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- install.packages("partykit", dependencies=TRUE, repos='http://cran.rstudio.com/')
- Installing package into ‘/home/ranausman/R/x86_64-pc-linux-gnu-library/3.3’
- (as ‘lib’ is unspecified)
- Warning in install.packages :
- dependency ‘libcoin’ is not available
- also installing the dependencies ‘nloptr’, ‘lme4’, ‘pbkrtest’, ‘car’, ‘RWekajars’, ‘inum’, ‘rJava’, ‘AER’, ‘RWeka’, ‘psychotree’
- trying URL 'http://cran.rstudio.com/src/contrib/nloptr_1.0.4.tar.gz'
- Content type 'application/x-gzip' length 353957 bytes (345 KB)
- ==================================================
- downloaded 345 KB
- trying URL 'http://cran.rstudio.com/src/contrib/lme4_1.1-15.tar.gz'
- Content type 'application/x-gzip' length 3610706 bytes (3.4 MB)
- ==================================================
- downloaded 3.4 MB
- trying URL 'http://cran.rstudio.com/src/contrib/pbkrtest_0.4-7.tar.gz'
- Content type 'application/x-gzip' length 156406 bytes (152 KB)
- ==================================================
- downloaded 152 KB
- trying URL 'http://cran.rstudio.com/src/contrib/car_2.1-6.tar.gz'
- Content type 'application/x-gzip' length 627349 bytes (612 KB)
- ==================================================
- downloaded 612 KB
- trying URL 'http://cran.rstudio.com/src/contrib/RWekajars_3.9.2-1.tar.gz'
- Content type 'application/x-gzip' length 9995077 bytes (9.5 MB)
- ==================================================
- downloaded 9.5 MB
- trying URL 'http://cran.rstudio.com/src/contrib/inum_1.0-0.tar.gz'
- Content type 'application/x-gzip' length 8865 bytes
- ==================================================
- downloaded 8865 bytes
- trying URL 'http://cran.rstudio.com/src/contrib/rJava_0.9-9.tar.gz'
- Content type 'application/x-gzip' length 660454 bytes (644 KB)
- ==================================================
- downloaded 644 KB
- trying URL 'http://cran.rstudio.com/src/contrib/AER_1.2-5.tar.gz'
- Content type 'application/x-gzip' length 2179901 bytes (2.1 MB)
- ==================================================
- downloaded 2.1 MB
- trying URL 'http://cran.rstudio.com/src/contrib/RWeka_0.4-37.tar.gz'
- Content type 'application/x-gzip' length 413401 bytes (403 KB)
- ==================================================
- downloaded 403 KB
- trying URL 'http://cran.rstudio.com/src/contrib/psychotree_0.15-1.tar.gz'
- Content type 'application/x-gzip' length 204958 bytes (200 KB)
- ==================================================
- downloaded 200 KB
- trying URL 'http://cran.rstudio.com/src/contrib/partykit_1.2-0.tar.gz'
- Content type 'application/x-gzip' length 1236789 bytes (1.2 MB)
- ==================================================
- downloaded 1.2 MB
- ERROR: failed to lock directory ‘/home/ranausman/R/x86_64-pc-linux-gnu-library/3.3’ for modifying
- Try removing ‘/home/ranausman/R/x86_64-pc-linux-gnu-library/3.3/00LOCK-nloptr’
- Warning in install.packages :
- installation of package ‘nloptr’ had non-zero exit status
- ERROR: dependency ‘libcoin’ is not available for package ‘inum’
- * removing ‘/home/ranausman/R/x86_64-pc-linux-gnu-library/3.3/inum’
- Warning in install.packages :
- installation of package ‘inum’ had non-zero exit status
- * installing *source* package ‘rJava’ ...
- ** package ‘rJava’ successfully unpacked and MD5 sums checked
- checking for gcc... gcc -std=gnu99
- 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 -std=gnu99 accepts -g... yes
- checking for gcc -std=gnu99 option to accept ISO C89... none needed
- checking how to run the C preprocessor... gcc -std=gnu99 -E
- checking for grep that handles long lines and -e... /bin/grep
- checking for egrep... /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 -std=gnu99 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/lib/jvm/default-java/jre/bin/java'
- archiver : '/usr/lib/jvm/default-java/bin/jar'
- compiler : '/usr/lib/jvm/default-java/bin/javac'
- header prep.: '/usr/lib/jvm/default-java/bin/javah'
- cpp flags : '-I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux'
- java libs : '-L/usr/lib/jvm/default-java/jre/lib/amd64/server -ljvm'
- 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... 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 (/tmp/RtmpSZTcGA/R.INSTALL6f756c5c1206/rJava/jri)
- configure: running /bin/bash ./configure --disable-option-checking '--prefix=/usr/local' --cache-file=/dev/null --srcdir=.
- checking build system type... x86_64-unknown-linux-gnu
- checking host system type... x86_64-unknown-linux-gnu
- checking for gcc... gcc -std=gnu99
- 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 -std=gnu99 accepts -g... yes
- checking for gcc -std=gnu99 option to accept ISO C89... none needed
- checking how to run the C preprocessor... gcc -std=gnu99 -E
- checking for grep that handles long lines and -e... /bin/grep
- checking for egrep... /bin/grep -E
- checking for ANSI C header files... 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
- gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Rglue.c -o Rglue.o
- gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c arrayc.c -o arrayc.o
- gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c callJNI.c -o callJNI.o
- gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c callback.c -o callback.o
- gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fields.c -o fields.o
- gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o
- gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c jri_glue.c -o jri_glue.o
- gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c loader.c -o loader.o
- gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c otables.c -o otables.o
- gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rJava.c -o rJava.o
- gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tools.c -o tools.o
- gcc -std=gnu99 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o rJava.so Rglue.o arrayc.o callJNI.o callback.o fields.o init.o jri_glue.o loader.o otables.o rJava.o tools.o -L/usr/lib/jvm/default-java/jre/lib/amd64/server -ljvm -L/usr/lib/R/lib -lR
- (cd ../jri && make)
- make[1]: Entering directory '/tmp/RtmpSZTcGA/R.INSTALL6f756c5c1206/rJava/jri'
- make -C src JRI.jar
- make[2]: Entering directory '/tmp/RtmpSZTcGA/R.INSTALL6f756c5c1206/rJava/jri/src'
- /usr/lib/jvm/default-java/bin/javac -target 1.6 -source 1.6 -d . ../package-info.java ../RFactor.java ../REXP.java ../Rengine.java ../RList.java ../Mutex.java ../RConsoleOutputStream.java ../RMainLoopCallbacks.java ../RVector.java ../RBool.java
- warning: [options] bootstrap class path not set in conjunction with -source 1.6
- Note: Some input files use unchecked or unsafe operations.
- Note: Recompile with -Xlint:unchecked for details.
- 1 warning
- /usr/lib/jvm/default-java/bin/javah -d . -classpath . org.rosuda.JRI.Rengine
- gcc -std=gnu99 -c -o Rengine.o Rengine.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -I/usr/share/R/include -I/usr/share/R/include
- gcc -std=gnu99 -c -o jri.o jri.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -I/usr/share/R/include -I/usr/share/R/include
- gcc -std=gnu99 -c -o Rcallbacks.o Rcallbacks.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -I/usr/share/R/include -I/usr/share/R/include
- gcc -std=gnu99 -c -o Rinit.o Rinit.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -I/usr/share/R/include -I/usr/share/R/include
- gcc -std=gnu99 -c -o globals.o globals.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux
- gcc -std=gnu99 -c -o rjava.o rjava.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g -O2 -fdebug-prefix-map=/build/r-base-6WVosl/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux
- rjava.c: In function ‘RJava_request_lock’:
- rjava.c:22:3: warning: ignoring return value of ‘write’, declared with attribute warn_unused_result [-Wunused-result]
- write(ipcout, buf, sizeof(ptrlong));
- ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
- rjava.c: In function ‘RJava_clear_lock’:
- rjava.c:30:3: warning: ignoring return value of ‘write’, declared with attribute warn_unused_result [-Wunused-result]
- write(ipcout, buf, sizeof(ptrlong));
- ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
- rjava.c: In function ‘RJava_request_callback’:
- rjava.c:39:3: warning: ignoring return value of ‘write’, declared with attribute warn_unused_result [-Wunused-result]
- write(ipcout, buf, sizeof(ptrlong) * 3);
- ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
- rjava.c: In function ‘RJava_init_ctrl’:
- rjava.c:51:3: warning: ignoring return value of ‘write’, declared with attribute warn_unused_result [-Wunused-result]
- write(ipcout, buf, sizeof(ptrlong));
- ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
- rjava.c:52:3: warning: ignoring return value of ‘read’, declared with attribute warn_unused_result [-Wunused-result]
- read(resin, buf, sizeof(ptrlong) * 2);
- ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
- gcc -std=gnu99 -o libjri.so Rengine.o jri.o Rcallbacks.o Rinit.o globals.o rjava.o -shared -L/usr/lib/jvm/default-java/jre/lib/amd64/server -ljvm -Wl,--export-dynamic -fopenmp -L/usr/lib/R/lib -lR -lpcre -llzma -lbz2 -lz -lrt -ldl -lm -licuuc -licui18n
- /usr/lib/jvm/default-java/bin/javac -target 1.6 -source 1.6 -d . ../package-info.java ../RFactor.java ../REXP.java ../RList.java ../Mutex.java ../RVector.java ../RBool.java ../RConsoleOutputStream.java ../RMainLoopCallbacks.java ../Rengine.java
- warning: [options] bootstrap class path not set in conjunction with -source 1.6
- Note: Some input files use unchecked or unsafe operations.
- Note: Recompile with -Xlint:unchecked for details.
- 1 warning
- /usr/lib/jvm/default-java/bin/jar fc JRI.jar org libjri.so
- make[2]: Leaving directory '/tmp/RtmpSZTcGA/R.INSTALL6f756c5c1206/rJava/jri/src'
- rm -f libjri.so
- cp src/libjri.so libjri.so
- /usr/lib/jvm/default-java/bin/javac -target 1.6 -source 1.6 -classpath src/JRI.jar -d examples examples/rtest.java
- warning: [options] bootstrap class path not set in conjunction with -source 1.6
- Note: examples/rtest.java uses or overrides a deprecated API.
- Note: Recompile with -Xlint:deprecation for details.
- 1 warning
- /usr/lib/jvm/default-java/bin/javac -target 1.6 -source 1.6 -classpath src/JRI.jar -d examples examples/rtest2.java
- warning: [options] bootstrap class path not set in conjunction with -source 1.6
- Note: examples/rtest2.java uses or overrides a deprecated API.
- Note: Recompile with -Xlint:deprecation for details.
- 1 warning
- make[1]: Leaving directory '/tmp/RtmpSZTcGA/R.INSTALL6f756c5c1206/rJava/jri'
- installing via 'install.libs.R' to /home/ranausman/R/x86_64-pc-linux-gnu-library/3.3/rJava
- ** R
- ** inst
- ** preparing package for lazy loading
- ** help
- *** installing help indices
- ** building package indices
- ** testing if installed package can be loaded
- * DONE (rJava)
- ERROR: dependency ‘nloptr’ is not available for package ‘lme4’
- * removing ‘/home/ranausman/R/x86_64-pc-linux-gnu-library/3.3/lme4’
- Warning in install.packages :
- installation of package ‘lme4’ had non-zero exit status
- * installing *source* package ‘RWekajars’ ...
- ** package ‘RWekajars’ successfully unpacked and MD5 sums checked
- ** R
- ** inst
- ** preparing package for lazy loading
- ** help
- No man pages found in package ‘RWekajars’
- *** installing help indices
- ** building package indices
- ** testing if installed package can be loaded
- * DONE (RWekajars)
- ERROR: dependencies ‘libcoin’, ‘inum’ are not available for package ‘partykit’
- * removing ‘/home/ranausman/R/x86_64-pc-linux-gnu-library/3.3/partykit’
- Warning in install.packages :
- installation of package ‘partykit’ had non-zero exit status
- ERROR: dependency ‘lme4’ is not available for package ‘pbkrtest’
- * removing ‘/home/ranausman/R/x86_64-pc-linux-gnu-library/3.3/pbkrtest’
- Warning in install.packages :
- installation of package ‘pbkrtest’ had non-zero exit status
- * installing *source* package ‘RWeka’ ...
- ** package ‘RWeka’ successfully unpacked and MD5 sums checked
- ** R
- ** inst
- ** preparing package for lazy loading
- ** help
- *** installing help indices
- ** building package indices
- ** installing vignettes
- ** testing if installed package can be loaded
- * DONE (RWeka)
- ERROR: dependency ‘partykit’ is not available for package ‘psychotree’
- * removing ‘/home/ranausman/R/x86_64-pc-linux-gnu-library/3.3/psychotree’
- Warning in install.packages :
- installation of package ‘psychotree’ had non-zero exit status
- ERROR: dependency ‘pbkrtest’ is not available for package ‘car’
- * removing ‘/home/ranausman/R/x86_64-pc-linux-gnu-library/3.3/car’
- Warning in install.packages :
- installation of package ‘car’ had non-zero exit status
- ERROR: dependency ‘car’ is not available for package ‘AER’
- * removing ‘/home/ranausman/R/x86_64-pc-linux-gnu-library/3.3/AER’
- Warning in install.packages :
- installation of package ‘AER’ had non-zero exit status
- The downloaded source packages are in
- ‘/tmp/Rtmp9cCiac/downloaded_packages’
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