Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-08-13 17:42 -0400 (Tue, 13 Aug 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4758 |
palomino7 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4493 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4522 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4471 |
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 |
Package 1762/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
rhdf5filters 1.16.0 (landing page) Mike Smith
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
To the developers/maintainers of the rhdf5filters package: - 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 Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: rhdf5filters |
Version: 1.16.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:rhdf5filters.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings rhdf5filters_1.16.0.tar.gz |
StartedAt: 2024-08-12 10:17:30 -0400 (Mon, 12 Aug 2024) |
EndedAt: 2024-08-12 10:18:21 -0400 (Mon, 12 Aug 2024) |
EllapsedTime: 50.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: rhdf5filters.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:rhdf5filters.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings rhdf5filters_1.16.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/rhdf5filters.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: x86_64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Monterey 12.7.5 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘rhdf5filters/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘rhdf5filters’ version ‘1.16.0’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘rhdf5filters’ can be installed ... OK * used C compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’ * used SDK: ‘MacOSX11.3.sdk’ * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... NOTE License stub is invalid DCF. * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking line endings in shell scripts ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking compilation flags in Makevars ... OK * checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements. * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK * checking use of PKG_*FLAGS in Makefiles ... OK * checking include directives in Makefiles ... OK * checking compiled code ... NOTE Note: information on .o files is not available * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘tinytest.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 3 NOTEs See ‘/Users/biocbuild/bbs-3.19-bioc/meat/rhdf5filters.Rcheck/00check.log’ for details.
rhdf5filters.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL rhdf5filters ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’ * installing *source* package ‘rhdf5filters’ ... ** using staged installation checking for gcc... clang -arch x86_64 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 the compiler supports GNU C... yes checking whether clang -arch x86_64 accepts -g... yes checking for clang -arch x86_64 option to enable C11 features... none needed configure: is Bioc build machine configure: configuring BZIP2 filter... configure: compiling bundled bzip2 library configure: configuring the Zstd filter... configure: compiling bundled Zstd library configure: configuring the BLOSC filter... configure: compiling bundled BLOSC library checking whether C compiler accepts -msse2... yes configure: Bioc build machine; disabling MAVX2 checking for gcc __builtin_cpu_init function... (cached) true checking for x86 sse2 instruction support... yes configure: configuring the VBZ filter machine=x86_64 CPU_ARCH=x86 checking whether C compiler accepts -mavx... yes checking for x86 avx instruction support... yes VBZ_FLAGS=-mssse3 configure: creating ./config.status config.status: creating src/bzip2/Makefile config.status: creating src/zstd/Makefile config.status: creating src/blosc/lib/blosc-1.20.1/Makefile config.status: creating src/blosc/Makefile config.status: creating src/vbz/Makefile config.status: creating src/vbz/vbz/Makefile config.status: creating src/vbz/third_party/streamvbyte/Makefile config.status: creating src/Makevars ** libs using C compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’ using SDK: ‘MacOSX11.3.sdk’ make -C zstd clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c common/debug.c -o common/debug.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c common/entropy_common.c -o common/entropy_common.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c common/error_private.c -o common/error_private.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c common/fse_decompress.c -o common/fse_decompress.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c common/pool.c -o common/pool.o -o common/pool.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c common/threading.c -o common/threading.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c common/xxhash.c -o common/xxhash.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c common/zstd_common.c -o common/zstd_common.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c compress/fse_compress.c -o compress/fse_compress.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c compress/hist.c -o compress/hist.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c compress/huf_compress.c -o compress/huf_compress.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c compress/zstd_compress.c -o compress/zstd_compress.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c compress/zstd_compress_literals.c -o compress/zstd_compress_literals.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c compress/zstd_compress_sequences.c -o compress/zstd_compress_sequences.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c compress/zstd_compress_superblock.c -o compress/zstd_compress_superblock.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c compress/zstd_double_fast.c -o compress/zstd_double_fast.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c compress/zstd_fast.c -o compress/zstd_fast.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c compress/zstd_lazy.c -o compress/zstd_lazy.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c compress/zstd_ldm.c -o compress/zstd_ldm.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c compress/zstd_opt.c -o compress/zstd_opt.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c compress/zstdmt_compress.c -o compress/zstdmt_compress.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c decompress/huf_decompress.c -o decompress/huf_decompress.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c decompress/zstd_ddict.c -o decompress/zstd_ddict.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c decompress/zstd_decompress.c -o decompress/zstd_decompress.o clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DZSTD_DISABLE_ASM -c decompress/zstd_decompress_block.c -o decompress/zstd_decompress_block.o rm -f libzstd.a ar cq libzstd.a common/debug.o common/entropy_common.o common/error_private.o common/fse_decompress.o common/pool.o common/threading.o common/xxhash.o common/zstd_common.o compress/fse_compress.o compress/hist.o compress/huf_compress.o compress/zstd_compress.o compress/zstd_compress_literals.o compress/zstd_compress_sequences.o compress/zstd_compress_superblock.o compress/zstd_double_fast.o compress/zstd_fast.o compress/zstd_lazy.o compress/zstd_ldm.o compress/zstd_opt.o compress/zstdmt_compress.o decompress/huf_decompress.o decompress/zstd_ddict.o decompress/zstd_decompress.o decompress/zstd_decompress_block.o ranlib libzstd.a clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -shared H5Zzstd.c -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" \ -I. -Icommon ../zstd/libzstd.a -L/opt/R/x86_64/lib -o libH5Zzstd.so make -C blosc make -C lib/snappy-1.1.1 clang++ -arch x86_64 -std=gnu++17 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -c snappy.cc snappy.cc:567:13: warning: unused function 'ComputeTable' [-Wunused-function] static void ComputeTable() { ^ 1 warning generated. clang++ -arch x86_64 -std=gnu++17 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -c snappy-c.cc clang++ -arch x86_64 -std=gnu++17 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -c snappy-sinksource.cc clang++ -arch x86_64 -std=gnu++17 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -c snappy-stubs-internal.cc make -C lib/lz4-1.9.4 clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -c lz4.c clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -c lz4hc.c make -C lib/blosc-1.20.1 all clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -I../lz4-1.9.4 -I../snappy-1.1.1 -I../../../zstd -msse2 -c bitshuffle-sse2.c clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -I../lz4-1.9.4 -I../snappy-1.1.1 -I../../../zstd -msse2 -c shuffle-sse2.c clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -I../lz4-1.9.4 -I../snappy-1.1.1 -I../../../zstd -msse2 -c bitshuffle-generic.c clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -I../lz4-1.9.4 -I../snappy-1.1.1 -I../../../zstd -msse2 -c shuffle-generic.c clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -I../lz4-1.9.4 -I../snappy-1.1.1 -I../../../zstd -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 -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -I../lz4-1.9.4 -I../snappy-1.1.1 -I../../../zstd -msse2 -c blosclz.c clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -I../lz4-1.9.4 -I../snappy-1.1.1 -I../../../zstd -msse2 -c blosc.c blosc.c:737:11: warning: variable 'ctbytes' set but not used [-Wunused-but-set-variable] int32_t ctbytes = 0; /* number of compressed bytes in block */ ^ 1 warning generated. clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -I../lz4-1.9.4 -I../snappy-1.1.1 -I../../../zstd -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/lz4-1.9.4/lz4.o lib/lz4-1.9.4/lz4hc.o ranlib libblosc.a clang++ -arch x86_64 -std=gnu++17 -falign-functions=64 -Wall -g -O2 -fPIC -shared -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" H5Zblosc.cpp \ -L/opt/R/x86_64/lib -I./lib/blosc-1.20.1 ./libblosc.a ../zstd/libzstd.a -lz -o libH5Zblosc.so make -C bzip2 make -C bzip2-1.0.8 clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -c blocksort.c clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -c huffman.c clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -c crctable.c clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -c randtable.c clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -c compress.c clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -c decompress.c clang -arch x86_64 -falign-functions=64 -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 -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -shared H5Zbzip2.c -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" \ -Ibzip2-1.0.8 bzip2-1.0.8/libbz2.a -L/opt/R/x86_64/lib -o libH5Zbz2.so make -C lzf make -C lzf clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -c lzf_c.c clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -c lzf_d.c rm -f liblzf.a ar cq liblzf.a lzf_c.o lzf_d.o ranlib liblzf.a clang -arch x86_64 -falign-functions=64 -Wall -g -O2 -fPIC -shared H5Zlzf.c -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" \ -I./lzf/ ./lzf/liblzf.a -L/opt/R/x86_64/lib -o libH5Zlzf.so make -C vbz make -C third_party/streamvbyte clang -arch x86_64 -std=gnu99 -fPIC -Iinclude -c ./src/streamvbyte_decode.c clang -arch x86_64 -std=gnu99 -fPIC -Iinclude -c ./src/streamvbyte_encode.c clang -arch x86_64 -std=gnu99 -fPIC -Iinclude -c ./src/streamvbytedelta_decode.c clang -arch x86_64 -std=gnu99 -fPIC -Iinclude -c ./src/streamvbytedelta_encode.c clang -arch x86_64 -std=gnu99 -fPIC -Iinclude -c ./src/streamvbyte_0124_encode.c clang -arch x86_64 -std=gnu99 -fPIC -Iinclude -c ./src/streamvbyte_0124_decode.c clang -arch x86_64 -std=gnu99 -fPIC -Iinclude -c ./src/streamvbyte_zigzag.c rm -f libstreamvbyte.a ar cq libstreamvbyte.a streamvbyte_decode.o streamvbyte_encode.o streamvbytedelta_decode.o streamvbytedelta_encode.o streamvbyte_0124_encode.o streamvbyte_0124_decode.o streamvbyte_zigzag.o ranlib libstreamvbyte.a make -C vbz clang++ -arch x86_64 -std=gnu++17 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -I../third_party/streamvbyte/include/ -I../third_party/ -I../../zstd/ -mssse3 -c vbz.cpp -o vbz.o clang++ -arch x86_64 -std=gnu++17 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -I../third_party/streamvbyte/include/ -I../third_party/ -I../../zstd/ -mssse3 -c v0/vbz_streamvbyte.cpp -o v0/vbz_streamvbyte.o clang++ -arch x86_64 -std=gnu++17 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -I../third_party/streamvbyte/include/ -I../third_party/ -I../../zstd/ -mssse3 -c v1/vbz_streamvbyte.cpp -o v1/vbz_streamvbyte.o rm -f libvbz.a ar cq libvbz.a vbz/vbz.o vbz/v0/vbz_streamvbyte.o vbz/v1/vbz_streamvbyte.o ranlib libvbz.a clang++ -arch x86_64 -std=gnu++17 -falign-functions=64 -Wall -g -O2 -fPIC -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -shared vbz_plugin.cpp \ libvbz.a -L/opt/R/x86_64/lib ../zstd/libzstd.a third_party/streamvbyte/libstreamvbyte.a -o libH5Zvbz.so mkdir -p "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/00LOCK-rhdf5filters/00new/rhdf5filters/lib/" cp bzip2/libH5Zbz2.so blosc/libH5Zblosc.so lzf/libH5Zlzf.so zstd/libH5Zzstd.so vbz/libH5Zvbz.so "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/00LOCK-rhdf5filters/00new/rhdf5filters/lib/" clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -I"/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include" -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rhdf5lib/include' -I/opt/R/x86_64/include -falign-functions=64 -Wall -g -O2 -fPIC -falign-functions=64 -Wall -g -O2 -c rhdf5filters.c -o rhdf5filters.o clang -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o rhdf5filters.so rhdf5filters.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/00LOCK-rhdf5filters/00new/rhdf5filters/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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)
rhdf5filters.Rcheck/tests/tinytest.Rout
R version 4.4.1 (2024-06-14) -- "Race for Your Life" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin20 R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > if (requireNamespace("tinytest", quietly = TRUE)) { + tinytest::test_package("rhdf5filters") + } test-filter-io.R.............. 0 tests test-filter-io.R.............. 0 tests test-filter-io.R.............. 0 tests test-filter-io.R.............. 0 tests test-filter-io.R.............. 0 tests test-filter-io.R.............. 0 tests test-filter-io.R.............. 0 tests test-filter-io.R.............. 252 tests [0;32mOK[0m test-filter-io.R.............. 306 tests [0;32mOK[0m test-filter-io.R.............. 312 tests [0;32mOK[0m [0;34m6.6s[0m test-filter-read.R............ 0 tests test-filter-read.R............ 0 tests test-filter-read.R............ 0 tests test-filter-read.R............ 0 tests test-filter-read.R............ 0 tests test-filter-read.R............ 0 tests test-filter-read.R............ 5 tests [0;32mOK[0m [0;34m0.1s[0m test-plugin-path.R............ 0 tests test-plugin-path.R............ 1 tests [0;32mOK[0m test-plugin-path.R............ 2 tests [0;32mOK[0m test-plugin-path.R............ 3 tests [0;32mOK[0m [0;36m8ms[0m All ok, 320 results (6.8s) > > proc.time() user system elapsed 4.388 0.547 7.331
rhdf5filters.Rcheck/rhdf5filters-Ex.timings
name | user | system | elapsed | |
available_filters | 0.028 | 0.009 | 0.043 | |
hdf5_plugin_path | 0.002 | 0.001 | 0.008 | |