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This page was generated on 2021-10-15 15:06:50 -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: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL rhdf5filters |
StartedAt: 2021-10-14 08:22:25 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 08:23:21 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 56.0 seconds |
RetCode: 0 |
Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL rhdf5filters ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’ * installing *source* package ‘rhdf5filters’ ... ** using staged installation configuring the BLOSC filter... x86_CPU=true checking for gcc... clang -mmacosx-version-min=10.13 checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether clang -mmacosx-version-min=10.13 accepts -g... yes checking for clang -mmacosx-version-min=10.13 option to accept ISO C89... none needed checking whether C compiler accepts -msse2... yes checking whether C compiler accepts -mavx2... yes checking for gcc __builtin_cpu_init function... (cached) true checking for x86 sse2 instruction support... yes checking for x86 avx2 instruction support... no configure: creating ./config.status config.status: creating src/blosc/lib/blosc-1.20.1/Makefile config.status: creating src/blosc/Makefile configure: BZIP2_LIB=bzip2/libH5Zbz2.so configure: BLOSC_LIB=blosc/libH5Zblosc.so configure: LZF_LIB=lzf/libH5Zlzf.so configure: creating ./config.status config.status: creating src/blosc/lib/blosc-1.20.1/Makefile config.status: creating src/blosc/Makefile config.status: creating src/Makevars ** libs make -C blosc make -C lib/snappy-1.1.1 clang++ -mmacosx-version-min=10.13 -std=gnu++14 -Wall -g -O2 -fPIC -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" -c snappy.cc snappy.cc:567:13: warning: unused function 'ComputeTable' [-Wunused-function] static void ComputeTable() { ^ 1 warning generated. clang++ -mmacosx-version-min=10.13 -std=gnu++14 -Wall -g -O2 -fPIC -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" -c snappy-c.cc clang++ -mmacosx-version-min=10.13 -std=gnu++14 -Wall -g -O2 -fPIC -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" -c snappy-sinksource.cc clang++ -mmacosx-version-min=10.13 -std=gnu++14 -Wall -g -O2 -fPIC -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" -c snappy-stubs-internal.cc make -C lib/lz4-1.9.2 clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -c lz4.c clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -c lz4hc.c make -C lib/zstd-1.4.5 clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/debug.c -o common/debug.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/entropy_common.c -o common/entropy_common.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/error_private.c -o common/error_private.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/fse_decompress.c -o common/fse_decompress.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -I. -c common/pool.c -o common/pool.o -o common/pool.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/threading.c -o common/threading.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/xxhash.c -o common/xxhash.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/zstd_common.c -o common/zstd_common.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/fse_compress.c -o compress/fse_compress.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/hist.c -o compress/hist.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/huf_compress.c -o compress/huf_compress.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress.c -o compress/zstd_compress.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress_literals.c -o compress/zstd_compress_literals.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress_sequences.c -o compress/zstd_compress_sequences.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress_superblock.c -o compress/zstd_compress_superblock.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_double_fast.c -o compress/zstd_double_fast.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_fast.c -o compress/zstd_fast.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_lazy.c -o compress/zstd_lazy.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_ldm.c -o compress/zstd_ldm.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_opt.c -o compress/zstd_opt.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstdmt_compress.c -o compress/zstdmt_compress.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/huf_decompress.c -o decompress/huf_decompress.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/zstd_ddict.c -o decompress/zstd_ddict.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/zstd_decompress.c -o decompress/zstd_decompress.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/zstd_decompress_block.c -o decompress/zstd_decompress_block.o make -C lib/blosc-1.20.1 all clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -msse2 -c bitshuffle-sse2.c clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -msse2 -c shuffle-sse2.c clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -msse2 -c bitshuffle-generic.c clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -msse2 -c shuffle-generic.c clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -msse2 -DSHUFFLE_SSE2_ENABLED -c shuffle.c In file included from shuffle.c:12: ./shuffle-generic.h:32:13: warning: unused function 'shuffle_generic_inline' [-Wunused-function] static void shuffle_generic_inline(const size_t type_size, ^ ./shuffle-generic.h:61:13: warning: unused function 'unshuffle_generic_inline' [-Wunused-function] static void unshuffle_generic_inline(const size_t type_size, ^ 2 warnings generated. clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -msse2 -c blosclz.c clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -msse2 -c blosc.c clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -msse2 -c fastcopy.c rm -f libblosc.a ar cq libblosc.a lib/blosc-1.20.1/blosc.o lib/blosc-1.20.1/shuffle-sse2.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/bitshuffle-sse2.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 ranlib libblosc.a clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -c -o H5Zblosc.o H5Zblosc.c \ -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" -I./lib/blosc-1.20.1 H5Zblosc.c:96:10: warning: unused variable 'errmsg' [-Wunused-variable] char errmsg[256]; ^ 1 warning generated. clang++ -mmacosx-version-min=10.13 -std=gnu++14 -Wall -g -O2 -fPIC -L/usr/local/lib -shared -o libH5Zblosc.so H5Zblosc.o \ libblosc.a -lz make -C bzip2 make -C bzip2-1.0.8 clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -c blocksort.c clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -c huffman.c clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -c crctable.c clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -c randtable.c clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -c compress.c clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -c decompress.c clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -c bzlib.c rm -f libbz2.a ar cq libbz2.a blocksort.o huffman.o crctable.o randtable.o compress.o decompress.o bzlib.o ranlib libbz2.a clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -shared H5Zbzip2.c -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" \ -I./bzip2-1.0.8/ ./bzip2-1.0.8/libbz2.a -L/usr/local/lib -o libH5Zbz2.so make -C lzf make -C lzf clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -c lzf_c.c In file included from lzf_c.c:37: ./lzfP.h:138:6: warning: macro expansion producing 'defined' has undefined behavior [-Wexpansion-to-defined] #if !STRICT_ALIGN ^ ./lzfP.h:82:25: note: expanded from macro 'STRICT_ALIGN' # define STRICT_ALIGN !(defined(__i386) || defined (__amd64)) ^ ./lzfP.h:138:6: warning: macro expansion producing 'defined' has undefined behavior [-Wexpansion-to-defined] ./lzfP.h:82:44: note: expanded from macro 'STRICT_ALIGN' # define STRICT_ALIGN !(defined(__i386) || defined (__amd64)) ^ lzf_c.c:154:5: warning: macro expansion producing 'defined' has undefined behavior [-Wexpansion-to-defined] #if STRICT_ALIGN ^ ./lzfP.h:82:25: note: expanded from macro 'STRICT_ALIGN' # define STRICT_ALIGN !(defined(__i386) || defined (__amd64)) ^ lzf_c.c:154:5: warning: macro expansion producing 'defined' has undefined behavior [-Wexpansion-to-defined] ./lzfP.h:82:44: note: expanded from macro 'STRICT_ALIGN' # define STRICT_ALIGN !(defined(__i386) || defined (__amd64)) ^ 4 warnings generated. clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -c lzf_d.c In file included from lzf_d.c:37: ./lzfP.h:138:6: warning: macro expansion producing 'defined' has undefined behavior [-Wexpansion-to-defined] #if !STRICT_ALIGN ^ ./lzfP.h:82:25: note: expanded from macro 'STRICT_ALIGN' # define STRICT_ALIGN !(defined(__i386) || defined (__amd64)) ^ ./lzfP.h:138:6: warning: macro expansion producing 'defined' has undefined behavior [-Wexpansion-to-defined] ./lzfP.h:82:44: note: expanded from macro 'STRICT_ALIGN' # define STRICT_ALIGN !(defined(__i386) || defined (__amd64)) ^ 2 warnings generated. rm -f liblzf.a ar cq liblzf.a lzf_c.o lzf_d.o clang -mmacosx-version-min=10.13 -Wall -g -O2 -fPIC -shared H5Zlzf.c -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" \ -I./lzf/ ./lzf/liblzf.a -L/usr/local/lib -o libH5Zlzf.so mkdir -p "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/00LOCK-rhdf5filters/00new/rhdf5filters/lib/" cp bzip2/libH5Zbz2.so "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/00LOCK-rhdf5filters/00new/rhdf5filters/lib/" cp blosc/libH5Zblosc.so "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/00LOCK-rhdf5filters/00new/rhdf5filters/lib/" cp lzf/libH5Zlzf.so "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/00LOCK-rhdf5filters/00new/rhdf5filters/lib/" clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include" -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rhdf5lib/include' -I/usr/local/include -Wall -g -O2 -fPIC -Wall -g -O2 -c rhdf5filters.c -o rhdf5filters.o clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o rhdf5filters.so rhdf5filters.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/4.1/Resources/library/00LOCK-rhdf5filters/00new/rhdf5filters/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rhdf5filters)