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This page was generated on 2023-04-12 11:05:24 -0400 (Wed, 12 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4502
palomino4Windows Server 2022 Datacenterx644.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" 4282
lconwaymacOS 12.5.1 Montereyx86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4310
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

INSTALL results for affxparser on palomino4


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? 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 21/2183HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
affxparser 1.70.0  (landing page)
Kasper Daniel Hansen
Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023)
git_url: https://git.bioconductor.org/packages/affxparser
git_branch: RELEASE_3_16
git_last_commit: 28f94cd
git_last_commit_date: 2022-11-01 16:33:02 -0400 (Tue, 01 Nov 2022)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
lconwaymacOS 12.5.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: affxparser
Version: 1.70.0
Command: F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL affxparser
StartedAt: 2023-04-10 15:33:29 -0400 (Mon, 10 Apr 2023)
EndedAt: 2023-04-10 15:39:38 -0400 (Mon, 10 Apr 2023)
EllapsedTime: 369.2 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
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###
### Running command:
###
###   F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL affxparser
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.16-bioc/R/library'
* 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 000.init.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/calvin_files/data/src/CDFProbeGroupInformation.h:28,
                 from fusion/calvin_files/data/src/CDFProbeGroupInformation.cpp:21:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/calvin_files/data/src/CDFProbeInformation.h:27,
                 from fusion/calvin_files/data/src/CDFProbeInformation.cpp:21:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.h:28,
                 from fusion/calvin_files/data/src/CDFProbeSetInformation.cpp:21:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/calvin_files/data/src/CDFQCProbeSetInformation.h:25,
                 from fusion/calvin_files/data/src/CDFQCProbeSetInformation.cpp:21:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CHPBackgroundZone.cpp -o fusion/calvin_files/data/src/CHPBackgroundZone.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CHPData.cpp -o fusion/calvin_files/data/src/CHPData.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CHPExpressionEntry.cpp -o fusion/calvin_files/data/src/CHPExpressionEntry.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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]
  427 |     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'
  429 |  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]
  457 |     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'
  459 |  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]
  482 |     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'
  484 |  DataGroupHeader* dgHdr = GetDataGroupHeader(dataTypeGroupNames[dataType]);
      |  ^~~~~~~~~~~~~~~
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CHPTilingData.cpp -o fusion/calvin_files/data/src/CHPTilingData.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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]
  144 |     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'
  146 |  hdr.AddFloatColumn(QUANTIFICATION_QUANTIFICATION_NAME);
      |  ^~~
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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]
  151 |     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'
  153 |  hdr.AddFloatColumn(QUANTIFICATION_DETECTION_QUANTIFICATION_NAME);
      |  ^~~
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CHPGenotypeEntry.cpp -o fusion/calvin_files/data/src/CHPGenotypeEntry.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/CHPUniversalEntry.cpp -o fusion/calvin_files/data/src/CHPUniversalEntry.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/ColumnInfo.cpp -o fusion/calvin_files/data/src/ColumnInfo.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/calvin_files/data/src/DataGroup.h:28,
                 from fusion/calvin_files/data/src/DataGroup.cpp:21:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/DataGroupHeader.cpp -o fusion/calvin_files/data/src/DataGroupHeader.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/calvin_files/data/src/DataSet.h:25,
                 from fusion/calvin_files/data/src/DataSet.cpp:21:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/DataSetHeader.cpp -o fusion/calvin_files/data/src/DataSetHeader.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/FileHeader.cpp -o fusion/calvin_files/data/src/FileHeader.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/calvin_files/data/src/GenericData.h:28,
                 from fusion/calvin_files/data/src/GenericData.cpp:21:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/data/src/GenericDataHeader.cpp -o fusion/calvin_files/data/src/GenericDataHeader.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/exception/src/ExceptionBase.cpp -o fusion/calvin_files/exception/src/ExceptionBase.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.cpp -o fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionBPMAPData.cpp -o fusion/calvin_files/fusion/src/FusionBPMAPData.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/file/CDFFileData.h:31,
                 from fusion/calvin_files/fusion/src/FusionCDFQCProbeSetNames.h:26,
                 from fusion/calvin_files/fusion/src/FusionCDFQCProbeSetNames.cpp:21:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionProbeSetResults.cpp -o fusion/calvin_files/fusion/src/FusionProbeSetResults.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.cpp -o fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCHPMultiDataAccessor.cpp -o fusion/calvin_files/fusion/src/FusionCHPMultiDataAccessor.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCHPMultiDataData.cpp -o fusion/calvin_files/fusion/src/FusionCHPMultiDataData.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCHPTilingData.cpp -o fusion/calvin_files/fusion/src/FusionCHPTilingData.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCHPQuantificationData.cpp -o fusion/calvin_files/fusion/src/FusionCHPQuantificationData.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.cpp -o fusion/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/calvin_files/parameter/src/ParameterNameValueType.cpp:21:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/CHPFileReader.cpp -o fusion/calvin_files/parsers/src/CHPFileReader.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/CHPMultiDataFileReader.cpp -o fusion/calvin_files/parsers/src/CHPMultiDataFileReader.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/CHPTilingFileReader.cpp -o fusion/calvin_files/parsers/src/CHPTilingFileReader.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/CHPQuantificationFileReader.cpp -o fusion/calvin_files/parsers/src/CHPQuantificationFileReader.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.cpp -o fusion/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/DataGroupReader.cpp -o fusion/calvin_files/parsers/src/DataGroupReader.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/DataSetReader.cpp -o fusion/calvin_files/parsers/src/DataSetReader.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/FileHeaderReader.cpp -o fusion/calvin_files/parsers/src/FileHeaderReader.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/calvin_files/parsers/src/FileInput.cpp:21:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/parsers/src/GenericDataHeaderReader.cpp -o fusion/calvin_files/parsers/src/GenericDataHeaderReader.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/calvin_files/utils/src/AffymetrixGuid.cpp:21:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/utils/src/DateTime.cpp -o fusion/calvin_files/utils/src/DateTime.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/calvin_files/utils/src/FileUtils.cpp:21:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/utils/src/StringUtils.cpp -o fusion/calvin_files/utils/src/StringUtils.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/calvin_files/utils/src/checksum.cpp -o fusion/calvin_files/utils/src/checksum.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/file/BPMAPFileData.h:30,
                 from fusion/file/BPMAPFileData.cpp:20:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/file/BPMAPFileData.h:30,
                 from fusion/file/BPMAPFileWriter.h:26,
                 from fusion/file/BPMAPFileWriter.cpp:20:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/file/CDFFileData.h:31,
                 from fusion/file/CDFFileData.cpp:21:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
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]
  858 |     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'
  861 |  if (m_Header.m_Version >= 6)
      |  ^~
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/file/CELFileData.cpp -o fusion/file/CELFileData.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/file/CHPFileData.cpp -o fusion/file/CHPFileData.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/file/FileIO.cpp:23:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/file/FileWriter.cpp:22:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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]
  527 |     (that); /* unused var */
      |     ~^~~~~
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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]
  527 |     (that); /* unused var */
      |     ~^~~~~
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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]
  527 |     (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=]
 4921 |   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=]
 4970 |   catch (exception e) {
      |                    ^
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/AffxByteArray.cpp -o fusion/util/AffxByteArray.o
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]
  320 |     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'
  323 |  empty();
      |  ^~~~~
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/AffxConv.cpp -o fusion/util/AffxConv.o
fusion/util/AffxConv.cpp: In function 'std::string getInt(int, bool)':
fusion/util/AffxConv.cpp:124:8: warning: self-comparison always evaluates to false [-Wtautological-compare]
  124 |  if (i != i) {return "nan";}
      |      ~ ^~ ~
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/MsgStream.cpp -o fusion/util/MsgStream.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
  220 | #define S_IRWXG 00070 //mask for group permissions
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Util.cpp:35:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:158: note: this is the location of the previous definition
  158 | #define S_IRWXG    (S_IRWXU >> 3)
      | 
fusion/util/Util.cpp:221: warning: "S_IRGRP" redefined
  221 | #define  S_IRGRP 00040 //group has read permission
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Util.cpp:35:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:155: note: this is the location of the previous definition
  155 | #define S_IRGRP    (S_IRUSR >> 3)
      | 
fusion/util/Util.cpp:222: warning: "S_IWGRP" redefined
  222 | #define  S_IWGRP 00020 //group has write permission
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Util.cpp:35:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:156: note: this is the location of the previous definition
  156 | #define S_IWGRP    (S_IWUSR >> 3)
      | 
fusion/util/Util.cpp:223: warning: "S_IXGRP" redefined
  223 | #define S_IXGRP 00010 //group has execute permission
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Util.cpp:35:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:157: note: this is the location of the previous definition
  157 | #define S_IXGRP    (S_IXUSR >> 3)
      | 
fusion/util/Util.cpp:224: warning: "S_IRWXO" redefined
  224 | #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:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:163: note: this is the location of the previous definition
  163 | #define S_IRWXO    (S_IRWXG >> 3)
      | 
fusion/util/Util.cpp:225: warning: "S_IROTH" redefined
  225 | #define  S_IROTH 00004 //others have read permission
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Util.cpp:35:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:160: note: this is the location of the previous definition
  160 | #define S_IROTH    (S_IRGRP >> 3)
      | 
fusion/util/Util.cpp:226: warning: "S_IWOTH" redefined
  226 | #define S_IWOTH 00002 //others have write permisson
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Util.cpp:35:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:161: note: this is the location of the previous definition
  161 | #define S_IWOTH    (S_IWGRP >> 3)
      | 
fusion/util/Util.cpp:227: warning: "S_IXOTH" redefined
  227 | #define S_IXOTH 00001 // others have execute permission
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Util.cpp:35:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:162: note: this is the location of the previous definition
  162 | #define S_IXOTH    (S_IXGRP >> 3)
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/Err.cpp -o fusion/util/Err.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   43 | #define S_IRUSR 00400 //owner has read permission
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:152: note: this is the location of the previous definition
  152 | #define S_IRUSR  _S_IRUSR
      | 
fusion/util/Fs.cpp:44: warning: "S_IWUSR" redefined
   44 | #define S_IWUSR 00200 //owner has write permission
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:151: note: this is the location of the previous definition
  151 | #define S_IWUSR  _S_IWUSR
      | 
fusion/util/Fs.cpp:45: warning: "S_IXUSR" redefined
   45 | #define S_IXUSR 00100 ///owner has execute permission
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:150: note: this is the location of the previous definition
  150 | #define S_IXUSR  _S_IXUSR
      | 
fusion/util/Fs.cpp:46: warning: "S_IRWXG" redefined
   46 | #define S_IRWXG 00070 //mask for group permissions
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:158: note: this is the location of the previous definition
  158 | #define S_IRWXG    (S_IRWXU >> 3)
      | 
fusion/util/Fs.cpp:47: warning: "S_IRGRP" redefined
   47 | #define S_IRGRP 00040 //group has read permission
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:155: note: this is the location of the previous definition
  155 | #define S_IRGRP    (S_IRUSR >> 3)
      | 
fusion/util/Fs.cpp:48: warning: "S_IWGRP" redefined
   48 | #define S_IWGRP 00020 //group has write permission
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:156: note: this is the location of the previous definition
  156 | #define S_IWGRP    (S_IWUSR >> 3)
      | 
fusion/util/Fs.cpp:49: warning: "S_IXGRP" redefined
   49 | #define S_IXGRP 00010 //group has execute permission
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:157: note: this is the location of the previous definition
  157 | #define S_IXGRP    (S_IXUSR >> 3)
      | 
fusion/util/Fs.cpp:50: warning: "S_IRWXO" redefined
   50 | #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:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:163: note: this is the location of the previous definition
  163 | #define S_IRWXO    (S_IRWXG >> 3)
      | 
fusion/util/Fs.cpp:51: warning: "S_IROTH" redefined
   51 | #define S_IROTH 00004 //others have read permission
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:160: note: this is the location of the previous definition
  160 | #define S_IROTH    (S_IRGRP >> 3)
      | 
fusion/util/Fs.cpp:52: warning: "S_IWOTH" redefined
   52 | #define S_IWOTH 00002 //others have write permisson
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:161: note: this is the location of the previous definition
  161 | #define S_IWOTH    (S_IWGRP >> 3)
      | 
fusion/util/Fs.cpp:53: warning: "S_IXOTH" redefined
   53 | #define S_IXOTH 00001 // others have execute permission
      | 
In file included from fusion/util/Fs.h:33,
                 from fusion/util/Fs.cpp:28:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sys\stat.h:162: note: this is the location of the previous definition
  162 | #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]
 1028 |   DWORD rv=0;
      |         ^~
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/Verbose.cpp -o fusion/util/Verbose.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/RowFile.cpp -o fusion/util/RowFile.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/TableFile.cpp -o fusion/util/TableFile.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -Wno-sign-compare -Wno-unknown-pragmas -c fusion/util/Convert.cpp -o fusion/util/Convert.o
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 from fusion/file/BPMAPFileData.h:30,
                 from R_affx_bpmap_parser.cpp:1:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
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]
  482 |                         INTEGER(centerpos)[j] = seqHit.getCenterPosition();
      |                         ~~~~~~~^~~~~~~~~~~
R_affx_bpmap_parser.cpp:479:36: warning: 'startpos' may be used uninitialized in this function [-Wmaybe-uninitialized]
  479 |                             INTEGER(startpos)[j] = seqHit.getStartPosition();
      |                             ~~~~~~~^~~~~~~~~~
R_affx_bpmap_parser.cpp:485:33: warning: 'matchscore' may be used uninitialized in this function [-Wmaybe-uninitialized]
  485 |                             REAL(matchscore)[j] = (double)seqHit.MatchScore;
      |                             ~~~~^~~~~~~~~~~~
R_affx_bpmap_parser.cpp:488:32: warning: 'probelength' may be used uninitialized in this function [-Wmaybe-uninitialized]
  488 |                         INTEGER(probelength)[j] = (int)seqHit.ProbeLength;
      |                         ~~~~~~~^~~~~~~~~~~~~
R_affx_bpmap_parser.cpp:467:32: warning: 'strand' may be used uninitialized in this function [-Wmaybe-uninitialized]
  467 |                         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]
  475 |                           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]
  502 |                         SET_VECTOR_ELT(seqObj, kk, mmy);
      |                         ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
R_affx_bpmap_parser.cpp:463:32: warning: 'mmx' may be used uninitialized in this function [-Wmaybe-uninitialized]
  463 |                         INTEGER(mmx)[j] = seqHit.MMX;
      |                         ~~~~~~~^~~~~
R_affx_bpmap_parser.cpp:495:35: warning: 'pmy' may be used uninitialized in this function [-Wmaybe-uninitialized]
  495 |                     SET_VECTOR_ELT(seqObj, kk, pmy);
      |                     ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
R_affx_bpmap_parser.cpp:493:35: warning: 'pmx' may be used uninitialized in this function [-Wmaybe-uninitialized]
  493 |                     SET_VECTOR_ELT(seqObj, kk, pmx);
      |                     ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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]
  527 |     (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=]
  284 |     } 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=]
  327 |     } 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]
  161 |             currIndex = pindices[i];
      |             ~~~~~~~~~~^~~~~~~~~~~~~
R_affx_clf_pgf_parser.cpp:132:4: warning: 'currIndex' may be used uninitialized in this function [-Wmaybe-uninitialized]
  132 |    if (nProbesets < currIndex) continue;
      |    ^~
g++ -std=gnu++14  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -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
   17 | #define WINVER WindowsXP /* for Util.cpp, via TsvFile.cpp */
      | 
In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\include\windows.h:10,
                 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:
c:\rtools42\x86_64-w64-mingw32.static.posix\include\sdkddkver.h:181: note: this is the location of the previous definition
  181 | #define WINVER _WIN32_WINNT
      | 
In file included from R_affx_chp_parser.cpp:21:
F:/biocbuild/bbs-3.16-bioc/R/include/Rdefines.h: In function 'SEXPREC* R_affx_GetCHPGenotypingResults(affymetrix_fusion_io::FusionCHPLegacyData*)':
F:/biocbuild/bbs-3.16-bioc/R/include/Rdefines.h:131:46: warning: 'nocall' may be used uninitialized in this function [-Wmaybe-uninitialized]
  131 | #define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
      |                                              ^
R_affx_chp_parser.cpp:318:38: note: 'nocall' was declared here
  318 |   SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
      |                                      ^~~~~~
In file included from R_affx_chp_parser.cpp:21:
F:/biocbuild/bbs-3.16-bioc/R/include/Rdefines.h:131:46: warning: 'bb' may be used uninitialized in this function [-Wmaybe-uninitialized]
  131 | #define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
      |                                              ^
R_affx_chp_parser.cpp:318:34: note: 'bb' was declared here
  318 |   SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
      |                                  ^~
In file included from R_affx_chp_parser.cpp:21:
F:/biocbuild/bbs-3.16-bioc/R/include/Rdefines.h:131:46: warning: 'ab' may be used uninitialized in this function [-Wmaybe-uninitialized]
  131 | #define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
      |                                              ^
R_affx_chp_parser.cpp:318:30: note: 'ab' was declared here
  318 |   SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
      |                              ^~
In file included from R_affx_chp_parser.cpp:21:
F:/biocbuild/bbs-3.16-bioc/R/include/Rdefines.h:131:46: warning: 'aa' may be used uninitialized in this function [-Wmaybe-uninitialized]
  131 | #define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
      |                                              ^
R_affx_chp_parser.cpp:318:26: note: 'aa' was declared here
  318 |   SEXP rval, ras1, ras2, aa, ab, bb, nocall, call, conf, callstr, alg;
      |                          ^~
In file included from R_affx_chp_parser.cpp:21:
F:/biocbuild/bbs-3.16-bioc/R/include/Rdefines.h:131:46: warning: 'ras1' may be used uninitialized in this function [-Wmaybe-uninitialized]
  131 | #define SET_ELEMENT(x, i, val) SET_VECTOR_ELT(x, i, val)
      |                                              ^
R_affx_chp_parser.cpp:318:14: note: 'ras1' was declared here
  318 |   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]
  360 |       REAL(ras2)[i] =  f.GetRAS2();
      |       ~~~~^~~~~~
gcc  -I"F:/biocbuild/bbs-3.16-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:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c 000.init.c -o 000.init.o
g++ -std=gnu++14 -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 000.init.o -lws2_32 -LC:/rtools42/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools42/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.16-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.16-bioc/R/library/00LOCK-affxparser/00new/affxparser/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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
* DONE (affxparser)