Mike Smith
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/rhdf5filters |
| Branch: RELEASE_3_11 |
| Last Commit: 0a54d2a |
| Last Changed Date: 2020-07-08 18:14:20 -0400 (Wed, 08 Jul 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-10-17 11:57:38 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE rhdf5filters PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1483/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| rhdf5filters 1.0.1 Mike Smith
| malbec2 | Linux (Ubuntu 18.04.4 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: 1.0.1 |
| Command: rm -rf rhdf5filters.buildbin-libdir && mkdir rhdf5filters.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=rhdf5filters.buildbin-libdir rhdf5filters_1.0.1.tar.gz |
| StartedAt: 2020-10-17 11:28:11 -0400 (Sat, 17 Oct 2020) |
| EndedAt: 2020-10-17 11:29:35 -0400 (Sat, 17 Oct 2020) |
| EllapsedTime: 83.7 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: rhdf5filters_1.0.1.zip |
| PackageFileSize: 1.645 MiB |
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###
### Running command:
###
### rm -rf rhdf5filters.buildbin-libdir && mkdir rhdf5filters.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=rhdf5filters.buildbin-libdir rhdf5filters_1.0.1.tar.gz
###
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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-3.11-bioc/tmpdir/RtmpKQCs72/R.INSTALL2aa05e256a3c/rhdf5filters/src/blosc'
`R CMD config MAKE` -C lib/snappy-1.1.1
make[2]: Entering directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpKQCs72/R.INSTALL2aa05e256a3c/rhdf5filters/src/blosc/lib/snappy-1.1.1'
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -c snappy.cc
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -c snappy-c.cc
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -c snappy-sinksource.cc
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -c snappy-stubs-internal.cc
make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpKQCs72/R.INSTALL2aa05e256a3c/rhdf5filters/src/blosc/lib/snappy-1.1.1'
`R CMD config MAKE` -C lib/lz4-1.8.3
make[2]: Entering directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpKQCs72/R.INSTALL2aa05e256a3c/rhdf5filters/src/blosc/lib/lz4-1.8.3'
"C:/rtools40/mingw32/bin/"gcc -c lz4.c
"C:/rtools40/mingw32/bin/"gcc -c lz4hc.c
make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpKQCs72/R.INSTALL2aa05e256a3c/rhdf5filters/src/blosc/lib/lz4-1.8.3'
`R CMD config MAKE` -C lib/zstd-1.3.8
make[2]: Entering directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpKQCs72/R.INSTALL2aa05e256a3c/rhdf5filters/src/blosc/lib/zstd-1.3.8'
"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_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-3.11-bioc/tmpdir/RtmpKQCs72/R.INSTALL2aa05e256a3c/rhdf5filters/src/blosc/lib/zstd-1.3.8'
`R CMD config MAKE` -C lib/blosc-1.16.3 all
make[2]: Entering directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpKQCs72/R.INSTALL2aa05e256a3c/rhdf5filters/src/blosc/lib/blosc-1.16.3'
"C:/rtools40/mingw32/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -I../lz4-1.8.3 -I../snappy-1.1.1 -I../zstd-1.3.8 -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-3.11-bioc/R/library/Rhdf5lib/include" -I../lz4-1.8.3 -I../snappy-1.1.1 -I../zstd-1.3.8 -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-3.11-bioc/R/library/Rhdf5lib/include" -I../lz4-1.8.3 -I../snappy-1.1.1 -I../zstd-1.3.8 -c shuffle.c
shuffle.c: In function 'blosc_internal_shuffle':
shuffle.c:382:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes]
}
^
shuffle.c: In function 'blosc_internal_unshuffle':
shuffle.c:395:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes]
}
^
shuffle.c: In function 'blosc_internal_bitshuffle':
shuffle.c:416:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes]
}
^
shuffle.c: In function 'blosc_internal_bitunshuffle':
shuffle.c:437:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes]
}
^
"C:/rtools40/mingw32/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -I../lz4-1.8.3 -I../snappy-1.1.1 -I../zstd-1.3.8 -c blosclz.c
"C:/rtools40/mingw32/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -I../lz4-1.8.3 -I../snappy-1.1.1 -I../zstd-1.3.8 -c blosc.c
"C:/rtools40/mingw32/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -I../lz4-1.8.3 -I../snappy-1.1.1 -I../zstd-1.3.8 -c fastcopy.c
make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpKQCs72/R.INSTALL2aa05e256a3c/rhdf5filters/src/blosc/lib/blosc-1.16.3'
rm -f libblosc.a
"C:/rtools40/mingw32/bin/"ar cq libblosc.a lib/blosc-1.16.3/blosc.o lib/blosc-1.16.3/bitshuffle-generic.o lib/blosc-1.16.3/blosclz.o lib/blosc-1.16.3/shuffle.o lib/blosc-1.16.3/fastcopy.o lib/blosc-1.16.3/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/lz4-1.8.3/lz4.o lib/lz4-1.8.3/lz4hc.o lib/zstd-1.3.8/common/debug.o lib/zstd-1.3.8/common/entropy_common.o lib/zstd-1.3.8/common/error_private.o lib/zstd-1.3.8/common/fse_decompress.o lib/zstd-1.3.8/common/pool.o lib/zstd-1.3.8/common/threading.o lib/zstd-1.3.8/common/xxhash.o lib/zstd-1.3.8/common/zstd_common.o lib/zstd-1.3.8/compress/fse_compress.o lib/zstd-1.3.8/compress/hist.o lib/zstd-1.3.8/compress/huf_compress.o lib/zstd-1.3.8/compress/zstd_compress.o lib/zstd-1.3.8/compress/zstd_double_fast.o lib/zstd-1.3.8/compress/zstd_fast.o lib/zstd-1.3.8/compress/zstd_lazy.o lib/zstd-1.3.8/compress/zstd_ldm.o lib/zstd-1.3.8/compress/zstd_opt.o lib/zstd-1.3.8/compress/zstdmt_compress.o lib/zstd-1.3.8/decompress/huf_decompress.o lib/zstd-1.3.8/decompress/zstd_ddict.o lib/zstd-1.3.8/decompress/zstd_decompress.o lib/zstd-1.3.8/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-3.11-bioc/R/library/Rhdf5lib/include" -I./lib/blosc-1.16.3
"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-3.11-bioc/tmpdir/RtmpKQCs72/R.INSTALL2aa05e256a3c/rhdf5filters/src/blosc'
`R CMD config MAKE` -C bzip2
make[1]: Entering directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpKQCs72/R.INSTALL2aa05e256a3c/rhdf5filters/src/bzip2'
`R CMD config MAKE` -C bzip2-1.0.8
make[2]: Entering directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpKQCs72/R.INSTALL2aa05e256a3c/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-3.11-bioc/tmpdir/RtmpKQCs72/R.INSTALL2aa05e256a3c/rhdf5filters/src/bzip2/bzip2-1.0.8'
"C:/rtools40/mingw32/bin/"gcc -shared H5Zbzip2.c -lpthread -I"C:/Users/biocbuild/bbs-3.11-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-3.11-bioc/tmpdir/RtmpKQCs72/R.INSTALL2aa05e256a3c/rhdf5filters/src/bzip2'
mkdir -p "C:/Users/biocbuild/bbs-3.11-bioc/meat/rhdf5filters.buildbin-libdir/00LOCK-rhdf5filters/00new/rhdf5filters/lib/i386/"
cp blosc/libH5Zblosc.so "C:/Users/biocbuild/bbs-3.11-bioc/meat/rhdf5filters.buildbin-libdir/00LOCK-rhdf5filters/00new/rhdf5filters/lib/i386//libH5Zblosc.dll"
cp bzip2/libH5Zbz2.so "C:/Users/biocbuild/bbs-3.11-bioc/meat/rhdf5filters.buildbin-libdir/00LOCK-rhdf5filters/00new/rhdf5filters/lib/i386//libH5Zbz2.dll"
"C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -I'C:/Users/biocbuild/bbs-3.11-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-3~1.11-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.11-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-3.11-bioc/tmpdir/Rtmp2FwK6n/R.INSTALL247017284594/rhdf5filters/src/blosc'
`R CMD config MAKE` -C lib/snappy-1.1.1
make[2]: Entering directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp2FwK6n/R.INSTALL247017284594/rhdf5filters/src/blosc/lib/snappy-1.1.1'
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -c snappy.cc
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -c snappy-c.cc
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -c snappy-sinksource.cc
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -c snappy-stubs-internal.cc
make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp2FwK6n/R.INSTALL247017284594/rhdf5filters/src/blosc/lib/snappy-1.1.1'
`R CMD config MAKE` -C lib/lz4-1.8.3
make[2]: Entering directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp2FwK6n/R.INSTALL247017284594/rhdf5filters/src/blosc/lib/lz4-1.8.3'
"C:/rtools40/mingw64/bin/"gcc -c lz4.c
"C:/rtools40/mingw64/bin/"gcc -c lz4hc.c
make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp2FwK6n/R.INSTALL247017284594/rhdf5filters/src/blosc/lib/lz4-1.8.3'
`R CMD config MAKE` -C lib/zstd-1.3.8
make[2]: Entering directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp2FwK6n/R.INSTALL247017284594/rhdf5filters/src/blosc/lib/zstd-1.3.8'
"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_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-3.11-bioc/tmpdir/Rtmp2FwK6n/R.INSTALL247017284594/rhdf5filters/src/blosc/lib/zstd-1.3.8'
`R CMD config MAKE` -C lib/blosc-1.16.3 all
make[2]: Entering directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp2FwK6n/R.INSTALL247017284594/rhdf5filters/src/blosc/lib/blosc-1.16.3'
"C:/rtools40/mingw64/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -I../lz4-1.8.3 -I../snappy-1.1.1 -I../zstd-1.3.8 -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-3.11-bioc/R/library/Rhdf5lib/include" -I../lz4-1.8.3 -I../snappy-1.1.1 -I../zstd-1.3.8 -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-3.11-bioc/R/library/Rhdf5lib/include" -I../lz4-1.8.3 -I../snappy-1.1.1 -I../zstd-1.3.8 -c shuffle.c
shuffle.c: In function 'blosc_internal_shuffle':
shuffle.c:382:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes]
}
^
shuffle.c: In function 'blosc_internal_unshuffle':
shuffle.c:395:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes]
}
^
shuffle.c: In function 'blosc_internal_bitshuffle':
shuffle.c:416:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes]
}
^
shuffle.c: In function 'blosc_internal_bitunshuffle':
shuffle.c:437:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes]
}
^
"C:/rtools40/mingw64/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -I../lz4-1.8.3 -I../snappy-1.1.1 -I../zstd-1.3.8 -c blosclz.c
"C:/rtools40/mingw64/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -I../lz4-1.8.3 -I../snappy-1.1.1 -I../zstd-1.3.8 -c blosc.c
"C:/rtools40/mingw64/bin/"gcc -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -I../lz4-1.8.3 -I../snappy-1.1.1 -I../zstd-1.3.8 -c fastcopy.c
make[2]: Leaving directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp2FwK6n/R.INSTALL247017284594/rhdf5filters/src/blosc/lib/blosc-1.16.3'
rm -f libblosc.a
"C:/rtools40/mingw64/bin/"ar cq libblosc.a lib/blosc-1.16.3/blosc.o lib/blosc-1.16.3/bitshuffle-generic.o lib/blosc-1.16.3/blosclz.o lib/blosc-1.16.3/shuffle.o lib/blosc-1.16.3/fastcopy.o lib/blosc-1.16.3/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/lz4-1.8.3/lz4.o lib/lz4-1.8.3/lz4hc.o lib/zstd-1.3.8/common/debug.o lib/zstd-1.3.8/common/entropy_common.o lib/zstd-1.3.8/common/error_private.o lib/zstd-1.3.8/common/fse_decompress.o lib/zstd-1.3.8/common/pool.o lib/zstd-1.3.8/common/threading.o lib/zstd-1.3.8/common/xxhash.o lib/zstd-1.3.8/common/zstd_common.o lib/zstd-1.3.8/compress/fse_compress.o lib/zstd-1.3.8/compress/hist.o lib/zstd-1.3.8/compress/huf_compress.o lib/zstd-1.3.8/compress/zstd_compress.o lib/zstd-1.3.8/compress/zstd_double_fast.o lib/zstd-1.3.8/compress/zstd_fast.o lib/zstd-1.3.8/compress/zstd_lazy.o lib/zstd-1.3.8/compress/zstd_ldm.o lib/zstd-1.3.8/compress/zstd_opt.o lib/zstd-1.3.8/compress/zstdmt_compress.o lib/zstd-1.3.8/decompress/huf_decompress.o lib/zstd-1.3.8/decompress/zstd_ddict.o lib/zstd-1.3.8/decompress/zstd_decompress.o lib/zstd-1.3.8/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-3.11-bioc/R/library/Rhdf5lib/include" -I./lib/blosc-1.16.3
"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-3.11-bioc/tmpdir/Rtmp2FwK6n/R.INSTALL247017284594/rhdf5filters/src/blosc'
`R CMD config MAKE` -C bzip2
make[1]: Entering directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp2FwK6n/R.INSTALL247017284594/rhdf5filters/src/bzip2'
`R CMD config MAKE` -C bzip2-1.0.8
make[2]: Entering directory '/c/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp2FwK6n/R.INSTALL247017284594/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-3.11-bioc/tmpdir/Rtmp2FwK6n/R.INSTALL247017284594/rhdf5filters/src/bzip2/bzip2-1.0.8'
"C:/rtools40/mingw64/bin/"gcc -shared H5Zbzip2.c -lpthread -I"C:/Users/biocbuild/bbs-3.11-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-3.11-bioc/tmpdir/Rtmp2FwK6n/R.INSTALL247017284594/rhdf5filters/src/bzip2'
mkdir -p "C:/Users/biocbuild/bbs-3.11-bioc/meat/rhdf5filters.buildbin-libdir/rhdf5filters/lib/x64/"
cp blosc/libH5Zblosc.so "C:/Users/biocbuild/bbs-3.11-bioc/meat/rhdf5filters.buildbin-libdir/rhdf5filters/lib/x64//libH5Zblosc.dll"
cp bzip2/libH5Zbz2.so "C:/Users/biocbuild/bbs-3.11-bioc/meat/rhdf5filters.buildbin-libdir/rhdf5filters/lib/x64//libH5Zbz2.dll"
"C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -lpthread -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rhdf5lib/include" -I'C:/Users/biocbuild/bbs-3.11-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-3~1.11-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/rhdf5filters.buildbin-libdir/rhdf5filters/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'rhdf5filters' as rhdf5filters_1.0.1.zip
* DONE (rhdf5filters)