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agricolamz/openssl instalation

Last active November 5, 2018 16:55
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openssl instalation
> install.packages("openssl")
Installing package into ‘/home/agricolamz/R/x86_64-pc-linux-gnu-library/3.5’
(as ‘lib’ is unspecified)
trying URL 'https://cloud.r-project.org/src/contrib/openssl_1.0.2.tar.gz'
Content type 'application/x-gzip' length 1194883 bytes (1.1 MB)
==================================================
downloaded 1.1 MB
* installing *source* package ‘openssl’ ...
** package ‘openssl’ successfully unpacked and MD5 sums checked
Found INCLUDE_DIR and/or LIB_DIR!
Using PKG_CFLAGS=-I/usr/local/include
Using PKG_LIBS=-L/usr/share/ -l:libssl.so.1.0.0 -l:libcrypto.so.1.0.0
** libs
rm -f aes.o base64.o bignum.o cert.o compatibility.o diffie.o envelope.o error.o hash.o info.o keygen.o keys.o onload.o openssh.o password.o pem.o pkcs12.o pkcs7.o rand.o rsa.o signing.o ssl.o stream.o write.o openssl.so
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c aes.c -o aes.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c base64.c -o base64.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bignum.c -o bignum.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cert.c -o cert.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c compatibility.c -o compatibility.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c diffie.c -o diffie.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c envelope.c -o envelope.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c error.c -o error.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c hash.c -o hash.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c info.c -o info.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c keygen.c -o keygen.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c keys.c -o keys.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c onload.c -o onload.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c openssh.c -o openssh.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c password.c -o password.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pem.c -o pem.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pkcs12.c -o pkcs12.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pkcs7.c -o pkcs7.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rand.c -o rand.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rsa.c -o rsa.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c signing.c -o signing.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ssl.c -o ssl.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stream.c -o stream.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -fdebug-prefix-map=/build/r-base-oNcpyf/r-base-3.5.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c write.c -o write.o
gcc -std=gnu99 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o openssl.so aes.o base64.o bignum.o cert.o compatibility.o diffie.o envelope.o error.o hash.o info.o keygen.o keys.o onload.o openssh.o password.o pem.o pkcs12.o pkcs7.o rand.o rsa.o signing.o ssl.o stream.o write.o -L/usr/share/ -l:libssl.so.1.0.0 -l:libcrypto.so.1.0.0 -L/usr/lib/R/lib -lR
installing to /home/agricolamz/R/x86_64-pc-linux-gnu-library/3.5/openssl/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Error: package or namespace load failed for ‘openssl’ in dyn.load(file, DLLpath = DLLpath, ...):
unable to load shared object '/home/agricolamz/R/x86_64-pc-linux-gnu-library/3.5/openssl/libs/openssl.so':
/home/agricolamz/R/x86_64-pc-linux-gnu-library/3.5/openssl/libs/openssl.so: undefined symbol: X509_getm_notAfter
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/home/agricolamz/R/x86_64-pc-linux-gnu-library/3.5/openssl’
Warning in install.packages :
installation of package ‘openssl’ had non-zero exit status
The downloaded source packages are in
‘/tmp/RtmpYNwIZ1/downloaded_packages’
Raw
system info
$ gcc --version
gcc (eXt73-build_v10.1) 8.2.1 20181005
$ R --version
R version 3.5.1 (2018-07-02) -- "Feather Spray"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
$ openssl version -v
LibreSSL 2.8.2
$ cd /usr/local/lib; ls
engines-1.1 libcrypto.la libcrypto.so.1.1 libcrypto.so.44.0.1 libssl.la libssl.so.1.0.2 libssl.so.46 libtls.a libtls.so libtls.so.18.0.1 python2.7 R
libcrypto.a libcrypto.so libcrypto.so.44 libssl.a libssl.so libssl.so.1.1 libssl.so.46.0.1 libtls.la libtls.so.18 pkgconfig python3.6
$ locate libssl.so
/usr/lib/i386-linux-gnu/libssl.so.1.1
/usr/lib/x86_64-linux-gnu/libssl.so.1.0.0
/usr/lib/x86_64-linux-gnu/libssl.so.1.1
/usr/local/lib/libssl.so
/usr/local/lib/libssl.so.1.0.2
/usr/local/lib/libssl.so.1.1
/usr/local/lib/libssl.so.46
/usr/local/lib/libssl.so.46.0.1
$ echo $LD_LIBRARY_PATH
/opt/Qt5.10.1/5.11.2/gcc_64/lib:/usr/local/lib:/usr/lib/x86_64-linux-gnu:/lib/x86_64-linux-gnu:/usr/lib:/lib:/usr/lib/jvm/java-8-oracle/lib:/usr/lib/libreoffice/program:/usr/lib/gcc/x86_64-linux-gnu/8:/usr/lib/gcc/x86_64-linux-gnu/7
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