Rich Savage
| Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023) |
| git_url: https://git.bioconductor.org/packages/BHC |
| git_branch: RELEASE_3_16 |
| git_last_commit: 93d57be |
| git_last_commit_date: 2022-11-01 11:05:08 -0400 (Tue, 01 Nov 2022) |
| Back to Multiple platform build/check report for BioC 3.16: simplified long |
|
This page was generated on 2023-04-12 11:05:25 -0400 (Wed, 12 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" | 4282 |
| lconway | macOS 12.5.1 Monterey | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4310 |
| 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 | ||||
|
To the developers/maintainers of the BHC package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BHC.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 146/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| BHC 1.50.0 (landing page) Rich Savage
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.5.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| Package: BHC |
| Version: 1.50.0 |
| Command: rm -rf BHC.buildbin-libdir && mkdir BHC.buildbin-libdir && F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL --build --library=BHC.buildbin-libdir BHC_1.50.0.tar.gz |
| StartedAt: 2023-04-11 07:36:35 -0400 (Tue, 11 Apr 2023) |
| EndedAt: 2023-04-11 07:37:10 -0400 (Tue, 11 Apr 2023) |
| EllapsedTime: 35.0 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: BHC_1.50.0.zip |
| PackageFileSize: 492.3 KiB |
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### Running command:
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### rm -rf BHC.buildbin-libdir && mkdir BHC.buildbin-libdir && F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL --build --library=BHC.buildbin-libdir BHC_1.50.0.tar.gz
###
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* installing *source* package 'BHC' ...
** using staged installation
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c BlockCovarianceMatrix.cpp -o BlockCovarianceMatrix.o
In file included from BlockCovarianceMatrix.h:16,
from BlockCovarianceMatrix.cpp:15:
header.h:16: warning: "NDEBUG" redefined
16 | #define NDEBUG
|
<command-line>: note: this is the location of the previous definition
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c CubicSplineTimecourseDataSet.cpp -o CubicSplineTimecourseDataSet.o
In file included from DataSet.h:16,
from TimecourseDataSet.h:20,
from CubicSplineTimecourseDataSet.h:20,
from CubicSplineTimecourseDataSet.cpp:15:
header.h:16: warning: "NDEBUG" redefined
16 | #define NDEBUG
|
<command-line>: note: this is the location of the previous definition
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c DataSet.cpp -o DataSet.o
In file included from DataSet.h:16,
from DataSet.cpp:13:
header.h:16: warning: "NDEBUG" redefined
16 | #define NDEBUG
|
<command-line>: note: this is the location of the previous definition
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c DirichletProcessMixture.cpp -o DirichletProcessMixture.o
In file included from DirichletProcessMixture.h:4,
from DirichletProcessMixture.cpp:15:
header.h:16: warning: "NDEBUG" redefined
16 | #define NDEBUG
|
<command-line>: note: this is the location of the previous definition
DirichletProcessMixture.cpp:187: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas]
187 | #pragma omp parallel for default(shared) private(i) schedule(dynamic,1)
|
DirichletProcessMixture.cpp:272: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas]
272 | #pragma omp parallel for default(shared) private(i) schedule(dynamic,1)
|
DirichletProcessMixture.cpp:299: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas]
299 | #pragma omp parallel for default(shared) private(i,j) schedule(dynamic,1)
|
DirichletProcessMixture.cpp:375: warning: ignoring '#pragma omp parallel' [-Wunknown-pragmas]
375 | #pragma omp parallel for default(shared) private(j) schedule(dynamic,1)
|
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c MultinomialDataSet.cpp -o MultinomialDataSet.o
In file included from DataSet.h:16,
from MultinomialDataSet.h:4,
from MultinomialDataSet.cpp:1:
header.h:16: warning: "NDEBUG" redefined
16 | #define NDEBUG
|
<command-line>: note: this is the location of the previous definition
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Node.cpp -o Node.o
In file included from Node.h:16,
from Node.cpp:13:
header.h:16: warning: "NDEBUG" redefined
16 | #define NDEBUG
|
<command-line>: note: this is the location of the previous definition
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RobustCubicSplineTimecourseDataSet.cpp -o RobustCubicSplineTimecourseDataSet.o
In file included from DataSet.h:16,
from TimecourseDataSet.h:20,
from CubicSplineTimecourseDataSet.h:20,
from RobustCubicSplineTimecourseDataSet.h:20,
from RobustCubicSplineTimecourseDataSet.cpp:15:
header.h:16: warning: "NDEBUG" redefined
16 | #define NDEBUG
|
<command-line>: note: this is the location of the previous definition
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RobustSquaredExponentialTimecourseDataSet.cpp -o RobustSquaredExponentialTimecourseDataSet.o
In file included from SquaredExponentialTimecourseDataSet.h:20,
from RobustSquaredExponentialTimecourseDataSet.h:20,
from RobustSquaredExponentialTimecourseDataSet.cpp:15:
header.h:16: warning: "NDEBUG" redefined
16 | #define NDEBUG
|
<command-line>: note: this is the location of the previous definition
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c SquaredExponentialTimecourseDataSet.cpp -o SquaredExponentialTimecourseDataSet.o
In file included from SquaredExponentialTimecourseDataSet.h:20,
from SquaredExponentialTimecourseDataSet.cpp:15:
header.h:16: warning: "NDEBUG" redefined
16 | #define NDEBUG
|
<command-line>: note: this is the location of the previous definition
SquaredExponentialTimecourseDataSet.cpp: In member function 'void SquaredExponentialTimecourseDataSet::OptimiseHyperparametersEstimatedNoise(std::vector<double>, double&, double&, double&, double)':
SquaredExponentialTimecourseDataSet.cpp:339:30: warning: variable 'gridLogEvidence' set but not used [-Wunused-but-set-variable]
339 | double currentLogEvidence, gridLogEvidence,
| ^~~~~~~~~~~~~~~
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c TimecourseDataSet.cpp -o TimecourseDataSet.o
In file included from DataSet.h:16,
from TimecourseDataSet.h:20,
from TimecourseDataSet.cpp:13:
header.h:16: warning: "NDEBUG" redefined
16 | #define NDEBUG
|
<command-line>: note: this is the location of the previous definition
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c bhc.cpp -o bhc.o
In file included from bhc.cpp:17:
header.h:16: warning: "NDEBUG" redefined
16 | #define NDEBUG
|
<command-line>: note: this is the location of the previous definition
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c gammaln.cpp -o gammaln.o
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c header.cpp -o header.o
In file included from header.cpp:1:
header.h:16: warning: "NDEBUG" redefined
16 | #define NDEBUG
|
<command-line>: note: this is the location of the previous definition
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c multinomial_CalculateHyperparameters.cpp -o multinomial_CalculateHyperparameters.o
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c multinomial_OutputDendrogramInformation.cpp -o multinomial_OutputDendrogramInformation.o
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c multinomial_ReadInData.cpp -o multinomial_ReadInData.o
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c multinomial_bayeslink_binf.cpp -o multinomial_bayeslink_binf.o
g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c multinomial_binevidence.cpp -o multinomial_binevidence.o
g++ -std=gnu++14 -shared -s -static-libgcc -o BHC.dll tmp.def BlockCovarianceMatrix.o CubicSplineTimecourseDataSet.o DataSet.o DirichletProcessMixture.o MultinomialDataSet.o Node.o RobustCubicSplineTimecourseDataSet.o RobustSquaredExponentialTimecourseDataSet.o SquaredExponentialTimecourseDataSet.o TimecourseDataSet.o bhc.o gammaln.o header.o multinomial_CalculateHyperparameters.o multinomial_OutputDendrogramInformation.o multinomial_ReadInData.o multinomial_bayeslink_binf.o multinomial_binevidence.o -LC:/rtools42/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools42/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.16-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.16-bioc/meat/BHC.buildbin-libdir/00LOCK-BHC/00new/BHC/libs/x64
** R
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* MD5 sums
packaged installation of 'BHC' as BHC_1.50.0.zip
* DONE (BHC)