Multiple platform build/check report for BioC 3.10 - CHECK report for fcScan on malbec1

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### Running command:
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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:fcScan.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings fcScan_1.0.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/fcScan.Rcheck’
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘fcScan/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘fcScan’ version ‘1.0.0’
* 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 ‘fcScan’ 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 files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘runTests.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: OK

Installation output

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### Running command:
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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL fcScan
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* installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/library’
* installing *source* package ‘fcScan’ ...
** using staged installation
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (fcScan)

Tests output


R version 3.6.3 (2020-02-29) -- "Holding the Windsock"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: x86_64-pc-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.

> BiocGenerics:::testPackage("fcScan")
Loading required package: GenomicRanges
Loading required package: stats4
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, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, 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
Loading required package: GenomeInfoDb
17  entries loaded 
Time difference of 0.3395958 secs
Sites in condition do not match sites in data
3  entries loaded 
Time difference of 0.09347844 secs
17  entries loaded 
Time difference of 0.06618404 secs
17  entries loaded 
Time difference of 0.09739137 secs
17  entries loaded 
No cluster found
17  entries loaded 
Time difference of 0.08455062 secs
17  entries loaded 
Time difference of 0.06007409 secs
17  entries loaded 
Time difference of 0.06615853 secs
17  entries loaded 
Time difference of 0.05503464 secs
17  entries loaded 
Time difference of 0.05538654 secs
17  entries loaded 
Time difference of 0.05587673 secs
6  entries loaded 
Time difference of 0.06492972 secs
6  entries loaded 
Time difference of 0.1039286 secs
6  entries loaded 
Time difference of 0.09380436 secs
6  entries loaded 
Time difference of 0.09202409 secs
10  entries loaded 
Time difference of 0.09511828 secs
10  entries loaded 
No cluster found
10  entries loaded 
Time difference of 0.08970499 secs
16  entries loaded 
Time difference of 0.08883214 secs
6  entries loaded 
Time difference of 0.08788538 secs
6  entries loaded 
Time difference of 0.08842635 secs
6  entries loaded 
Time difference of 0.09504056 secs
6  entries loaded 
Time difference of 0.1018391 secs


RUNIT TEST PROTOCOL -- Wed Apr 15 06:52:03 2020 
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Number of test functions: 1 
Number of errors: 0 
Number of failures: 0 

 
1 Test Suite : 
fcScan RUnit Tests - 1 test function, 0 errors, 0 failures
Number of test functions: 1 
Number of errors: 0 
Number of failures: 0 
> 
> proc.time()
   user  system elapsed 
 18.272   0.500  18.833

CHECK report for fcScan on malbec1

Summary

Command output

Installation output

Tests output

Example timings

name	user	system	elapsed
getCluster	0.332	0.000	0.337