Multiple platform build/check report for BioC 3.8 - CHECK report for HDF5Array on tokay1

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### Running command:
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###   C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:HDF5Array.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings HDF5Array_1.10.1.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.8-bioc/meat/HDF5Array.Rcheck'
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'HDF5Array/DESCRIPTION' ... OK
* this is package 'HDF5Array' version '1.10.1'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
  cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
 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:
  .BBSoptions
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking whether package 'HDF5Array' can be installed ... WARNING
Found the following significant warnings:
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/HDF5Array-class.Rd:41: file link 'DelayedArray' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/HDF5Array-class.Rd:42: file link 'DelayedArray' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/HDF5Array-class.Rd:47: file link 'DelayedArray' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/HDF5Array-class.Rd:50: file link 'DelayedArray' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/HDF5Array-class.Rd:95: file link 'DelayedArray' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/HDF5Array-class.Rd:97: file link 'DelayedArray' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/HDF5Array-class.Rd:109: file link 'SummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/TENxMatrix-class.Rd:54: file link 'DelayedArray' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/TENxMatrix-class.Rd:55: file link 'DelayedArray' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/TENxMatrix-class.Rd:61: file link 'DelayedArray' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/TENxMatrix-class.Rd:64: file link 'DelayedArray' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/TENxMatrix-class.Rd:102: file link 'NumericList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/TENxMatrix-class.Rd:103: file link 'IntegerList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/TENxMatrix-class.Rd:121: file link 'DelayedArray' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/TENxMatrix-class.Rd:123: file link 'DelayedArray' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/TENxMatrix-class.Rd:132: file link 'setAutoBPPARAM' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/TENxMatrix-class.Rd:133: file link 'setAutoBlockSize' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/TENxMatrix-class.Rd:136: file link 'colGrid' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/TENxMatrix-class.Rd:137: file link 'blockApply' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/TENxMatrix-class.Rd:145: file link 'NumericList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/TENxMatrix-class.Rd:145: file link 'IntegerList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/dump-management.Rd:123: file link 'type' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/dump-management.Rd:216: file link 'type' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/saveHDF5SummarizedExperiment.Rd:11: file link 'SummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/saveHDF5SummarizedExperiment.Rd:22: file link 'SummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/saveHDF5SummarizedExperiment.Rd:26: file link 'SummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/saveHDF5SummarizedExperiment.Rd:81: file link 'SummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/saveHDF5SummarizedExperiment.Rd:92: file link 'SummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/saveHDF5SummarizedExperiment.Rd:93: file link 'RangedSummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpwTCzCk/R.INSTALLa64295544fa/HDF5Array/man/writeHDF5Array.Rd:111: file link 'SummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
See 'C:/Users/biocbuild/bbs-3.8-bioc/meat/HDF5Array.Rcheck/00install.out' for details.
* checking installed package size ... NOTE
  installed size is  8.3Mb
  sub-directories of 1Mb or more:
    extdata   7.7Mb
* checking package 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 ... NOTE
'library' or 'require' call to 'SummarizedExperiment' in package code.
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
Unexported objects imported by ':::' calls:
  'BiocGenerics:::testPackage' 'S4Vectors:::anyMissingOrOutside'
  'S4Vectors:::extract_data_frame_rows' 'S4Vectors:::sapply_isNULL'
  See the note in ?`:::` about the use of this operator.
* 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 examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
                   user system elapsed
TENxMatrix-class 277.50  73.95  377.72
writeTENxMatrix   10.26   0.98   11.39
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                   user system elapsed
TENxMatrix-class 266.89  75.95  343.10
writeTENxMatrix    9.95   1.00   11.22
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'run_unitTests.R'
 OK
** running tests for arch 'x64' ...
  Running 'run_unitTests.R'
 OK
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 3 NOTEs
See
  'C:/Users/biocbuild/bbs-3.8-bioc/meat/HDF5Array.Rcheck/00check.log'
for details.


R version 3.5.3 (2019-03-11) -- "Great Truth"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (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.

> require("HDF5Array") || stop("unable to load HDF5Array package")
Loading required package: HDF5Array
Loading required package: DelayedArray
Loading required package: stats4
Loading required package: matrixStats
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colMeans, colSums, colnames,
    dirname, do.call, duplicated, eval, evalq, get, grep, grepl,
    intersect, is.unsorted, lapply, lengths, mapply, match, mget,
    order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind,
    rowMeans, rowSums, rownames, sapply, setdiff, sort, table, tapply,
    union, unique, unsplit, which, which.max, which.min

Loading required package: S4Vectors

Attaching package: 'S4Vectors'

The following object is masked from 'package:base':

    expand.grid

Loading required package: IRanges

Attaching package: 'IRanges'

The following object is masked from 'package:grDevices':

    windows

Loading required package: BiocParallel

Attaching package: 'DelayedArray'

The following objects are masked from 'package:matrixStats':

    colMaxs, colMins, colRanges, rowMaxs, rowMins, rowRanges

The following objects are masked from 'package:base':

    aperm, apply

Loading required package: rhdf5
[1] TRUE
> HDF5Array:::.test()


RUNIT TEST PROTOCOL -- Sat Apr 13 03:14:17 2019 
*********************************************** 
Number of test functions: 0 
Number of errors: 0 
Number of failures: 0 

 
1 Test Suite : 
HDF5Array RUnit Tests - 0 test functions, 0 errors, 0 failures
automatic block size set to 24 bytes (was 1e+08)
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automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 12 bytes (was 1e+08)
automatic block size set to 20 bytes (was 12)
automatic block size set to 50 bytes (was 20)
automatic block size set to 15000 bytes (was 50)
automatic block size set to 1e+08 bytes (was 15000)
automatic block size set to 12 bytes (was 1e+08)
automatic block size set to 20 bytes (was 12)
automatic block size set to 50 bytes (was 20)
automatic block size set to 15000 bytes (was 50)
automatic block size set to 1e+08 bytes (was 15000)
automatic block size set to 12 bytes (was 1e+08)
automatic block size set to 20 bytes (was 12)
automatic block size set to 50 bytes (was 20)
automatic block size set to 15000 bytes (was 50)
automatic block size set to 1e+08 bytes (was 15000)
automatic block size set to 12 bytes (was 1e+08)
automatic block size set to 20 bytes (was 12)
automatic block size set to 50 bytes (was 20)
automatic block size set to 15000 bytes (was 50)
automatic block size set to 1e+08 bytes (was 15000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 12 bytes (was 1e+08)
automatic block size set to 20 bytes (was 12)
automatic block size set to 50 bytes (was 20)
automatic block size set to 15000 bytes (was 50)
automatic block size set to 1e+08 bytes (was 15000)
automatic block size set to 12 bytes (was 1e+08)
automatic block size set to 20 bytes (was 12)
automatic block size set to 50 bytes (was 20)
automatic block size set to 15000 bytes (was 50)
automatic block size set to 1e+08 bytes (was 15000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 24 bytes (was 30000)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)

Attaching package: 'genefilter'

The following objects are masked from 'package:matrixStats':

    rowSds, rowVars

automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
automatic block size set to 24 bytes (was 1e+08)
automatic block size set to 40 bytes (was 24)
automatic block size set to 100 bytes (was 40)
automatic block size set to 30000 bytes (was 100)
automatic block size set to 1e+08 bytes (was 30000)
Error in normarg_perm(perm, dim(seed)) : 'perm' must be an integer vector
Error in validObject(.Object) : 
  invalid class "DelayedAperm" object: 'perm' cannot be an empty vector
Error in validObject(.Object) : 
  invalid class "DelayedAperm" object: only dimensions equal to 1 can be dropped
Error in validObject(.Object) : 
  invalid class "DelayedAperm" object: all non-NA values in 'perm' must be >= 1 and <= 'length(dim(a))'
Error in validObject(.Object) : 
  invalid class "DelayedAperm" object: only dimensions equal to 1 can be dropped
Error in .normalize_dimnames(dimnames, seed_ndim) : 
  the supplied dimnames must be a list
Error in .normalize_dimnames(dimnames, seed_ndim) : 
  the supplied dimnames must have one list element per dimension in the
  array-like object
Error in .normalize_dimnames(dimnames, seed_ndim) : 
  the supplied dimnames must have one list element per dimension in the
  array-like object
Error in validObject(.Object) : invalid class "DelayedDimnames" object: 
    each list element in 'x@dimnames' must be NULL, or a character vector
    of length the extent of the corresponding dimension, or special value
    -1
Error in validObject(.Object) : invalid class "DelayedDimnames" object: 
    each list element in 'x@dimnames' must be NULL, or a character vector
    of length the extent of the corresponding dimension, or special value
    -1
Error in seed(x) : 
  seed() is not supported on a DelayedArray object with multiple seeds at
  the moment. Note that you can check the number of seeds with nseed().
Error in (function (classes, fdef, mtable)  : 
  unable to find an inherited method for function 'is_noop' for signature '"DelayedNaryIsoOp"'
Error in seed(x) : 
  seed() is not supported on a DelayedArray object with multiple seeds at
  the moment. Note that you can check the number of seeds with nseed().
Error in (function (classes, fdef, mtable)  : 
  unable to find an inherited method for function 'is_noop' for signature '"DelayedNaryIsoOp"'
Error in seed(x) : 
  seed() is not supported on a DelayedArray object with multiple seeds at
  the moment. Note that you can check the number of seeds with nseed().
Error in (function (classes, fdef, mtable)  : 
  unable to find an inherited method for function 'is_noop' for signature '"DelayedNaryIsoOp"'
Error in seed(x) : 
  seed() is not supported on a DelayedArray object with multiple seeds at
  the moment. Note that you can check the number of seeds with nseed().
Error in (function (classes, fdef, mtable)  : 
  unable to find an inherited method for function 'is_noop' for signature '"DelayedNaryIsoOp"'
Error in seed(x) : 
  seed() is not supported on a DelayedArray object with multiple seeds at
  the moment. Note that you can check the number of seeds with nseed().
Error in (function (classes, fdef, mtable)  : 
  unable to find an inherited method for function 'is_noop' for signature '"DelayedNaryIsoOp"'
Error in match.fun(OP) : 'NULL' is not a function, character or symbol
Error in match.fun(OP) : 
  'list(NULL)' is not a function, character or symbol
Error in get(as.character(FUN), mode = "function", envir = envir) : 
  object 'not-an-existing-function' of mode 'function' was not found
Error in new_DelayedNaryIsoOp("<=", array(dim = 4:2), array(dim = 2:4)) : 
  non-conformable array-like objects
Error in normalizeNindex(Nindex, seed) : 
  'Nindex' must be a list with one list element per dimension in 'x'
Error in normalizeNindex(Nindex, seed) : 
  'Nindex' must be a list with one list element per dimension in 'x'
Error : subscript contains out-of-bounds indices
Error : subscript contains invalid names
Error : subscript contains out-of-bounds ranges
Error : subscript contains out-of-bounds ranges
Error in new_DelayedUnaryIsoOpStack(.TEST_SAS3, NULL) : 
  'OPS' must be a list
Error in FUN(X[[i]], ...) : 
  'OPS[[1L]]' is not a function, character or symbol
Error in get(as.character(FUN), mode = "function", envir = envir) : 
  object 'not-an-existing-function' of mode 'function' was not found
automatic block size set to 1e+07 bytes (was 1e+08)
automatic block size set to 1e+08 bytes (was 1e+07)


RUNIT TEST PROTOCOL -- Sat Apr 13 03:17:23 2019 
*********************************************** 
Number of test functions: 42 
Number of errors: 0 
Number of failures: 0 

 
1 Test Suite : 
DelayedArray RUnit Tests - 42 test functions, 0 errors, 0 failures
Number of test functions: 42 
Number of errors: 0 
Number of failures: 0 
> 
> proc.time()
   user  system elapsed 
 178.25    6.26  188.35

CHECK report for HDF5Array on tokay1

Summary

Command output

Installation output

Tests output

Example timings