Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:06:19 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the rhdf5filters package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/rhdf5filters.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1575/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
rhdf5filters 1.4.0 (landing page) Mike Smith
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: rhdf5filters |
Version: 1.4.0 |
Command: C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/rhdf5filters_1.4.0.tar.gz && rm -rf rhdf5filters.buildbin-libdir && mkdir rhdf5filters.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=rhdf5filters.buildbin-libdir rhdf5filters_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL rhdf5filters_1.4.0.zip && rm rhdf5filters_1.4.0.tar.gz rhdf5filters_1.4.0.zip |
StartedAt: 2021-10-14 07:13:30 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 07:15:24 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 114.3 seconds |
RetCode: 0 |
Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/rhdf5filters_1.4.0.tar.gz && rm -rf rhdf5filters.buildbin-libdir && mkdir rhdf5filters.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=rhdf5filters.buildbin-libdir rhdf5filters_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL rhdf5filters_1.4.0.zip && rm rhdf5filters_1.4.0.tar.gz rhdf5filters_1.4.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 664k 100 664k 0 0 2159k 0 --:--:-- --:--:-- --:--:-- 2164k install for i386 * installing *source* package 'rhdf5filters' ... ** using staged installation ** libs `R CMD config MAKE` -C blosc make[1]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/blosc' `R CMD config MAKE` -C lib/snappy-1.1.1 make[2]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/blosc/lib/snappy-1.1.1' "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -c snappy.cc "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -c snappy-c.cc "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -c snappy-sinksource.cc "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -c snappy-stubs-internal.cc make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/blosc/lib/snappy-1.1.1' `R CMD config MAKE` -C lib/lz4-1.9.2 make[2]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/blosc/lib/lz4-1.9.2' "C:/rtools40/mingw32/bin/"gcc -c lz4.c "C:/rtools40/mingw32/bin/"gcc -c lz4hc.c make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/blosc/lib/lz4-1.9.2' `R CMD config MAKE` -C lib/zstd-1.4.5 make[2]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/blosc/lib/zstd-1.4.5' "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/debug.c -o common/debug.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/entropy_common.c -o common/entropy_common.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/error_private.c -o common/error_private.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/fse_decompress.c -o common/fse_decompress.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -I. -c common/pool.c -o common/pool.o -o common/pool.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/threading.c -o common/threading.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/xxhash.c -o common/xxhash.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/zstd_common.c -o common/zstd_common.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/fse_compress.c -o compress/fse_compress.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/hist.c -o compress/hist.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/huf_compress.c -o compress/huf_compress.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress.c -o compress/zstd_compress.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress_literals.c -o compress/zstd_compress_literals.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress_sequences.c -o compress/zstd_compress_sequences.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress_superblock.c -o compress/zstd_compress_superblock.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_double_fast.c -o compress/zstd_double_fast.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_fast.c -o compress/zstd_fast.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_lazy.c -o compress/zstd_lazy.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_ldm.c -o compress/zstd_ldm.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_opt.c -o compress/zstd_opt.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstdmt_compress.c -o compress/zstdmt_compress.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/huf_decompress.c -o decompress/huf_decompress.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/zstd_ddict.c -o decompress/zstd_ddict.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/zstd_decompress.c -o decompress/zstd_decompress.o "C:/rtools40/mingw32/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/zstd_decompress_block.c -o decompress/zstd_decompress_block.o make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/blosc/lib/zstd-1.4.5' `R CMD config MAKE` -C lib/blosc-1.20.1 all make[2]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/blosc/lib/blosc-1.20.1' "C:/rtools40/mingw32/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c bitshuffle-generic.c bitshuffle-generic.c: In function 'blosc_internal_bshuf_trans_byte_elem_remainder': bitshuffle-generic.c:40:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ bitshuffle-generic.c: In function 'blosc_internal_bshuf_trans_byte_elem_scal': bitshuffle-generic.c:48:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ bitshuffle-generic.c: In function 'blosc_internal_bshuf_trans_bit_byte_remainder': bitshuffle-generic.c:85:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ bitshuffle-generic.c: In function 'blosc_internal_bshuf_trans_elem': bitshuffle-generic.c:109:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ bitshuffle-generic.c: In function 'blosc_internal_bshuf_trans_bitrow_eight': bitshuffle-generic.c:121:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ bitshuffle-generic.c: In function 'blosc_internal_bshuf_trans_bit_elem_scal': bitshuffle-generic.c:139:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ bitshuffle-generic.c: In function 'blosc_internal_bshuf_shuffle_bit_eightelem_scal': bitshuffle-generic.c:204:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ bitshuffle-generic.c: In function 'blosc_internal_bshuf_untrans_bit_elem_scal': bitshuffle-generic.c:220:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ "C:/rtools40/mingw32/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c shuffle-generic.c shuffle-generic.c: In function 'blosc_internal_shuffle_generic': shuffle-generic.c:17:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ shuffle-generic.c: In function 'blosc_internal_unshuffle_generic': shuffle-generic.c:25:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ "C:/rtools40/mingw32/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c shuffle.c shuffle.c: In function 'blosc_internal_shuffle': shuffle.c:390:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ shuffle.c: In function 'blosc_internal_unshuffle': shuffle.c:403:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ shuffle.c: In function 'blosc_internal_bitshuffle': shuffle.c:430:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ shuffle.c: In function 'blosc_internal_bitunshuffle': shuffle.c:457:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ "C:/rtools40/mingw32/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c blosclz.c "C:/rtools40/mingw32/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c blosc.c "C:/rtools40/mingw32/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c fastcopy.c make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/blosc/lib/blosc-1.20.1' rm -f libblosc.a "C:/rtools40/mingw32/bin/"ar cq libblosc.a lib/blosc-1.20.1/blosc.o lib/blosc-1.20.1/bitshuffle-generic.o lib/blosc-1.20.1/blosclz.o lib/blosc-1.20.1/shuffle.o lib/blosc-1.20.1/fastcopy.o lib/blosc-1.20.1/shuffle-generic.o lib/snappy-1.1.1/snappy.o lib/snappy-1.1.1/snappy-c.o lib/snappy-1.1.1/snappy-sinksource.o lib/snappy-1.1.1/snappy-stubs-internal.o lib/lz4-1.9.2/lz4.o lib/lz4-1.9.2/lz4hc.o lib/zstd-1.4.5/common/debug.o lib/zstd-1.4.5/common/entropy_common.o lib/zstd-1.4.5/common/error_private.o lib/zstd-1.4.5/common/fse_decompress.o lib/zstd-1.4.5/common/pool.o lib/zstd-1.4.5/common/threading.o lib/zstd-1.4.5/common/xxhash.o lib/zstd-1.4.5/common/zstd_common.o lib/zstd-1.4.5/compress/fse_compress.o lib/zstd-1.4.5/compress/hist.o lib/zstd-1.4.5/compress/huf_compress.o lib/zstd-1.4.5/compress/zstd_compress.o lib/zstd-1.4.5/compress/zstd_compress_literals.o lib/zstd-1.4.5/compress/zstd_compress_sequences.o lib/zstd-1.4.5/compress/zstd_compress_superblock.o lib/zstd-1.4.5/compress/zstd_double_fast.o lib/zstd-1.4.5/compress/zstd_fast.o lib/zstd-1.4.5/compress/zstd_lazy.o lib/zstd-1.4.5/compress/zstd_ldm.o lib/zstd-1.4.5/compress/zstd_opt.o lib/zstd-1.4.5/compress/zstdmt_compress.o lib/zstd-1.4.5/decompress/huf_decompress.o lib/zstd-1.4.5/decompress/zstd_ddict.o lib/zstd-1.4.5/decompress/zstd_decompress.o lib/zstd-1.4.5/decompress/zstd_decompress_block.o "C:/rtools40/mingw32/bin/"ranlib libblosc.a "C:/rtools40/mingw32/bin/"gcc -c -o H5Zblosc.o H5Zblosc.c \ -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I./lib/blosc-1.20.1 "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -shared -o libH5Zblosc.so H5Zblosc.o \ libblosc.a -lz make[1]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/blosc' `R CMD config MAKE` -C bzip2 make[1]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/bzip2' `R CMD config MAKE` -C bzip2-1.0.8 make[2]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/bzip2/bzip2-1.0.8' "C:/rtools40/mingw32/bin/"gcc -D_FILE_OFFSET_BITS=64 -c blocksort.c "C:/rtools40/mingw32/bin/"gcc -D_FILE_OFFSET_BITS=64 -c huffman.c "C:/rtools40/mingw32/bin/"gcc -D_FILE_OFFSET_BITS=64 -c crctable.c "C:/rtools40/mingw32/bin/"gcc -D_FILE_OFFSET_BITS=64 -c randtable.c "C:/rtools40/mingw32/bin/"gcc -D_FILE_OFFSET_BITS=64 -c compress.c "C:/rtools40/mingw32/bin/"gcc -D_FILE_OFFSET_BITS=64 -c decompress.c "C:/rtools40/mingw32/bin/"gcc -D_FILE_OFFSET_BITS=64 -c bzlib.c rm -f libbz2.a "C:/rtools40/mingw32/bin/"ar cq libbz2.a blocksort.o huffman.o crctable.o randtable.o compress.o decompress.o bzlib.o C:/rtools40/mingw32/bin/ranlib libbz2.a make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/bzip2/bzip2-1.0.8' "C:/rtools40/mingw32/bin/"gcc -shared H5Zbzip2.c -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" \ -I./bzip2-1.0.8/ ./bzip2-1.0.8/libbz2.a -o libH5Zbz2.so make[1]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/bzip2' `R CMD config MAKE` -C lzf make[1]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/lzf' `R CMD config MAKE` -C lzf make[2]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/lzf/lzf' "C:/rtools40/mingw32/bin/"gcc -c lzf_c.c "C:/rtools40/mingw32/bin/"gcc -c lzf_d.c rm -f liblzf.a "C:/rtools40/mingw32/bin/"ar cq liblzf.a lzf_c.o lzf_d.o make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/lzf/lzf' "C:/rtools40/mingw32/bin/"gcc -shared H5Zlzf.c -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" \ -I./lzf/ ./lzf/liblzf.a -o libH5Zlzf.so make[1]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpElky8P/R.INSTALLc50ef37af2/rhdf5filters/src/lzf' mkdir -p "C:/Users/biocbuild/bbs-3.13-bioc/meat/rhdf5filters.buildbin-libdir/00LOCK-rhdf5filters/00new/rhdf5filters/lib/i386/" cp blosc/libH5Zblosc.so "C:/Users/biocbuild/bbs-3.13-bioc/meat/rhdf5filters.buildbin-libdir/00LOCK-rhdf5filters/00new/rhdf5filters/lib/i386//libH5Zblosc.dll" cp bzip2/libH5Zbz2.so "C:/Users/biocbuild/bbs-3.13-bioc/meat/rhdf5filters.buildbin-libdir/00LOCK-rhdf5filters/00new/rhdf5filters/lib/i386//libH5Zbz2.dll" cp lzf/libH5Zlzf.so "C:/Users/biocbuild/bbs-3.13-bioc/meat/rhdf5filters.buildbin-libdir/00LOCK-rhdf5filters/00new/rhdf5filters/lib/i386//libH5Zlzf.dll" "C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I"c:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c rhdf5filters.c -o rhdf5filters.o C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o rhdf5filters.dll tmp.def rhdf5filters.o -Lc:/extsoft/lib/i386 -Lc:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/i386 -lR installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/rhdf5filters.buildbin-libdir/00LOCK-rhdf5filters/00new/rhdf5filters/libs/i386 ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'rhdf5filters' finding HTML links ... done hdf5_plugin_path html rhdf5filters html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path install for x64 * installing *source* package 'rhdf5filters' ... ** libs `R CMD config MAKE` -C blosc make[1]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/blosc' `R CMD config MAKE` -C lib/snappy-1.1.1 make[2]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/blosc/lib/snappy-1.1.1' "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -c snappy.cc "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -c snappy-c.cc "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -c snappy-sinksource.cc "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -c snappy-stubs-internal.cc make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/blosc/lib/snappy-1.1.1' `R CMD config MAKE` -C lib/lz4-1.9.2 make[2]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/blosc/lib/lz4-1.9.2' "C:/rtools40/mingw64/bin/"gcc -c lz4.c "C:/rtools40/mingw64/bin/"gcc -c lz4hc.c make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/blosc/lib/lz4-1.9.2' `R CMD config MAKE` -C lib/zstd-1.4.5 make[2]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/blosc/lib/zstd-1.4.5' "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/debug.c -o common/debug.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/entropy_common.c -o common/entropy_common.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/error_private.c -o common/error_private.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/fse_decompress.c -o common/fse_decompress.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -I. -c common/pool.c -o common/pool.o -o common/pool.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/threading.c -o common/threading.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/xxhash.c -o common/xxhash.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/zstd_common.c -o common/zstd_common.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/fse_compress.c -o compress/fse_compress.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/hist.c -o compress/hist.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/huf_compress.c -o compress/huf_compress.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress.c -o compress/zstd_compress.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress_literals.c -o compress/zstd_compress_literals.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress_sequences.c -o compress/zstd_compress_sequences.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress_superblock.c -o compress/zstd_compress_superblock.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_double_fast.c -o compress/zstd_double_fast.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_fast.c -o compress/zstd_fast.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_lazy.c -o compress/zstd_lazy.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_ldm.c -o compress/zstd_ldm.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_opt.c -o compress/zstd_opt.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstdmt_compress.c -o compress/zstdmt_compress.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/huf_decompress.c -o decompress/huf_decompress.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/zstd_ddict.c -o decompress/zstd_ddict.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/zstd_decompress.c -o decompress/zstd_decompress.o "C:/rtools40/mingw64/bin/"gcc -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/zstd_decompress_block.c -o decompress/zstd_decompress_block.o make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/blosc/lib/zstd-1.4.5' `R CMD config MAKE` -C lib/blosc-1.20.1 all make[2]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/blosc/lib/blosc-1.20.1' "C:/rtools40/mingw64/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c bitshuffle-generic.c bitshuffle-generic.c: In function 'blosc_internal_bshuf_trans_byte_elem_remainder': bitshuffle-generic.c:40:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ bitshuffle-generic.c: In function 'blosc_internal_bshuf_trans_byte_elem_scal': bitshuffle-generic.c:48:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ bitshuffle-generic.c: In function 'blosc_internal_bshuf_trans_bit_byte_remainder': bitshuffle-generic.c:85:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ bitshuffle-generic.c: In function 'blosc_internal_bshuf_trans_elem': bitshuffle-generic.c:109:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ bitshuffle-generic.c: In function 'blosc_internal_bshuf_trans_bitrow_eight': bitshuffle-generic.c:121:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ bitshuffle-generic.c: In function 'blosc_internal_bshuf_trans_bit_elem_scal': bitshuffle-generic.c:139:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ bitshuffle-generic.c: In function 'blosc_internal_bshuf_shuffle_bit_eightelem_scal': bitshuffle-generic.c:204:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ bitshuffle-generic.c: In function 'blosc_internal_bshuf_untrans_bit_elem_scal': bitshuffle-generic.c:220:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ "C:/rtools40/mingw64/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c shuffle-generic.c shuffle-generic.c: In function 'blosc_internal_shuffle_generic': shuffle-generic.c:17:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ shuffle-generic.c: In function 'blosc_internal_unshuffle_generic': shuffle-generic.c:25:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ "C:/rtools40/mingw64/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c shuffle.c shuffle.c: In function 'blosc_internal_shuffle': shuffle.c:390:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ shuffle.c: In function 'blosc_internal_unshuffle': shuffle.c:403:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ shuffle.c: In function 'blosc_internal_bitshuffle': shuffle.c:430:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ shuffle.c: In function 'blosc_internal_bitunshuffle': shuffle.c:457:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes] } ^ "C:/rtools40/mingw64/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c blosclz.c "C:/rtools40/mingw64/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c blosc.c "C:/rtools40/mingw64/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c fastcopy.c make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/blosc/lib/blosc-1.20.1' rm -f libblosc.a "C:/rtools40/mingw64/bin/"ar cq libblosc.a lib/blosc-1.20.1/blosc.o lib/blosc-1.20.1/bitshuffle-generic.o lib/blosc-1.20.1/blosclz.o lib/blosc-1.20.1/shuffle.o lib/blosc-1.20.1/fastcopy.o lib/blosc-1.20.1/shuffle-generic.o lib/snappy-1.1.1/snappy.o lib/snappy-1.1.1/snappy-c.o lib/snappy-1.1.1/snappy-sinksource.o lib/snappy-1.1.1/snappy-stubs-internal.o lib/lz4-1.9.2/lz4.o lib/lz4-1.9.2/lz4hc.o lib/zstd-1.4.5/common/debug.o lib/zstd-1.4.5/common/entropy_common.o lib/zstd-1.4.5/common/error_private.o lib/zstd-1.4.5/common/fse_decompress.o lib/zstd-1.4.5/common/pool.o lib/zstd-1.4.5/common/threading.o lib/zstd-1.4.5/common/xxhash.o lib/zstd-1.4.5/common/zstd_common.o lib/zstd-1.4.5/compress/fse_compress.o lib/zstd-1.4.5/compress/hist.o lib/zstd-1.4.5/compress/huf_compress.o lib/zstd-1.4.5/compress/zstd_compress.o lib/zstd-1.4.5/compress/zstd_compress_literals.o lib/zstd-1.4.5/compress/zstd_compress_sequences.o lib/zstd-1.4.5/compress/zstd_compress_superblock.o lib/zstd-1.4.5/compress/zstd_double_fast.o lib/zstd-1.4.5/compress/zstd_fast.o lib/zstd-1.4.5/compress/zstd_lazy.o lib/zstd-1.4.5/compress/zstd_ldm.o lib/zstd-1.4.5/compress/zstd_opt.o lib/zstd-1.4.5/compress/zstdmt_compress.o lib/zstd-1.4.5/decompress/huf_decompress.o lib/zstd-1.4.5/decompress/zstd_ddict.o lib/zstd-1.4.5/decompress/zstd_decompress.o lib/zstd-1.4.5/decompress/zstd_decompress_block.o "C:/rtools40/mingw64/bin/"ranlib libblosc.a "C:/rtools40/mingw64/bin/"gcc -c -o H5Zblosc.o H5Zblosc.c \ -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I./lib/blosc-1.20.1 "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -shared -o libH5Zblosc.so H5Zblosc.o \ libblosc.a -lz make[1]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/blosc' `R CMD config MAKE` -C bzip2 make[1]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/bzip2' `R CMD config MAKE` -C bzip2-1.0.8 make[2]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/bzip2/bzip2-1.0.8' "C:/rtools40/mingw64/bin/"gcc -D_FILE_OFFSET_BITS=64 -c blocksort.c "C:/rtools40/mingw64/bin/"gcc -D_FILE_OFFSET_BITS=64 -c huffman.c "C:/rtools40/mingw64/bin/"gcc -D_FILE_OFFSET_BITS=64 -c crctable.c "C:/rtools40/mingw64/bin/"gcc -D_FILE_OFFSET_BITS=64 -c randtable.c "C:/rtools40/mingw64/bin/"gcc -D_FILE_OFFSET_BITS=64 -c compress.c "C:/rtools40/mingw64/bin/"gcc -D_FILE_OFFSET_BITS=64 -c decompress.c "C:/rtools40/mingw64/bin/"gcc -D_FILE_OFFSET_BITS=64 -c bzlib.c rm -f libbz2.a "C:/rtools40/mingw64/bin/"ar cq libbz2.a blocksort.o huffman.o crctable.o randtable.o compress.o decompress.o bzlib.o C:/rtools40/mingw64/bin/ranlib libbz2.a make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/bzip2/bzip2-1.0.8' "C:/rtools40/mingw64/bin/"gcc -shared H5Zbzip2.c -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" \ -I./bzip2-1.0.8/ ./bzip2-1.0.8/libbz2.a -o libH5Zbz2.so make[1]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/bzip2' `R CMD config MAKE` -C lzf make[1]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/lzf' `R CMD config MAKE` -C lzf make[2]: Entering directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/lzf/lzf' "C:/rtools40/mingw64/bin/"gcc -c lzf_c.c "C:/rtools40/mingw64/bin/"gcc -c lzf_d.c rm -f liblzf.a "C:/rtools40/mingw64/bin/"ar cq liblzf.a lzf_c.o lzf_d.o make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/lzf/lzf' "C:/rtools40/mingw64/bin/"gcc -shared H5Zlzf.c -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" \ -I./lzf/ ./lzf/liblzf.a -o libH5Zlzf.so make[1]: Leaving directory '/c/Users/biocbuild/bbs-3.13-bioc/tmpdir/RtmpU7mG54/R.INSTALLc785bfd3684/rhdf5filters/src/lzf' mkdir -p "C:/Users/biocbuild/bbs-3.13-bioc/meat/rhdf5filters.buildbin-libdir/rhdf5filters/lib/x64/" cp blosc/libH5Zblosc.so "C:/Users/biocbuild/bbs-3.13-bioc/meat/rhdf5filters.buildbin-libdir/rhdf5filters/lib/x64//libH5Zblosc.dll" cp bzip2/libH5Zbz2.so "C:/Users/biocbuild/bbs-3.13-bioc/meat/rhdf5filters.buildbin-libdir/rhdf5filters/lib/x64//libH5Zbz2.dll" cp lzf/libH5Zlzf.so "C:/Users/biocbuild/bbs-3.13-bioc/meat/rhdf5filters.buildbin-libdir/rhdf5filters/lib/x64//libH5Zlzf.dll" "C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -lpthread -I"C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include" -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c rhdf5filters.c -o rhdf5filters.o C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o rhdf5filters.dll tmp.def rhdf5filters.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/x64 -lR installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/rhdf5filters.buildbin-libdir/rhdf5filters/libs/x64 ** testing if installed package can be loaded * MD5 sums packaged installation of 'rhdf5filters' as rhdf5filters_1.4.0.zip * DONE (rhdf5filters) * installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library' package 'rhdf5filters' successfully unpacked and MD5 sums checked