Mock Version: 3.5 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/R-rJava.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1672221955.748682/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=timeout=0uid=1000gid=135user='mockbuild'nspawn_args=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.88zvpwf0:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']unshare_net=TrueprintOutput=True) Using nspawn with args ['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.88zvpwf0:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11'] Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', 'fdf24c176a2646d4921649d0191386df', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1672221955.748682/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.88zvpwf0:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;\\007"', '--setenv=PS1= \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/R-rJava.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1668729600 Wrote: /builddir/build/SRPMS/R-rJava-1.0.6-1.fc38.src.rpm Child return code was: 0 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/R-rJava.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1672221955.748682/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=timeout=0uid=1000gid=135user='mockbuild'nspawn_args=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.88zvpwf0:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']unshare_net=TrueprintOutput=True) Using nspawn with args ['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.88zvpwf0:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11'] Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', '9fa3cec4518d42dd8372390c5684393f', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1672221955.748682/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.88zvpwf0:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;\\007"', '--setenv=PS1= \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/R-rJava.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1668729600 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.sWTRdf + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf rJava + /usr/bin/mkdir -p rJava + cd rJava + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/rJava_1.0-6.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + rm rJava/inst/jri/JRIEngine.jar rJava/inst/jri/REngine.jar + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.4ws6kv + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd rJava + find rJava/jri/REngine -name Makefile -exec sed -i s/1.6/1.8/g '{}' ';' + /usr/bin/make -O -j2 V=1 VERBOSE=1 -C rJava/jri/REngine make: Entering directory '/builddir/build/BUILD/rJava/rJava/jri/REngine' javac -d . -source 1.8 -target 1.8 MutableREXP.java REXP.java REXPDouble.java REXPEnvironment.java REXPExpressionVector.java REXPFactor.java REXPGenericVector.java REXPInteger.java REXPJavaReference.java REXPLanguage.java REXPList.java REXPLogical.java REXPMismatchException.java REXPNull.java REXPRaw.java REXPReference.java REXPS4.java REXPString.java REXPSymbol.java REXPUnknown.java REXPVector.java REXPWrapper.java REngine.java REngineCallbacks.java REngineConsoleHistoryInterface.java REngineEvalException.java REngineException.java REngineInputInterface.java REngineOutputInterface.java REngineStdOutput.java REngineUIInterface.java RFactor.java RList.java package-info.java jar fc REngine.jar org rm -rf org make: Leaving directory '/builddir/build/BUILD/rJava/rJava/jri/REngine' warning: [options] bootstrap class path not set in conjunction with -source 8 REngine.java:33: warning: [removal] Boolean(boolean) in Boolean has been deprecated and marked for removal Object o = m.invoke(null, new Object[] { args, callbacks, new Boolean(runREPL) }); ^ REXPReference.java:23: warning: [removal] Long(long) in Long has been deprecated and marked for removal this(eng, new Long(handle)); ^ Note: REXPReference.java uses or overrides a deprecated API. Note: Recompile with -Xlint:deprecation for details. Note: Some input files use unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. 3 warnings make: Entering directory '/builddir/build/BUILD/rJava/rJava/jri/REngine' javac -d . -cp REngine.jar Rserve/RConnection.java Rserve/RFileInputStream.java Rserve/RFileOutputStream.java Rserve/RSession.java Rserve/RserveException.java Rserve/StartRserve.java Rserve/package-info.java Rserve/protocol/REXPFactory.java Rserve/protocol/RPacket.java Rserve/protocol/RTalk.java Rserve/protocol/jcrypt.java jar fc Rserve.jar org rm -rf org make: Leaving directory '/builddir/build/BUILD/rJava/rJava/jri/REngine' Note: Rserve/RConnection.java uses or overrides a deprecated API. Note: Recompile with -Xlint:deprecation for details. Note: Rserve/protocol/REXPFactory.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. + /usr/bin/make -O -j2 V=1 VERBOSE=1 -C rJava/jri/REngine/JRI make: Entering directory '/builddir/build/BUILD/rJava/rJava/jri/REngine/JRI' rm -rf org javac -source 1.8 -target 1.8 -classpath ../REngine.jar -d . ../../Mutex.java ../../RBool.java ../../RConsoleOutputStream.java ../../REXP.java ../../RFactor.java ../../RList.java ../../RMainLoopCallbacks.java ../../RVector.java ../../Rengine.java ../../package-info.java JRIEngine.java jar fc JRIEngine.jar org make: Leaving directory '/builddir/build/BUILD/rJava/rJava/jri/REngine/JRI' warning: [options] bootstrap class path not set in conjunction with -source 8 ../../RFactor.java:42: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal id.addElement(new Integer(i[j]-base)); ^ ../../RFactor.java:56: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal id.addElement(new Integer(i)); ^ JRIEngine.java:165: warning: [removal] Long(long) in Long has been deprecated and marked for removal globalEnv = new REXPReference(this, new Long(rni.rniSpecialObject(Rengine.SO_GlobalEnv))); ^ JRIEngine.java:166: warning: [removal] Long(long) in Long has been deprecated and marked for removal nullValueRef = new REXPReference(this, new Long(R_NilValue = rni.rniSpecialObject(Rengine.SO_NilValue))); ^ JRIEngine.java:167: warning: [removal] Long(long) in Long has been deprecated and marked for removal emptyEnv = new REXPReference(this, new Long(rni.rniSpecialObject(Rengine.SO_EmptyEnv))); ^ JRIEngine.java:168: warning: [removal] Long(long) in Long has been deprecated and marked for removal baseEnv = new REXPReference(this, new Long(rni.rniSpecialObject(Rengine.SO_BaseEnv))); ^ JRIEngine.java:202: warning: [removal] Long(long) in Long has been deprecated and marked for removal globalEnv = new REXPReference(this, new Long(rni.rniSpecialObject(Rengine.SO_GlobalEnv))); ^ JRIEngine.java:203: warning: [removal] Long(long) in Long has been deprecated and marked for removal nullValueRef = new REXPReference(this, new Long(R_NilValue = rni.rniSpecialObject(Rengine.SO_NilValue))); ^ JRIEngine.java:204: warning: [removal] Long(long) in Long has been deprecated and marked for removal emptyEnv = new REXPReference(this, new Long(rni.rniSpecialObject(Rengine.SO_EmptyEnv))); ^ JRIEngine.java:205: warning: [removal] Long(long) in Long has been deprecated and marked for removal baseEnv = new REXPReference(this, new Long(rni.rniSpecialObject(Rengine.SO_BaseEnv))); ^ JRIEngine.java:230: warning: [removal] Long(long) in Long has been deprecated and marked for removal globalEnv = new REXPReference(this, new Long(rni.rniSpecialObject(Rengine.SO_GlobalEnv))); ^ JRIEngine.java:231: warning: [removal] Long(long) in Long has been deprecated and marked for removal nullValueRef = new REXPReference(this, new Long(R_NilValue = rni.rniSpecialObject(Rengine.SO_NilValue))); ^ JRIEngine.java:232: warning: [removal] Long(long) in Long has been deprecated and marked for removal emptyEnv = new REXPReference(this, new Long(rni.rniSpecialObject(Rengine.SO_EmptyEnv))); ^ JRIEngine.java:233: warning: [removal] Long(long) in Long has been deprecated and marked for removal baseEnv = new REXPReference(this, new Long(rni.rniSpecialObject(Rengine.SO_BaseEnv))); ^ JRIEngine.java:252: warning: [removal] Long(long) in Long has been deprecated and marked for removal ref = new REXPReference(this, new Long(pr)); ^ JRIEngine.java:285: warning: [removal] Long(long) in Long has been deprecated and marked for removal ref = new REXPReference(this, new Long(pr)); ^ JRIEngine.java:333: warning: [removal] Long(long) in Long has been deprecated and marked for removal ref = new REXPReference(this, new Long(pr)); ^ JRIEngine.java:513: warning: [removal] Long(long) in Long has been deprecated and marked for removal return new REXPReference(this, new Long(ptr)); ^ JRIEngine.java:686: warning: [removal] Long(long) in Long has been deprecated and marked for removal ref = new REXPReference(this, new Long(pr)); ^ JRIEngine.java:713: warning: [removal] Long(long) in Long has been deprecated and marked for removal ref = new REXPReference(this, new Long(p)); ^ JRIEngine.java:777: warning: [removal] Long(long) in Long has been deprecated and marked for removal ref = new REXPReference( this, new Long(p) ) ; ^ Note: Some input files use or override a deprecated API. Note: Recompile with -Xlint:deprecation for details. Note: Some input files use unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. 22 warnings + mv rJava/jri/REngine/REngine.jar rJava/jri/REngine/JRI/JRIEngine.jar rJava/inst/jri/ + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.OPg6gW + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64 ++ dirname /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd rJava + mkdir -p /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64/usr/lib64/R/library + /usr/bin/R CMD INSTALL -l /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64/usr/lib64/R/library rJava * installing *source* package 'rJava' ... files 'inst/jri/JRIEngine.jar', 'inst/jri/REngine.jar', 'jri/REngine/JRI/Makefile', 'jri/REngine/JRI/test/Makefile', 'jri/REngine/Makefile', 'jri/REngine/Rserve/Makefile', 'jri/REngine/Rserve/test/Makefile' have the wrong MD5 checksums ** using staged installation checking for gcc... gcc 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 gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -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... 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 gcc 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.: '' cpp flags : '-I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux' java libs : '-L/usr/lib/jvm/jre/lib/server -ljvm' checking whether Java run-time works... yes checking whether -Xrs is supported... yes checking whether -Xrs will be used... yes checking whether JVM will be loaded dynamically... no checking whether JNI programs can be compiled... yes checking whether JNI programs run... 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... no 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 (/builddir/build/BUILD/rJava/rJava/jri) configure: running /bin/sh ./configure --disable-option-checking '--prefix=/usr/local' 'CC=gcc' 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' 'LDFLAGS=-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes' --cache-file=/dev/null --srcdir=. checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking for gcc... gcc 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 the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for sys/time.h... yes checking for sys/types.h... (cached) yes checking for sys/select.h... yes checking Java version... 17.0.6-ea checking Java compatibility version (integer)... 17 checking whether actually works... no checking whether javah was replaced by javac -h... yes checking for target flags... -h . -target 1.8 -source 1.8 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 gcc -I"/usr/include/R" -DNDEBUG -I. -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/local/include -fpic -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c Rglue.c -o Rglue.o Rglue.c:1051:13: warning: 'new_jrectRef' defined but not used [-Wunused-function] 1051 | static SEXP new_jrectRef(JNIEnv *env, jobject a, const char *sig, SEXP dim ) { | ^~~~~~~~~~~~ gcc -I"/usr/include/R" -DNDEBUG -I. -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/local/include -fpic -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c arrayc.c -o arrayc.o gcc -I"/usr/include/R" -DNDEBUG -I. -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/local/include -fpic -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c callJNI.c -o callJNI.o gcc -I"/usr/include/R" -DNDEBUG -I. -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/local/include -fpic -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c callback.c -o callback.o gcc -I"/usr/include/R" -DNDEBUG -I. -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/local/include -fpic -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c fields.c -o fields.o fields.c: In function 'inputToClass': fields.c:91:13: warning: unused variable 'c' [-Wunused-variable] 91 | char *c = clnam; | ^ fields.c: In function 'RgetField': fields.c:149:9: warning: unused variable 'clnam' [-Wunused-variable] 149 | char *clnam = 0, *detsig = 0; | ^~~~~ gcc -I"/usr/include/R" -DNDEBUG -I. -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/local/include -fpic -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c init.c -o init.o gcc -I"/usr/include/R" -DNDEBUG -I. -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/local/include -fpic -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c jri_glue.c -o jri_glue.o gcc -I"/usr/include/R" -DNDEBUG -I. -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/local/include -fpic -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c loader.c -o loader.o gcc -I"/usr/include/R" -DNDEBUG -I. -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/local/include -fpic -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c otables.c -o otables.o gcc -I"/usr/include/R" -DNDEBUG -I. -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/local/include -fpic -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c rJava.c -o rJava.o gcc -I"/usr/include/R" -DNDEBUG -I. -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/local/include -fpic -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c registration.c -o registration.o gcc -I"/usr/include/R" -DNDEBUG -I. -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/local/include -fpic -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -c tools.c -o tools.o gcc -shared -L/usr/lib64/R/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o rJava.so Rglue.o arrayc.o callJNI.o callback.o fields.o init.o jri_glue.o loader.o otables.o rJava.o registration.o tools.o -L/usr/lib/jvm/jre/lib/server -ljvm -L/usr/lib64/R/lib -lR (cd ../jri && make) make[1]: Entering directory '/builddir/build/BUILD/rJava/rJava/jri' make -C src JRI.jar make[2]: Entering directory '/builddir/build/BUILD/rJava/rJava/jri/src' /usr/bin/javac -h . -target 1.8 -source 1.8 -d . ../Mutex.java ../RBool.java ../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java warning: [options] bootstrap class path not set in conjunction with -source 8 ../RFactor.java:42: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal id.addElement(new Integer(i[j]-base)); ^ ../RFactor.java:56: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal id.addElement(new Integer(i)); ^ Note: ../REXP.java uses or overrides a deprecated API. Note: Recompile with -Xlint:deprecation for details. Note: Some input files use unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. 3 warnings if [ -n "" ]; then -d . -classpath . org.rosuda.JRI.Rengine; fi gcc -c -o Rengine.o Rengine.c -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -DHAVE_CONFIG_H -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -fpic -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/include/R -I/usr/include/R gcc -c -o jri.o jri.c -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -DHAVE_CONFIG_H -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -fpic -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/include/R -I/usr/include/R gcc -c -o Rcallbacks.o Rcallbacks.c -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -DHAVE_CONFIG_H -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -fpic -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/include/R -I/usr/include/R gcc -c -o Rinit.o Rinit.c -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -DHAVE_CONFIG_H -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -fpic -I/usr/include/R -I/usr/include/R gcc -c -o globals.o globals.c -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -DHAVE_CONFIG_H -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -fpic -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux gcc -c -o rjava.o rjava.c -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -DHAVE_CONFIG_H -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -fpic -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux gcc -o libjri.so Rengine.o jri.o Rcallbacks.o Rinit.o globals.o rjava.o -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -shared -L/usr/lib/jvm/jre/lib/server -ljvm -Wl,--export-dynamic -fopenmp -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -L/usr/lib64/R/lib -lR -ltre -lpcre2-8 -llzma -lbz2 -lz -lrt -ldl -lm -licuuc -licui18n /usr/bin/javac -h . -target 1.8 -source 1.8 -d . ../Mutex.java ../RBool.java ../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java warning: [options] bootstrap class path not set in conjunction with -source 8 ../RFactor.java:42: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal id.addElement(new Integer(i[j]-base)); ^ ../RFactor.java:56: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal id.addElement(new Integer(i)); ^ Note: ../REXP.java uses or overrides a deprecated API. Note: Recompile with -Xlint:deprecation for details. Note: Some input files use unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. 3 warnings /usr/bin/jar fc JRI.jar org libjri.so make[2]: Leaving directory '/builddir/build/BUILD/rJava/rJava/jri/src' rm -f libjri.so cp src/libjri.so libjri.so /usr/bin/javac -h . -target 1.8 -source 1.8 -classpath src/JRI.jar -d examples examples/rtest.java warning: [options] bootstrap class path not set in conjunction with -source 8 Note: examples/rtest.java uses or overrides a deprecated API. Note: Recompile with -Xlint:deprecation for details. 1 warning /usr/bin/javac -h . -target 1.8 -source 1.8 -classpath src/JRI.jar -d examples examples/rtest2.java warning: [options] bootstrap class path not set in conjunction with -source 8 Note: examples/rtest2.java uses or overrides a deprecated API. Note: Recompile with -Xlint:deprecation for details. 1 warning make[1]: Leaving directory '/builddir/build/BUILD/rJava/rJava/jri' installing via 'install.libs.R' to /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64/usr/lib64/R/library/00LOCK-rJava/00new/rJava ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'rJava' finding HTML links ... done Exceptions html J html accessOp html aslist html clone html instanceof html jarray html jarrayRef-class html java-tools html javaImport html jcall html jcast html jcastToArray html jcheck html jclassName html jengine html jequals html jfield html jfloat-class html jfloat html jgc html jinit html jmemprof html jnew html jnull html jobjRef-class html jpackage html jrectRef-class html jreflection html jserialize html jsimplify html loader html new html rep html show html toJava html with html ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rJava) + test -d rJava/src + cd rJava/src + rm -f Rglue.o arrayc.o callJNI.o callback.o fields.o init.o jri_glue.o loader.o otables.o rJava.o registration.o tools.o rJava.so + rm -f /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64/usr/lib64/R/library/R.css + mkdir -p /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64/usr/share/javadoc + mv /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64/usr/lib64/R/library/rJava/javadoc /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64/usr/share/javadoc/R-rJava + ln -s /usr/share/javadoc/R-rJava /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64/usr/lib64/R/library/rJava/javadoc + /usr/bin/find-debuginfo -j2 --strict-build-id -m -i --build-id-seed 1.0.6-1.fc38 --unique-debug-suffix -1.0.6-1.fc38.x86_64 --unique-debug-src-base R-rJava-1.0.6-1.fc38.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/rJava extracting debug info from /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64/usr/lib64/R/library/rJava/jri/libjri.so extracting debug info from /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64/usr/lib64/R/library/rJava/libs/rJava.so original debug info size: 492kB, size after compression: 348kB /usr/bin/sepdebugcrcfix: Updated 2 CRC32s, 0 CRC32s did match. 371 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/check-rpaths + /usr/lib/rpm/redhat/brp-mangle-shebangs mangling shebang in /usr/lib64/R/library/rJava/jri/run from /bin/sh to #!/usr/bin/sh + /usr/lib/rpm/brp-remove-la-files + /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 + /usr/lib/rpm/redhat/brp-python-hardlink Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.Zv0CFv + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd rJava + export LANG=C.UTF-8 + LANG=C.UTF-8 + export _R_CHECK_FORCE_SUGGESTS_=0 + _R_CHECK_FORCE_SUGGESTS_=0 + /usr/bin/R CMD check --ignore-vignettes --no-examples rJava * using log directory ‘/builddir/build/BUILD/rJava/rJava.Rcheck’ * using R version 4.2.2 (2022-10-31) * using platform: x86_64-redhat-linux-gnu (64-bit) * using session charset: UTF-8 * using options ‘--no-examples --ignore-vignettes’ * checking for file ‘rJava/DESCRIPTION’ ... OK * this is package ‘rJava’ version ‘1.0-6’ * checking package namespace information ... OK * checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib: cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES' Warning: unable to access index for repository https://bioconductor.org/packages/3.16/bioc/src/contrib: cannot open URL 'https://bioconductor.org/packages/3.16/bioc/src/contrib/PACKAGES' Warning: unable to access index for repository https://bioconductor.org/packages/3.16/data/annotation/src/contrib: cannot open URL 'https://bioconductor.org/packages/3.16/data/annotation/src/contrib/PACKAGES' Warning: unable to access index for repository https://bioconductor.org/packages/3.16/data/experiment/src/contrib: cannot open URL 'https://bioconductor.org/packages/3.16/data/experiment/src/contrib/PACKAGES' OK * checking if this is a source package ... NOTE Found the following apparent object files/libraries: inst/jri/libjri.so jri/libjri.so jri/src/Rcallbacks.o jri/src/Rengine.o jri/src/Rinit.o jri/src/globals.o jri/src/jri.o jri/src/libjri.so jri/src/rjava.o Object files/libraries should not be included in a source package. * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘rJava’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE Found the following possibly unsafe calls: File ‘rJava/R/import.R’: unlockBinding(IMPORTER, env = env) assignInNamespace(IMPORTER, importer, envir = env) File ‘rJava/R/jinit.R’: unlockBinding(x, .env) unlockBinding(x, pe) * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking line endings in shell scripts ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking compilation flags in Makevars ... NOTE Package has both ‘src/Makevars.in’ and ‘src/Makevars’. Installation with --no-configure' is unlikely to work. If you intended ‘src/Makevars’ to be used on Windows, rename it to ‘src/Makevars.win’ otherwise remove it. If ‘configure’ created ‘src/Makevars’, you need a ‘cleanup’ script. * checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements. * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK * checking use of PKG_*FLAGS in Makefiles ... OK * checking include directives in Makefiles ... NOTE Found the following Makefile(s) with an include directive with a pathname using R_HOME: jri/src/Makefile.win jri/src/win32/Makefile src/jvm-w32/Makefile Even though not recommended, variable R_HOME may contain spaces. Makefile directives use space as a separator and there is no portable way to quote/escape the space in Make rules and directives. However, one can and should quote pathnames when passed from Makefile to the shell, and this can be done specifically when invoking Make recursively. It is therefore recommended to use the Make '-f' option to include files in directories specified using R_HOME. This option can be specified multiple times to include multiple Makefiles. Note that 'Makeconf' is included automatically into top-level makefile of a package. More information can be found in 'Writing R Extensions'. * checking compiled code ... NOTE Note: information on .o files is not available File ‘/builddir/build/BUILD/rJava/rJava.Rcheck/rJava/libs/rJava.so’: Found ‘_exit’, possibly from ‘_exit’ (C) Found ‘stderr’, possibly from ‘stderr’ (C) Found ‘stdout’, possibly from ‘stdout’ (C) File ‘rJava/libs/rJava.so’: Found non-API calls to R: ‘R_CStackLimit’, ‘R_CStackStart’ Compiled code should not call entry points which might terminate R nor write to stdout/stderr instead of to the console, nor use Fortran I/O nor system RNGs. The detected symbols are linked into the code but might come from libraries and not actually be called. Compiled code should not call non-API entry points in R. See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual. * checking examples ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 6 NOTEs See ‘/builddir/build/BUILD/rJava/rJava.Rcheck/00check.log’ for details. + RPM_EC=0 ++ jobs -p + exit 0 Processing files: R-rJava-1.0.6-1.fc38.x86_64 warning: absolute symlink: /usr/lib64/R/library/rJava/javadoc -> /usr/share/javadoc/R-rJava Provides: R(rJava) = 1.0.6 R-rJava = 1.0.6-1.fc38 R-rJava(x86-64) = 1.0.6-1.fc38 libjri.so()(64bit) Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /usr/bin/sh R(ABI) = 4.2 R(methods) R-core >= 3.6.0 libR.so()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.4)(64bit) libjvm.so()(64bit) libjvm.so(SUNWprivate_1.1)(64bit) rtld(GNU_HASH) Recommends: R-rJava-javadoc = 1.0.6-1.fc38 Processing files: R-rJava-javadoc-1.0.6-1.fc38.noarch Provides: R-rJava-javadoc = 1.0.6-1.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: R-rJava-debugsource-1.0.6-1.fc38.x86_64 Provides: R-rJava-debugsource = 1.0.6-1.fc38 R-rJava-debugsource(x86-64) = 1.0.6-1.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: R-rJava-debuginfo-1.0.6-1.fc38.x86_64 Provides: R-rJava-debuginfo = 1.0.6-1.fc38 R-rJava-debuginfo(x86-64) = 1.0.6-1.fc38 debuginfo(build-id) = 602863fd55df6cd83f94ee24f089eaa24b1b30e9 debuginfo(build-id) = c6c678483af07b8ee9b71bd2ff22e1262a105412 libjri.so-1.0.6-1.fc38.x86_64.debug()(64bit) Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: R-rJava-debugsource(x86-64) = 1.0.6-1.fc38 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64 Wrote: /builddir/build/RPMS/R-rJava-1.0.6-1.fc38.x86_64.rpm Wrote: /builddir/build/RPMS/R-rJava-debuginfo-1.0.6-1.fc38.x86_64.rpm Wrote: /builddir/build/RPMS/R-rJava-javadoc-1.0.6-1.fc38.noarch.rpm Wrote: /builddir/build/RPMS/R-rJava-debugsource-1.0.6-1.fc38.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.xXn5yB + umask 022 + cd /builddir/build/BUILD + cd rJava + /usr/bin/rm -rf /builddir/build/BUILDROOT/R-rJava-1.0.6-1.fc38.x86_64 + RPM_EC=0 ++ jobs -p + exit 0 Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.ZCJO8q + umask 022 + cd /builddir/build/BUILD + rm -rf rJava rJava.gemspec + RPM_EC=0 ++ jobs -p + exit 0 RPM build warnings: absolute symlink: /usr/lib64/R/library/rJava/javadoc -> /usr/share/javadoc/R-rJava Child return code was: 0