XGlab
| Snapshot Date: 2024-03-27 14:00:18 -0400 (Wed, 27 Mar 2024) |
| git_url: https://git.bioconductor.org/packages/HGC |
| git_branch: devel |
| git_last_commit: 741d01b |
| git_last_commit_date: 2023-10-24 11:33:24 -0400 (Tue, 24 Oct 2023) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-03-28 11:40:49 -0400 (Thu, 28 Mar 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4708 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-03-16 r86144 ucrt) -- "Unsuffered Consequences" | 4446 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4471 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-03-19 r86153) -- "Unsuffered Consequences" | 4426 |
| 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 947/2270 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| HGC 1.11.0 (landing page) XGlab
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
|
To the developers/maintainers of the HGC package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/HGC.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: HGC |
| Version: 1.11.0 |
| Command: /home/biocbuild/R/R-4.4-devel-2024.03.20/bin/R CMD INSTALL HGC |
| StartedAt: 2024-03-27 19:40:54 -0000 (Wed, 27 Mar 2024) |
| EndedAt: 2024-03-27 19:42:09 -0000 (Wed, 27 Mar 2024) |
| EllapsedTime: 75.5 seconds |
| RetCode: 0 |
| Status: OK |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R-4.4-devel-2024.03.20/bin/R CMD INSTALL HGC
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library’
* installing *source* package ‘HGC’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 10.3.1’
using C++11
g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/RcppEigen/include' -I/usr/local/include -fPIC -g -O2 -Wall -c HGC_unordered_map.cpp -o HGC_unordered_map.o
HGC_unordered_map.cpp: In member function ‘void Graph::add_node(int)’:
HGC_unordered_map.cpp:165:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::unordered_map<int, double> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
165 | if (node == adj.size()) {
| ~~~~~^~~~~~~~~~~~~
HGC_unordered_map.cpp: In member function ‘void Graph::add_edge(Edge)’:
HGC_unordered_map.cpp:177:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::unordered_map<int, double> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
177 | if (e.node1 < adj.size() && e.node2 < adj.size()) {
| ~~~~~~~~^~~~~~~~~~~~
HGC_unordered_map.cpp:177:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::unordered_map<int, double> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
177 | if (e.node1 < adj.size() && e.node2 < adj.size()) {
| ~~~~~~~~^~~~~~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/RcppEigen/include' -I/usr/local/include -fPIC -g -O2 -Wall -c RHGC_unordered_map.cpp -o RHGC_unordered_map.o
RHGC_unordered_map.cpp: In function ‘Rcpp::NumericMatrix HierarCluster_paris(Eigen::SparseMatrix<double, 0, int>)’:
RHGC_unordered_map.cpp:35:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::unordered_map<int, double> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
35 | for (int i = 0; i < G.adj.size(); i++) {
| ~~^~~~~~~~~~~~~~
RHGC_unordered_map.cpp:43:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::unordered_map<int, double> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
43 | for (int i = 0; i < G.adj.size(); i++) {
| ~~^~~~~~~~~~~~~~
RHGC_unordered_map.cpp:133:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
133 | for (int i = 0; i < cc.size(); i++) {
| ~~^~~~~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/RcppEigen/include' -I/usr/local/include -fPIC -g -O2 -Wall -c RTime.cpp -o RTime.o
RTime.cpp: In function ‘Rcpp::NumericMatrix HierarCluster_paris_time(Eigen::SparseMatrix<double, 0, int>)’:
RTime.cpp:36:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::unordered_map<int, double> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
36 | for (int i = 0; i < G.adj.size(); i++) {
| ~~^~~~~~~~~~~~~~
RTime.cpp:44:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::unordered_map<int, double> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
44 | for (int i = 0; i < G.adj.size(); i++) {
| ~~^~~~~~~~~~~~~~
RTime.cpp:132:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
132 | for(int i=0; i<chain_record.size(); i++){
| ~^~~~~~~~~~~~~~~~~~~~
RTime.cpp:135:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
135 | for(int i=0; i<chain_record.size(); i++){
| ~^~~~~~~~~~~~~~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/RcppEigen/include' -I/usr/local/include -fPIC -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/RcppEigen/include' -I/usr/local/include -fPIC -g -O2 -Wall -c Rget_leaves.cpp -o Rget_leaves.o
g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/RcppEigen/include' -I/usr/local/include -fPIC -g -O2 -Wall -c snn.cpp -o snn.o
snn.cpp: In function ‘std::vector<double> SNN_SmallestNonzero_Dist(Eigen::SparseMatrix<double, 0, int>, Eigen::MatrixXd, int, std::vector<double>)’:
snn.cpp:96:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<long unsigned int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
96 | if (n_i > nonzero_order.size()) n_i = nonzero_order.size();
| ~~~~^~~~~~~~~~~~~~~~~~~~~~
snn.cpp:98:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<long unsigned int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
98 | for (int j = 0; j < nonzero_order.size(); ++j) {
| ~~^~~~~~~~~~~~~~~~~~~~~~
snn.cpp:102:23: warning: comparison of integer expressions of different signedness: ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
102 | if(dists.size() < n_i || nonzero[nonzero_order[j]] == nonzero[nonzero_order[n_i-1]]) {
| ~~~~~~~~~~~~~^~~~~
snn.cpp:114:22: warning: comparison of integer expressions of different signedness: ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
114 | if (dists.size() > n_i) {
| ~~~~~~~~~~~~~^~~~~
g++ -std=gnu++11 -shared -L/home/biocbuild/R/R-4.4-devel-2024.03.20/lib -L/usr/local/lib -o HGC.so HGC_unordered_map.o RHGC_unordered_map.o RTime.o RcppExports.o Rget_leaves.o snn.o -L/home/biocbuild/R/R-4.4-devel-2024.03.20/lib -lR
installing to /home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/00LOCK-HGC/00new/HGC/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 (HGC)