Thomas D. Sherman
| Snapshot Date: 2024-04-28 14:00:16 -0400 (Sun, 28 Apr 2024) |
| git_url: https://git.bioconductor.org/packages/CancerInSilico |
| git_branch: devel |
| git_last_commit: 9299eb6 |
| git_last_commit_date: 2024-01-12 07:33:25 -0400 (Fri, 12 Jan 2024) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-04-29 11:40:37 -0400 (Mon, 29 Apr 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" | 4752 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 beta (2024-04-15 r86425 ucrt) -- "Puppy Cup" | 4486 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.0 beta (2024-04-14 r86421) -- "Puppy Cup" | 4518 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" | 4475 |
| 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 270/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Thomas D. Sherman
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | ERROR | ERROR | skipped | |||||||||
| 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 | ERROR | ERROR | skipped | ||||||||||
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | see weekly results here | ||||||||||||
|
To the developers/maintainers of the CancerInSilico package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CancerInSilico.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: CancerInSilico |
| Version: 2.23.1 |
| Command: /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD INSTALL CancerInSilico |
| StartedAt: 2024-04-28 19:06:39 -0000 (Sun, 28 Apr 2024) |
| EndedAt: 2024-04-28 19:08:10 -0000 (Sun, 28 Apr 2024) |
| EllapsedTime: 91.0 seconds |
| RetCode: 1 |
| Status: ERROR |
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### Running command:
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### /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD INSTALL CancerInSilico
###
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* installing to library ‘/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library’
* installing *source* package ‘CancerInSilico’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 10.3.1’
g++ -std=gnu++17 -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/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c RunModel.cpp -o RunModel.o
In file included from CellModels/../OffLatticeModel/OffLatticeCellBasedModel.h:8,
from CellModels/DrasdoHohmeModel.h:7,
from RunModel.cpp:4:
CellModels/../OffLatticeModel/OffLatticeCell.h: In member function ‘PointPair OffLatticeCell::centers() const’:
CellModels/../OffLatticeModel/OffLatticeCell.h:72:31: note: parameter passing for argument of type ‘std::pair<Point<double>, Point<double> >’ when C++17 is enabled changed to match C++14 in GCC 10.1
72 | PointPair centers() const {return mCenters;}
| ^
g++ -std=gnu++17 -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/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -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/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c CellModels/DrasdoHohmeModel.cpp -o CellModels/DrasdoHohmeModel.o
In file included from CellModels/../OffLatticeModel/OffLatticeCellBasedModel.h:8,
from CellModels/DrasdoHohmeModel.h:7,
from CellModels/DrasdoHohmeModel.cpp:1:
CellModels/../OffLatticeModel/OffLatticeCell.h: In member function ‘PointPair OffLatticeCell::centers() const’:
CellModels/../OffLatticeModel/OffLatticeCell.h:72:31: note: parameter passing for argument of type ‘std::pair<Point<double>, Point<double> >’ when C++17 is enabled changed to match C++14 in GCC 10.1
72 | PointPair centers() const {return mCenters;}
| ^
g++ -std=gnu++17 -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/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c OffLatticeModel/OffLatticeCell.cpp -o OffLatticeModel/OffLatticeCell.o
In file included from OffLatticeModel/OffLatticeCell.cpp:4:
OffLatticeModel/OffLatticeCell.h: In member function ‘PointPair OffLatticeCell::centers() const’:
OffLatticeModel/OffLatticeCell.h:72:31: note: parameter passing for argument of type ‘std::pair<Point<double>, Point<double> >’ when C++17 is enabled changed to match C++14 in GCC 10.1
72 | PointPair centers() const {return mCenters;}
| ^
g++ -std=gnu++17 -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/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c OffLatticeModel/OffLatticeCellBasedModel.cpp -o OffLatticeModel/OffLatticeCellBasedModel.o
In file included from OffLatticeModel/OffLatticeCellBasedModel.h:8,
from OffLatticeModel/OffLatticeCellBasedModel.cpp:1:
OffLatticeModel/OffLatticeCell.h: In member function ‘PointPair OffLatticeCell::centers() const’:
OffLatticeModel/OffLatticeCell.h:72:31: note: parameter passing for argument of type ‘std::pair<Point<double>, Point<double> >’ when C++17 is enabled changed to match C++14 in GCC 10.1
72 | PointPair centers() const {return mCenters;}
| ^
g++ -std=gnu++17 -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/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c OffLatticeModel/OffLatticeRadiusSolver.cpp -o OffLatticeModel/OffLatticeRadiusSolver.o
g++ -std=gnu++17 -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/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c Core/Cell.cpp -o Core/Cell.o
g++ -std=gnu++17 -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/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c Core/CellBasedModel.cpp -o Core/CellBasedModel.o
g++ -std=gnu++17 -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/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c Core/CellType.cpp -o Core/CellType.o
g++ -std=gnu++17 -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/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c Core/Drug.cpp -o Core/Drug.o
g++ -std=gnu++17 -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/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c Core/Random.cpp -o Core/Random.o
In file included from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/mpl/arg.hpp:25,
from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/mpl/placeholders.hpp:24,
from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/iterator/iterator_categories.hpp:16,
from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/iterator/iterator_concepts.hpp:10,
from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/range/concepts.hpp:20,
from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/range/size_type.hpp:20,
from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/range/size.hpp:21,
from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/random/hyperexponential_distribution.hpp:29,
from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/random.hpp:70,
from Core/Random.cpp:3:
/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses]
194 | failed ************ (Pred::************
| ^
/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses]
199 | failed ************ (boost::mpl::not_<Pred>::************
| ^
g++ -std=gnu++17 -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/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c test-runner.cpp -o test-runner.o
In file included from test-runner.cpp:2:
Tests/catch.h:6473:41: error: array bound is not an integer constant before ‘]’ token
6473 | static char altStackMem[SIGSTKSZ];
| ^
Tests/catch.h: In constructor ‘Catch::FatalConditionHandler::FatalConditionHandler()’:
Tests/catch.h:6492:30: error: ‘altStackMem’ was not declared in this scope
6492 | sigStack.ss_sp = altStackMem;
| ^~~~~~~~~~~
Tests/catch.h: At global scope:
Tests/catch.h:6524:53: error: array bound is not an integer constant before ‘]’ token
6524 | char FatalConditionHandler::altStackMem[SIGSTKSZ] = {};
| ^
make: *** [/home/biocbuild/R/R-beta-2024-04-15_r86425/etc/Makeconf:204: test-runner.o] Error 1
ERROR: compilation failed for package ‘CancerInSilico’
* removing ‘/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/CancerInSilico’