A nice little puzzle for Sage's R users trying to use R 3.3.1 (forthcoming in
Trac#20523) : the (still damnably useful, notwithstanding
rstan)
rjags package no longer installs.
rjags calls the system's
jags binary and system's
jags modules (compiled as
.so objects in Unix). However, there is currently (i. e. sage 7.4 beta4) a conflict between the system's and Sage's notion of what
BLAS should do : my (Debian) system's
BLAS wants to use a
gotoblas function, not found in what Sage uses for
BLAS.
A possible workaround is to install a Sage-specific version of
JAGS from the source, configured with something like "
./configure --prefix=$SAGE_ROOT/local") in a Sage shell (and compiled and installed in the Sage shell...). This worked like a charm for me.
I do not know Sage's build system well enough to know if forcing Sage to use system's numerical livraries (by forcing, e. g. to use the local ATLAS libraries) should be enough.
HTH,
--
Emmanuel Charpentier