printf ' ' | fink --no-use-binary-dist --yes --build-as-nobody rebuild cran-rjava-r30 2>&1 The package 'cran-rjava-r30' will be built without being installed. Reading build dependency for cran-rjava-r30-0.9-6-1... Reading dependency for cran-rjava-r30-0.9-6-1... Reading build conflict for cran-rjava-r30-0.9-6-1... The following package will be rebuilt: cran-rjava-r30 Setting runtime build-lock... dpkg-deb -b /sw/build.build/root-fink-buildlock-cran-rjava-r30-0.9-6-1 /sw/build.build dpkg-deb: building package `fink-buildlock-cran-rjava-r30-0.9-6-1' in `/sw/build.build/fink-buildlock-cran-rjava-r30-0.9-6-1_2014.07.27-11.03.22_darwin-x86_64.deb'. Installing build-lock package... /sw/bin/dpkg-lockwait -i /sw/build.build/fink-buildlock-cran-rjava-r30-0.9-6-1_2014.07.27-11.03.22_darwin-x86_64.deb Selecting previously deselected package fink-buildlock-cran-rjava-r30-0.9-6-1. (Reading database ... 108438 files and directories currently installed.) Unpacking fink-buildlock-cran-rjava-r30-0.9-6-1 (from .../fink-buildlock-cran-rjava-r30-0.9-6-1_2014.07.27-11.03.22_darwin-x86_64.deb) ... Setting up fink-buildlock-cran-rjava-r30-0.9-6-1 (2014.07.27-11.03.22) ... sudo -u fink-bld [ENV] sh -c /tmp/fink.03ouu env LANG=C LC_ALL=C /sw/bin/tar --no-same-owner --no-same-permissions -xvf /sw/src/rJava_0.9-6.tar.gz rJava/ rJava/inst/ rJava/inst/java/ rJava/inst/java/FlatException.class rJava/inst/java/RJavaTools_Test$TestException.class rJava/inst/java/ObjectArrayException.java rJava/inst/java/RJavaTools.java rJava/inst/java/FlatException.java rJava/inst/java/ArrayDimensionException.class rJava/inst/java/RJavaComparator.java rJava/inst/java/RJavaArrayTools_Test.class rJava/inst/java/NotAnArrayException.java rJava/inst/java/RectangularArrayBuilder_Test.class rJava/inst/java/RJavaTools_Test.java rJava/inst/java/RectangularArraySummary.java rJava/inst/java/RJavaImport.java rJava/inst/java/RJavaArrayIterator.java rJava/inst/java/TestException.java rJava/inst/java/RJavaArrayIterator.class rJava/inst/java/RJavaTools_Test$ExampleClass.class rJava/inst/java/RectangularArrayBuilder.class rJava/inst/java/RJavaArrayTools.java rJava/inst/java/ArrayWrapper.java rJava/inst/java/ArrayWrapper_Test.java rJava/inst/java/RJavaTools.class rJava/inst/java/RectangularArrayBuilder_Test.java rJava/inst/java/TestException.class rJava/inst/java/ArrayWrapper_Test.class rJava/inst/java/RJavaTools_Test$DummyNonStaticClass.class rJava/inst/java/RJavaArrayTools_Test.java rJava/inst/java/RJavaArrayTools$ArrayDimensionMismatchException.class rJava/inst/java/PrimitiveArrayException.class rJava/inst/java/ArrayDimensionException.java rJava/inst/java/NotComparableException.class rJava/inst/java/NotComparableException.java rJava/inst/java/RJavaArrayTools.class rJava/inst/java/DummyPoint.class rJava/inst/java/ObjectArrayException.class rJava/inst/java/DummyPoint.java rJava/inst/java/RectangularArrayExamples.java rJava/inst/java/RJavaComparator.class rJava/inst/java/boot/ rJava/inst/java/boot/RJavaClassLoader.class rJava/inst/java/boot/RJavaClassLoader$UnixDirectory.class rJava/inst/java/boot/RJavaClassLoader$UnixFile.class rJava/inst/java/boot/RJavaClassLoader$UnixJarFile.class rJava/inst/java/boot/RJavaClassLoader$RJavaObjectInputStream.class rJava/inst/java/boot/RJavaClassLoader.java rJava/inst/java/RectangularArrayExamples.class rJava/inst/java/RJavaImport.class rJava/inst/java/RectangularArraySummary.class rJava/inst/java/RectangularArrayBuilder.java rJava/inst/java/RJavaTools_Test.class rJava/inst/java/PrimitiveArrayException.java rJava/inst/java/NotAnArrayException.class rJava/inst/java/ArrayWrapper.class rJava/inst/jri/ rJava/inst/jri/REngine.jar rJava/inst/jri/JRIEngine.jar rJava/inst/javadoc/ rJava/inst/javadoc/ArrayWrapper_Test.html rJava/inst/javadoc/RJavaArrayTools.html rJava/inst/javadoc/ArrayWrapper.html rJava/inst/javadoc/package-summary.html rJava/inst/javadoc/help-doc.html rJava/inst/javadoc/index.html rJava/inst/javadoc/RectangularArrayBuilder_Test.html rJava/inst/javadoc/TestException.html rJava/inst/javadoc/ArrayDimensionException.html rJava/inst/javadoc/RJavaTools_Test.DummyNonStaticClass.html rJava/inst/javadoc/serialized-form.html rJava/inst/javadoc/RectangularArraySummary.html rJava/inst/javadoc/RJavaImport.html rJava/inst/javadoc/stylesheet.css rJava/inst/javadoc/ObjectArrayException.html rJava/inst/javadoc/package-list rJava/inst/javadoc/overview-tree.html rJava/inst/javadoc/FlatException.html rJava/inst/javadoc/deprecated-list.html rJava/inst/javadoc/RJavaTools.html rJava/inst/javadoc/RJavaArrayIterator.html rJava/inst/javadoc/constant-values.html rJava/inst/javadoc/resources/ rJava/inst/javadoc/resources/background.gif rJava/inst/javadoc/resources/titlebar.gif rJava/inst/javadoc/resources/tab.gif rJava/inst/javadoc/resources/titlebar_end.gif rJava/inst/javadoc/package-tree.html rJava/inst/javadoc/RJavaArrayTools.ArrayDimensionMismatchException.html rJava/inst/javadoc/package-frame.html rJava/inst/javadoc/PrimitiveArrayException.html rJava/inst/javadoc/DummyPoint.html rJava/inst/javadoc/RJavaArrayTools_Test.html rJava/inst/javadoc/NotComparableException.html rJava/inst/javadoc/index-all.html rJava/inst/javadoc/NotAnArrayException.html rJava/inst/javadoc/RJavaTools_Test.html rJava/inst/javadoc/RectangularArrayExamples.html rJava/inst/javadoc/allclasses-noframe.html rJava/inst/javadoc/RJavaComparator.html rJava/inst/javadoc/RJavaTools_Test.TestException.html rJava/inst/javadoc/allclasses-frame.html rJava/inst/javadoc/RJavaClassLoader.html rJava/inst/javadoc/RectangularArrayBuilder.html rJava/configure.ac rJava/getsp.java rJava/src/ rJava/src/arrayc.c rJava/src/Rglue.c rJava/src/jvm-w32/ rJava/src/jvm-w32/Makefile rJava/src/jvm-w32/jvm.def rJava/src/jvm-w32/config.h rJava/src/jvm-w32/findjava.c rJava/src/jvm-w32/jvm64.def rJava/src/jvm-w32/WinRegistry.c rJava/src/fields.c rJava/src/config.h.in rJava/src/install.libs.R rJava/src/jri_glue.c rJava/src/loader.c rJava/src/rJava.h rJava/src/java/ rJava/src/java/FlatException.class rJava/src/java/Makefile rJava/src/java/RJavaTools_Test$TestException.class rJava/src/java/ObjectArrayException.java rJava/src/java/RJavaClassLoader.class rJava/src/java/RJavaTools.java rJava/src/java/FlatException.java rJava/src/java/RJavaClassLoader$UnixDirectory.class rJava/src/java/ArrayDimensionException.class rJava/src/java/RJavaComparator.java rJava/src/java/RJavaArrayTools_Test.class rJava/src/java/NotAnArrayException.java rJava/src/java/RectangularArrayBuilder_Test.class rJava/src/java/RJavaTools_Test.java rJava/src/java/RectangularArraySummary.java rJava/src/java/RJavaImport.java rJava/src/java/RJavaArrayIterator.java rJava/src/java/TestException.java rJava/src/java/RJavaArrayIterator.class rJava/src/java/RJavaTools_Test$ExampleClass.class rJava/src/java/RectangularArrayBuilder.class rJava/src/java/RJavaArrayTools.java rJava/src/java/ArrayWrapper.java rJava/src/java/ArrayWrapper_Test.java rJava/src/java/RJavaTools.class rJava/src/java/RectangularArrayBuilder_Test.java rJava/src/java/TestException.class rJava/src/java/RJavaClassLoader$UnixFile.class rJava/src/java/ArrayWrapper_Test.class rJava/src/java/RJavaTools_Test$DummyNonStaticClass.class rJava/src/java/RJavaClassLoader$UnixJarFile.class rJava/src/java/RJavaArrayTools_Test.java rJava/src/java/RJavaArrayTools$ArrayDimensionMismatchException.class rJava/src/java/RJavaClassLoader$RJavaObjectInputStream.class rJava/src/java/PrimitiveArrayException.class rJava/src/java/ArrayDimensionException.java rJava/src/java/NotComparableException.class rJava/src/java/NotComparableException.java rJava/src/java/RJavaArrayTools.class rJava/src/java/DummyPoint.class rJava/src/java/ObjectArrayException.class rJava/src/java/DummyPoint.java rJava/src/java/RectangularArrayExamples.java rJava/src/java/RJavaComparator.class rJava/src/java/RJavaClassLoader.java rJava/src/java/RectangularArrayExamples.class rJava/src/java/RJavaImport.class rJava/src/java/RectangularArraySummary.class rJava/src/java/RectangularArrayBuilder.java rJava/src/java/RJavaTools_Test.class rJava/src/java/PrimitiveArrayException.java rJava/src/java/NotAnArrayException.class rJava/src/java/ArrayWrapper.class rJava/src/otables.c rJava/src/Makevars.in rJava/src/tools.c rJava/src/callback.c rJava/src/callJNI.c rJava/src/Makevars.win rJava/src/init.c rJava/src/callback.h rJava/src/rJava.c rJava/NAMESPACE rJava/getsp.class rJava/install-sh rJava/version rJava/NEWS rJava/R/ rJava/R/memprof.R rJava/R/jri.R rJava/R/reflection.R rJava/R/zzz.R.in rJava/R/comparison.R rJava/R/completion.R rJava/R/arrays.R rJava/R/methods.R rJava/R/windows/ rJava/R/windows/FirstLib.R rJava/R/options.R rJava/R/exceptions.R rJava/R/import.R rJava/R/0classes.R rJava/R/tools.R rJava/R/serialize.R rJava/R/rep.R rJava/R/converter.R rJava/R/with.R rJava/R/loader.R rJava/R/jfirst.R rJava/R/J.R rJava/R/instanceof.R rJava/R/call.R rJava/R/jinit.R rJava/MD5 rJava/DESCRIPTION rJava/jri/ rJava/jri/Mutex.java rJava/jri/RBool.java rJava/jri/examples/ rJava/jri/examples/rtest.java rJava/jri/examples/rtest2.java rJava/jri/configure.ac rJava/jri/run.in rJava/jri/src/ rJava/jri/src/jri.h rJava/jri/src/Rengine.c rJava/jri/src/win32/ rJava/jri/src/win32/Makefile rJava/jri/src/win32/jvm.def rJava/jri/src/win32/findjava.c rJava/jri/src/win32/jvm64.def rJava/jri/src/h2ic rJava/jri/src/config.h.in rJava/jri/src/Rcallbacks.h rJava/jri/src/Makefile.in rJava/jri/src/Makefile.all rJava/jri/src/Makefile.win rJava/jri/src/Rdecl.h rJava/jri/src/globals.c rJava/jri/src/Rinit.h rJava/jri/src/Rcallbacks.c rJava/jri/src/rjava.h rJava/jri/src/jri.c rJava/jri/src/globals.h rJava/jri/src/Rinit.c rJava/jri/src/rjava.c rJava/jri/RConsoleOutputStream.java rJava/jri/Rengine.java rJava/jri/version rJava/jri/Makefile.in rJava/jri/NEWS rJava/jri/Makefile.all rJava/jri/LGPL.txt rJava/jri/Makefile.win rJava/jri/README rJava/jri/REXP.java rJava/jri/RVector.java rJava/jri/bootstrap/ rJava/jri/bootstrap/Makefile rJava/jri/bootstrap/JRIBootstrap.h rJava/jri/bootstrap/JRIBootstrap.c rJava/jri/bootstrap/mft rJava/jri/bootstrap/JRIBootstrap.java rJava/jri/bootstrap/DelegatedClassLoader.java rJava/jri/bootstrap/DelegatedURLClassLoader.java rJava/jri/bootstrap/Boot.java rJava/jri/bootstrap/JRIClassLoader.java rJava/jri/configure rJava/jri/configure.win rJava/jri/RList.java rJava/jri/tools/ rJava/jri/tools/getsp.java rJava/jri/tools/getsp.class rJava/jri/tools/install-sh rJava/jri/tools/mkinstalldirs rJava/jri/tools/config.guess rJava/jri/tools/config.sub rJava/jri/RFactor.java rJava/jri/Makevars.win rJava/jri/RMainLoopCallbacks.java rJava/jri/LICENSE rJava/jri/package-info.java rJava/configure rJava/man/ rJava/man/jengine.Rd rJava/man/loader.Rd rJava/man/J.Rd rJava/man/show.Rd rJava/man/jserialize.Rd rJava/man/jrectRef-class.Rd rJava/man/jsimplify.Rd rJava/man/rep.Rd rJava/man/instanceof.Rd rJava/man/jclassName.Rd rJava/man/jcastToArray.Rd rJava/man/jinit.Rd rJava/man/new.Rd rJava/man/jcheck.Rd rJava/man/jobjRef-class.Rd rJava/man/jreflection.Rd rJava/man/jfloat-class.Rd rJava/man/javaImport.Rd rJava/man/clone.Rd rJava/man/jfloat.Rd rJava/man/jequals.Rd rJava/man/accessOp.Rd rJava/man/Exceptions.Rd rJava/man/jfield.Rd rJava/man/aslist.Rd rJava/man/jpackage.Rd rJava/man/with.Rd rJava/man/toJava.Rd rJava/man/jnull.Rd rJava/man/jcast.Rd rJava/man/jnew.Rd rJava/man/jmemprof.Rd rJava/man/jarrayRef-class.Rd rJava/man/java-tools.Rd rJava/man/jcall.Rd rJava/man/jarray.Rd rJava/configure.win sudo -u fink-bld [ENV] sh -c /tmp/fink.nJ0hB /tmp/fink.FBbo0 #!/bin/bash -ev export TMPDIR=/sw/build.build/cran-rjava-r30-0.9-6-1/rJava/tmp BIN_R=/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/bin/R pushd .. /sw/build.build/cran-rjava-r30-0.9-6-1 /sw/build.build/cran-rjava-r30-0.9-6-1/rJava $BIN_R --verbose CMD build --no-build-vignettes rJava WARNING: ignoring environment value of R_HOME * checking for file 'rJava/DESCRIPTION' ... OK * preparing 'rJava': * checking DESCRIPTION meta-information ... OK * cleaning src * checking for LF line-endings in source and make files * checking for empty or unneeded directories * building 'rJava_0.9-6.tar.gz' /bin/rm -rf /sw/build.build/root-cran-rjava-r30-0.9-6-1 /bin/mkdir -p /sw/build.build/root-cran-rjava-r30-0.9-6-1/sw /bin/mkdir -p /sw/build.build/root-cran-rjava-r30-0.9-6-1/DEBIAN /usr/sbin/chown -R fink-bld:fink-bld /sw/build.build/root-cran-rjava-r30-0.9-6-1 sudo -u fink-bld [ENV] sh -c /tmp/fink.qYkIS /tmp/fink.wrsSr #!/bin/sh -ev BIN_R=/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/bin/R mkdir -p /sw/build.build/root-cran-rjava-r30-0.9-6-1/sw/lib/R/3.0/site-library pushd /sw/build.build/cran-rjava-r30-0.9-6-1/rJava/.. && $BIN_R --verbose CMD install --library=/sw/build.build/root-cran-rjava-r30-0.9-6-1/sw/lib/R/3.0/site-library rJava /sw/build.build/cran-rjava-r30-0.9-6-1 /sw/build.build/cran-rjava-r30-0.9-6-1/rJava WARNING: ignoring environment value of R_HOME * installing *source* package 'rJava' ... ** package 'rJava' successfully unpacked and MD5 sums checked checking for gcc... flag-sort -r gcc -ffor-scope checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether flag-sort -r gcc -ffor-scope accepts -g... yes checking for flag-sort -r gcc -ffor-scope option to accept ISO C89... none needed checking how to run the C preprocessor... flag-sort -r gcc -ffor-scope -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... rm: conftest.dSYM: is a directory rm: conftest.dSYM: is a directory yes checking for sys/wait.h that is POSIX.1 compatible... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for string.h... (cached) yes checking sys/time.h usability... yes checking sys/time.h presence... yes checking for sys/time.h... yes checking for unistd.h... (cached) yes checking for an ANSI C-conforming const... yes checking whether time.h and sys/time.h may both be included... yes configure: checking whether flag-sort -r gcc -ffor-scope supports static inline... yes checking whether setjmp.h is POSIX.1 compatible... yes checking whether sigsetjmp is declared... yes checking whether siglongjmp is declared... yes checking Java support in R... present: interpreter : '/usr/bin/java' archiver : '/usr/bin/jar' compiler : '/usr/bin/javac' header prep.: '/usr/bin/javah' cpp flags : '-I/System/Library/Frameworks/JavaVM.framework/Headers' java libs : '-framework JavaVM' checking whether Java run-time works... yes checking whether -Xrs is supported... yes checking whether JNI programs can be compiled... yes checking JNI data types... ok checking whether JRI should be compiled (autodetect)... yes checking whether debugging output should be enabled... no checking whether memory profiling is desired... no checking whether threads support is requested... no checking whether callbacks support is requested... no checking whether JNI cache support is requested... no checking whether headless init is enabled... yes checking whether JRI is requested... yes configure: creating ./config.status config.status: creating src/Makevars config.status: creating R/zzz.R config.status: creating src/config.h === configuring in jri (/sw/build.build/cran-rjava-r30-0.9-6-1/rJava/jri) configure: running /bin/sh ./configure --disable-option-checking '--prefix=/usr/local' 'LDFLAGS=-L/sw/lib' 'CPPFLAGS=-I/sw/include' --cache-file=/dev/null --srcdir=. checking build system type... i386-apple-darwin13.3.0 checking host system type... i386-apple-darwin13.3.0 checking for gcc... flag-sort -r gcc -ffor-scope checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether flag-sort -r gcc -ffor-scope accepts -g... yes checking for flag-sort -r gcc -ffor-scope option to accept ISO C89... none needed checking how to run the C preprocessor... flag-sort -r gcc -ffor-scope -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... rm: conftest.dSYM: is a directory rm: conftest.dSYM: is a directory yes checking whether Java interpreter works... checking whether JNI programs can be compiled... yes checking whether JNI programs can be run... yes checking JNI data types... ok checking whether Rinterface.h exports R_CStackXXX variables... yes checking whether Rinterface.h exports R_SignalHandlers... yes configure: creating ./config.status config.status: creating src/Makefile config.status: creating Makefile config.status: creating run config.status: creating src/config.h ** libs flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I. -I/System/Library/Frameworks/JavaVM.framework/Headers -I/sw/include -fPIC -g -O3 -c Rglue.c -o Rglue.o flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I. -I/System/Library/Frameworks/JavaVM.framework/Headers -I/sw/include -fPIC -g -O3 -c arrayc.c -o arrayc.o flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I. -I/System/Library/Frameworks/JavaVM.framework/Headers -I/sw/include -fPIC -g -O3 -c callJNI.c -o callJNI.o flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I. -I/System/Library/Frameworks/JavaVM.framework/Headers -I/sw/include -fPIC -g -O3 -c callback.c -o callback.o flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I. -I/System/Library/Frameworks/JavaVM.framework/Headers -I/sw/include -fPIC -g -O3 -c fields.c -o fields.o flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I. -I/System/Library/Frameworks/JavaVM.framework/Headers -I/sw/include -fPIC -g -O3 -c init.c -o init.o init.c:105:6: warning: 'JNI_GetDefaultJavaVMInitArgs' is deprecated [-Wdeprecated-declarations] if(JNI_GetDefaultJavaVMInitArgs(&vm_args) != JNI_OK) { ^ /System/Library/Frameworks/JavaVM.framework/Headers/jni.h:1934:1: note: 'JNI_GetDefaultJavaVMInitArgs' declared here JNI_GetDefaultJavaVMInitArgs(void *args); ^ init.c:144:9: warning: 'JNI_CreateJavaVM' is deprecated [-Wdeprecated-declarations] res = JNI_CreateJavaVM(&jvm,(void **)&eenv, &vm_args); ^ /System/Library/Frameworks/JavaVM.framework/Headers/jni.h:1937:1: note: 'JNI_CreateJavaVM' declared here JNI_CreateJavaVM(JavaVM **pvm, void **penv, void *args); ^ init.c:310:5: warning: 'JNI_GetCreatedJavaVMs' is deprecated [-Wdeprecated-declarations] r=JNI_GetCreatedJavaVMs(jvms, 32, &vms); ^ /System/Library/Frameworks/JavaVM.framework/Headers/jni.h:1940:1: note: 'JNI_GetCreatedJavaVMs' declared here JNI_GetCreatedJavaVMs(JavaVM **, jsize, jsize *); ^ 3 warnings generated. flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I. -I/System/Library/Frameworks/JavaVM.framework/Headers -I/sw/include -fPIC -g -O3 -c jri_glue.c -o jri_glue.o flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I. -I/System/Library/Frameworks/JavaVM.framework/Headers -I/sw/include -fPIC -g -O3 -c loader.c -o loader.o flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I. -I/System/Library/Frameworks/JavaVM.framework/Headers -I/sw/include -fPIC -g -O3 -c otables.c -o otables.o flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I. -I/System/Library/Frameworks/JavaVM.framework/Headers -I/sw/include -fPIC -g -O3 -c rJava.c -o rJava.o rJava.c:200:15: warning: 'JNI_GetCreatedJavaVMs' is deprecated [-Wdeprecated-declarations] res = JNI_GetCreatedJavaVMs(&jvm, 1, &l); ^ /System/Library/Frameworks/JavaVM.framework/Headers/jni.h:1940:1: note: 'JNI_GetCreatedJavaVMs' declared here JNI_GetCreatedJavaVMs(JavaVM **, jsize, jsize *); ^ 1 warning generated. flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I. -I/System/Library/Frameworks/JavaVM.framework/Headers -I/sw/include -fPIC -g -O3 -c tools.c -o tools.o flag-sort -r gcc -ffor-scope -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/sw/lib -o rJava.dylib Rglue.o arrayc.o callJNI.o callback.o fields.o init.o jri_glue.o loader.o otables.o rJava.o tools.o -framework JavaVM -L/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/lib -lR -lintl -Wl,-framework -Wl,CoreFoundation (cd ../jri && make) make -C src JRI.jar /usr/bin/javac -target 1.4 -source 1.4 -d . ../Mutex.java ../RBool.java ../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java /usr/bin/javah -d . -classpath . org.rosuda.JRI.Rengine flag-sort -r gcc -ffor-scope -c -o Rengine.o Rengine.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g -O3 -I/System/Library/Frameworks/JavaVM.framework/Headers -fno-common -I/System/Library/Frameworks/JavaVM.framework/Headers -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include flag-sort -r gcc -ffor-scope -c -o jri.o jri.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g -O3 -I/System/Library/Frameworks/JavaVM.framework/Headers -fno-common -I/System/Library/Frameworks/JavaVM.framework/Headers -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include flag-sort -r gcc -ffor-scope -c -o Rcallbacks.o Rcallbacks.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g -O3 -I/System/Library/Frameworks/JavaVM.framework/Headers -fno-common -I/System/Library/Frameworks/JavaVM.framework/Headers -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include Rcallbacks.c:46:14: warning: 'JNI_GetCreatedJavaVMs' is deprecated [-Wdeprecated-declarations] res= JNI_GetCreatedJavaVMs(&jvm, 1, &l); ^ /System/Library/Frameworks/JavaVM.framework/Headers/jni.h:1940:1: note: 'JNI_GetCreatedJavaVMs' declared here JNI_GetCreatedJavaVMs(JavaVM **, jsize, jsize *); ^ 1 warning generated. flag-sort -r gcc -ffor-scope -c -o Rinit.o Rinit.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g -O3 -I/System/Library/Frameworks/JavaVM.framework/Headers -fno-common -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include flag-sort -r gcc -ffor-scope -c -o globals.o globals.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g -O3 -I/System/Library/Frameworks/JavaVM.framework/Headers -fno-common -I/System/Library/Frameworks/JavaVM.framework/Headers flag-sort -r gcc -ffor-scope -c -o rjava.o rjava.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g -O3 -I/System/Library/Frameworks/JavaVM.framework/Headers -fno-common -I/System/Library/Frameworks/JavaVM.framework/Headers flag-sort -r gcc -ffor-scope -o libjri.jnilib Rengine.o jri.o Rcallbacks.o Rinit.o globals.o rjava.o -L/sw/lib -L/sw/lib -dynamiclib -framework JavaVM -L/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/lib -lR /usr/bin/javac -target 1.4 -source 1.4 -d . ../Mutex.java ../RBool.java ../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java /usr/bin/jar fc JRI.jar org libjri.jnilib rm -f libjri.jnilib cp src/libjri.jnilib libjri.jnilib /usr/bin/javac -target 1.4 -source 1.4 -classpath src/JRI.jar -d examples examples/rtest.java Note: examples/rtest.java uses or overrides a deprecated API. Note: Recompile with -Xlint:deprecation for details. /usr/bin/javac -target 1.4 -source 1.4 -classpath src/JRI.jar -d examples examples/rtest2.java Note: examples/rtest2.java uses or overrides a deprecated API. Note: Recompile with -Xlint:deprecation for details. installing via 'install.libs.R' to /sw/build.build/root-cran-rjava-r30-0.9-6-1/sw/lib/R/3.0/site-library/rJava ** R ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded * DONE (rJava) install_name_tool -id /sw/lib/R/3.0/site-library/rJava/libs/rJava.dylib /sw/build.build/root-cran-rjava-r30-0.9-6-1/sw/lib/R/3.0/site-library/rJava/libs/rJava.dylib sudo -u fink-bld [ENV] sh -c /tmp/fink.5tPMK /bin/rm -f /sw/build.build/root-cran-rjava-r30-0.9-6-1/sw/info/dir /sw/build.build/root-cran-rjava-r30-0.9-6-1/sw/info/dir.old /sw/build.build/root-cran-rjava-r30-0.9-6-1/sw/share/info/dir /sw/build.build/root-cran-rjava-r30-0.9-6-1/sw/share/info/dir.old Reverting ownership of install dir to root Writing control file... Creating shlibs files... Writing md5sums file... env LANG=C LC_ALL=C dpkg-deb -b root-cran-rjava-r30-0.9-6-1 /sw/fink/10.9/stable/main/binary-darwin-x86_64/libs/rmods dpkg-deb: building package `cran-rjava-r30' in `/sw/fink/10.9/stable/main/binary-darwin-x86_64/libs/rmods/cran-rjava-r30_0.9-6-1_darwin-x86_64.deb'. Removing runtime build-lock... Removing build-lock package... /sw/bin/dpkg-lockwait -r fink-buildlock-cran-rjava-r30-0.9-6-1 (Reading database ... 108439 files and directories currently installed.) Removing fink-buildlock-cran-rjava-r30-0.9-6-1 ...