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INSTALL report for CALIB on tokay2

This page was generated on 2018-10-17 08:33:10 -0400 (Wed, 17 Oct 2018).

Package 180/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CALIB 1.46.0
Hui Zhao
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/CALIB
Branch: RELEASE_3_7
Last Commit: 9e4bdb0
Last Changed Date: 2018-04-30 10:35:06 -0400 (Mon, 30 Apr 2018)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: CALIB
Version: 1.46.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/CALIB_1.46.0.tar.gz && rm -rf CALIB.buildbin-libdir && mkdir CALIB.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CALIB.buildbin-libdir CALIB_1.46.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL CALIB_1.46.0.zip && rm CALIB_1.46.0.tar.gz CALIB_1.46.0.zip
StartedAt: 2018-10-16 18:39:41 -0400 (Tue, 16 Oct 2018)
EndedAt: 2018-10-16 18:40:42 -0400 (Tue, 16 Oct 2018)
EllapsedTime: 60.7 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/CALIB_1.46.0.tar.gz && rm -rf CALIB.buildbin-libdir && mkdir CALIB.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CALIB.buildbin-libdir CALIB_1.46.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL CALIB_1.46.0.zip && rm CALIB_1.46.0.tar.gz CALIB_1.46.0.zip
###
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install for i386

* installing *source* package 'CALIB' ...
** libs
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c Design.cpp -o Design.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -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: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
  char *name[8] = {"MuS","Ka","P1","P2","SigmaA","SigmaM","SigmaS","SpotError"};
                                                                              ^
Estimation.cpp:147:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c NormalizedData.cpp -o NormalizedData.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c ParameterofOneArray.cpp -o ParameterofOneArray.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c RawDataofOneArray.cpp -o RawDataofOneArray.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c SpikeofOneArray.cpp -o SpikeofOneArray.o
C:/Rtools/mingw_32/bin/g++ -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˜1.7-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/CALIB.buildbin-libdir/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  
    plotSpikeCI                             html  
    plotSpikeHI                             html  
    plotSpikeRG                             html  
    plotSpikeSpotError                      html  
    read.rg                                 html  
    read.spike                              html  
    spike                                   html  
    subsetting                              html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'CALIB' ...
** libs
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c Design.cpp -o Design.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -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: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
  char *name[8] = {"MuS","Ka","P1","P2","SigmaA","SigmaM","SigmaS","SpotError"};
                                                                              ^
Estimation.cpp:147:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
Estimation.cpp:147:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c NormalizedData.cpp -o NormalizedData.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c ParameterofOneArray.cpp -o ParameterofOneArray.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c RawDataofOneArray.cpp -o RawDataofOneArray.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c SpikeofOneArray.cpp -o SpikeofOneArray.o
C:/Rtools/mingw_64/bin/g++ -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˜1.7-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/CALIB.buildbin-libdir/CALIB/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'CALIB' as CALIB_1.46.0.zip
* DONE (CALIB)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'CALIB' successfully unpacked and MD5 sums checked
In R CMD INSTALL