Back to Multiple platform build/check report for BioC 3.13
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This page was generated on 2021-10-15 15:06:04 -0400 (Fri, 15 Oct 2021).

CHECK results for fcScan on tokay2

To the developers/maintainers of the fcScan package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/fcScan.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 624/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
fcScan 1.6.0  (landing page)
Pierre Khoueiry Abdullah El-Kurdi
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/fcScan
git_branch: RELEASE_3_13
git_last_commit: 12424b4
git_last_commit_date: 2021-05-19 12:45:26 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: fcScan
Version: 1.6.0
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:fcScan.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings fcScan_1.6.0.tar.gz
StartedAt: 2021-10-14 23:05:13 -0400 (Thu, 14 Oct 2021)
EndedAt: 2021-10-14 23:10:59 -0400 (Thu, 14 Oct 2021)
EllapsedTime: 346.2 seconds
RetCode: 0
Status:   OK  
CheckDir: fcScan.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:fcScan.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings fcScan_1.6.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/fcScan.Rcheck'
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'fcScan/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'fcScan' version '1.6.0'
* 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 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
* 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 ... 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 ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'runTests.R'
 OK
** running tests for arch 'x64' ...
  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

fcScan.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/fcScan_1.6.0.tar.gz && rm -rf fcScan.buildbin-libdir && mkdir fcScan.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=fcScan.buildbin-libdir fcScan_1.6.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL fcScan_1.6.0.zip && rm fcScan_1.6.0.tar.gz fcScan_1.6.0.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 13020  100 13020    0     0   155k      0 --:--:-- --:--:-- --:--:--  156k

install for i386

* installing *source* package 'fcScan' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'fcScan'
    finding HTML links ... done
    getCluster                              html  
** 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

install for x64

* installing *source* package 'fcScan' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'fcScan' as fcScan_1.6.0.zip
* DONE (fcScan)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'fcScan' successfully unpacked and MD5 sums checked

Tests output

fcScan.Rcheck/tests_i386/runTests.Rout


R version 4.1.1 (2021-08-10) -- "Kick Things"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-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.max, which.min

Loading required package: S4Vectors

Attaching package: 'S4Vectors'

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

    I, expand.grid, unname

Loading required package: IRanges

Attaching package: 'IRanges'

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

    windows

Loading required package: GenomeInfoDb
17  entries loaded 
Time difference of 0.3125019 secs
Sites in condition do not match sites in data
3  entries loaded 
Time difference of 0.1562488 secs
17  entries loaded 
Time difference of 0.156251 secs
17  entries loaded 
Time difference of 0.1875021 secs
17  entries loaded 
No cluster found
17  entries loaded 
Time difference of 0.171876 secs
17  entries loaded 
Time difference of 0.09375095 secs
17  entries loaded 
Time difference of 0.09375095 secs
17  entries loaded 
Time difference of 0.078125 secs
17  entries loaded 
Time difference of 0.078125 secs
17  entries loaded 
Time difference of 0.078125 secs
6  entries loaded 
Time difference of 0.07812691 secs
6  entries loaded 
Time difference of 0.078125 secs
6  entries loaded 
Time difference of 0.078125 secs
6  entries loaded 
Time difference of 0.06250095 secs
10  entries loaded 
Time difference of 0.078125 secs
10  entries loaded 
No cluster found
10  entries loaded 
Time difference of 0.0625 secs
16  entries loaded 
Time difference of 0.062464 secs
6  entries loaded 
Time difference of 0.0625 secs
6  entries loaded 
Time difference of 0.0625 secs
6  entries loaded 
Time difference of 0.07812595 secs
6  entries loaded 
Time difference of 0.078125 secs
6  entries loaded 
Time difference of 0.078125 secs


RUNIT TEST PROTOCOL -- Thu Oct 14 23:10:32 2021 
*********************************************** 
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 
  14.50    1.43   15.93

fcScan.Rcheck/tests_x64/runTests.Rout


R version 4.1.1 (2021-08-10) -- "Kick Things"
Copyright (C) 2021 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.

> 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.max, which.min

Loading required package: S4Vectors

Attaching package: 'S4Vectors'

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

    I, expand.grid, unname

Loading required package: IRanges

Attaching package: 'IRanges'

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

    windows

Loading required package: GenomeInfoDb
17  entries loaded 
Time difference of 0.2500019 secs
Sites in condition do not match sites in data
3  entries loaded 
Time difference of 0.09374905 secs
17  entries loaded 
Time difference of 0.109375 secs
17  entries loaded 
Time difference of 0.1093781 secs
17  entries loaded 
No cluster found
17  entries loaded 
Time difference of 0.125 secs
17  entries loaded 
Time difference of 0.09375191 secs
17  entries loaded 
Time difference of 0.09375095 secs
17  entries loaded 
Time difference of 0.09375095 secs
17  entries loaded 
Time difference of 0.09375095 secs
17  entries loaded 
Time difference of 0.09375 secs
6  entries loaded 
Time difference of 0.09375119 secs
6  entries loaded 
Time difference of 0.09375095 secs
6  entries loaded 
Time difference of 0.07813001 secs
6  entries loaded 
Time difference of 0.07812405 secs
10  entries loaded 
Time difference of 0.078125 secs
10  entries loaded 
No cluster found
10  entries loaded 
Time difference of 0.07812595 secs
16  entries loaded 
Time difference of 0.078125 secs
6  entries loaded 
Time difference of 0.09375119 secs
6  entries loaded 
Time difference of 0.09375 secs
6  entries loaded 
Time difference of 0.09375095 secs
6  entries loaded 
Time difference of 0.1093779 secs
6  entries loaded 
Time difference of 0.09374905 secs


RUNIT TEST PROTOCOL -- Thu Oct 14 23:10:48 2021 
*********************************************** 
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 
  15.53    0.51   16.03

Example timings

fcScan.Rcheck/examples_i386/fcScan-Ex.timings

nameusersystemelapsed
getCluster1.080.051.12

fcScan.Rcheck/examples_x64/fcScan-Ex.timings

nameusersystemelapsed
getCluster0.380.000.38