Error installing on RHEL6

[jrowen]

I'm running into problems installing sodium in RHEL6. It looks like RHEL6 uses an older version of libsodium-devel, and I'm wondering if that could be the issue here.

$ rpm -qa | grep  libsodium-devel
libsodium-devel-0.4.5-3.el6.x86_64

> install.packages("sodium")
Installing package into ‘/opt/Rapp/jrowen/R/x86_64-redhat-linux-gnu-library/3.3’
(as ‘lib’ is unspecified)
trying URL 'http://cran.rstudio.com/src/contrib/sodium_0.4.tar.gz'
Content type 'application/x-gzip' length 469580 bytes (458 KB)
==================================================
downloaded 458 KB

* installing *source* package ‘sodium’ ...
** package ‘sodium’ successfully unpacked and MD5 sums checked
Found pkg-config cflags and libs!
Using PKG_CFLAGS= 
Using PKG_LIBS=-lsodium  
** libs
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -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 -fpic -fPIC   -c diffie.c -o diffie.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -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 -fpic -fPIC   -c hashing.c -o hashing.o
hashing.c: In function ‘R_auth_sha512’:
hashing.c:32: error: ‘crypto_auth_hmacsha512_BYTES’ undeclared (first use in this function)
hashing.c:32: error: (Each undeclared identifier is reported only once
hashing.c:32: error: for each function it appears in.)
hashing.c:35: warning: implicit declaration of function ‘crypto_auth_hmacsha512’
hashing.c: In function ‘R_pwhash’:
hashing.c:78: error: ‘crypto_pwhash_scryptsalsa208sha256_SALTBYTES’ undeclared (first use in this function)
hashing.c:81: warning: implicit declaration of function ‘crypto_pwhash_scryptsalsa208sha256’
hashing.c:82: error: ‘crypto_pwhash_scryptsalsa208sha256_OPSLIMIT_INTERACTIVE’ undeclared (first use in this function)
hashing.c:82: error: ‘crypto_pwhash_scryptsalsa208sha256_MEMLIMIT_INTERACTIVE’ undeclared (first use in this function)
make: *** [hashing.o] Error 1
ERROR: compilation failed for package ‘sodium’

[burley77]

I'm also interested in a response to this. I've encountered precisely the same error on RHEL 6.8:

* installing *source* package ‘sodium’ ...
** package ‘sodium’ successfully unpacked and MD5 sums checked
Found pkg-config cflags and libs!
Using PKG_CFLAGS=
Using PKG_LIBS=-lsodium
** libs
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -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 -fpic -fPIC   -c diffie.c -o diffie.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -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 -fpic -fPIC   -c hashing.c -o hashing.o
hashing.c: In function ‘R_auth_sha512’:
hashing.c:32: error: ‘crypto_auth_hmacsha512_BYTES’ undeclared (first use in this function)
hashing.c:32: error: (Each undeclared identifier is reported only once
hashing.c:32: error: for each function it appears in.)
hashing.c:35: warning: implicit declaration of function ‘crypto_auth_hmacsha512’
hashing.c: In function ‘R_pwhash’:
hashing.c:78: error: ‘crypto_pwhash_scryptsalsa208sha256_SALTBYTES’ undeclared (first use in this function)
hashing.c:81: warning: implicit declaration of function ‘crypto_pwhash_scryptsalsa208sha256’
hashing.c:82: error: ‘crypto_pwhash_scryptsalsa208sha256_OPSLIMIT_INTERACTIVE’ undeclared (first use in this function)
hashing.c:82: error: ‘crypto_pwhash_scryptsalsa208sha256_MEMLIMIT_INTERACTIVE’ undeclared (first use in this function)
make: *** [hashing.o] Error 1
ERROR: compilation failed for package ‘sodium’

[jedisct1]

Don't use a version that old, really.

[jeroen]

I'll send the EPEL maintainer an email to update it. The R package requires at least version 1.0.3.

[jeroen]

Until then you might need to install a more recent sodium from source.

[burley77]

Thanks Jeroen. Do you mean we may need to install a recent sodium from source, or are you meaning libsodium-devel?

I also tried building sodium from source, and got the same errors. I couldn't locate any source for libsodium-devel.

Thank you for contacting the maintainer.

[jeroen]

You need to uninstall libsodium from your system and manually build it from source.

[burley77]

That did it. Thanks again!