| Back to Multiple platform build/check report for BioC 3.18: simplified long |
|
This page was generated on 2023-11-02 11:41:08 -0400 (Thu, 02 Nov 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4729 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" | 4463 |
| lconway | macOS 12.6.5 Monterey | x86_64 | 4.3.1 Patched (2023-06-17 r84564) -- "Beagle Scouts" | 4478 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4464 |
| 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 1661/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| Rarr 1.2.0 (landing page) Mike Smith
| nebbiolo2 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
| lconway | macOS 12.6.5 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
| kjohnson1 | macOS 13.6.1 Ventura / arm64 | see weekly results here | ||||||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
|
To the developers/maintainers of the Rarr package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Rarr.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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: Rarr |
| Version: 1.2.0 |
| Command: /home/biocbuild/R/R-4.3.1/bin/R CMD check --install=check:Rarr.install-out.txt --library=/home/biocbuild/R/R-4.3.1/site-library --no-vignettes --timings Rarr_1.2.0.tar.gz |
| StartedAt: 2023-11-02 13:29:36 -0000 (Thu, 02 Nov 2023) |
| EndedAt: 2023-11-02 13:30:09 -0000 (Thu, 02 Nov 2023) |
| EllapsedTime: 32.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: Rarr.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /home/biocbuild/R/R-4.3.1/bin/R CMD check --install=check:Rarr.install-out.txt --library=/home/biocbuild/R/R-4.3.1/site-library --no-vignettes --timings Rarr_1.2.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/Rarr.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (GCC) 10.3.1
GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Rarr/DESCRIPTION’ ... OK
* this is package ‘Rarr’ version ‘1.2.0’
* 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 ... NOTE
Found the following hidden files and directories:
inst/extdata/zarr_examples/column-first/Unicode.zarr/.zarray
inst/extdata/zarr_examples/column-first/boolean.zarr/.zarray
inst/extdata/zarr_examples/column-first/float16.zarr/.zarray
inst/extdata/zarr_examples/column-first/float32.zarr/.zarray
inst/extdata/zarr_examples/column-first/float64.zarr/.zarray
inst/extdata/zarr_examples/column-first/int16.zarr/.zarray
inst/extdata/zarr_examples/column-first/int32.zarr/.zarray
inst/extdata/zarr_examples/column-first/int64.zarr/.zarray
inst/extdata/zarr_examples/column-first/int8.zarr/.zarray
inst/extdata/zarr_examples/column-first/string.zarr/.zarray
inst/extdata/zarr_examples/column-first/uint16.zarr/.zarray
inst/extdata/zarr_examples/column-first/uint32.zarr/.zarray
inst/extdata/zarr_examples/column-first/uint64.zarr/.zarray
inst/extdata/zarr_examples/column-first/uint8.zarr/.zarray
inst/extdata/zarr_examples/column-first/vlenUTF8.zarr/.zarray
inst/extdata/zarr_examples/compression/bzip2.zarr/.zarray
inst/extdata/zarr_examples/compression/lz4.zarr/.zarray
inst/extdata/zarr_examples/compression/lzma.zarr/.zarray
inst/extdata/zarr_examples/compression/zlib.zarr/.zarray
inst/extdata/zarr_examples/fill-values/double-inf.zarr/.zarray
inst/extdata/zarr_examples/fill-values/double-neginf.zarr/.zarray
inst/extdata/zarr_examples/row-first/float16.zarr/.zarray
inst/extdata/zarr_examples/row-first/float32.zarr/.zarray
inst/extdata/zarr_examples/row-first/float64.zarr/.zarray
inst/extdata/zarr_examples/row-first/int16.zarr/.zarray
inst/extdata/zarr_examples/row-first/int32.zarr/.zarray
inst/extdata/zarr_examples/row-first/int64.zarr/.zarray
inst/extdata/zarr_examples/row-first/int8.zarr/.zarray
inst/extdata/zarr_examples/row-first/string.zarr/.zarray
inst/extdata/zarr_examples/row-first/uint32.zarr/.zarray
inst/extdata/zarr_examples/row-first/uint64.zarr/.zarray
inst/extdata/zarr_examples/row-first/uint8.zarr/.zarray
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘Rarr’ can be installed ... OK
* used C compiler: ‘gcc (GCC) 10.3.1’
* checking installed package size ... NOTE
installed size is 8.8Mb
sub-directories of 1Mb or more:
libs 7.4Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R 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 loading without being on the library search path ... 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 in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 4 NOTEs
See
‘/home/biocbuild/bbs-3.18-bioc/meat/Rarr.Rcheck/00check.log’
for details.
Rarr.Rcheck/00install.out
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### Running command:
###
### /home/biocbuild/R/R-4.3.1/bin/R CMD INSTALL Rarr
###
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* installing to library ‘/home/biocbuild/R/R-4.3.1/site-library’
* installing *source* package ‘Rarr’ ...
** using staged installation
configure: creating ./config.status
config.status: creating src/Makevars
checking for gcc... gcc
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 gcc accepts -g... yes
checking for gcc option to enable C11 features... none needed
checking whether C compiler accepts -msse2... no
configure: Bioc build machine; disabling MAVX2
configure: creating ./config.status
config.status: creating src/Makevars
config.status: creating src/compression_tools/blosc/lib/blosc-1.20.1/Makefile
config.status: creating src/compression_tools/blosc/Makefile
** libs
using C compiler: ‘gcc (GCC) 10.3.1’
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -g -O2 -Wall -fPIC -g -O2 -Wall -c Rarr.c -o Rarr.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -g -O2 -Wall -fPIC -g -O2 -Wall -c bit64_conversion.c -o bit64_conversion.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -g -O2 -Wall -fPIC -g -O2 -Wall -c compress.c -o compress.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -g -O2 -Wall -fPIC -g -O2 -Wall -c decompress.c -o decompress.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -g -O2 -Wall -fPIC -g -O2 -Wall -c float16_conversion.c -o float16_conversion.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -g -O2 -Wall -fPIC -g -O2 -Wall -c type_conversion.c -o type_conversion.o
make -C compression_tools/blosc
make[1]: Entering directory '/home/biocbuild/bbs-3.18-bioc/meat/Rarr/src/compression_tools/blosc'
make -C lib/snappy-1.1.1
make[2]: Entering directory '/home/biocbuild/bbs-3.18-bioc/meat/Rarr/src/compression_tools/blosc/lib/snappy-1.1.1'
g++ -std=gnu++17 -g -O2 -Wall -fPIC -I/usr/local/include -I/home/biocbuild/R/R-4.3.1/include -DUSING_R -c snappy.cc
snappy.cc: In member function ‘bool snappy::SnappyIOVecWriter::Append(const char*, size_t)’:
snappy.cc:1012:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare]
1012 | if (curr_iov_index_ + 1 >= output_iov_count_) {
| ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~
snappy.cc: In member function ‘bool snappy::SnappyIOVecWriter::AppendFromSelf(size_t, size_t)’:
snappy.cc:1094:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare]
1094 | if (curr_iov_index_ + 1 >= output_iov_count_) {
| ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~
snappy.cc: At global scope:
snappy.cc:569:13: warning: ‘void snappy::ComputeTable()’ defined but not used [-Wunused-function]
569 | static void ComputeTable() {
| ^~~~~~~~~~~~
g++ -std=gnu++17 -g -O2 -Wall -fPIC -I/usr/local/include -I/home/biocbuild/R/R-4.3.1/include -DUSING_R -c snappy-c.cc
g++ -std=gnu++17 -g -O2 -Wall -fPIC -I/usr/local/include -I/home/biocbuild/R/R-4.3.1/include -DUSING_R -c snappy-sinksource.cc
g++ -std=gnu++17 -g -O2 -Wall -fPIC -I/usr/local/include -I/home/biocbuild/R/R-4.3.1/include -DUSING_R -c snappy-stubs-internal.cc
make[2]: Leaving directory '/home/biocbuild/bbs-3.18-bioc/meat/Rarr/src/compression_tools/blosc/lib/snappy-1.1.1'
make -C lib/lz4-1.9.2
make[2]: Entering directory '/home/biocbuild/bbs-3.18-bioc/meat/Rarr/src/compression_tools/blosc/lib/lz4-1.9.2'
gcc -g -O2 -Wall -fPIC -DNLZ4_DEBUG -c lz4.c
gcc -g -O2 -Wall -fPIC -DNLZ4_DEBUG -c lz4hc.c
make[2]: Leaving directory '/home/biocbuild/bbs-3.18-bioc/meat/Rarr/src/compression_tools/blosc/lib/lz4-1.9.2'
make -C lib/zstd-1.4.5
make[2]: Entering directory '/home/biocbuild/bbs-3.18-bioc/meat/Rarr/src/compression_tools/blosc/lib/zstd-1.4.5'
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c common/debug.c -o common/debug.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c common/entropy_common.c -o common/entropy_common.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c common/error_private.c -o common/error_private.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c common/fse_decompress.c -o common/fse_decompress.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -I. -c common/pool.c -o common/pool.o -o common/pool.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c common/threading.c -o common/threading.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c common/xxhash.c -o common/xxhash.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c common/zstd_common.c -o common/zstd_common.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c compress/fse_compress.c -o compress/fse_compress.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c compress/hist.c -o compress/hist.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c compress/huf_compress.c -o compress/huf_compress.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c compress/zstd_compress.c -o compress/zstd_compress.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c compress/zstd_compress_literals.c -o compress/zstd_compress_literals.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c compress/zstd_compress_sequences.c -o compress/zstd_compress_sequences.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c compress/zstd_compress_superblock.c -o compress/zstd_compress_superblock.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c compress/zstd_double_fast.c -o compress/zstd_double_fast.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c compress/zstd_fast.c -o compress/zstd_fast.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c compress/zstd_lazy.c -o compress/zstd_lazy.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c compress/zstd_ldm.c -o compress/zstd_ldm.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c compress/zstd_opt.c -o compress/zstd_opt.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c compress/zstdmt_compress.c -o compress/zstdmt_compress.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c decompress/huf_decompress.c -o decompress/huf_decompress.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c decompress/zstd_ddict.c -o decompress/zstd_ddict.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c decompress/zstd_decompress.c -o decompress/zstd_decompress.o
gcc -g -O2 -Wall -fPIC -I. -I./common -DXXH_NAMESPACE=ZSTD_ -DNDEBUG -c decompress/zstd_decompress_block.c -o decompress/zstd_decompress_block.o
make[2]: Leaving directory '/home/biocbuild/bbs-3.18-bioc/meat/Rarr/src/compression_tools/blosc/lib/zstd-1.4.5'
make -C lib/blosc-1.20.1 all
make[2]: Entering directory '/home/biocbuild/bbs-3.18-bioc/meat/Rarr/src/compression_tools/blosc/lib/blosc-1.20.1'
gcc -g -O2 -Wall -fPIC -I/usr/local/include -I/home/biocbuild/R/R-4.3.1/include -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -DUSING_R -c bitshuffle-generic.c
gcc -g -O2 -Wall -fPIC -I/usr/local/include -I/home/biocbuild/R/R-4.3.1/include -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -DUSING_R -c shuffle-generic.c
gcc -g -O2 -Wall -fPIC -I/usr/local/include -I/home/biocbuild/R/R-4.3.1/include -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -DUSING_R -c shuffle.c
shuffle.c: In function ‘get_shuffle_implementation’:
shuffle.c:318:22: warning: unused variable ‘cpu_features’ [-Wunused-variable]
318 | blosc_cpu_features cpu_features = blosc_get_cpu_features();
| ^~~~~~~~~~~~
In file included from shuffle.c:12:
At top level:
shuffle-generic.h:61:13: warning: ‘unshuffle_generic_inline’ defined but not used [-Wunused-function]
61 | static void unshuffle_generic_inline(const size_t type_size,
| ^~~~~~~~~~~~~~~~~~~~~~~~
shuffle-generic.h:32:13: warning: ‘shuffle_generic_inline’ defined but not used [-Wunused-function]
32 | static void shuffle_generic_inline(const size_t type_size,
| ^~~~~~~~~~~~~~~~~~~~~~
gcc -g -O2 -Wall -fPIC -I/usr/local/include -I/home/biocbuild/R/R-4.3.1/include -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -DUSING_R -c blosclz.c
gcc -g -O2 -Wall -fPIC -I/usr/local/include -I/home/biocbuild/R/R-4.3.1/include -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -DUSING_R -c blosc.c
blosc.c:305:12: warning: ‘compname_to_clibcode’ defined but not used [-Wunused-function]
305 | static int compname_to_clibcode(const char *compname)
| ^~~~~~~~~~~~~~~~~~~~
gcc -g -O2 -Wall -fPIC -I/usr/local/include -I/home/biocbuild/R/R-4.3.1/include -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -DUSING_R -c fastcopy.c
make[2]: Leaving directory '/home/biocbuild/bbs-3.18-bioc/meat/Rarr/src/compression_tools/blosc/lib/blosc-1.20.1'
rm -f libblosc.a
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
ranlib libblosc.a
make[1]: Leaving directory '/home/biocbuild/bbs-3.18-bioc/meat/Rarr/src/compression_tools/blosc'
gcc -shared -L/home/biocbuild/R/R-4.3.1/lib -L/usr/local/lib -o Rarr.so Rarr.o bit64_conversion.o compress.o decompress.o float16_conversion.o type_conversion.o compression_tools/blosc/libblosc.a -L/home/biocbuild/R/R-4.3.1/lib -lR
installing to /home/biocbuild/R/R-4.3.1/site-library/00LOCK-Rarr/00new/Rarr/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 (Rarr)
Rarr.Rcheck/tests/tinytest.Rout
R version 4.3.1 (2023-06-16) -- "Beagle Scouts"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (64-bit)
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("Rarr")
+ }
test_argument_handling.R...... 1 tests [0;32mOK[0m [0;36m58ms[0m
test_boolean.R................ 0 tests
test_boolean.R................ 0 tests
test_boolean.R................ 1 tests [0;32mOK[0m
test_boolean.R................ 2 tests [0;32mOK[0m
test_boolean.R................ 3 tests [0;32mOK[0m
test_boolean.R................ 4 tests [0;32mOK[0m
test_boolean.R................ 5 tests [0;32mOK[0m [0;36m13ms[0m
test_datatypes.R.............. 1 tests [0;32mOK[0m
test_datatypes.R.............. 2 tests [0;32mOK[0m
test_datatypes.R.............. 3 tests [0;32mOK[0m
test_datatypes.R.............. 4 tests [0;32mOK[0m
test_datatypes.R.............. 5 tests [0;32mOK[0m
test_datatypes.R.............. 6 tests [0;32mOK[0m
test_datatypes.R.............. 7 tests [0;32mOK[0m
test_datatypes.R.............. 8 tests [0;32mOK[0m
test_datatypes.R.............. 9 tests [0;32mOK[0m
test_datatypes.R.............. 10 tests [0;32mOK[0m
test_datatypes.R.............. 11 tests [0;32mOK[0m
test_datatypes.R.............. 12 tests [0;32mOK[0m
test_datatypes.R.............. 13 tests [0;32mOK[0m
test_datatypes.R.............. 14 tests [0;32mOK[0m
test_datatypes.R.............. 15 tests [0;32mOK[0m
test_datatypes.R.............. 16 tests [0;32mOK[0m [0;36m7ms[0m
test_decompression.R.......... 0 tests
test_decompression.R.......... 12 tests [0;32mOK[0m [0;36m23ms[0m
test_fill_values.R............ 0 tests
test_fill_values.R............ 0 tests
test_fill_values.R............ 10 tests [0;32mOK[0m [0;36m15ms[0m
test_float16.R................ 0 tests
test_float16.R................ 0 tests
test_float16.R................ 0 tests
test_float16.R................ 1 tests [0;32mOK[0m
test_float16.R................ 2 tests [0;32mOK[0m
test_float16.R................ 3 tests [0;32mOK[0m
test_float16.R................ 4 tests [0;32mOK[0m
test_float16.R................ 5 tests [0;32mOK[0m
test_float16.R................ 6 tests [0;32mOK[0m
test_float16.R................ 7 tests [0;32mOK[0m
test_float16.R................ 8 tests [0;32mOK[0m
test_float16.R................ 9 tests [0;32mOK[0m [0;36m21ms[0m
test_float32.R................ 0 tests
test_float32.R................ 0 tests
test_float32.R................ 0 tests
test_float32.R................ 1 tests [0;32mOK[0m
test_float32.R................ 2 tests [0;32mOK[0m
test_float32.R................ 3 tests [0;32mOK[0m
test_float32.R................ 4 tests [0;32mOK[0m
test_float32.R................ 5 tests [0;32mOK[0m
test_float32.R................ 6 tests [0;32mOK[0m
test_float32.R................ 7 tests [0;32mOK[0m [0;36m88ms[0m
test_float64.R................ 0 tests
test_float64.R................ 0 tests
test_float64.R................ 0 tests
test_float64.R................ 1 tests [0;32mOK[0m
test_float64.R................ 2 tests [0;32mOK[0m
test_float64.R................ 3 tests [0;32mOK[0m
test_float64.R................ 4 tests [0;32mOK[0m
test_float64.R................ 5 tests [0;32mOK[0m
test_float64.R................ 6 tests [0;32mOK[0m
test_float64.R................ 7 tests [0;32mOK[0m [0;36m23ms[0m
test_int16.R.................. 0 tests
test_int16.R.................. 0 tests
test_int16.R.................. 0 tests
test_int16.R.................. 1 tests [0;32mOK[0m
test_int16.R.................. 2 tests [0;32mOK[0m
test_int16.R.................. 3 tests [0;32mOK[0m
test_int16.R.................. 4 tests [0;32mOK[0m
test_int16.R.................. 5 tests [0;32mOK[0m
test_int16.R.................. 6 tests [0;32mOK[0m
test_int16.R.................. 7 tests [0;32mOK[0m [0;36m21ms[0m
test_int32.R.................. 0 tests
test_int32.R.................. 0 tests
test_int32.R.................. 0 tests
test_int32.R.................. 1 tests [0;32mOK[0m
test_int32.R.................. 2 tests [0;32mOK[0m
test_int32.R.................. 3 tests [0;32mOK[0m
test_int32.R.................. 4 tests [0;32mOK[0m
test_int32.R.................. 5 tests [0;32mOK[0m
test_int32.R.................. 6 tests [0;32mOK[0m
test_int32.R.................. 7 tests [0;32mOK[0m [0;36m20ms[0m
test_int64.R.................. 0 tests
test_int64.R.................. 0 tests
test_int64.R.................. 0 tests
test_int64.R.................. 1 tests [0;32mOK[0m
test_int64.R.................. 2 tests [0;32mOK[0m
test_int64.R.................. 3 tests [0;32mOK[0m
test_int64.R.................. 4 tests [0;32mOK[0m
test_int64.R.................. 5 tests [0;32mOK[0m
test_int64.R.................. 6 tests [0;32mOK[0m
test_int64.R.................. 7 tests [0;32mOK[0m
test_int64.R.................. 8 tests [0;32mOK[0m
test_int64.R.................. 9 tests [0;32mOK[0m
test_int64.R.................. 10 tests [0;32mOK[0m
test_int64.R.................. 11 tests [0;32mOK[0m
test_int64.R.................. 12 tests [0;32mOK[0m
test_int64.R.................. 13 tests [0;32mOK[0m
test_int64.R.................. 14 tests [0;32mOK[0m
test_int64.R.................. 15 tests [0;32mOK[0m [0;36m35ms[0m
test_int8.R................... 0 tests
test_int8.R................... 0 tests
test_int8.R................... 0 tests
test_int8.R................... 1 tests [0;32mOK[0m
test_int8.R................... 2 tests [0;32mOK[0m
test_int8.R................... 3 tests [0;32mOK[0m
test_int8.R................... 4 tests [0;32mOK[0m
test_int8.R................... 5 tests [0;32mOK[0m
test_int8.R................... 6 tests [0;32mOK[0m
test_int8.R................... 7 tests [0;32mOK[0m [0;36m22ms[0m
test_normalize_path.R......... 0 tests
test_normalize_path.R......... 0 tests
test_normalize_path.R......... 5 tests [0;32mOK[0m [0;36m4ms[0m
test_read_metadata.R.......... 0 tests
test_read_metadata.R.......... 0 tests
test_read_metadata.R.......... 1 tests [0;32mOK[0m
test_read_metadata.R.......... 2 tests [0;32mOK[0m
test_read_metadata.R.......... 3 tests [0;32mOK[0m [0;36m9ms[0m
test_roundtrip.R.............. 0 tests
test_roundtrip.R.............. 1 tests [0;32mOK[0m
test_roundtrip.R.............. 2 tests [0;32mOK[0m
test_roundtrip.R.............. 3 tests [0;32mOK[0m
test_roundtrip.R.............. 3 tests [0;32mOK[0m
test_roundtrip.R.............. 3 tests [0;32mOK[0m
test_roundtrip.R.............. 4 tests [0;32mOK[0m
test_roundtrip.R.............. 5 tests [0;32mOK[0m
test_roundtrip.R.............. 5 tests [0;32mOK[0m
test_roundtrip.R.............. 6 tests [0;32mOK[0m
test_roundtrip.R.............. 7 tests [0;32mOK[0m
test_roundtrip.R.............. 7 tests [0;32mOK[0m
test_roundtrip.R.............. 8 tests [0;32mOK[0m
test_roundtrip.R.............. 9 tests [0;32mOK[0m
test_roundtrip.R.............. 9 tests [0;32mOK[0m
test_roundtrip.R.............. 10 tests [0;32mOK[0m
test_roundtrip.R.............. 11 tests [0;32mOK[0m
test_roundtrip.R.............. 11 tests [0;32mOK[0m
test_roundtrip.R.............. 12 tests [0;32mOK[0m
test_roundtrip.R.............. 13 tests [0;32mOK[0m
test_roundtrip.R.............. 13 tests [0;32mOK[0m
test_roundtrip.R.............. 14 tests [0;32mOK[0m
test_roundtrip.R.............. 15 tests [0;32mOK[0m
test_roundtrip.R.............. 15 tests [0;32mOK[0m
test_roundtrip.R.............. 16 tests [0;32mOK[0m
test_roundtrip.R.............. 17 tests [0;32mOK[0m
test_roundtrip.R.............. 17 tests [0;32mOK[0m
test_roundtrip.R.............. 18 tests [0;32mOK[0m
test_roundtrip.R.............. 19 tests [0;32mOK[0m
test_roundtrip.R.............. 19 tests [0;32mOK[0m
test_roundtrip.R.............. 20 tests [0;32mOK[0m
test_roundtrip.R.............. 21 tests [0;32mOK[0m [0;34m1.1s[0m
test_s3.R..................... 0 tests
test_s3.R..................... 0 tests Loading required package: mockery
test_s3.R..................... 1 tests [0;32mOK[0m [0;34m0.3s[0m
test_string.R................. 0 tests
test_string.R................. 0 tests
test_string.R................. 0 tests
test_string.R................. 1 tests [0;32mOK[0m
test_string.R................. 2 tests [0;32mOK[0m
test_string.R................. 3 tests [0;32mOK[0m
test_string.R................. 4 tests [0;32mOK[0m
test_string.R................. 5 tests [0;32mOK[0m
test_string.R................. 6 tests [0;32mOK[0m
test_string.R................. 7 tests [0;32mOK[0m
test_string.R................. 7 tests [0;32mOK[0m
test_string.R................. 8 tests [0;32mOK[0m
test_string.R................. 9 tests [0;32mOK[0m
test_string.R................. 9 tests [0;32mOK[0m
test_string.R................. 10 tests [0;32mOK[0m
test_string.R................. 11 tests [0;32mOK[0m
test_string.R................. 11 tests [0;32mOK[0m
test_string.R................. 11 tests [0;32mOK[0m
test_string.R................. 12 tests [0;32mOK[0m
test_string.R................. 13 tests [0;32mOK[0m
test_string.R................. 14 tests [0;32mOK[0m
test_string.R................. 14 tests [0;32mOK[0m
test_string.R................. 15 tests [0;32mOK[0m
test_string.R................. 16 tests [0;32mOK[0m
test_string.R................. 17 tests [0;32mOK[0m
test_string.R................. 17 tests [0;32mOK[0m
test_string.R................. 17 tests [0;32mOK[0m
test_string.R................. 17 tests [0;32mOK[0m
test_string.R................. 17 tests [0;32mOK[0m
test_string.R................. 17 tests [0;32mOK[0m
test_string.R................. 17 tests [0;32mOK[0m
test_string.R................. 18 tests [0;32mOK[0m [0;34m0.4s[0m
test_uint16.R................. 0 tests
test_uint16.R................. 0 tests
test_uint16.R................. 1 tests [0;32mOK[0m
test_uint16.R................. 2 tests [0;32mOK[0m
test_uint16.R................. 3 tests [0;32mOK[0m
test_uint16.R................. 4 tests [0;32mOK[0m
test_uint16.R................. 5 tests [0;32mOK[0m [0;36m17ms[0m
test_uint32.R................. 0 tests
test_uint32.R................. 0 tests
test_uint32.R................. 0 tests
test_uint32.R................. 1 tests [0;32mOK[0m
test_uint32.R................. 2 tests [0;32mOK[0m
test_uint32.R................. 3 tests [0;32mOK[0m
test_uint32.R................. 4 tests [0;32mOK[0m
test_uint32.R................. 5 tests [0;32mOK[0m
test_uint32.R................. 6 tests [0;32mOK[0m
test_uint32.R................. 7 tests [0;32mOK[0m
test_uint32.R................. 8 tests [0;32mOK[0m
test_uint32.R................. 9 tests [0;32mOK[0m
test_uint32.R................. 10 tests [0;32mOK[0m
test_uint32.R................. 11 tests [0;32mOK[0m [0;36m39ms[0m
test_uint64.R................. 0 tests
test_uint64.R................. 0 tests
test_uint64.R................. 1 tests [0;32mOK[0m
test_uint64.R................. 2 tests [0;32mOK[0m
test_uint64.R................. 3 tests [0;32mOK[0m
test_uint64.R................. 4 tests [0;32mOK[0m
test_uint64.R................. 5 tests [0;32mOK[0m
test_uint64.R................. 6 tests [0;32mOK[0m
test_uint64.R................. 7 tests [0;32mOK[0m [0;36m16ms[0m
test_uint8.R.................. 0 tests
test_uint8.R.................. 0 tests
test_uint8.R.................. 1 tests [0;32mOK[0m
test_uint8.R.................. 2 tests [0;32mOK[0m
test_uint8.R.................. 3 tests [0;32mOK[0m
test_uint8.R.................. 4 tests [0;32mOK[0m
test_uint8.R.................. 5 tests [0;32mOK[0m [0;36m17ms[0m
test_update_zarr.R............ 0 tests
test_update_zarr.R............ 0 tests
test_update_zarr.R............ 0 tests
test_update_zarr.R............ 1 tests [0;32mOK[0m
test_update_zarr.R............ 2 tests [0;32mOK[0m
test_update_zarr.R............ 3 tests [0;32mOK[0m
test_update_zarr.R............ 3 tests [0;32mOK[0m
test_update_zarr.R............ 4 tests [0;32mOK[0m
test_update_zarr.R............ 5 tests [0;32mOK[0m
test_update_zarr.R............ 6 tests [0;32mOK[0m [0;36m21ms[0m
test_url_parsing.R............ 0 tests
test_url_parsing.R............ 10 tests [0;32mOK[0m
test_url_parsing.R............ 15 tests [0;32mOK[0m
test_url_parsing.R............ 16 tests [0;32mOK[0m
test_url_parsing.R............ 17 tests [0;32mOK[0m
test_url_parsing.R............ 18 tests [0;32mOK[0m [0;36m9ms[0m
test_utils.R.................. 1 tests [0;32mOK[0m
test_utils.R.................. 2 tests [0;32mOK[0m
test_utils.R.................. 3 tests [0;32mOK[0m [0;36m3ms[0m
All ok, 206 results (2.3s)
>
> proc.time()
user system elapsed
2.651 0.272 3.131
Rarr.Rcheck/Rarr-Ex.timings
| name | user | system | elapsed | |
| compressors | 0.291 | 0.024 | 0.316 | |
| create_empty_zarr_array | 0.003 | 0.000 | 0.003 | |
| read_zarr_array | 0.007 | 0.024 | 0.037 | |
| update_zarr_array | 0.008 | 0.000 | 0.008 | |
| write_zarr_array | 0.003 | 0.004 | 0.006 | |
| zarr_overview | 0.001 | 0.002 | 0.003 | |