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This page was generated on 2022-03-18 11:06:53 -0400 (Fri, 18 Mar 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.4 LTS)x86_64R Under development (unstable) (2022-02-17 r81757) -- "Unsuffered Consequences" 4334
riesling1Windows Server 2019 Standardx64R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" 4097
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2022-02-17 r81757 ucrt) -- "Unsuffered Consequences" 4083
merida1macOS 10.14.6 Mojavex86_64R Under development (unstable) (2022-03-02 r81842) -- "Unsuffered Consequences" 4134
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

BUILD BIN results for affxparser on riesling1


To the developers/maintainers of the affxparser package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/affxparser.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 22/2090HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
affxparser 1.67.0  (landing page)
Kasper Daniel Hansen
Snapshot Date: 2022-03-17 13:55:23 -0400 (Thu, 17 Mar 2022)
git_url: https://git.bioconductor.org/packages/affxparser
git_branch: master
git_last_commit: c0a3eb6
git_last_commit_date: 2021-11-08 17:12:33 -0400 (Mon, 08 Nov 2021)
nebbiolo1Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    OK    WARNINGS    OK  
palomino3Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: affxparser
Version: 1.67.0
Command: rm -rf affxparser.buildbin-libdir && mkdir affxparser.buildbin-libdir && D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL --build --library=affxparser.buildbin-libdir affxparser_1.67.0.tar.gz
StartedAt: 2022-03-17 20:51:22 -0400 (Thu, 17 Mar 2022)
EndedAt: 2022-03-17 20:55:31 -0400 (Thu, 17 Mar 2022)
EllapsedTime: 249.5 seconds
RetCode: 0
Status:   OK  
PackageFile: affxparser_1.67.0.zip
PackageFileSize: 1.325 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf affxparser.buildbin-libdir && mkdir affxparser.buildbin-libdir && D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL --build --library=affxparser.buildbin-libdir affxparser_1.67.0.tar.gz
###
##############################################################################
##############################################################################


* installing *source* package 'affxparser' ...
** using staged installation
** libs
rm -f fusion/calvin_files/data/src/CDFData.o fusion/calvin_files/data/src/CDFProbeGroupInformation.o fusion/calvin_files/data/src/CDFProbeInformation.o fusion/calvin_files/data/src/CDFProbeSetInformation.o fusion/calvin_files/data/src/CDFQCProbeInformation.o fusion/calvin_files/data/src/CDFQCProbeSetInformation.o fusion/calvin_files/data/src/CELData.o fusion/calvin_files/data/src/CHPBackgroundZone.o fusion/calvin_files/data/src/CHPData.o fusion/calvin_files/data/src/CHPExpressionEntry.o fusion/calvin_files/data/src/CHPMultiDataData.o fusion/calvin_files/data/src/CHPTilingData.o fusion/calvin_files/data/src/CHPQuantificationData.o fusion/calvin_files/data/src/CHPQuantificationDetectionData.o fusion/calvin_files/data/src/CHPGenotypeEntry.o fusion/calvin_files/data/src/CHPUniversalEntry.o fusion/calvin_files/data/src/ColumnInfo.o fusion/calvin_files/data/src/DataGroup.o fusion/calvin_files/data/src/DataGroupHeader.o fusion/calvin_files/data/src/DataSet.o fusion/calvin_files/data/src/DataSetHeader.o fusion/calvin_files/data/src/FileHeader.o fusion/calvin_files/data/src/GenericData.o fusion/calvin_files/data/src/GenericDataHeader.o fusion/calvin_files/exception/src/ExceptionBase.o fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.o fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.o fusion/calvin_files/fusion/src/FusionBPMAPData.o fusion/calvin_files/fusion/src/FusionCDFData.o fusion/calvin_files/fusion/src/FusionCDFQCProbeSetNames.o fusion/calvin_files/fusion/src/FusionCELData.o fusion/calvin_files/fusion/src/FusionCHPData.o fusion/calvin_files/fusion/src/FusionProbeSetResults.o fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.o fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.o fusion/calvin_files/fusion/src/FusionCHPLegacyData.o fusion/calvin_files/fusion/src/FusionCHPMultiDataAccessor.o fusion/calvin_files/fusion/src/FusionCHPMultiDataData.o fusion/calvin_files/fusion/src/FusionCHPTilingData.o fusion/calvin_files/fusion/src/FusionCHPGenericData.o fusion/calvin_files/fusion/src/FusionCHPQuantificationData.o fusion/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.o fusion/calvin_files/parameter/src/ParameterNameValueType.o fusion/calvin_files/parsers/src/CDFFileReader.o fusion/calvin_files/parsers/src/CelFileReader.o fusion/calvin_files/parsers/src/CHPFileReader.o fusion/calvin_files/parsers/src/CHPMultiDataFileReader.o fusion/calvin_files/parsers/src/CHPTilingFileReader.o fusion/calvin_files/parsers/src/CHPQuantificationFileReader.o fusion/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.o fusion/calvin_files/parsers/src/DataGroupHeaderReader.o fusion/calvin_files/parsers/src/DataGroupReader.o fusion/calvin_files/parsers/src/DataSetHeaderReader.o fusion/calvin_files/parsers/src/DataSetReader.o fusion/calvin_files/parsers/src/FileHeaderReader.o fusion/calvin_files/parsers/src/FileInput.o fusion/calvin_files/parsers/src/GenericDataHeaderReader.o fusion/calvin_files/parsers/src/GenericFileReader.o fusion/calvin_files/utils/src/AffymetrixGuid.o fusion/calvin_files/utils/src/DateTime.o fusion/calvin_files/utils/src/FileUtils.o fusion/calvin_files/utils/src/StringUtils.o fusion/calvin_files/utils/src/checksum.o fusion/file/BPMAPFileData.o fusion/file/BPMAPFileWriter.o fusion/file/CDFFileData.o fusion/file/CELFileData.o fusion/file/CHPFileData.o fusion/file/FileIO.o fusion/file/FileWriter.o fusion/file/TsvFile/ClfFile.o fusion/file/TsvFile/PgfFile.o fusion/file/TsvFile/TsvFile.o fusion/util/AffxByteArray.o fusion/util/AffxConv.o fusion/util/MsgStream.o fusion/util/Util.o fusion/util/Err.o fusion/util/Fs.o fusion/util/Verbose.o fusion/util/RowFile.o fusion/util/TableFile.o fusion/util/Convert.o R_affx_cel_parser.o R_affx_cdf_parser.o R_affx_cdf_extras.o R_affx_bpmap_parser.o R_affx_clf_pgf_parser.o R_affx_chp_parser.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CDFData.cpp -o fusion/calvin_files/data/src/CDFData.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/DataGroup.h:31,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.h:32,
                 from fusion/calvin_files/data/src/CDFData.h:26,
                 from fusion/calvin_files/data/src/CDFData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.h:28,
                 from fusion/calvin_files/data/src/CDFData.h:26,
                 from fusion/calvin_files/data/src/CDFData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CDFProbeGroupInformation.cpp -o fusion/calvin_files/data/src/CDFProbeGroupInformation.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/DataGroup.h:31,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.h:32,
                 from fusion/calvin_files/data/src/CDFProbeGroupInformation.h:31,
                 from fusion/calvin_files/data/src/CDFProbeGroupInformation.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/CDFProbeGroupInformation.h:28,
                 from fusion/calvin_files/data/src/CDFProbeGroupInformation.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CDFProbeInformation.cpp -o fusion/calvin_files/data/src/CDFProbeInformation.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/DataSet.h:28,
                 from fusion/calvin_files/data/src/CDFProbeInformation.h:30,
                 from fusion/calvin_files/data/src/CDFProbeInformation.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/CDFProbeInformation.h:27,
                 from fusion/calvin_files/data/src/CDFProbeInformation.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CDFProbeSetInformation.cpp -o fusion/calvin_files/data/src/CDFProbeSetInformation.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/DataGroup.h:31,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.h:32,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.h:28,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CDFQCProbeInformation.cpp -o fusion/calvin_files/data/src/CDFQCProbeInformation.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/DataSet.h:28,
                 from fusion/calvin_files/data/src/CDFQCProbeInformation.h:27,
                 from fusion/calvin_files/data/src/CDFQCProbeInformation.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/DataSet.h:25,
                 from fusion/calvin_files/data/src/CDFQCProbeInformation.h:27,
                 from fusion/calvin_files/data/src/CDFQCProbeInformation.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CDFQCProbeSetInformation.cpp -o fusion/calvin_files/data/src/CDFQCProbeSetInformation.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/DataSet.h:28,
                 from fusion/calvin_files/data/src/CDFQCProbeSetInformation.h:31,
                 from fusion/calvin_files/data/src/CDFQCProbeSetInformation.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/CDFQCProbeSetInformation.h:25,
                 from fusion/calvin_files/data/src/CDFQCProbeSetInformation.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CELData.cpp -o fusion/calvin_files/data/src/CELData.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/GenericData.h:31,
                 from fusion/calvin_files/data/src/CELData.h:26,
                 from fusion/calvin_files/data/src/CELData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/GenericData.h:28,
                 from fusion/calvin_files/data/src/CELData.h:26,
                 from fusion/calvin_files/data/src/CELData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CHPBackgroundZone.cpp -o fusion/calvin_files/data/src/CHPBackgroundZone.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CHPData.cpp -o fusion/calvin_files/data/src/CHPData.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CHPExpressionEntry.cpp -o fusion/calvin_files/data/src/CHPExpressionEntry.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CHPMultiDataData.cpp -o fusion/calvin_files/data/src/CHPMultiDataData.o 
fusion/calvin_files/data/src/CHPMultiDataData.cpp: In member function 'void affymetrix_calvin_io::CHPMultiDataData::SetEntryCount(affymetrix_calvin_io::MultiDataType, int32_t, int32_t, const std::vector<affymetrix_calvin_io::ColumnInfo>&, const wstring&)':
fusion/calvin_files/data/src/CHPMultiDataData.cpp:427:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
     else
     ^~~~
fusion/calvin_files/data/src/CHPMultiDataData.cpp:429:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
  DataGroupHeader* dgHdr = GetDataGroupHeader(dataTypeGroupNames[dataType]);
  ^~~~~~~~~~~~~~~
fusion/calvin_files/data/src/CHPMultiDataData.cpp: In member function 'void affymetrix_calvin_io::CHPMultiDataData::SetEntryCount(affymetrix_calvin_io::MultiDataType, int32_t, int, int, int, const wstring&)':
fusion/calvin_files/data/src/CHPMultiDataData.cpp:457:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
     else
     ^~~~
fusion/calvin_files/data/src/CHPMultiDataData.cpp:459:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
  DataGroupHeader* dgHdr = GetDataGroupHeader(dataTypeGroupNames[dataType]);
  ^~~~~~~~~~~~~~~
fusion/calvin_files/data/src/CHPMultiDataData.cpp: In member function 'void affymetrix_calvin_io::CHPMultiDataData::SetEntryCount(affymetrix_calvin_io::MultiDataType, int32_t, int, int, int, int, const wstring&)':
fusion/calvin_files/data/src/CHPMultiDataData.cpp:482:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
     else
     ^~~~
fusion/calvin_files/data/src/CHPMultiDataData.cpp:484:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
  DataGroupHeader* dgHdr = GetDataGroupHeader(dataTypeGroupNames[dataType]);
  ^~~~~~~~~~~~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CHPTilingData.cpp -o fusion/calvin_files/data/src/CHPTilingData.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CHPQuantificationData.cpp -o fusion/calvin_files/data/src/CHPQuantificationData.o 
fusion/calvin_files/data/src/CHPQuantificationData.cpp: In member function 'void affymetrix_calvin_io::CHPQuantificationData::AddColumns(affymetrix_calvin_io::DataSetHeader&, bool)':
fusion/calvin_files/data/src/CHPQuantificationData.cpp:144:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
     else
     ^~~~
fusion/calvin_files/data/src/CHPQuantificationData.cpp:146:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
  hdr.AddFloatColumn(QUANTIFICATION_QUANTIFICATION_NAME);
  ^~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CHPQuantificationDetectionData.cpp -o fusion/calvin_files/data/src/CHPQuantificationDetectionData.o 
fusion/calvin_files/data/src/CHPQuantificationDetectionData.cpp: In member function 'void affymetrix_calvin_io::CHPQuantificationDetectionData::AddColumns(affymetrix_calvin_io::DataSetHeader&, bool)':
fusion/calvin_files/data/src/CHPQuantificationDetectionData.cpp:151:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
     else
     ^~~~
fusion/calvin_files/data/src/CHPQuantificationDetectionData.cpp:153:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
  hdr.AddFloatColumn(QUANTIFICATION_DETECTION_QUANTIFICATION_NAME);
  ^~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CHPGenotypeEntry.cpp -o fusion/calvin_files/data/src/CHPGenotypeEntry.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CHPUniversalEntry.cpp -o fusion/calvin_files/data/src/CHPUniversalEntry.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/ColumnInfo.cpp -o fusion/calvin_files/data/src/ColumnInfo.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/DataGroup.cpp -o fusion/calvin_files/data/src/DataGroup.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/DataGroup.h:31,
                 from fusion/calvin_files/data/src/DataGroup.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/DataGroup.h:28,
                 from fusion/calvin_files/data/src/DataGroup.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/DataGroupHeader.cpp -o fusion/calvin_files/data/src/DataGroupHeader.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/DataSet.cpp -o fusion/calvin_files/data/src/DataSet.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/DataSet.h:28,
                 from fusion/calvin_files/data/src/DataSet.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/DataSet.h:25,
                 from fusion/calvin_files/data/src/DataSet.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/DataSetHeader.cpp -o fusion/calvin_files/data/src/DataSetHeader.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/FileHeader.cpp -o fusion/calvin_files/data/src/FileHeader.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/GenericData.cpp -o fusion/calvin_files/data/src/GenericData.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/GenericData.h:31,
                 from fusion/calvin_files/data/src/GenericData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/GenericData.h:28,
                 from fusion/calvin_files/data/src/GenericData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/GenericDataHeader.cpp -o fusion/calvin_files/data/src/GenericDataHeader.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/exception/src/ExceptionBase.cpp -o fusion/calvin_files/exception/src/ExceptionBase.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.cpp -o fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/GenericData.h:31,
                 from fusion/calvin_files/data/src/CELData.h:26,
                 from fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.h:27,
                 from fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.cpp:22:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/GenericData.h:28,
                 from fusion/calvin_files/data/src/CELData.h:26,
                 from fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.h:27,
                 from fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.cpp:22:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.cpp -o fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionBPMAPData.cpp -o fusion/calvin_files/fusion/src/FusionBPMAPData.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCDFData.cpp -o fusion/calvin_files/fusion/src/FusionCDFData.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/DataGroup.h:31,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.h:32,
                 from fusion/calvin_files/data/src/CDFData.h:26,
                 from fusion/calvin_files/fusion/src/FusionCDFData.h:27,
                 from fusion/calvin_files/fusion/src/FusionCDFData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.h:28,
                 from fusion/calvin_files/data/src/CDFData.h:26,
                 from fusion/calvin_files/fusion/src/FusionCDFData.h:27,
                 from fusion/calvin_files/fusion/src/FusionCDFData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCDFQCProbeSetNames.cpp -o fusion/calvin_files/fusion/src/FusionCDFQCProbeSetNames.o 
In file included from fusion/portability/affy-base-types.h:51,
                 from fusion/file/CDFFileData.h:37,
                 from fusion/calvin_files/fusion/src/FusionCDFQCProbeSetNames.h:26,
                 from fusion/calvin_files/fusion/src/FusionCDFQCProbeSetNames.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/file/CDFFileData.h:31,
                 from fusion/calvin_files/fusion/src/FusionCDFQCProbeSetNames.h:26,
                 from fusion/calvin_files/fusion/src/FusionCDFQCProbeSetNames.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCELData.cpp -o fusion/calvin_files/fusion/src/FusionCELData.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/GenericData.h:31,
                 from fusion/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
                 from fusion/calvin_files/fusion/src/FusionCELData.h:27,
                 from fusion/calvin_files/fusion/src/FusionCELData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/GenericData.h:28,
                 from fusion/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
                 from fusion/calvin_files/fusion/src/FusionCELData.h:27,
                 from fusion/calvin_files/fusion/src/FusionCELData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCHPData.cpp -o fusion/calvin_files/fusion/src/FusionCHPData.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/GenericData.h:31,
                 from fusion/calvin_files/fusion/src/FusionCHPData.h:26,
                 from fusion/calvin_files/fusion/src/FusionCHPData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/GenericData.h:28,
                 from fusion/calvin_files/fusion/src/FusionCHPData.h:26,
                 from fusion/calvin_files/fusion/src/FusionCHPData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionProbeSetResults.cpp -o fusion/calvin_files/fusion/src/FusionProbeSetResults.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.cpp -o fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/GenericData.h:31,
                 from fusion/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
                 from fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.h:27,
                 from fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/GenericData.h:28,
                 from fusion/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
                 from fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.h:27,
                 from fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.cpp -o fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCHPLegacyData.cpp -o fusion/calvin_files/fusion/src/FusionCHPLegacyData.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/GenericData.h:31,
                 from fusion/calvin_files/fusion/src/FusionCHPData.h:26,
                 from fusion/calvin_files/fusion/src/FusionCHPLegacyData.h:28,
                 from fusion/calvin_files/fusion/src/FusionCHPLegacyData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/GenericData.h:28,
                 from fusion/calvin_files/fusion/src/FusionCHPData.h:26,
                 from fusion/calvin_files/fusion/src/FusionCHPLegacyData.h:28,
                 from fusion/calvin_files/fusion/src/FusionCHPLegacyData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCHPMultiDataAccessor.cpp -o fusion/calvin_files/fusion/src/FusionCHPMultiDataAccessor.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCHPMultiDataData.cpp -o fusion/calvin_files/fusion/src/FusionCHPMultiDataData.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCHPTilingData.cpp -o fusion/calvin_files/fusion/src/FusionCHPTilingData.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCHPGenericData.cpp -o fusion/calvin_files/fusion/src/FusionCHPGenericData.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/GenericData.h:31,
                 from fusion/calvin_files/fusion/src/FusionCHPGenericData.h:25,
                 from fusion/calvin_files/fusion/src/FusionCHPGenericData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/GenericData.h:28,
                 from fusion/calvin_files/fusion/src/FusionCHPGenericData.h:25,
                 from fusion/calvin_files/fusion/src/FusionCHPGenericData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCHPQuantificationData.cpp -o fusion/calvin_files/fusion/src/FusionCHPQuantificationData.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.cpp -o fusion/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parameter/src/ParameterNameValueType.cpp -o fusion/calvin_files/parameter/src/ParameterNameValueType.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/parameter/src/ParameterException.h:24,
                 from fusion/calvin_files/parameter/src/ParameterNameValueType.h:27,
                 from fusion/calvin_files/parameter/src/ParameterNameValueType.cpp:24:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/parameter/src/ParameterNameValueType.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/CDFFileReader.cpp -o fusion/calvin_files/parsers/src/CDFFileReader.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/DataGroup.h:31,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.h:32,
                 from fusion/calvin_files/data/src/CDFData.h:26,
                 from fusion/calvin_files/parsers/src/CDFFileReader.h:29,
                 from fusion/calvin_files/parsers/src/CDFFileReader.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.h:28,
                 from fusion/calvin_files/data/src/CDFData.h:26,
                 from fusion/calvin_files/parsers/src/CDFFileReader.h:29,
                 from fusion/calvin_files/parsers/src/CDFFileReader.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/CelFileReader.cpp -o fusion/calvin_files/parsers/src/CelFileReader.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/GenericData.h:31,
                 from fusion/calvin_files/data/src/CELData.h:26,
                 from fusion/calvin_files/parsers/src/CelFileReader.h:27,
                 from fusion/calvin_files/parsers/src/CelFileReader.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/GenericData.h:28,
                 from fusion/calvin_files/data/src/CELData.h:26,
                 from fusion/calvin_files/parsers/src/CelFileReader.h:27,
                 from fusion/calvin_files/parsers/src/CelFileReader.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/CHPFileReader.cpp -o fusion/calvin_files/parsers/src/CHPFileReader.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/CHPMultiDataFileReader.cpp -o fusion/calvin_files/parsers/src/CHPMultiDataFileReader.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/CHPTilingFileReader.cpp -o fusion/calvin_files/parsers/src/CHPTilingFileReader.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/CHPQuantificationFileReader.cpp -o fusion/calvin_files/parsers/src/CHPQuantificationFileReader.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.cpp -o fusion/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/DataGroupHeaderReader.cpp -o fusion/calvin_files/parsers/src/DataGroupHeaderReader.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/GenericData.h:31,
                 from fusion/calvin_files/parsers/src/DataGroupHeaderReader.h:27,
                 from fusion/calvin_files/parsers/src/DataGroupHeaderReader.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/GenericData.h:28,
                 from fusion/calvin_files/parsers/src/DataGroupHeaderReader.h:27,
                 from fusion/calvin_files/parsers/src/DataGroupHeaderReader.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/DataGroupReader.cpp -o fusion/calvin_files/parsers/src/DataGroupReader.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/DataSetHeaderReader.cpp -o fusion/calvin_files/parsers/src/DataSetHeaderReader.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/GenericData.h:31,
                 from fusion/calvin_files/parsers/src/DataSetHeaderReader.h:27,
                 from fusion/calvin_files/parsers/src/DataSetHeaderReader.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/GenericData.h:28,
                 from fusion/calvin_files/parsers/src/DataSetHeaderReader.h:27,
                 from fusion/calvin_files/parsers/src/DataSetHeaderReader.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/DataSetReader.cpp -o fusion/calvin_files/parsers/src/DataSetReader.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/FileHeaderReader.cpp -o fusion/calvin_files/parsers/src/FileHeaderReader.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/FileInput.cpp -o fusion/calvin_files/parsers/src/FileInput.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/parsers/src/FileInput.h:27,
                 from fusion/calvin_files/parsers/src/FileInput.cpp:24:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/parsers/src/FileInput.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/GenericDataHeaderReader.cpp -o fusion/calvin_files/parsers/src/GenericDataHeaderReader.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/GenericFileReader.cpp -o fusion/calvin_files/parsers/src/GenericFileReader.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/GenericData.h:31,
                 from fusion/calvin_files/parsers/src/GenericFileReader.h:27,
                 from fusion/calvin_files/parsers/src/GenericFileReader.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/GenericData.h:28,
                 from fusion/calvin_files/parsers/src/GenericFileReader.h:27,
                 from fusion/calvin_files/parsers/src/GenericFileReader.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/utils/src/AffymetrixGuid.cpp -o fusion/calvin_files/utils/src/AffymetrixGuid.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/utils/src/checksum.h:27,
                 from fusion/calvin_files/utils/src/AffymetrixGuid.cpp:26:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/utils/src/AffymetrixGuid.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/utils/src/DateTime.cpp -o fusion/calvin_files/utils/src/DateTime.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/utils/src/FileUtils.cpp -o fusion/calvin_files/utils/src/FileUtils.o 
In file included from fusion/portability/affy-base-types.h:51,
                 from fusion/util/Fs.h:27,
                 from fusion/calvin_files/utils/src/FileUtils.cpp:26:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/utils/src/FileUtils.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/utils/src/StringUtils.cpp -o fusion/calvin_files/utils/src/StringUtils.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/utils/src/checksum.cpp -o fusion/calvin_files/utils/src/checksum.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/file/BPMAPFileData.cpp -o fusion/file/BPMAPFileData.o 
In file included from fusion/portability/affy-base-types.h:51,
                 from fusion/file/FileIO.h:27,
                 from fusion/file/BPMAPFileData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/file/BPMAPFileData.h:30,
                 from fusion/file/BPMAPFileData.cpp:20:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/file/BPMAPFileWriter.cpp -o fusion/file/BPMAPFileWriter.o 
In file included from fusion/portability/affy-base-types.h:51,
                 from fusion/file/FileIO.h:27,
                 from fusion/file/BPMAPFileWriter.cpp:22:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/file/BPMAPFileData.h:30,
                 from fusion/file/BPMAPFileWriter.h:26,
                 from fusion/file/BPMAPFileWriter.cpp:20:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/file/CDFFileData.cpp -o fusion/file/CDFFileData.o 
In file included from fusion/portability/affy-base-types.h:51,
                 from fusion/file/CDFFileData.h:37,
                 from fusion/file/CDFFileData.cpp:21:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/file/CDFFileData.h:31,
                 from fusion/file/CDFFileData.cpp:21:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
fusion/file/CDFFileData.cpp: In member function 'bool affxcdf::CCDFFileData::ReadTextFormat()':
fusion/file/CDFFileData.cpp:858:10: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
     else if ( strncmp( subStr, CDFVERSION6, strlen(CDFVERSION6)) == 0)
          ^~
fusion/file/CDFFileData.cpp:861:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
  if (m_Header.m_Version >= 6)
  ^~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/file/CELFileData.cpp -o fusion/file/CELFileData.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/file/CHPFileData.cpp -o fusion/file/CHPFileData.o 
In file included from fusion/portability/affy-base-types.h:51,
                 from fusion/file/CHPFileData.h:36,
                 from fusion/file/CHPFileData.cpp:20:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/crtdefs.h:10,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/string.h:9,
                 from C:/rtools40/mingw64/include/c++/8.3.0/cstring:42,
                 from fusion/file/TagValuePair.h:27,
                 from fusion/file/CHPFileData.h:34,
                 from fusion/file/CHPFileData.cpp:20:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/file/FileIO.cpp -o fusion/file/FileIO.o 
In file included from fusion/portability/affy-base-types.h:51,
                 from fusion/file/FileIO.h:27,
                 from fusion/file/FileIO.cpp:26:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/file/FileIO.cpp:23:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/file/FileWriter.cpp -o fusion/file/FileWriter.o 
In file included from fusion/portability/affy-base-types.h:51,
                 from fusion/file/FileIO.h:27,
                 from fusion/file/FileWriter.h:26,
                 from fusion/file/FileWriter.cpp:25:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/file/FileWriter.cpp:22:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/file/TsvFile/ClfFile.cpp -o fusion/file/TsvFile/ClfFile.o 
In file included from fusion/file/TsvFile/ClfFile.h:31,
                 from fusion/file/TsvFile/ClfFile.cpp:27:
fusion/file/TsvFile/TsvFile.h: In member function 'affx::TsvFile& affx::TsvFile::operator=(const affx::TsvFile&)':
fusion/file/TsvFile/TsvFile.h:527:6: warning: statement has no effect [-Wunused-value]
     (that); /* unused var */
     ~^~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/file/TsvFile/PgfFile.cpp -o fusion/file/TsvFile/PgfFile.o 
In file included from fusion/file/TsvFile/PgfFile.h:32,
                 from fusion/file/TsvFile/PgfFile.cpp:274:
fusion/file/TsvFile/TsvFile.h: In member function 'affx::TsvFile& affx::TsvFile::operator=(const affx::TsvFile&)':
fusion/file/TsvFile/TsvFile.h:527:6: warning: statement has no effect [-Wunused-value]
     (that); /* unused var */
     ~^~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/file/TsvFile/TsvFile.cpp -o fusion/file/TsvFile/TsvFile.o 
In file included from fusion/file/TsvFile/TsvFile.cpp:24:
fusion/file/TsvFile/TsvFile.h: In member function 'affx::TsvFile& affx::TsvFile::operator=(const affx::TsvFile&)':
fusion/file/TsvFile/TsvFile.h:527:6: warning: statement has no effect [-Wunused-value]
     (that); /* unused var */
     ~^~~~~
fusion/file/TsvFile/TsvFile.cpp: In static member function 'static int affx::TsvFile::getLineCountInFile(const string&, bool)':
fusion/file/TsvFile/TsvFile.cpp:4921:20: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=]
   catch (exception e) {
                    ^
fusion/file/TsvFile/TsvFile.cpp: In static member function 'static int affx::TsvFile::replaceCharInFile(const string&, char, char, bool)':
fusion/file/TsvFile/TsvFile.cpp:4970:20: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=]
   catch (exception e) {
                    ^
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/AffxByteArray.cpp -o fusion/util/AffxByteArray.o 
In file included from fusion/portability/affy-base-types.h:51,
                 from fusion/util/Convert.h:32,
                 from fusion/util/Err.h:34,
                 from fusion/util/AffxString.h:29,
                 from fusion/util/AffxByteArray.h:29,
                 from fusion/util/AffxByteArray.cpp:27:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/crtdefs.h:10,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/string.h:9,
                 from C:/rtools40/mingw64/include/c++/8.3.0/cstring:42,
                 from fusion/util/AffxConv.h:33,
                 from fusion/util/AffxByteArray.h:28,
                 from fusion/util/AffxByteArray.cpp:27:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
fusion/util/AffxByteArray.cpp: In member function 'const AffxByteArray& AffxByteArray::operator=(const AffxByteArray&)':
fusion/util/AffxByteArray.cpp:320:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
     if (this == &ba)
     ^~
fusion/util/AffxByteArray.cpp:323:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
  empty();
  ^~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/AffxConv.cpp -o fusion/util/AffxConv.o 
In file included from fusion/portability/affy-base-types.h:51,
                 from fusion/util/Convert.h:32,
                 from fusion/util/AffxConv.cpp:34:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/crtdefs.h:10,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/string.h:9,
                 from C:/rtools40/mingw64/include/c++/8.3.0/cstring:42,
                 from fusion/util/AffxConv.h:33,
                 from fusion/util/AffxConv.cpp:32:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
fusion/util/AffxConv.cpp: In function 'std::__cxx11::string getInt(int, bool)':
fusion/util/AffxConv.cpp:124:8: warning: self-comparison always evaluates to false [-Wtautological-compare]
  if (i != i) {return "nan";}
      ~~^~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/MsgStream.cpp -o fusion/util/MsgStream.o 
In file included from fusion/portability/affy-base-types.h:51,
                 from fusion/util/Convert.h:32,
                 from fusion/util/Err.h:34,
                 from fusion/util/MsgStream.cpp:33:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/crtdefs.h:10,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/string.h:9,
                 from C:/rtools40/mingw64/include/c++/8.3.0/cstring:42,
                 from fusion/util/MsgHandler.h:31,
                 from fusion/util/MsgStream.h:32,
                 from fusion/util/MsgStream.cpp:31:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/Util.cpp -o fusion/util/Util.o 
fusion/util/Util.cpp:220: warning: "S_IRWXG" redefined
 #define S_IRWXG 00070 //mask for group permissions
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:158: note: this is the location of the previous definition
 #define S_IRWXG    (S_IRWXU >> 3)
 
fusion/util/Util.cpp:221: warning: "S_IRGRP" redefined
 #define  S_IRGRP 00040 //group has read permission
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:155: note: this is the location of the previous definition
 #define S_IRGRP    (S_IRUSR >> 3)
 
fusion/util/Util.cpp:222: warning: "S_IWGRP" redefined
 #define  S_IWGRP 00020 //group has write permission
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:156: note: this is the location of the previous definition
 #define S_IWGRP    (S_IWUSR >> 3)
 
fusion/util/Util.cpp:223: warning: "S_IXGRP" redefined
 #define S_IXGRP 00010 //group has execute permission
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:157: note: this is the location of the previous definition
 #define S_IXGRP    (S_IXUSR >> 3)
 
fusion/util/Util.cpp:224: warning: "S_IRWXO" redefined
 #define  S_IRWXO 00007 //mask for permissions for others (not in group)
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:163: note: this is the location of the previous definition
 #define S_IRWXO    (S_IRWXG >> 3)
 
fusion/util/Util.cpp:225: warning: "S_IROTH" redefined
 #define  S_IROTH 00004 //others have read permission
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:160: note: this is the location of the previous definition
 #define S_IROTH    (S_IRGRP >> 3)
 
fusion/util/Util.cpp:226: warning: "S_IWOTH" redefined
 #define S_IWOTH 00002 //others have write permisson
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:161: note: this is the location of the previous definition
 #define S_IWOTH    (S_IWGRP >> 3)
 
fusion/util/Util.cpp:227: warning: "S_IXOTH" redefined
 #define S_IXOTH 00001 // others have execute permission
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Util.cpp:35:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:162: note: this is the location of the previous definition
 #define S_IXOTH    (S_IXGRP >> 3)
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/Err.cpp -o fusion/util/Err.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/Fs.cpp -o fusion/util/Fs.o 
fusion/util/Fs.cpp:43: warning: "S_IRUSR" redefined
 #define S_IRUSR 00400 //owner has read permission
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:152: note: this is the location of the previous definition
 #define S_IRUSR  _S_IRUSR
 
fusion/util/Fs.cpp:44: warning: "S_IWUSR" redefined
 #define S_IWUSR 00200 //owner has write permission
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:151: note: this is the location of the previous definition
 #define S_IWUSR  _S_IWUSR
 
fusion/util/Fs.cpp:45: warning: "S_IXUSR" redefined
 #define S_IXUSR 00100 ///owner has execute permission
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:150: note: this is the location of the previous definition
 #define S_IXUSR  _S_IXUSR
 
fusion/util/Fs.cpp:46: warning: "S_IRWXG" redefined
 #define S_IRWXG 00070 //mask for group permissions
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:158: note: this is the location of the previous definition
 #define S_IRWXG    (S_IRWXU >> 3)
 
fusion/util/Fs.cpp:47: warning: "S_IRGRP" redefined
 #define S_IRGRP 00040 //group has read permission
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:155: note: this is the location of the previous definition
 #define S_IRGRP    (S_IRUSR >> 3)
 
fusion/util/Fs.cpp:48: warning: "S_IWGRP" redefined
 #define S_IWGRP 00020 //group has write permission
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:156: note: this is the location of the previous definition
 #define S_IWGRP    (S_IWUSR >> 3)
 
fusion/util/Fs.cpp:49: warning: "S_IXGRP" redefined
 #define S_IXGRP 00010 //group has execute permission
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:157: note: this is the location of the previous definition
 #define S_IXGRP    (S_IXUSR >> 3)
 
fusion/util/Fs.cpp:50: warning: "S_IRWXO" redefined
 #define S_IRWXO 00007 //mask for permissions for others (not in group)
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:163: note: this is the location of the previous definition
 #define S_IRWXO    (S_IRWXG >> 3)
 
fusion/util/Fs.cpp:51: warning: "S_IROTH" redefined
 #define S_IROTH 00004 //others have read permission
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:160: note: this is the location of the previous definition
 #define S_IROTH    (S_IRGRP >> 3)
 
fusion/util/Fs.cpp:52: warning: "S_IWOTH" redefined
 #define S_IWOTH 00002 //others have write permisson
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:161: note: this is the location of the previous definition
 #define S_IWOTH    (S_IWGRP >> 3)
 
fusion/util/Fs.cpp:53: warning: "S_IXOTH" redefined
 #define S_IXOTH 00001 // others have execute permission
 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
C:/rtools40/mingw64/x86_64-w64-mingw32/include/sys/stat.h:162: note: this is the location of the previous definition
 #define S_IXOTH    (S_IXGRP >> 3)
 
fusion/util/Fs.cpp: In static member function 'static AptErr_t Fs::listDir(const string&, std::vector<std::__cxx11::basic_string<char> >&, bool)':
fusion/util/Fs.cpp:1028:9: warning: unused variable 'rv' [-Wunused-variable]
   DWORD rv=0;
         ^~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/Verbose.cpp -o fusion/util/Verbose.o 
In file included from fusion/portability/affy-base-types.h:51,
                 from fusion/util/Fs.h:27,
                 from fusion/util/Verbose.cpp:31:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/crtdefs.h:10,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/string.h:9,
                 from C:/rtools40/mingw64/include/c++/8.3.0/cstring:42,
                 from fusion/calvin_files/utils/src/StringUtils.h:27,
                 from fusion/util/Verbose.cpp:29:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/RowFile.cpp -o fusion/util/RowFile.o 
In file included from fusion/portability/affy-base-types.h:51,
                 from fusion/util/Convert.h:32,
                 from fusion/util/RowFile.cpp:30:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/crtdefs.h:10,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/string.h:9,
                 from C:/rtools40/mingw64/include/c++/8.3.0/cstring:42,
                 from fusion/util/RowFile.h:31,
                 from fusion/util/RowFile.cpp:28:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/TableFile.cpp -o fusion/util/TableFile.o 
In file included from fusion/portability/affy-base-types.h:51,
                 from fusion/util/Util.h:35,
                 from fusion/util/TableFile.h:32,
                 from fusion/util/TableFile.cpp:28:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/crtdefs.h:10,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/string.h:9,
                 from C:/rtools40/mingw64/include/c++/8.3.0/cstring:42,
                 from fusion/util/RowFile.h:31,
                 from fusion/util/TableFile.h:31,
                 from fusion/util/TableFile.cpp:28:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/Convert.cpp -o fusion/util/Convert.o 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_cel_parser.cpp -o R_affx_cel_parser.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/GenericData.h:31,
                 from fusion/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
                 from fusion/calvin_files/fusion/src/FusionCELData.h:27,
                 from R_affx_cel_parser.cpp:1:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/GenericData.h:28,
                 from fusion/calvin_files/fusion/src/FusionCELDataAdapterInterface.h:24,
                 from fusion/calvin_files/fusion/src/FusionCELData.h:27,
                 from R_affx_cel_parser.cpp:1:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_cdf_parser.cpp -o R_affx_cdf_parser.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/DataGroup.h:31,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.h:32,
                 from fusion/calvin_files/data/src/CDFData.h:26,
                 from fusion/calvin_files/fusion/src/FusionCDFData.h:27,
                 from R_affx_cdf_parser.cpp:1:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.h:28,
                 from fusion/calvin_files/data/src/CDFData.h:26,
                 from fusion/calvin_files/fusion/src/FusionCDFData.h:27,
                 from R_affx_cdf_parser.cpp:1:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_cdf_extras.cpp -o R_affx_cdf_extras.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/DataGroup.h:31,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.h:32,
                 from fusion/calvin_files/data/src/CDFData.h:26,
                 from fusion/calvin_files/fusion/src/FusionCDFData.h:27,
                 from R_affx_cdf_extras.cpp:1:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.h:28,
                 from fusion/calvin_files/data/src/CDFData.h:26,
                 from fusion/calvin_files/fusion/src/FusionCDFData.h:27,
                 from R_affx_cdf_extras.cpp:1:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_bpmap_parser.cpp -o R_affx_bpmap_parser.o 
In file included from R_affx_bpmap_parser.cpp:4:
R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/file/BPMAPFileData.h:30,
                 from R_affx_bpmap_parser.cpp:1:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
R_affx_bpmap_parser.cpp: In function 'SEXPREC* R_affx_get_bpmap_file(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
R_affx_bpmap_parser.cpp:482:32: warning: 'centerpos' may be used uninitialized in this function [-Wmaybe-uninitialized]
                         INTEGER(centerpos)[j] = seqHit.getCenterPosition();
                         ~~~~~~~^~~~~~~~~~~
R_affx_bpmap_parser.cpp:479:36: warning: 'startpos' may be used uninitialized in this function [-Wmaybe-uninitialized]
                             INTEGER(startpos)[j] = seqHit.getStartPosition();
                             ~~~~~~~^~~~~~~~~~
R_affx_bpmap_parser.cpp:485:33: warning: 'matchscore' may be used uninitialized in this function [-Wmaybe-uninitialized]
                             REAL(matchscore)[j] = (double)seqHit.MatchScore;
                             ~~~~^~~~~~~~~~~~
R_affx_bpmap_parser.cpp:488:32: warning: 'probelength' may be used uninitialized in this function [-Wmaybe-uninitialized]
                         INTEGER(probelength)[j] = (int)seqHit.ProbeLength;
                         ~~~~~~~^~~~~~~~~~~~~
R_affx_bpmap_parser.cpp:467:32: warning: 'strand' may be used uninitialized in this function [-Wmaybe-uninitialized]
                         INTEGER(strand)[j] = (unsigned int)seqHit.TopStrand;
                         ~~~~~~~^~~~~~~~
R_affx_bpmap_parser.cpp:475:41: warning: 'probeseq' may be used uninitialized in this function [-Wmaybe-uninitialized]
                           SET_STRING_ELT(probeseq, j, mkChar(cstr));
                           ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
R_affx_bpmap_parser.cpp:502:39: warning: 'mmy' may be used uninitialized in this function [-Wmaybe-uninitialized]
                         SET_VECTOR_ELT(seqObj, kk, mmy);
                         ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
R_affx_bpmap_parser.cpp:463:32: warning: 'mmx' may be used uninitialized in this function [-Wmaybe-uninitialized]
                         INTEGER(mmx)[j] = seqHit.MMX;
                         ~~~~~~~^~~~~
R_affx_bpmap_parser.cpp:495:35: warning: 'pmy' may be used uninitialized in this function [-Wmaybe-uninitialized]
                     SET_VECTOR_ELT(seqObj, kk, pmy);
                     ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
R_affx_bpmap_parser.cpp:493:35: warning: 'pmx' may be used uninitialized in this function [-Wmaybe-uninitialized]
                     SET_VECTOR_ELT(seqObj, kk, pmx);
                     ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_clf_pgf_parser.cpp -o R_affx_clf_pgf_parser.o 
In file included from fusion/file/TsvFile/ClfFile.h:31,
                 from R_affx_clf_pgf_parser.cpp:2:
fusion/file/TsvFile/TsvFile.h: In member function 'affx::TsvFile& affx::TsvFile::operator=(const affx::TsvFile&)':
fusion/file/TsvFile/TsvFile.h:527:6: warning: statement has no effect [-Wunused-value]
     (that); /* unused var */
     ~^~~~~
R_affx_clf_pgf_parser.cpp: In function 'SEXPREC* R_affx_get_clf_file(SEXP, SEXP, SEXP)':
R_affx_clf_pgf_parser.cpp:284:21: warning: catching polymorphic type 'class Except' by value [-Wcatch-value=]
     } catch (Except ex) {
                     ^~
R_affx_clf_pgf_parser.cpp: In function 'SEXPREC* R_affx_get_pgf_file(SEXP, SEXP, SEXP, SEXP)':
R_affx_clf_pgf_parser.cpp:327:21: warning: catching polymorphic type 'class Except' by value [-Wcatch-value=]
     } catch (Except ex) {
                     ^~
R_affx_clf_pgf_parser.cpp: In function 'void R_affx_get_body(affx::PgfFile*, SEXP, SEXP)':
R_affx_clf_pgf_parser.cpp:161:23: warning: 'pindices' may be used uninitialized in this function [-Wmaybe-uninitialized]
             currIndex = pindices[i];
             ~~~~~~~~~~^~~~~~~~~~~~~
R_affx_clf_pgf_parser.cpp:132:4: warning: 'currIndex' may be used uninitialized in this function [-Wmaybe-uninitialized]
    if (nProbesets < currIndex) continue;
    ^~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -D_MSC_VER    -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -Wno-sign-compare -Wno-unknown-pragmas -c R_affx_chp_parser.cpp -o R_affx_chp_parser.o 
In file included from fusion/calvin_files/portability/src/AffymetrixBaseTypes.h:27,
                 from fusion/calvin_files/exception/src/ExceptionBase.h:24,
                 from fusion/calvin_files/data/src/DataException.h:27,
                 from fusion/calvin_files/data/src/GenericData.h:31,
                 from fusion/calvin_files/fusion/src/FusionCHPData.h:26,
                 from R_affx_chp_parser.cpp:1:
./R_affx_constants.h:17: warning: "WINVER" redefined
 #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
 
In file included from ./_mingw.h:16,
                 from C:/rtools40/mingw64/x86_64-w64-mingw32/include/windows.h:9,
                 from fusion/calvin_files/data/src/GenericData.h:28,
                 from fusion/calvin_files/fusion/src/FusionCHPData.h:26,
                 from R_affx_chp_parser.cpp:1:
./_mingw_gcc493.h:225: note: this is the location of the previous definition
 #define WINVER 0x0502
 
In file included from R_affx_chp_parser.cpp:21:
D:/biocbuild/bbs-3.15-bioc/R/include/Rdefines.h: In function 'SEXPREC* R_affx_GetCHPGenotypingResults(affymetrix_fusion_io::FusionCHPLegacyData*)':
D:/biocbuild/bbs-3.15-bioc/R/include/Rdefines.h:131:46: warning: 'nocall' may be used uninitialized in this function [-Wmaybe-uninitialized]
 #define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
                                              ^
R_affx_chp_parser.cpp:318:38: note: 'nocall' was declared here
   SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
                                      ^~~~~~
In file included from R_affx_chp_parser.cpp:21:
D:/biocbuild/bbs-3.15-bioc/R/include/Rdefines.h:131:46: warning: 'bb' may be used uninitialized in this function [-Wmaybe-uninitialized]
 #define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
                                              ^
R_affx_chp_parser.cpp:318:34: note: 'bb' was declared here
   SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
                                  ^~
In file included from R_affx_chp_parser.cpp:21:
D:/biocbuild/bbs-3.15-bioc/R/include/Rdefines.h:131:46: warning: 'ab' may be used uninitialized in this function [-Wmaybe-uninitialized]
 #define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
                                              ^
R_affx_chp_parser.cpp:318:30: note: 'ab' was declared here
   SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
                              ^~
In file included from R_affx_chp_parser.cpp:21:
D:/biocbuild/bbs-3.15-bioc/R/include/Rdefines.h:131:46: warning: 'aa' may be used uninitialized in this function [-Wmaybe-uninitialized]
 #define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
                                              ^
R_affx_chp_parser.cpp:318:26: note: 'aa' was declared here
   SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
                          ^~
In file included from R_affx_chp_parser.cpp:21:
D:/biocbuild/bbs-3.15-bioc/R/include/Rdefines.h:131:46: warning: 'ras1' may be used uninitialized in this function [-Wmaybe-uninitialized]
 #define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
                                              ^
R_affx_chp_parser.cpp:318:14: note: 'ras1' was declared here
   SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
              ^~~~
R_affx_chp_parser.cpp:360:11: warning: 'ras2' may be used uninitialized in this function [-Wmaybe-uninitialized]
       REAL(ras2)[i] =  f.GetRAS2();
       ~~~~^~~~~~
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o affxparser.dll tmp.def fusion/calvin_files/data/src/CDFData.o fusion/calvin_files/data/src/CDFProbeGroupInformation.o fusion/calvin_files/data/src/CDFProbeInformation.o fusion/calvin_files/data/src/CDFProbeSetInformation.o fusion/calvin_files/data/src/CDFQCProbeInformation.o fusion/calvin_files/data/src/CDFQCProbeSetInformation.o fusion/calvin_files/data/src/CELData.o fusion/calvin_files/data/src/CHPBackgroundZone.o fusion/calvin_files/data/src/CHPData.o fusion/calvin_files/data/src/CHPExpressionEntry.o fusion/calvin_files/data/src/CHPMultiDataData.o fusion/calvin_files/data/src/CHPTilingData.o fusion/calvin_files/data/src/CHPQuantificationData.o fusion/calvin_files/data/src/CHPQuantificationDetectionData.o fusion/calvin_files/data/src/CHPGenotypeEntry.o fusion/calvin_files/data/src/CHPUniversalEntry.o fusion/calvin_files/data/src/ColumnInfo.o fusion/calvin_files/data/src/DataGroup.o fusion/calvin_files/data/src/DataGroupHeader.o fusion/calvin_files/data/src/DataSet.o fusion/calvin_files/data/src/DataSetHeader.o fusion/calvin_files/data/src/FileHeader.o fusion/calvin_files/data/src/GenericData.o fusion/calvin_files/data/src/GenericDataHeader.o fusion/calvin_files/exception/src/ExceptionBase.o fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.o fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.o fusion/calvin_files/fusion/src/FusionBPMAPData.o fusion/calvin_files/fusion/src/FusionCDFData.o fusion/calvin_files/fusion/src/FusionCDFQCProbeSetNames.o fusion/calvin_files/fusion/src/FusionCELData.o fusion/calvin_files/fusion/src/FusionCHPData.o fusion/calvin_files/fusion/src/FusionProbeSetResults.o fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.o fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.o fusion/calvin_files/fusion/src/FusionCHPLegacyData.o fusion/calvin_files/fusion/src/FusionCHPMultiDataAccessor.o fusion/calvin_files/fusion/src/FusionCHPMultiDataData.o fusion/calvin_files/fusion/src/FusionCHPTilingData.o fusion/calvin_files/fusion/src/FusionCHPGenericData.o fusion/calvin_files/fusion/src/FusionCHPQuantificationData.o fusion/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.o fusion/calvin_files/parameter/src/ParameterNameValueType.o fusion/calvin_files/parsers/src/CDFFileReader.o fusion/calvin_files/parsers/src/CelFileReader.o fusion/calvin_files/parsers/src/CHPFileReader.o fusion/calvin_files/parsers/src/CHPMultiDataFileReader.o fusion/calvin_files/parsers/src/CHPTilingFileReader.o fusion/calvin_files/parsers/src/CHPQuantificationFileReader.o fusion/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.o fusion/calvin_files/parsers/src/DataGroupHeaderReader.o fusion/calvin_files/parsers/src/DataGroupReader.o fusion/calvin_files/parsers/src/DataSetHeaderReader.o fusion/calvin_files/parsers/src/DataSetReader.o fusion/calvin_files/parsers/src/FileHeaderReader.o fusion/calvin_files/parsers/src/FileInput.o fusion/calvin_files/parsers/src/GenericDataHeaderReader.o fusion/calvin_files/parsers/src/GenericFileReader.o fusion/calvin_files/utils/src/AffymetrixGuid.o fusion/calvin_files/utils/src/DateTime.o fusion/calvin_files/utils/src/FileUtils.o fusion/calvin_files/utils/src/StringUtils.o fusion/calvin_files/utils/src/checksum.o fusion/file/BPMAPFileData.o fusion/file/BPMAPFileWriter.o fusion/file/CDFFileData.o fusion/file/CELFileData.o fusion/file/CHPFileData.o fusion/file/FileIO.o fusion/file/FileWriter.o fusion/file/TsvFile/ClfFile.o fusion/file/TsvFile/PgfFile.o fusion/file/TsvFile/TsvFile.o fusion/util/AffxByteArray.o fusion/util/AffxConv.o fusion/util/MsgStream.o fusion/util/Util.o fusion/util/Err.o fusion/util/Fs.o fusion/util/Verbose.o fusion/util/RowFile.o fusion/util/TableFile.o fusion/util/Convert.o R_affx_cel_parser.o R_affx_cdf_parser.o R_affx_cdf_extras.o R_affx_bpmap_parser.o R_affx_clf_pgf_parser.o R_affx_chp_parser.o -lws2_32 -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LD:/biocbuild/bbs-3.15-bioc/R/bin/x64 -lR
installing to D:/biocbuild/bbs-3.15-bioc/meat/affxparser.buildbin-libdir/00LOCK-affxparser/00new/affxparser/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'affxparser'
    finding HTML links ... done
    1._Dictionary                           html  
    2._Cell_coordinates_and_cell_indices    html  
    9._Advanced_-_Cell-index_maps_for_reading_and_writing
                                            html  
    affxparser-package                      html  
    applyCdfGroupFields                     html  
    applyCdfGroups                          html  
    arrangeCelFilesByChipType               html  
    cdfAddBaseMmCounts                      html  
    cdfAddPlasqTypes                        html  
    cdfAddProbeOffsets                      html  
    cdfGetFields                            html  
    cdfGetGroups                            html  
    cdfGtypeCelToPQ                         html  
    cdfHeaderToCelHeader                    html  
    cdfMergeAlleles                         html  
    cdfMergeStrands                         html  
    cdfMergeToQuartets                      html  
    cdfOrderBy                              html  
    cdfOrderColumnsBy                       html  
    cdfSetDimension                         html  
    compareCdfs                             html  
    compareCels                             html  
    convertCdf                              html  
    convertCel                              html  
    copyCel                                 html  
    createCel                               html  
    findCdf                                 html  
    findFiles                               html  
    invertMap                               html  
    isCelFile                               html  
    parseDatHeaderString                    html  
    readBpmap                               html  
    readCcg                                 html  
    readCcgHeader                           html  
    readCdf                                 html  
    readCdfCellIndices                      html  
    readCdfDataFrame                        html  
    readCdfGroupNames                       html  
    readCdfHeader                           html  
    readCdfIsPm                             html  
    readCdfNbrOfCellsPerUnitGroup           html  
    readCdfQc                               html  
    readCdfUnitNames                        html  
    readCdfUnits                            html  
    readCdfUnitsWriteMap                    html  
    readCel                                 html  
    readCelHeader                           html  
    readCelIntensities                      html  
    readCelRectangle                        html  
    readCelUnits                            html  
    readChp                                 html  
    readClf                                 html  
    readClfEnv                              html  
    readClfHeader                           html  
    readPgf                                 html  
    readPgfEnv                              html  
    readPgfHeader                           html  
    updateCel                               html  
    updateCelUnits                          html  
    writeCdf                                html  
    writeCdfHeader                          html  
    writeCdfQcUnits                         html  
    writeCdfUnits                           html  
    writeCelHeader                          html  
    writeTpmap                              html  
** building package indices
** 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 'affxparser' as affxparser_1.67.0.zip
* DONE (affxparser)