Xiuyu Ma
| Snapshot Date: 2024-05-08 14:00:19 -0400 (Wed, 08 May 2024) |
| git_url: https://git.bioconductor.org/packages/scDDboost |
| git_branch: RELEASE_3_19 |
| git_last_commit: cc6a1ea |
| git_last_commit_date: 2024-04-30 11:42:59 -0400 (Tue, 30 Apr 2024) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-05-09 11:41:25 -0400 (Thu, 09 May 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4748 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 (2024-04-24 ucrt) -- "Puppy Cup" | 4484 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4514 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" | 4480 |
| 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 | ||||
| Package 1887/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| scDDboost 1.6.0 (landing page) Xiuyu Ma
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | see weekly results here | ||||||||||||
|
To the developers/maintainers of the scDDboost package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/scDDboost.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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: scDDboost |
| Version: 1.6.0 |
| Command: /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD INSTALL scDDboost |
| StartedAt: 2024-05-08 20:45:07 -0000 (Wed, 08 May 2024) |
| EndedAt: 2024-05-08 20:46:52 -0000 (Wed, 08 May 2024) |
| EllapsedTime: 104.7 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD INSTALL scDDboost
###
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* installing to library ‘/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library’
* installing *source* package ‘scDDboost’ ...
** using staged installation
** libs
using C compiler: ‘gcc (GCC) 10.3.1’
using C++ compiler: ‘g++ (GCC) 10.3.1’
using C++11
g++ -std=gnu++11 -I"/home/biocbuild/R/R-beta-2024-04-15_r86425/include" -DNDEBUG -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/RcppEigen/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c DATA.cpp -o DATA.o
DATA.cpp: In member function ‘std::vector<Eigen::Matrix<double, -1, -1> > DATA::reorg(Eigen::MatrixXd&, const VectorXi&)’:
DATA.cpp:17:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
17 | for(int j = 0; j < s.size(); ++j){
| ~~^~~~~~~~~~
DATA.cpp: In member function ‘std::vector<Eigen::Matrix<double, -1, -1> > DATA::reorgr(const MatrixXd&, const VectorXi&)’:
DATA.cpp:32:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
32 | for(int j = 0; j < s.size(); ++j){
| ~~^~~~~~~~~~
DATA.cpp: In member function ‘r_q DATA::cal_r(Eigen::MatrixXd&, const VectorXi&, const VectorXd&)’:
DATA.cpp:48:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
48 | for(int i = 0; i < G; i++){
| ~~^~~
DATA.cpp:49:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
49 | for(int j = 0; j < nc; j++){
| ~~^~~~
DATA.cpp:58:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
58 | for(int i = 0; i < G; i++)
| ~~^~~
DATA.cpp:59:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
59 | for(int j = 0; j < K; j++){
| ~~^~~
DATA.cpp:65:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
65 | for(int t = 0; t < s.size(); t++)
| ~~^~~~~~~~~~
DATA.cpp:70:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
70 | for(int t = 0; t < s.size(); t++)
| ~~^~~~~~~~~~
DATA.cpp:85:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
85 | for(int i = 0; i < G; ++i){
| ~~^~~
DATA.cpp: In member function ‘Eigen::MatrixXd DATA::cal_hp()’:
DATA.cpp:106:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
106 | for(int j=0;j<K;++j){
| ~^~
DATA.cpp:113:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
113 | for(int i=0;i<G;++i){
| ~^~
DATA.cpp:114:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
114 | for(int j=0;j<K;++j){
| ~^~
DATA.cpp: In constructor ‘DATA::DATA(Eigen::MatrixXd&, const VectorXi&, const VectorXd&, const MatrixXi&)’:
DATA.cpp:157:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
157 | for(int j=0;j<K;j++){
| ~^~
g++ -std=gnu++11 -I"/home/biocbuild/R/R-beta-2024-04-15_r86425/include" -DNDEBUG -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/RcppEigen/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c Header.cpp -o Header.o
Header.cpp: In function ‘std::vector<std::vector<int> > partition(const int&)’:
Header.cpp:38:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
38 | for(int j=0;j<L;++j){
| ~^~
g++ -std=gnu++11 -I"/home/biocbuild/R/R-beta-2024-04-15_r86425/include" -DNDEBUG -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/RcppEigen/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c derived.cpp -o derived.o
In file included from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/math/special_functions/detail/round_fwd.hpp:11,
from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/math/special_functions/math_fwd.hpp:29,
from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/math/special_functions/digamma.hpp:15,
from derived.h:14,
from derived.cpp:9:
/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp]
23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)"
| ^~~~~~~
derived.cpp: In constructor ‘DC::DC(Eigen::MatrixXd&, Eigen::VectorXi&, Eigen::VectorXd&, std::vector<int>&, Eigen::MatrixXi&)’:
derived.cpp:31:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
31 | for(int j = 0; j < K; j++){
| ~~^~~
derived.cpp: In member function ‘void DC::go_drv(const MatrixXd&, const MatrixXd&, double&, Eigen::VectorXd&, double, double)’:
derived.cpp:162:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
162 | for(int i = 0; i < G; i++)
| ~~^~~
g++ -std=gnu++11 -I"/home/biocbuild/R/R-beta-2024-04-15_r86425/include" -DNDEBUG -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/RcppEigen/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c main.cpp -o main.o
In file included from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/math/special_functions/detail/round_fwd.hpp:11,
from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/math/special_functions/math_fwd.hpp:29,
from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/math/special_functions/digamma.hpp:15,
from derived.h:14,
from main.cpp:21:
/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp]
23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)"
| ^~~~~~~
main.cpp: In function ‘SEXPREC* new_D(SEXP, SEXP, SEXP)’:
main.cpp:217:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
217 | for(int i=0;i<de_i.size();i++){
| ~^~~~~~~~~~~~
main.cpp:228:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
228 | for(int i=0;i<cd.size();i++){
| ~^~~~~~~~~~
main.cpp:229:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
229 | for(int j=i+1;j<cd.size();j++){
| ~^~~~~~~~~~
main.cpp:231:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
231 | for(int t=0;t<de_i.size();t++){
| ~^~~~~~~~~~~~
main.cpp: In function ‘SEXPREC* pat(SEXP)’:
main.cpp:283:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
283 | for(int i=0;i<res.size();i++)
| ~^~~~~~~~~~~
gcc -I"/home/biocbuild/R/R-beta-2024-04-15_r86425/include" -DNDEBUG -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/RcppEigen/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c scDDboost_init.c -o scDDboost_init.o
g++ -std=gnu++11 -shared -L/home/biocbuild/R/R-beta-2024-04-15_r86425/lib -L/usr/local/lib -o scDDboost.so DATA.o Header.o derived.o main.o scDDboost_init.o -L/home/biocbuild/R/R-beta-2024-04-15_r86425/lib -lR
installing to /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/00LOCK-scDDboost/00new/scDDboost/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (scDDboost)