.${OBJ_EXT} \
${BUILDDIR}/smi2mol.${OBJ_EXT} ${LD_OPTS}
#
SMI2MOL_OBJECTS := \
${BUILDDIR}/canonizer.${OBJ_EXT} \
${BUILDDIR}/casutils.${OBJ_EXT} \
${BUILDDIR}/denormal.${OBJ_EXT} \
${BUILDDIR}/ssmatch.${OBJ_EXT} \
${BUILDDIR}/didepict.${OBJ_EXT} \
${BUILDDIR}/shortcut.${OBJ_EXT} \
${BUILDDIR}/hashcode.${OBJ_EXT} \
${BUILDDIR}/rtutils.${OBJ_EXT} \
${BUILDDIR}/smi2mol.${OBJ_EXT}
#
${EXETARGETS}/smi2mol${EXE} : ${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS}
${CC} -I${INCLUDEDIRS} -o ${EXETARGETS}/smi2mol${EXE} \
${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS} ${LD_OPTS}
#
${EXETARGETS}/sma2mol${EXE} : ${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS}
${CC} -I${INCLUDEDIRS} -o ${EXETARGETS}/sma2mol${EXE} \
${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS} ${LD_OPTS}
#
${EXETARGETS}/mol2sma${EXE} : ${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS}
${CC} -I${INCLUDEDIRS} -o ${EXETARGETS}/mol2sma${EXE} \
${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS} ${LD_OPTS}
#
${EXETARGETS}/smi2plt${EXE} : ${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS}
${CC} -I${INCLUDEDIRS} -o ${EXETARGETS}/smi2plt${EXE} \
${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS} ${LD_OPTS}
#
${EXETARGETS}/smi2rdf${EXE} : ${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS}
${CC} -I${INCLUDEDIRS} -o ${EXETARGETS}/smi2rdf${EXE} \
${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS} ${LD_OPTS}
#
${EXETARGETS}/smi2smi${EXE} : ${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS}
${CC} -I${INCLUDEDIRS} -o ${EXETARGETS}/smi2smi${EXE} \
${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS} ${LD_OPTS}
#
${EXETARGETS}/mol2tbl${EXE} : ${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS}
${CC} -I${INCLUDEDIRS} -o ${EXETARGETS}/mol2tbl${EXE} \
${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS} ${LD_OPTS}
#
${EXETARGETS}/rdf2smi${EXE} : ${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS}
${CC} -I${INCLUDEDIRS} -o ${EXETARGETS}/rdf2smi${EXE} \
${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS} ${LD_OPTS}
#
${EXETARGETS}/mol2smi${EXE} : ${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS}
${CC} -I${INCLUDEDIRS} -o ${EXETARGETS}/mol2smi${EXE} \
${PRGSRCDIR}/smi2mol_main.c ${COMMON_OBJECTS} ${SMI2MOL_OBJECTS} ${LD_OPTS}
#
${EXETARGETS}/test.exe: ${BUILDDIR}/test.obj
${CC} -o ${EXETARGETS}/test.exe ${BUILDDIR}/test.obj
#
${BUILDDIR}/test.obj: ${TESTDIR}/C/test.c
${CC} -c -o $@ $<
# Individual object files
${BUILDDIR}/toolkit${BITS}.${OBJ_EXT} : ${WINDIR}/toolkit.c ${WINDIR}/toolkit.h
${CC} -c -I ${WINDIR} \
--verbose -I ${INCLUDEDIRS} \
-o ${BUILDDIR}/toolkit${BITS}.${OBJ_EXT} ${WINDIR}/toolkit.c
#
${BUILDDIR}/depict${BITS}.${OBJ_EXT} : ${WINDIR}/depict.c ${WINDIR}/depict.h
${CC} -c -I ${WINDIR} \
--verbose -I ${INCLUDEDIRS} \
-o ${BUILDDIR}/depict${BITS}.${OBJ_EXT} ${WINDIR}/depict.c
#
# This is a useful URL describing among other calling convention and name mangling issues the kill-at option
# http://www.willus.com/mingw/yongweiwu_stdcall.html
${LIBTARGETS}/depict${BITS}.${SHARED_LIB_EXT} : \
${COMMON_OBJECTS} \
${SMI2MOL_OBJECTS} \
${BUILDDIR}/sketch.${OBJ_EXT} \
${BUILDDIR}/depict${BITS}.${OBJ_EXT}
${LD} -shared -o ${LIBTARGETS}/depict${BITS}.${SHARED_LIB_EXT} \
--verbose \
${KILL_AT} \
-mwindows \
${COMMON_OBJECTS} \
${SMI2MOL_OBJECTS} ${BUILDDIR}/sketch.${OBJ_EXT} \
${BUILDDIR}/depict${BITS}.${OBJ_EXT} \
${LD_OPTS}
#
${LIBTARGETS}/toolkit${BITS}.${SHARED_LIB_EXT} : \
${COMMON_OBJECTS} \
${SMI2MOL_OBJECTS} \
${BUILDDIR}/toolkit${BITS}.${OBJ_EXT}
${LD} -shared -o ${LIBTARGETS}/toolkit${BITS}.${SHARED_LIB_EXT} \
--verbose \
${KILL_AT} \
-mwindows \
${COMMON_OBJECTS} \
${SMI2MOL_OBJECTS} \
${BUILDDIR}/toolkit${BITS}.${OBJ_EXT} \
${LD_OPTS}
#
# JNI section
${LIBTARGETS}/avalon_jni_JNISmi2Mol.${SHARED_LIB_EXT} : \
${BUILDDIR}/casutils.${OBJ_EXT} ${BUILDDIR}/denormal.${OBJ_EXT} ${BUILDDIR}/depictutil.${OBJ_EXT} ${BUILDDIR}/forio.${OBJ_EXT} \
${BUILDDIR}/geometry.${OBJ_EXT} ${BUILDDIR}/graph.${OBJ_EXT} ${BUILDDIR}/hashcode.${OBJ_EXT} ${BUILDDIR}/layout.${OBJ_EXT} \
${BUILDDIR}/local.${OBJ_EXT} ${BUILDDIR}/patclean.${OBJ_EXT} ${BUILDDIR}/perceive.${OBJ_EXT} ${BUILDDIR}/reaccsio.${OBJ_EXT} \
${BUILDDIR}/rtutils.${OBJ_EXT} ${BUILDDIR}/set.${OBJ_EXT} ${BUILDDIR}/smi2mol.${OBJ_EXT} ${BUILDDIR}/pattern.${OBJ_EXT} ${BUILDDIR}/ssmatch.${OBJ_EXT} \
${BUILDDIR}/stereo.${OBJ_EXT} ${BUILDDIR}/symbol_lists.${OBJ_EXT} ${BUILDDIR}/symboltable.${OBJ_EXT} ${BUILDDIR}/utilities.${OBJ_EXT} \
${BUILDDIR}/shortcut.${OBJ_EXT} \
${JNISRCDIR}/avalon_jni_JNISmi2Mol.cpp javastubs
${LD} -Wall -D_JNI_IMPLEMENTATION_ ${KILL_AT} \
-I "${JDK_INCLUDE}" \
-I "${JDK_MACHINE_INCLUDE}" \
-I "${JNIINCDIR}" \
-I ${INCLUDEDIRS} \
-shared ${JNISRCDIR}/avalon_jni_JNISmi2Mol.cpp \
${BUILDDIR}/casutils.${OBJ_EXT} ${BUILDDIR}/denormal.${OBJ_EXT} ${BUILDDIR}/depictutil.${OBJ_EXT} ${BUILDDIR}/forio.${OBJ_EXT} \
${BUILDDIR}/geometry.${OBJ_EXT} ${BUILDDIR}/graph.${OBJ_EXT} ${BUILDDIR}/hashcode.${OBJ_EXT} ${BUILDDIR}/layout.${OBJ_EXT} \
${BUILDDIR}/local.${OBJ_EXT} ${BUILDDIR}/patclean.${OBJ_EXT} ${BUILDDIR}/perceive.${OBJ_EXT} ${BUILDDIR}/reaccsio.${OBJ_EXT} \
${BUILDDIR}/rtutils.${OBJ_EXT} ${BUILDDIR}/set.${OBJ_EXT} ${BUILDDIR}/smi2mol.${OBJ_EXT} ${BUILDDIR}/pattern.${OBJ_EXT} ${BUILDDIR}/ssmatch.${OBJ_EXT} \
${BUILDDIR}/stereo.${OBJ_EXT} ${BUILDDIR}/symbol_lists.${OBJ_EXT} ${BUILDDIR}/symboltable.${OBJ_EXT} ${BUILDDIR}/utilities.${OBJ_EXT} \
${BUILDDIR}/shortcut.${OBJ_EXT} \
-o ${LIBTARGETS}/avalon_jni_JNISmi2Mol.${SHARED_LIB_EXT} \
${LD_OPTS}
#
${LIBTARGETS}/${LIB_PREFIX}JNIMatch.${SHARED_LIB_EXT} : \
${BUILDDIR}/canonizer.${OBJ_EXT} ${BUILDDIR}/casutils.${OBJ_EXT} ${BUILDDIR}/denormal.${OBJ_EXT} ${BUILDDIR}/forio.${OBJ_EXT} \
${BUILDDIR}/geometry.${OBJ_EXT} ${BUILDDIR}/graph.${OBJ_EXT} ${BUILDDIR}/hashcode.${OBJ_EXT} ${BUILDDIR}/layout.${OBJ_EXT} \
${BUILDDIR}/local.${OBJ_EXT} ${BUILDDIR}/perceive.${OBJ_EXT} ${BUILDDIR}/reaccsio.${OBJ_EXT} \
${BUILDDIR}/rtutils.${OBJ_EXT} ${BUILDDIR}/set.${OBJ_EXT} ${BUILDDIR}/smi2mol.${OBJ_EXT} ${BUILDDIR}/pattern.${OBJ_EXT} ${BUILDDIR}/ssmatch.${OBJ_EXT} \
${BUILDDIR}/stereo.${OBJ_EXT} ${BUILDDIR}/symbol_lists.${OBJ_EXT} ${BUILDDIR}/symboltable.${OBJ_EXT} ${BUILDDIR}/utilities.${OBJ_EXT} \
${JNISRCDIR}/jni_JNIMatch.cpp javastubs
${LD} -Wall -D_JNI_IMPLEMENTATION_ ${KILL_AT} \
-I "${JDK_INCLUDE}" \
-I "${JDK_MACHINE_INCLUDE}" \
-I "${JNIINCDIR}" \
-I ${INCLUDEDIRS} \
-shared ${JNISRCDIR}/jni_JNIMatch.cpp \
${BUILDDIR}/canonizer.${OBJ_EXT} ${BUILDDIR}/casutils.${OBJ_EXT} ${BUILDDIR}/denormal.${OBJ_EXT} ${BUILDDIR}/forio.${OBJ_EXT} \
${BUILDDIR}/geometry.${OBJ_EXT} ${BUILDDIR}/graph.${OBJ_EXT} ${BUILDDIR}/hashcode.${OBJ_EXT} ${BUILDDIR}/layout.${OBJ_EXT} \
${BUILDDIR}/local.${OBJ_EXT} ${BUILDDIR}/perceive.${OBJ_EXT} ${BUILDDIR}/reaccsio.${OBJ_EXT} \
${BUILDDIR}/rtutils.${OBJ_EXT} ${BUILDDIR}/set.${OBJ_EXT} ${BUILDDIR}/smi2mol.${OBJ_EXT} ${BUILDDIR}/pattern.${OBJ_EXT} ${BUILDDIR}/ssmatch.${OBJ_EXT} \
${BUILDDIR}/stereo.${OBJ_EXT} ${BUILDDIR}/symbol_lists.${OBJ_EXT} ${BUILDDIR}/symboltable.${OBJ_EXT} ${BUILDDIR}/utilities.${OBJ_EXT} \
-o ${LIBTARGETS}/${LIB_PREFIX}JNIMatch.${SHARED_LIB_EXT} \
${LD_OPTS}
#
${LIBTARGETS}/JNIWinTools.${SHARED_LIB_EXT} : \
${BUILDDIR}/depictutil.${OBJ_EXT} \
${JNISRCDIR}/jni_JNIWinTools.cpp javastubs
${CC} -Wall -mwindows -D_JNI_IMPLEMENTATION_ ${KILL_AT} \
-I "${JDK_INCLUDE}" \
-I "${JDK_MACHINE_INCLUDE}" \
-I "${JNIINCDIR}" \
-I ${WINDIR} \
-I ${INCLUDEDIRS} \
${BUILDDIR}/casutils.${OBJ_EXT} \
${BUILDDIR}/depictutil.${OBJ_EXT} \
${BUILDDIR}/denormal.${OBJ_EXT} \
${BUILDDIR}/forio.${OBJ_EXT} \
${BUILDDIR}/geometry.${OBJ_EXT} \
${BUILDDIR}/graph.${OBJ_EXT} \
${BUILDDIR}/local.${OBJ_EXT} \
${BUILDDIR}/layout.${OBJ_EXT} \
${BUILDDIR}/perceive.${OBJ_EXT} \
${BUILDDIR}/reaccsio.${OBJ_EXT} \
${BUILDDIR}/rtutils.${OBJ_EXT} \
${BUILDDIR}/set.${OBJ_EXT} \
${BUILDDIR}/smi2mol.${OBJ_EXT} ${BUILDDIR}/pattern.${OBJ_EXT} ${BUILDDIR}/symboltable.${OBJ_EXT} \
${BUILDDIR}/stereo.${OBJ_EXT} \
${BUILDDIR}/symbol_lists.${OBJ_EXT} \
${BUILDDIR}/utilities.${OBJ_EXT} \
-shared ${JNISRCDIR}/jni_JNIWinTools.cpp \
-o ${LIBTARGETS}/JNIWinTools.${SHARED_LIB_EXT} \
${LD_OPTS}
#
${LIBTARGETS}/ClipboardTools.${SHARED_LIB_EXT} : \
${JNISRCDIR}/jni_ClipboardTools.cpp javastubs
${CC} -Wall -mwindows -D_JNI_IMPLEMENTATION_ ${KILL_AT} \
-I "${JDK_INCLUDE}" \
-I "${JDK_MACHINE_INCLUDE}" \
-I ${INCLUDEDIRS} \
-shared ${JNISRCDIR}/jni_ClipboardTools.cpp \
-o ${LIBTARGETS}/ClipboardTools.${SHARED_LIB_EXT} \
${LD_OPTS}
#
${LIBTARGETS}/${LIB_PREFIX}JNIDepict.${SHARED_LIB_EXT} : \
${BUILDDIR}/casutils.${OBJ_EXT} \
${BUILDDIR}/denormal.${OBJ_EXT} \
${BUILDDIR}/depictutil.${OBJ_EXT} \
${BUILDDIR}/forio.${OBJ_EXT} \
${BUILDDIR}/geometry.${OBJ_EXT} \
${BUILDDIR}/graph.${OBJ_EXT} \
${BUILDDIR}/hashcode.${OBJ_EXT} \
${BUILDDIR}/layout.${OBJ_EXT} \
${BUILDDIR}/local.${OBJ_EXT} \
${BUILDDIR}/patclean.${OBJ_EXT} \
${BUILDDIR}/perceive.${OBJ_EXT} \
${BUILDDIR}/reaccsio.${OBJ_EXT} \
${BUILDDIR}/rtutils.${OBJ_EXT} \
${BUILDDIR}/set.${OBJ_EXT} \
${BUILDDIR}/smi2mol.${OBJ_EXT} ${BUILDDIR}/pattern.${OBJ_EXT} \
${BUILDDIR}/ssmatch.${OBJ_EXT} \
${BUILDDIR}/stereo.${OBJ_EXT} \
${BUILDDIR}/symbol_lists.${OBJ_EXT} \
${BUILDDIR}/symboltable.${OBJ_EXT} \
${BUILDDIR}/utilities.${OBJ_EXT} \
${JNISRCDIR}/jni_JNIDepict.cpp javastubs
${CC} -Wall -D_JNI_IMPLEMENTATION_ ${KILL_AT} \
-I "${JDK_INCLUDE}" \
-I "${JDK_MACHINE_INCLUDE}" \
-I ${JNIINCDIR} \
-I ${INCLUDEDIRS} \
-shared ${JNISRCDIR}/jni_JNIDepict.cpp \
${BUILDDIR}/casutils.${OBJ_EXT} \
${BUILDDIR}/denormal.${OBJ_EXT} \
${BUILDDIR}/depictutil.${OBJ_EXT} \
${BUILDDIR}/forio.${OBJ_EXT} \
${BUILDDIR}/geometry.${OBJ_EXT} \
${BUILDDIR}/graph.${OBJ_EXT} \
${BUILDDIR}/hashcode.${OBJ_EXT} \
${BUILDDIR}/layout.${OBJ_EXT} \
${BUILDDIR}/local.${OBJ_EXT} \
${BUILDDIR}/patclean.${OBJ_EXT} \
${BUILDDIR}/perceive.${OBJ_EXT} \
${BUILDDIR}/reaccsio.${OBJ_EXT} \
${BUILDDIR}/rtutils.${OBJ_EXT} \
${BUILDDIR}/set.${OBJ_EXT} \
${BUILDDIR}/smi2mol.${OBJ_EXT} ${BUILDDIR}/pattern.${OBJ_EXT} \
${BUILDDIR}/ssmatch.${OBJ_EXT} \
${BUILDDIR}/stereo.${OBJ_EXT} \
${BUILDDIR}/symbol_lists.${OBJ_EXT} \
${BUILDDIR}/symboltable.${OBJ_EXT} \
${BUILDDIR}/utilities.${OBJ_EXT} \
-o ${LIBTARGETS}/${LIB_PREFIX}JNIDepict.${SHARED_LIB_EXT} \
${LD_OPTS}
#
${LIBTARGETS}/librohde_clib.${SHARED_LIB_EXT} : \
${BUILDDIR}/aacheck.${OBJ_EXT} \
${BUILDDIR}/fixcharges.${OBJ_EXT} \
${BUILDDIR}/hashcode.${OBJ_EXT} \
${BUILDDIR}/patclean.${OBJ_EXT} \
${BUILDDIR}/ssmatch.${OBJ_EXT} \
${BUILDDIR}/canonizer.${OBJ_EXT} ${BUILDDIR}/smi2mol.${OBJ_EXT} ${BUILDDIR}/pattern.${OBJ_EXT} ${BUILDDIR}/denormal.${OBJ_EXT} ${BUILDDIR}/casutils.${OBJ_EXT} ${BUILDDIR}/forio.${OBJ_EXT} ${BUILDDIR}/geometry.${OBJ_EXT} \
${BUILDDIR}/graph.${OBJ_EXT} ${BUILDDIR}/layout.${OBJ_EXT} ${BUILDDIR}/perceive.${OBJ_EXT} \
${BUILDDIR}/reaccsio.${OBJ_EXT} ${BUILDDIR}/rtutils.${OBJ_EXT} ${BUILDDIR}/set.${OBJ_EXT} \
${BUILDDIR}/stereo.${OBJ_EXT} ${BUILDDIR}/symbol_lists.${OBJ_EXT} ${BUILDDIR}/symboltable.${OBJ_EXT} ${BUILDDIR}/utilities.${OBJ_EXT} \
${BUILDDIR}/local.${OBJ_EXT}
${CC} -Wall \
-I ${INCLUDEDIRS} \
-o ${LIBTARGETS}/librohde_clib.${SHARED_LIB_EXT} \
-shared ${PRGSRCDIR}/struchk.c \
${BUILDDIR}/aacheck.${OBJ_EXT} ${BUILDDIR}/canonizer.${OBJ_EXT} ${BUILDDIR}/smi2mol.${OBJ_EXT} ${BUILDDIR}/pattern.${OBJ_EXT} ${BUILDDIR}/denormal.${OBJ_EXT} ${BUILDDIR}/casutils.${OBJ_EXT} ${BUILDDIR}/fixcharges.${OBJ_EXT} ${BUILDDIR}/forio.${OBJ_EXT} ${BUILDDIR}/geometry.${OBJ_EXT} \
${BUILDDIR}/graph.${OBJ_EXT} ${BUILDDIR}/hashcode.${OBJ_EXT} ${BUILDDIR}/layout.${OBJ_EXT} \
${BUILDDIR}/patclean.${OBJ_EXT} ${BUILDDIR}/perceive.${OBJ_EXT} ${BUILDDIR}/reaccsio.${OBJ_EXT} ${BUILDDIR}/rtutils.${OBJ_EXT} ${BUILDDIR}/set.${OBJ_EXT} \
${BUILDDIR}/ssmatch.${OBJ_EXT} ${BUILDDIR}/stereo.${OBJ_EXT} ${BUILDDIR}/symbol_lists.${OBJ_EXT} ${BUILDDIR}/symboltable.${OBJ_EXT} ${BUILDDIR}/utilities.${OBJ_EXT} \
${BUILDDIR}/local.${OBJ_EXT} \
${LD_OPTS}