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BUILD BIN report for CALIB on tokay2

This page was generated on 2020-10-17 11:56:12 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE CALIB PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 220/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CALIB 1.54.0
Hui Zhao
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/CALIB
Branch: RELEASE_3_11
Last Commit: 0e17e9d
Last Changed Date: 2020-04-27 14:14:54 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  ERROR 
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  ERROR [ OK ]
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK  ERROR  OK 

Summary

Package: CALIB
Version: 1.54.0
Command: rm -rf CALIB.buildbin-libdir && mkdir CALIB.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CALIB.buildbin-libdir CALIB_1.54.0.tar.gz
StartedAt: 2020-10-17 10:00:31 -0400 (Sat, 17 Oct 2020)
EndedAt: 2020-10-17 10:01:16 -0400 (Sat, 17 Oct 2020)
EllapsedTime: 45.2 seconds
RetCode: 0
Status:  OK  
PackageFile: CALIB_1.54.0.zip
PackageFileSize: 2.289 MiB

Command output

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###
### Running command:
###
###   rm -rf CALIB.buildbin-libdir && mkdir CALIB.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CALIB.buildbin-libdir CALIB_1.54.0.tar.gz
###
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install for i386

* installing *source* package 'CALIB' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c Design.cpp -o Design.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c Estimation.cpp -o Estimation.o
Estimation.cpp: In function 'SEXPREC* estimation(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
  char *name[8] = {"MuS","Ka","P1","P2","SigmaA","SigmaM","SigmaS","SpotError"};
                                                                              ^
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c NormalizedData.cpp -o NormalizedData.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c ParameterofOneArray.cpp -o ParameterofOneArray.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c RawDataofOneArray.cpp -o RawDataofOneArray.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c SpikeofOneArray.cpp -o SpikeofOneArray.o
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o CALIB.dll tmp.def Design.o Estimation.o NormalizedData.o ParameterofOneArray.o RawDataofOneArray.o SpikeofOneArray.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/CALIB.buildbin-libdir/00LOCK-CALIB/00new/CALIB/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'CALIB'
    finding HTML links ... done
    ParameterList-class                     html  
    RG                                      html  
    RGList_CALIB-class                      html  
    SpikeList-class                         html  
    adjustP2                                html  
    calibReadMe                             html  
    cbind                                   html  
    dim                                     html  
    dimnames                                html  
    estimateParameter                       html  
    getColClasses                           html  
    merge                                   html  
    normalizeData                           html  
    normdata                                html  
    parameter                               html  
    plotNormalizedData                      html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpwjdbZ8/R.INSTALL28f81fbe4e9f/CALIB/man/plotNormalizedData.Rd:49: file link 'plot' in package 'graphics' does not exist and so has been treated as a topic
    plotSpikeCI                             html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpwjdbZ8/R.INSTALL28f81fbe4e9f/CALIB/man/plotSpikeCI.Rd:68: file link 'plot' in package 'graphics' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpwjdbZ8/R.INSTALL28f81fbe4e9f/CALIB/man/plotSpikeCI.Rd:95: file link 'plot' in package 'graphics' does not exist and so has been treated as a topic
    plotSpikeHI                             html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpwjdbZ8/R.INSTALL28f81fbe4e9f/CALIB/man/plotSpikeHI.Rd:69: file link 'plot' in package 'graphics' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpwjdbZ8/R.INSTALL28f81fbe4e9f/CALIB/man/plotSpikeHI.Rd:91: file link 'plot' in package 'graphics' does not exist and so has been treated as a topic
    plotSpikeRG                             html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpwjdbZ8/R.INSTALL28f81fbe4e9f/CALIB/man/plotSpikeRG.Rd:90: file link 'plot' in package 'graphics' does not exist and so has been treated as a topic
    plotSpikeSpotError                      html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpwjdbZ8/R.INSTALL28f81fbe4e9f/CALIB/man/plotSpikeSpotError.Rd:55: file link 'plot' in package 'graphics' does not exist and so has been treated as a topic
    read.rg                                 html  
    read.spike                              html  
    spike                                   html  
    subsetting                              html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: Package 'CALIB' is deprecated and will be removed from Bioconductor
  version 3.12
** testing if installed package can be loaded from final location
Warning: Package 'CALIB' is deprecated and will be removed from Bioconductor
  version 3.12
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'CALIB' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c Design.cpp -o Design.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c Estimation.cpp -o Estimation.o
Estimation.cpp: In function 'SEXPREC* estimation(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
  char *name[8] = {"MuS","Ka","P1","P2","SigmaA","SigmaM","SigmaS","SpotError"};
                                                                              ^
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c NormalizedData.cpp -o NormalizedData.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c ParameterofOneArray.cpp -o ParameterofOneArray.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c RawDataofOneArray.cpp -o RawDataofOneArray.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c SpikeofOneArray.cpp -o SpikeofOneArray.o
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o CALIB.dll tmp.def Design.o Estimation.o NormalizedData.o ParameterofOneArray.o RawDataofOneArray.o SpikeofOneArray.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/CALIB.buildbin-libdir/CALIB/libs/x64
** testing if installed package can be loaded
Warning: Package 'CALIB' is deprecated and will be removed from Bioconductor
  version 3.12
* MD5 sums
packaged installation of 'CALIB' as CALIB_1.54.0.zip
* DONE (CALIB)