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CHECK report for rhdf5 on merida2

This page was generated on 2018-10-17 08:50:13 -0400 (Wed, 17 Oct 2018).

Package 1236/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
rhdf5 2.24.0
Mike Smith
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/rhdf5
Branch: RELEASE_3_7
Last Commit: e926e8c
Last Changed Date: 2018-04-30 10:35:23 -0400 (Mon, 30 Apr 2018)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository

Summary

Package: rhdf5
Version: 2.24.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:rhdf5.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings rhdf5_2.24.0.tar.gz
StartedAt: 2018-10-16 23:41:41 -0400 (Tue, 16 Oct 2018)
EndedAt: 2018-10-16 23:42:18 -0400 (Tue, 16 Oct 2018)
EllapsedTime: 37.2 seconds
RetCode: 0
Status:  OK 
CheckDir: rhdf5.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:rhdf5.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings rhdf5_2.24.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.7-bioc/meat/rhdf5.Rcheck’
* using R version 3.5.1 Patched (2018-07-12 r74967)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘rhdf5/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘rhdf5’ version ‘2.24.0’
* 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 ‘rhdf5’ can be installed ... OK
* checking installed package size ... OK
* 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 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 C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
File ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library/rhdf5/libs/rhdf5.so’:
  Found ‘___stderrp’, possibly from ‘stderr’ (C)
  Found ‘___stdoutp’, possibly from ‘stdout’ (C)
  Found ‘_abort’, possibly from ‘abort’ (C)
  Found ‘_rand_r’, possibly from ‘rand_r’ (C)

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs. The detected symbols are linked into the code but
might come from libraries and not actually be called.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.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: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.7-bioc/meat/rhdf5.Rcheck/00check.log’
for details.

Installation output

rhdf5.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL rhdf5
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’
* installing *source* package ‘rhdf5’ ...
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c H5.c -o H5.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c H5A.c -o H5A.o
H5A.c:153:10: warning: unused variable 'herr' [-Wunused-variable]
  herr_t herr = H5Aread(attr_id, mem_type_id, buf );
         ^
H5A.c:186:10: warning: unused variable 'herr' [-Wunused-variable]
  herr_t herr = H5Aread(attr_id, mem_type_id, buf );
         ^
H5A.c:213:12: warning: unused variable 'herr' [-Wunused-variable]
    herr_t herr = H5Aread(attr_id, mem_type_id, bufSTR );
           ^
H5A.c:220:12: warning: unused variable 'herr' [-Wunused-variable]
    herr_t herr = H5Aread(attr_id, mem_type_id, bufSTR );
           ^
4 warnings generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c H5D.c -o H5D.o
H5D.c:271:9: warning: unused variable 'status' [-Wunused-variable]
        herr_t status = H5Tinsert(mem_type_id2, cpdField[i], 0, mem_type_id);
               ^
H5D.c:268:14: warning: unused variable 'status' [-Wunused-variable]
      herr_t status = H5Tinsert(mem_type_id, cpdField[0], 0, H5T_NATIVE_INT32);
             ^
H5D.c:283:12: warning: unused variable 'herr' [-Wunused-variable]
    herr_t herr = H5Dread(dataset_id, mem_type_id, mem_space_id, file_space_id, H5P_DEFAULT, buf );
           ^
H5D.c:322:9: warning: unused variable 'status' [-Wunused-variable]
        herr_t status = H5Tinsert(mem_type_id2, cpdField[i], 0, mem_type_id);
               ^
H5D.c:319:14: warning: unused variable 'status' [-Wunused-variable]
      herr_t status = H5Tinsert(mem_type_id, cpdField[0], 0, dtypeNative);
             ^
H5D.c:327:12: warning: unused variable 'herr' [-Wunused-variable]
    herr_t herr = H5Dread(dataset_id, mem_type_id, mem_space_id, file_space_id, H5P_DEFAULT, intbuf );
           ^
H5D.c:308:16: warning: variable 'intbuf' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
    } else if ((b == 8) & (sgn == H5T_SGN_NONE)) {
               ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
H5D.c:312:9: note: uninitialized use occurs here
    if (intbuf == 0) {
        ^˜˜˜˜˜
H5D.c:308:12: note: remove the 'if' if its condition is always true
    } else if ((b == 8) & (sgn == H5T_SGN_NONE)) {
           ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
H5D.c:298:17: note: initialize the variable 'intbuf' to silence this warning
    void* intbuf;
                ^
                 = NULL
H5D.c:494:14: warning: unused variable 'status' [-Wunused-variable]
      herr_t status = H5Tinsert(mem_type_id2, cpdField[i], 0, mem_type_id);
             ^
H5D.c:491:12: warning: unused variable 'status' [-Wunused-variable]
    herr_t status = H5Tinsert(mem_type_id, cpdField[0], 0, H5T_NATIVE_DOUBLE);
           ^
H5D.c:506:10: warning: unused variable 'herr' [-Wunused-variable]
  herr_t herr = H5Dread(dataset_id, mem_type_id, mem_space_id, file_space_id, H5P_DEFAULT, buf );
         ^
H5D.c:532:14: warning: unused variable 'status' [-Wunused-variable]
      herr_t status = H5Tinsert(mem_type_id2, cpdField[i], 0, mem_type_id);
             ^
H5D.c:529:12: warning: unused variable 'status' [-Wunused-variable]
    herr_t status = H5Tinsert(mem_type_id, cpdField[0], 0, dtype_id);
           ^
H5D.c:540:12: warning: unused variable 'herr' [-Wunused-variable]
    herr_t herr = H5Dread(dataset_id, mem_type_id, mem_space_id, file_space_id, H5P_DEFAULT, bufSTR );
           ^
H5D.c:550:12: warning: unused variable 'herr' [-Wunused-variable]
    herr_t herr = H5Dread(dataset_id, mem_type_id, mem_space_id, file_space_id, H5P_DEFAULT, bufSTR );
           ^
H5D.c:588:14: warning: unused variable 'status' [-Wunused-variable]
      herr_t status = H5Tenum_insert (enumtype, st, &i);
             ^
H5D.c:599:9: warning: unused variable 'status' [-Wunused-variable]
        herr_t status = H5Tinsert(mem_type_id2, cpdField[i], 0, mem_type_id);
               ^
H5D.c:596:14: warning: unused variable 'status' [-Wunused-variable]
      herr_t status = H5Tinsert(mem_type_id, cpdField[0], 0, enumtype);
             ^
H5D.c:614:12: warning: unused variable 'herr' [-Wunused-variable]
    herr_t herr = H5Dread(dataset_id, mem_type_id, mem_space_id, file_space_id, H5P_DEFAULT, buf );
           ^
H5D.c:674:13: warning: unused variable 'status' [-Wunused-variable]
        herr_t status = H5Tinsert(mem_type_id2, cpdField[i], 0, mem_type_id);
               ^
H5D.c:671:14: warning: unused variable 'status' [-Wunused-variable]
      herr_t status = H5Tinsert(mem_type_id, cpdField[0], 0, arraytype);
             ^
H5D.c:696:12: warning: unused variable 'herr' [-Wunused-variable]
    herr_t herr = H5Dread(dataset_id, mem_type_id, mem_space_id, file_space_id, H5P_DEFAULT, buf );
           ^
H5D.c:690:18: warning: variable 'buf' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
      } else if (superclass == H5T_FLOAT) {
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
H5D.c:696:94: note: uninitialized use occurs here
    herr_t herr = H5Dread(dataset_id, mem_type_id, mem_space_id, file_space_id, H5P_DEFAULT, buf );
                                                                                             ^˜˜
H5D.c:690:14: note: remove the 'if' if its condition is always true
      } else if (superclass == H5T_FLOAT) {
             ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
H5D.c:683:18: warning: variable 'buf' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
      } else if (superclass == H5T_FLOAT) {
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
H5D.c:696:94: note: uninitialized use occurs here
    herr_t herr = H5Dread(dataset_id, mem_type_id, mem_space_id, file_space_id, H5P_DEFAULT, buf );
                                                                                             ^˜˜
H5D.c:683:14: note: remove the 'if' if its condition is always true
      } else if (superclass == H5T_FLOAT) {
             ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
H5D.c:678:15: note: initialize the variable 'buf' to silence this warning
    void * buf;
              ^
               = NULL
H5D.c:777:9: warning: unused variable 'mem_type_id' [-Wunused-variable]
  hid_t mem_type_id = -1;
        ^
24 warnings generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c H5E.c -o H5E.o
H5E.c:76:3: warning: unused label 'Rf_error' [-Wunused-label]
  error:
  ^˜˜˜˜˜
/Library/Frameworks/R.framework/Resources/include/R_ext/Error.h:52:15: note: expanded from macro 'error'
#define error Rf_error
              ^
H5E.c:87:16: warning: unused variable 'indent' [-Wunused-variable]
    const int           indent = 4;
                        ^
H5E.c:112:3: warning: unused label 'Rf_error' [-Wunused-label]
  error:
  ^˜˜˜˜˜
/Library/Frameworks/R.framework/Resources/include/R_ext/Error.h:52:15: note: expanded from macro 'error'
#define error Rf_error
              ^
H5E.c:121:12: warning: unused variable 'eee' [-Wunused-variable]
    herr_t eee = H5Ewalk(estack_id, H5E_WALK_DOWNWARD, &custom_print_cb, &client_data);
           ^
H5E.c:153:12: warning: unused variable 'eee' [-Wunused-variable]
    herr_t eee = H5Ewalk(estack_id, H5E_WALK_DOWNWARD, &custom_print_cb_compact, &client_data);
           ^
5 warnings generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c H5F.c -o H5F.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c H5G.c -o H5G.o
H5G.c:66:10: warning: unused variable 'herr' [-Wunused-variable]
  herr_t herr = H5Gget_info( group_id, &group_info );
         ^
H5G.c:113:10: warning: unused variable 'herr' [-Wunused-variable]
  herr_t herr = H5Gget_info_by_name( loc_id, group_name, &group_info, H5P_DEFAULT );
         ^
H5G.c:163:10: warning: unused variable 'herr' [-Wunused-variable]
  herr_t herr = H5Gget_info_by_idx( loc_id, group_name, index_type, order, n, &group_info, H5P_DEFAULT );
         ^
3 warnings generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c H5I.c -o H5I.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c H5L.c -o H5L.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c H5O.c -o H5O.o
H5O.c:13:10: warning: unused variable 'herr' [-Wunused-variable]
  herr_t herr = H5Aiterate( obj_id, H5_INDEX_CRT_ORDER, H5_ITER_NATIVE, &idx, &opAcount, &n);
         ^
1 warning generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c H5P.c -o H5P.o
H5P.c:688:16: warning: unused variable 'libver_low' [-Wunused-variable]
  H5F_libver_t libver_low = INTEGER(_libver_low)[0];
               ^
H5P.c:689:16: warning: unused variable 'libver_high' [-Wunused-variable]
  H5F_libver_t libver_high = INTEGER(_libver_high)[0];
               ^
2 warnings generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c H5S.c -o H5S.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c H5T.c -o H5T.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c H5constants.c -o H5constants.o
H5constants.c:62:71: warning: implicit conversion from 'hsize_t' (aka 'unsigned long long') to 'int' changes value from 18446744073709551615 to -1 [-Wconstant-conversion]
  int const_H5S[4]       = {  H5S_SCALAR,   H5S_SIMPLE,   H5S_NULL,   H5S_UNLIMITED };
                           ˜                                          ^˜˜˜˜˜˜˜˜˜˜˜˜
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include/H5Spublic.h:26:24: note: expanded from macro 'H5S_UNLIMITED'
#define H5S_UNLIMITED   ((hsize_t)(hssize_t)(-1))
                         ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
1 warning generated.
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c HandleList.cpp -o HandleList.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c HandleListWrap.c -o HandleListWrap.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c h5dump.c -o h5dump.o
h5dump.c:331:12: warning: unused variable 'herr' [-Wunused-variable]
    herr_t herr = H5Literate( loc_id, data.index_type, data.order, &idx, &opAddToLinfoTree, &data );
           ^
1 warning generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c h5ls.c -o h5ls.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c h5writeDataFrame.c -o h5writeDataFrame.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c printdatatype.c -o printdatatype.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c wrap.c -o wrap.o
clang++ -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 rhdf5.so H5.o H5A.o H5D.o H5E.o H5F.o H5G.o H5I.o H5L.o H5O.o H5P.o H5S.o H5T.o H5constants.o HandleList.o HandleListWrap.o h5dump.o h5ls.o h5writeDataFrame.o printdatatype.o wrap.o /Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/lib/libhdf5_cpp.a /Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/lib/libhdf5.a /Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rhdf5lib/lib/libsz.a -lz -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/3.5/Resources/library/rhdf5/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
* DONE (rhdf5)

Tests output

rhdf5.Rcheck/tests/testthat.Rout


R version 3.5.1 Patched (2018-07-12 r74967) -- "Feather Spray"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin15.6.0 (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.

> library(testthat)
> library(rhdf5)
> 
> test_check("rhdf5")
══ testthat results  ═══════════════════════════════════════════════════════════
OK: 512 SKIPPED: 2 FAILED: 0
> 
> proc.time()
   user  system elapsed 
  5.030   0.225   5.289

Example timings

rhdf5.Rcheck/rhdf5-Ex.timings

nameusersystemelapsed
H50.0030.0010.005
H5A0.0380.0040.043
H5D0.0450.0040.048
H5F0.0090.0010.009
H5G0.0130.0010.013
H5I0.0280.0020.030
H5IdComponent-class0.0010.0000.002
H5L0.0130.0020.014
H5O0.0200.0010.021
H5P0.0050.0000.006
H5P_DATASET_ACCESS0.0040.0000.005
H5P_DATASET_CREATE0.0130.0000.015
H5P_LINK_CREATE0.0070.0010.007
H5S0.0070.0000.007
H5T0.0020.0000.004
h5closeAll0.0100.0010.011
h5const0.0010.0000.002
h5createAttribute0.0230.0010.025
h5createDataset0.0650.0020.069
h5createFile0.0130.0010.014
h5createGroup0.0140.0020.015
h5errorHandling0.0010.0000.002
h5listIdentifier0.0090.0010.010
h5ls0.0400.0020.043
h5save0.0500.0010.051
h5set_extent0.0230.0020.025
h5version0.0080.0010.010
h5write0.0630.0040.069
rhdf50.0660.0040.070