> sessionInfo()
R version 4.2.2 (2022-10-31)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Rocky Linux 8.5 (Green Obsidian)
Matrix products: default
BLAS/LAPACK: /packages/apps/spack/18/opt/spack/gcc-11.2.0/openblas-0.3.20-mvb/lib/libopenblas_zen-r0.3.20.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] modeest_2.4.0 rstan_2.32.5 StanHeaders_2.32.5 runjags_2.2.2-1.1
[5] lavaan_0.6-17 rjags_4-15 coda_0.19-4
loaded via a namespace (and not attached):
[1] tidyselect_1.2.0 QuickJSR_1.1.0 remotes_2.4.2.1
[4] lattice_0.22-5 V8_4.3.3 colorspace_2.1-0
[7] vctrs_0.6.5 generics_0.1.3 stats4_4.2.2
[10] loo_2.6.0 rmutil_1.1.10 utf8_1.2.4
[13] rlang_1.1.2 pkgbuild_1.4.2 stable_1.1.6
[16] pillar_1.9.0 glue_1.6.2 matrixStats_1.0.0
[19] lifecycle_1.0.4 timeDate_4032.109 munsell_0.5.0
[22] fBasics_4032.96 gtable_0.3.4 timeSeries_4032.109
[25] statip_0.2.3 codetools_0.2-19 inline_0.3.19
[28] callr_3.7.3 ps_1.7.5 parallel_4.2.2
[31] curl_5.1.0 fansi_1.0.6 Rcpp_1.0.11
[34] scales_1.3.0 desc_1.4.2 RcppParallel_5.1.7
[37] jsonlite_1.8.7 gridExtra_2.3 mnormt_2.1.1
[40] ggplot2_3.4.4 processx_3.8.2 dplyr_1.1.4
[43] clue_0.3-65 grid_4.2.2 rprojroot_2.0.3
[46] stabledist_0.7-1 quadprog_1.5-8 cli_3.6.2
[49] tools_4.2.2 magrittr_2.0.3 tibble_3.2.1
[52] cluster_2.1.4 crayon_1.5.2 spatial_7.3-17
[55] pbivnorm_0.6.0 pkgconfig_2.0.3 prettyunits_1.2.0
[58] rpart_4.1.21 R6_2.5.1 compiler_4.2.2
Install blavaan 0.4-8 from CRAN archive:
packageurl <- "http://cran.r-project.org/src/contrib/Archive/blavaan/blavaan_0.5-2.tar.gz"
install.packages(packageurl, repos=NULL, type="source")
The last part of the output:
stanExports_stanmarg.cc:23:88: required from here
/packages/apps/spack/18/opt/spack/gcc-11.2.0/r-4.2.2-kpl/rlib/R/library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:55:30: warning: ignoring attributes on template argument 'Eigen::internal::packet_traits<double>::type' {aka '__m128d'} [-Wignored-attributes]
g++: fatal error: Killed signal terminated program cc1plus
compilation terminated.
make: *** [/packages/apps/spack/18/opt/spack/gcc-11.2.0/r-4.2.2-kpl/rlib/R/etc/Makeconf:176: stanExports_stanmarg.o] Error 1
ERROR: compilation failed for package ‘blavaan’
* removing ‘/home/tianche5/R/x86_64-pc-linux-gnu-library/4.2/blavaan’
Warning message:
In install.packages(packageurl, repos = NULL, type = "source") :
installation of package ‘/tmp/RtmpgXIJQR/downloaded_packages/blavaan_0.4-8.tar.gz’ had non-zero exit status
Install the newest blavaan:
install.packages("blavaan")
Output: Got the same error as above.
Testing rstan as seen in this post https://groups.google.com/g/blavaan/c/5RUKZQuKc4c
And the output:
Error in compileCode(f, code, language = language, verbose = verbose) :
/home/tianche5/R/x86_64-pc-linux-gnu-library/4.2/rstan/include/rstan/stan_fit.hpp:1215:18: required from 'SEXPREC* rstan::stan_fit<Model, RNG_t>::call_sampler(SEXP) [with Model = model21774e4cd56e92__namespace::model21774e4cd56e92_; RNG_t = boost::random::additive_combine_engine<boost::random::linear_congruential_engine<unsigned int, 40014, 0, 2147483563>, boost::random::linear_congruential_engine<unsigned int, 40692, 0, 2147483399> >; SEXP = SEXPREC*]'file21774e239538b1.cpp:353:68: required from here/packages/apps/spack/18/opt/spack/gcc-11.2.0/r-4.2.2-kpl/rlib/R/library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:55:30: warning: ignoring attributes on template argument 'Eigen::internal::packet_traits<double>::type' {aka '__m128d'} [-Wignored-attributes]g++: fatal error: Killed signal terminated program cc1pluscompilation terminated.make: *** [/packages/apps/spack/18/opt/spack/gcc-11.2.0/r-4.2.2-kpl/rlib/R/etc/Makeconf:178: file21774e239538b1.o] Error 1
Error in sink(type = "output") : invalid connection
> print(fit1)
Error in print(fit1) : object 'fit1' not found
Thanks in advance!
Regards,
Tianchen