I am using my R studio via an EC2 instance in AWS.
I tried to install package =tidyverse in R stduio. but while installation i am getting an error
Warning in install.packages : installation of package ‘tidyverse’ had non-zero exit status
The downloaded source packages are in ‘/tmp/RtmpcH9Dy9/downloaded_packages’
Could anyone tell me how I could figure this out? Any lead would be helpful
EDIT: Console output
> install.packages("tidyverse")
> Installing package into ‘/home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4’
> (as ‘lib’ is unspecified)
> also installing the dependencies ‘mnormt’, ‘psych’, ‘broom’, ‘haven’, ‘modelr’, ‘readr’
>
> trying URL 'https://cran.rstudio.com/src/contrib/mnormt_1.5-5.tar.gz'
> Content type 'application/x-gzip' length 37169 bytes (36 KB)
> ==================================================
> downloaded 36 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/psych_1.7.8.tar.gz'
> Content type 'application/x-gzip' length 3311758 bytes (3.2 MB)
> ==================================================
> downloaded 3.2 MB
>
> trying URL 'https://cran.rstudio.com/src/contrib/broom_0.4.3.tar.gz'
> Content type 'application/x-gzip' length 1397648 bytes (1.3 MB)
> ==================================================
> downloaded 1.3 MB
>
> trying URL 'https://cran.rstudio.com/src/contrib/haven_1.1.1.tar.gz'
> Content type 'application/x-gzip' length 189925 bytes (185 KB)
> ==================================================
> downloaded 185 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/modelr_0.1.1.tar.gz'
> Content type 'application/x-gzip' length 83629 bytes (81 KB)
> ==================================================
> downloaded 81 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/readr_1.1.1.tar.gz'
> Content type 'application/x-gzip' length 233793 bytes (228 KB)
> ==================================================
> downloaded 228 KB
>
> trying URL 'https://cran.rstudio.com/src/contrib/tidyverse_1.2.1.tar.gz'
> Content type 'application/x-gzip' length 61647 bytes (60 KB)
> ==================================================
> downloaded 60 KB
>
> * installing *source* package ‘mnormt’ ...
> ** package ‘mnormt’ successfully unpacked and MD5 sums checked
> ** libs
> gfortran -m64 -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -I/usr/lib64/gfortran/modules -c biv-nt.f -o biv-nt.o
> f951: Warning: Nonexistent include directory ‘/usr/lib64/gfortran/modules’ [-Wmissing-include-dirs]
> biv-nt.f:371:11:
>
> hs = sign( one, dh - r*dk )
> 1
> Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion]
> biv-nt.f:372:11:
>
> ks = sign( one, dk - r*dh )
> 1
> Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion]
> gfortran -m64 -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -I/usr/lib64/gfortran/modules -c sadmvnt.f -o sadmvnt.o
> f951: Warning: Nonexistent include directory ‘/usr/lib64/gfortran/modules’ [-Wmissing-include-dirs]
> sadmvnt.f:976:3:
>
> 10 END DO
> 1
> Warning: Label 10 at (1) defined but not used
> sadmvnt.f:80:15:
>
> INFORM = MVNNIT( N, CORREL, LOWER, UPPER, INFIN, INFIS, D, E )
> 1
> Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion]
> sadmvnt.f:217:38:
>
> IF ( MINCLS .LT. 0 ) SBRGNS = WORK(LENWRK)
> 1
> Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion]
> sadmvnt.f:275:21:
>
> RGNCLS = RGNCLS*(MESH(DIVAXN)+1)/MESH(DIVAXN)
> 1
> Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion]
> sadmvnt.f:276:21:
>
> NWRGNS = NWRGNS*(MESH(DIVAXN)+1)/MESH(DIVAXN)
> 1
> Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion]
> sadmvnt.f:1274:24:
>
> POINTS = PONTRS(SUBTMP)
> 1
> Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion]
> sadmvnt.f:1275:24:
>
> POINTP = PONTRS(SUBTMP+1)
> 1
> Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion]
> sadmvnt.f:1283:21:
>
> POINTS = PONTRS(SUBTMP)
> 1
> Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion]
> sadmvnt.f:1303:21:
>
> POINTS = PONTRS(SUBTMP)
> 1
> Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion]
> sadmvnt.f:324:15:
>
> TOP = PONTRS(1)
> 1
> Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion]
> sadmvnt.f:331:21:
>
> RGNCLS = RGNCLS*MESH(I)
> 1
> Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion]
> sadmvnt.f:336:18:
>
> RGNCLS = RGNCLS*(MESH(DIVAXN)+1)/MESH(DIVAXN)
> 1
> Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion]
> sadmvnt.f:1585:3:
>
> 10 END DO
> 1
> Warning: Label 10 at (1) defined but not used
> sadmvnt.f:1432:15:
>
> INFORM = MVTNIT( N, NU, CORREL, LOWER, UPPER, INFIN, INFIS, D, E )
> 1
> Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion]
> sadmvnt.f:1661:0:
>
> & /( 1 + BMIN**2/(NU+I-1) )**( (NU+I-2)/TWO )
>
> Warning: ‘bmin’ may be used uninitialized in this function [-Wmaybe-uninitialized]
> sadmvnt.f:1658:0:
>
> & /( 1 + AMIN**2/(NU+I-1) )**( (NU+I-2)/TWO )
>
> Warning: ‘amin’ may be used uninitialized in this function [-Wmaybe-uninitialized]
> sadmvnt.f:1127:0:
>
> INTEGER S, IXCHNG, LXCHNG, I, L
>
> Warning: ‘lxchng’ may be used uninitialized in this function [-Wmaybe-uninitialized]
> sadmvnt.f:804:0:
>
> END
>
> Warning: ‘__result_bvn’ may be used uninitialized in this function [-Wmaybe-uninitialized]
> sadmvnt.f:762:0:
>
> DOUBLE PRECISION FUNCTION BVN ( LOWER, UPPER, INFIN, CORREL )
>
> note: ‘__result_bvn’ was declared here
> sadmvnt.f:1046:0:
>
> IF ( INFI(I) .EQ. 2 ) Y(I) = ( AMIN + BMIN )/2
>
> Warning: ‘bmin’ may be used uninitialized in this function [-Wmaybe-uninitialized]
> sadmvnt.f:1046:0: Warning: ‘amin’ may be used uninitialized in this function [-Wmaybe-uninitialized]
> gcc -m64 -std=gnu99 -shared -L/usr/lib64/R/lib -L/usr/local/lib64 -o mnormt.so biv-nt.o sadmvnt.o -lgfortran -lm -lquadmath -L/usr/lib64/R/lib -lR
> /usr/bin/ld: cannot find -lgfortran
> /usr/bin/ld: cannot find -lquadmath
> collect2: error: ld returned 1 exit status
> make: *** [mnormt.so] Error 1
> ERROR: compilation failed for package ‘mnormt’
> * removing ‘/home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/mnormt’
> Warning in install.packages :
> installation of package ‘mnormt’ had non-zero exit status
> * installing *source* package ‘readr’ ...
> ** package ‘readr’ successfully unpacked and MD5 sums checked
> ** libs
> g++ -m64 -I/usr/include/R -DNDEBUG -I"/home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/Rcpp/include" -I"/home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c Collector.cpp -o Collector.o
> In file included from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
> from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/shared_ptr.hpp:17,
> from Collector.h:5,
> from Collector.cpp:4:
> /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33:
> warning: ‘template<class> class std::auto_ptr’ is deprecated
> [-Wdeprecated-declarations]
> explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
> ^~~~~~~~
> In file included from /usr/include/c++/7/bits/locale_conv.h:41:0,
> from /usr/include/c++/7/locale:43,
> from /usr/include/c++/7/iomanip:43,
> from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/Rcpp/include/RcppCommon.h:61,
> from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/Rcpp/include/Rcpp.h:27,
> from Collector.cpp:1:
> /usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
> template<typename> class auto_ptr;
> ^~~~~~~~
> In file included from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/shared_ptr.hpp:17:0,
> from Collector.h:5,
> from Collector.cpp:4:
> /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65:
> warning: ‘template<class> class std::auto_ptr’ is deprecated
> [-Wdeprecated-declarations]
> template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
> ^~~~~~~~
> In file included from /usr/include/c++/7/bits/locale_conv.h:41:0,
> from /usr/include/c++/7/locale:43,
> from /usr/include/c++/7/iomanip:43,
> from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/Rcpp/include/RcppCommon.h:61,
> from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/Rcpp/include/Rcpp.h:27,
> from Collector.cpp:1:
> /usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
> template<typename> class auto_ptr;
> ^~~~~~~~
> In file included from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/shared_ptr.hpp:17:0,
> from Collector.h:5,
> from Collector.cpp:4:
> /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31:
> warning: ‘template<class> class std::auto_ptr’ is deprecated
> [-Wdeprecated-declarations]
> explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
> ^~~~~~~~
> In file included from /usr/include/c++/7/bits/locale_conv.h:41:0,
> from /usr/include/c++/7/locale:43,
> from /usr/include/c++/7/iomanip:43,
> from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/Rcpp/include/RcppCommon.h:61,
> from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/Rcpp/include/Rcpp.h:27,
> from Collector.cpp:1:
> /usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
> template<typename> class auto_ptr;
> ^~~~~~~~
> In file included from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/shared_ptr.hpp:17:0,
> from Collector.h:5,
> from Collector.cpp:4:
> /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22:
> warning: ‘template<class> class std::auto_ptr’ is deprecated
> [-Wdeprecated-declarations]
> shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
> ^~~~~~~~
> In file included from /usr/include/c++/7/bits/locale_conv.h:41:0,
> from /usr/include/c++/7/locale:43,
> from /usr/include/c++/7/iomanip:43,
> from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/Rcpp/include/RcppCommon.h:61,
> from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/Rcpp/include/Rcpp.h:27,
> from Collector.cpp:1:
> /usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
> template<typename> class auto_ptr;
> ^~~~~~~~
> In file included from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/shared_ptr.hpp:17:0,
> from Collector.h:5,
> from Collector.cpp:4:
> /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34:
> warning: ‘template<class> class std::auto_ptr’ is deprecated
> [-Wdeprecated-declarations]
> shared_ptr & operator=( std::auto_ptr<Y> & r )
> ^~~~~~~~
> In file included from /usr/include/c++/7/bits/locale_conv.h:41:0,
> from /usr/include/c++/7/locale:43,
> from /usr/include/c++/7/iomanip:43,
> from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/Rcpp/include/RcppCommon.h:61,
> from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/Rcpp/include/Rcpp.h:27,
> from Collector.cpp:1:
> /usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
> template<typename> class auto_ptr;
> ^~~~~~~~
> In file included from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/shared_ptr.hpp:17:0,
> from Collector.h:5,
> from Collector.cpp:4:
> /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34:
> warning: ‘template<class> class std::auto_ptr’ is deprecated
> [-Wdeprecated-declarations]
> shared_ptr & operator=( std::auto_ptr<Y> && r )
> ^~~~~~~~
> In file included from /usr/include/c++/7/bits/locale_conv.h:41:0,
> from /usr/include/c++/7/locale:43,
> from /usr/include/c++/7/iomanip:43,
> from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/Rcpp/include/RcppCommon.h:61,
> from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/Rcpp/include/Rcpp.h:27,
> from Collector.cpp:1:
> /usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
> template<typename> class auto_ptr;
> ^~~~~~~~
> In file included from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/shared_ptr.hpp:17:0,
> from Collector.h:5,
> from Collector.cpp:4:
> /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/smart_ptr/shared_ptr.hpp:
> In member function ‘boost::shared_ptr<T>&
> boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
> /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38:
> warning: ‘template<class> class std::auto_ptr’ is deprecated
> [-Wdeprecated-declarations]
> this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
> ^~~~~~~~
> In file included from /usr/include/c++/7/bits/locale_conv.h:41:0,
> from /usr/include/c++/7/locale:43,
> from /usr/include/c++/7/iomanip:43,
> from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/Rcpp/include/RcppCommon.h:61,
> from /home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/Rcpp/include/Rcpp.h:27,
> from Collector.cpp:1:
> /usr/include/c++/7/bits/unique_ptr.h:51:28: note: declared here
> template<typename> class auto_ptr;
> ^~~~~~~~
> virtual memory exhausted: Cannot allocate memory
> make: *** [Collector.o] Error 1
> ERROR: compilation failed for package ‘readr’
> * removing ‘/home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/readr’
> Warning in install.packages :
> installation of package ‘readr’ had non-zero exit status
> ERROR: dependency ‘mnormt’ is not available for package ‘psych’
> * removing ‘/home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/psych’
> Warning in install.packages :
> installation of package ‘psych’ had non-zero exit status
> ERROR: dependency ‘readr’ is not available for package ‘haven’
> * removing ‘/home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/haven’
> Warning in install.packages :
> installation of package ‘haven’ had non-zero exit status
> ERROR: dependency ‘psych’ is not available for package ‘broom’
> * removing ‘/home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/broom’
> Warning in install.packages :
> installation of package ‘broom’ had non-zero exit status
> ERROR: dependency ‘broom’ is not available for package ‘modelr’
> * removing ‘/home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/modelr’
> Warning in install.packages :
> installation of package ‘modelr’ had non-zero exit status
> ERROR: dependencies ‘broom’, ‘haven’, ‘modelr’, ‘readr’ are not available for package ‘tidyverse’
> * removing ‘/home/deepthi/R/x86_64-redhat-linux-gnu-library/3.4/tidyverse’
> Warning in install.packages :
> installation of package ‘tidyverse’ had non-zero exit status
>
> The downloaded source packages are in
> ‘/tmp/RtmpcH9Dy9/downloaded_packages’
