Opened 4 weeks ago
Closed 31 hours ago
#70012 closed defect (fixed)
R-Bayesrel fails to build: Symbol not found: _alloc_mat
| Reported by: | barracuda156 | Owned by: | barracuda156 |
|---|---|---|---|
| Priority: | Normal | Milestone: | |
| Component: | ports | Version: | 2.9.3 |
| Keywords: | Cc: | ||
| Port: | R-Bayesrel |
Description
---> Configuring R-Bayesrel
Executing: cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/Bayesrel" && /opt/local/bin/R CMD build . --no-manual --no-build-vignettes --keep-empty-dirs
* checking for file ‘./DESCRIPTION’ ... OK
* preparing ‘Bayesrel’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* running ‘cleanup’
* installing the package to process help pages
-----------------------------------
* installing *source* package ‘Bayesrel’ ...
file ‘build/partial.rdb’ is missing
file ‘src/Csdp/lib/Makefile’ has the wrong MD5 checksum
** using staged installation
Using bundled CSDP
checking for gcc... /opt/local/bin/gcc-mp-13
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 /opt/local/bin/gcc-mp-13 accepts -g... yes
checking for /opt/local/bin/gcc-mp-13 option to accept ISO C89... none needed
checking how to run the C preprocessor... /opt/local/bin/gcc-mp-13 -E
checking whether we are using the GNU C++ compiler... yes
checking whether /opt/local/bin/g++-mp-13 -std=gnu++17 accepts -g... yes
checking how to run the C++ preprocessor... /opt/local/bin/g++-mp-13 -std=gnu++17 -E
checking whether we are using the GNU C++ compiler... (cached) yes
checking whether /opt/local/bin/g++-mp-13 -std=gnu++17 accepts -g... (cached) yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C++ compiler: ‘g++-mp-13 (MacPorts gcc13 13.2.0_4+stdlib_flag) 13.2.0’
Warning in system2("xcrun", "--show-sdk-path", TRUE, TRUE) :
running command ''xcrun' --show-sdk-path 2>&1' had status 64
using SDK: ‘NA’‘NA’‘NA’‘NA’‘NA’‘NA’
/opt/local/bin/g++-mp-13 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -ICsdp/include -DNOSHORTS -DARMA_NO_DEBUG=1 -DARMA_DONT_USE_FORTRAN_HIDDEN_ARGS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include -fPIC -pipe -Os -arch ppc -c BayesrelCpp.cpp -o BayesrelCpp.o
/opt/local/bin/g++-mp-13 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -ICsdp/include -DNOSHORTS -DARMA_NO_DEBUG=1 -DARMA_DONT_USE_FORTRAN_HIDDEN_ARGS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include -fPIC -pipe -Os -arch ppc -c LowBoundsCpp.cpp -o LowBoundsCpp.o
/opt/local/bin/g++-mp-13 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -ICsdp/include -DNOSHORTS -DARMA_NO_DEBUG=1 -DARMA_DONT_USE_FORTRAN_HIDDEN_ARGS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include -fPIC -pipe -Os -arch ppc -c RcppExports.cpp -o RcppExports.o
/opt/local/bin/g++-mp-13 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -ICsdp/include -DNOSHORTS -DARMA_NO_DEBUG=1 -DARMA_DONT_USE_FORTRAN_HIDDEN_ARGS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include -fPIC -pipe -Os -arch ppc -c convertCpp.cpp -o convertCpp.o
/opt/local/bin/g++-mp-13 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -ICsdp/include -DNOSHORTS -DARMA_NO_DEBUG=1 -DARMA_DONT_USE_FORTRAN_HIDDEN_ARGS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include -fPIC -pipe -Os -arch ppc -c customsdpCpp.cpp -o customsdpCpp.o
/opt/local/bin/g++-mp-13 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -ICsdp/include -DNOSHORTS -DARMA_NO_DEBUG=1 -DARMA_DONT_USE_FORTRAN_HIDDEN_ARGS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include -fPIC -pipe -Os -arch ppc -c initArma.cpp -o initArma.o
/opt/local/bin/g++-mp-13 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -ICsdp/include -DNOSHORTS -DARMA_NO_DEBUG=1 -DARMA_DONT_USE_FORTRAN_HIDDEN_ARGS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include -fPIC -pipe -Os -arch ppc -c pfaCpp.cpp -o pfaCpp.o
(cd Csdp/lib && \
(make libsdp.a CC="/opt/local/bin/gcc-mp-13" CFLAGS="-DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include" AR="ar" RANLIB="ranlib") && \
touch Csdp.ts)
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o readprob.o readprob.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o sdp.o sdp.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o op_o.o op_o.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o psd_feas.o psd_feas.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o op_a.o op_a.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o op_at.o op_at.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o Fnorm.o Fnorm.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o calc_pobj.o calc_pobj.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o calc_dobj.o calc_dobj.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o trace_prod.o trace_prod.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o zero_mat.o zero_mat.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o mat_mult.o mat_mult.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o sym_mat.o sym_mat.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o copy_mat.o copy_mat.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o addscaledmat.o addscaledmat.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o user_exit.o user_exit.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o make_i.o make_i.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o allocmat.o allocmat.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o initsoln.o initsoln.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o initparams.o initparams.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o add_mat.o add_mat.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o writesol.o writesol.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o readsol.o readsol.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o easysdp.o easysdp.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o writeprob.o writeprob.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o solvesys.o solvesys.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o makefill.o makefill.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o mat_multsp.o mat_multsp.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o norms.o norms.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o linesearch.o linesearch.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o matvec.o matvec.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o chol.o chol.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o qreig.o qreig.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o tweakgap.o tweakgap.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o freeprob.o freeprob.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o packed.o packed.c
/opt/local/bin/gcc-mp-13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppArmadillo/include' -pipe -Os -arch ppc -fPIC -DNOSHORTS -I../include -isystem/opt/local/include/LegacySupport -I/opt/local/include -c -o sortentries.o sortentries.c
ar crs libsdp.a readprob.o sdp.o op_o.o psd_feas.o op_a.o op_at.o Fnorm.o calc_pobj.o calc_dobj.o trace_prod.o zero_mat.o mat_mult.o sym_mat.o copy_mat.o addscaledmat.o user_exit.o make_i.o allocmat.o initsoln.o initparams.o add_mat.o writesol.o readsol.o easysdp.o writeprob.o solvesys.o makefill.o mat_multsp.o norms.o linesearch.o matvec.o chol.o qreig.o tweakgap.o freeprob.o packed.o sortentries.o
/opt/local/bin/g++-mp-13 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/opt/local/Library/Frameworks/R.framework/Resources/lib -Wl,-headerpad_max_install_names -L/opt/local/lib -lMacportsLegacySupport -Wl,-rpath,/opt/local/lib/libgcc -arch ppc -o Bayesrel.so BayesrelCpp.o LowBoundsCpp.o RcppExports.o convertCpp.o customsdpCpp.o initArma.o pfaCpp.o -LCsdp/lib -lsdp -L/opt/local/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/opt/local/Library/Frameworks/R.framework/Resources/lib -lRblas -lMacportsLegacySupport -lgfortran -lef_ppc -lm -F/opt/local/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
Loading required namespace: Bayesrel
Failed with error: ‘unable to load shared object '/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so':
dlopen(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so, 6): Symbol not found: _alloc_mat
Referenced from: /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so
Expected in: dynamic lookup
’
Loading required namespace: Bayesrel
Failed with error: ‘unable to load shared object '/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so':
dlopen(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so, 6): Symbol not found: _alloc_mat
Referenced from: /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so
Expected in: dynamic lookup
’
Loading required namespace: Bayesrel
Failed with error: ‘unable to load shared object '/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so':
dlopen(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so, 6): Symbol not found: _alloc_mat
Referenced from: /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so
Expected in: dynamic lookup
’
Loading required namespace: Bayesrel
Failed with error: ‘unable to load shared object '/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so':
dlopen(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so, 6): Symbol not found: _alloc_mat
Referenced from: /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so
Expected in: dynamic lookup
’
Loading required namespace: Bayesrel
Failed with error: ‘unable to load shared object '/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so':
dlopen(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so, 6): Symbol not found: _alloc_mat
Referenced from: /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so
Expected in: dynamic lookup
’
Loading required namespace: Bayesrel
Failed with error: ‘unable to load shared object '/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so':
dlopen(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so, 6): Symbol not found: _alloc_mat
Referenced from: /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so
Expected in: dynamic lookup
’
Loading required namespace: Bayesrel
Failed with error: ‘unable to load shared object '/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so':
dlopen(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so, 6): Symbol not found: _alloc_mat
Referenced from: /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so
Expected in: dynamic lookup
’
Loading required namespace: Bayesrel
Failed with error: ‘unable to load shared object '/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so':
dlopen(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so, 6): Symbol not found: _alloc_mat
Referenced from: /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so
Expected in: dynamic lookup
’
Loading required namespace: Bayesrel
Failed with error: ‘unable to load shared object '/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so':
dlopen(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so, 6): Symbol not found: _alloc_mat
Referenced from: /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so
Expected in: dynamic lookup
’
Loading required namespace: Bayesrel
Failed with error: ‘unable to load shared object '/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so':
dlopen(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so, 6): Symbol not found: _alloc_mat
Referenced from: /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so
Expected in: dynamic lookup
’
Loading required namespace: Bayesrel
Failed with error: ‘unable to load shared object '/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so':
dlopen(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so, 6): Symbol not found: _alloc_mat
Referenced from: /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so
Expected in: dynamic lookup
’
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
Error: package or namespace load failed for ‘Bayesrel’ in dyn.load(file, DLLpath = DLLpath, ...):
unable to load shared object '/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so':
dlopen(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so, 6): Symbol not found: _alloc_mat
Referenced from: /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/00LOCK-Bayesrel/00new/Bayesrel/libs/Bayesrel.so
Expected in: dynamic lookup
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/.tmp/Rtmpejdz30/Rinstf32110e319b4/Bayesrel’
-----------------------------------
ERROR: package installation failed
Command failed: cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_R_R-Bayesrel/R-Bayesrel/work/Bayesrel" && /opt/local/bin/R CMD build . --no-manual --no-build-vignettes --keep-empty-dirs
Exit code: 1
Change History (2)
comment:1 Changed 3 weeks ago by barracuda156
comment:2 Changed 31 hours ago by Sergey Fedorov <barracuda@…>
| Resolution: | → fixed |
|---|---|
| Status: | assigned → closed |
Note: See
TracTickets for help on using
tickets.
Still a mystery for me what goes wrong. It should be a bug on our side or my side locally, since it built earlier, including on my 10.6 ppc. But something changed to the effect of causing a failure, and only with this package (I am almost done rebuilding
Rstuff locally, and this is the only instance of such a failure, apparently). Asked opinion of upstream here: https://github.com/juliuspfadt/Bayesrel/issues/28