| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-03-13 r87965) -- "Unsuffered Consequences"
| 4783 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences"
| 4552 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"
| 4581 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"
| 4533 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"
| 4463 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
INSTALL results for mbkmeans on palomino7
To the developers/maintainers of the mbkmeans package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/mbkmeans.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.
|
raw results
Summary
Command output
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###
### Running command:
###
### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL mbkmeans
###
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* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library'
* installing *source* package 'mbkmeans' ...
** this is package 'mbkmeans' version '1.23.0'
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 14.2.0'
using C++11
g++ -std=gnu++11 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/RcppArmadillo/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/beachmat/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/ClusterR/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/RcppArmadillo/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/beachmat/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/ClusterR/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mini_batch.cpp -o mini_batch.o
In file included from mini_batch.cpp:3:
E:/biocbuild/bbs-3.21-bioc/R/library/ClusterR/include/ClusterRHeader.h: In member function 'arma::mat clustR::ClustHeader::KMEANS_arma(arma::mat&, int, int, bool, std::string, Rcpp::Nullable<Rcpp::Matrix<14> >, int)':
E:/biocbuild/bbs-3.21-bioc/R/library/ClusterR/include/ClusterRHeader.h:862:14: warning: variable 'status' set but not used [-Wunused-but-set-variable]
862 | bool status;
| ^~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/ClusterR/include/ClusterRHeader.h: In instantiation of 'T clustR::ClustHeader::GMM_arma_covariance_type(T, arma::mat&, int, std::string, std::string, int, int, bool, double, int) [with T = arma::gmm_priv::gmm_full<double>; arma::mat = arma::Mat<double>; std::string = std::__cxx11::basic_string<char>]':
E:/biocbuild/bbs-3.21-bioc/R/library/ClusterR/include/ClusterRHeader.h:1592:65: required from here
1592 | model_inner = GMM_arma_covariance_type<arma::gmm_full>(model_inner,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~
1593 | data,
| ~~~~~
1594 | gaussian_comps,
| ~~~~~~~~~~~~~~~
1595 | dist_mode,
| ~~~~~~~~~~
1596 | seed_mode,
| ~~~~~~~~~~
1597 | km_iter,
| ~~~~~~~~
1598 | em_iter,
| ~~~~~~~~
1599 | verbose,
| ~~~~~~~~
1600 | var_floor,
| ~~~~~~~~~~
1601 | seed);
| ~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/ClusterR/include/ClusterRHeader.h:1530:14: warning: variable 'status' set but not used [-Wunused-but-set-variable]
1530 | bool status;
| ^~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/ClusterR/include/ClusterRHeader.h: In instantiation of 'T clustR::ClustHeader::GMM_arma_covariance_type(T, arma::mat&, int, std::string, std::string, int, int, bool, double, int) [with T = arma::gmm_priv::gmm_diag<double>; arma::mat = arma::Mat<double>; std::string = std::__cxx11::basic_string<char>]':
E:/biocbuild/bbs-3.21-bioc/R/library/ClusterR/include/ClusterRHeader.h:1626:65: required from here
1626 | model_inner = GMM_arma_covariance_type<arma::gmm_diag>(model_inner,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~
1627 | data,
| ~~~~~
1628 | gaussian_comps,
| ~~~~~~~~~~~~~~~
1629 | dist_mode,
| ~~~~~~~~~~
1630 | seed_mode,
| ~~~~~~~~~~
1631 | km_iter,
| ~~~~~~~~
1632 | em_iter,
| ~~~~~~~~
1633 | verbose,
| ~~~~~~~~
1634 | var_floor,
| ~~~~~~~~~~
1635 | seed);
| ~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/ClusterR/include/ClusterRHeader.h:1530:14: warning: variable 'status' set but not used [-Wunused-but-set-variable]
1530 | bool status;
| ^~~~~~
g++ -shared -s -static-libgcc -o mbkmeans.dll tmp.def RcppExports.o mini_batch.o -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
C:\rtools45\x86_64-w64-mingw32.static.posix\bin/ld.exe: mini_batch.o:mini_batch.cpp:(.text+0x95fc): undefined reference to `ddot_'
collect2.exe: error: ld returned 1 exit status
no DLL was created
ERROR: compilation failed for package 'mbkmeans'
* removing 'E:/biocbuild/bbs-3.21-bioc/R/library/mbkmeans'
* restoring previous 'E:/biocbuild/bbs-3.21-bioc/R/library/mbkmeans'
