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This page was generated on 2023-03-22 11:05:35 -0400 (Wed, 22 Mar 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4271
palomino4Windows Server 2022 Datacenterx644.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" 4214
lconwaymacOS 12.5.1 Montereyx86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4259
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

CHECK results for lisaClust on palomino4


To the developers/maintainers of the lisaClust package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/lisaClust.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? 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 1050/2183HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
lisaClust 1.6.3  (landing page)
Ellis Patrick
Snapshot Date: 2023-03-20 14:00:04 -0400 (Mon, 20 Mar 2023)
git_url: https://git.bioconductor.org/packages/lisaClust
git_branch: RELEASE_3_16
git_last_commit: 5dde7db
git_last_commit_date: 2023-02-09 22:49:04 -0400 (Thu, 09 Feb 2023)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.5.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: lisaClust
Version: 1.6.3
Command: F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:lisaClust.install-out.txt --library=F:\biocbuild\bbs-3.16-bioc\R\library --no-vignettes --timings lisaClust_1.6.3.tar.gz
StartedAt: 2023-03-21 03:28:38 -0400 (Tue, 21 Mar 2023)
EndedAt: 2023-03-21 03:32:31 -0400 (Tue, 21 Mar 2023)
EllapsedTime: 232.6 seconds
RetCode: 0
Status:   OK  
CheckDir: lisaClust.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:lisaClust.install-out.txt --library=F:\biocbuild\bbs-3.16-bioc\R\library --no-vignettes --timings lisaClust_1.6.3.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.16-bioc/meat/lisaClust.Rcheck'
* using R version 4.2.3 (2023-03-15 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'lisaClust/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'lisaClust' version '1.6.3'
* 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 'lisaClust' 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 ... NOTE
getK: no visible binding for global variable 'j'
getK: no visible binding for global variable 'cellTypeI'
getK: no visible binding for global variable 'i'
getK: no visible binding for global variable 'd'
getK: no visible binding for global variable 'cellTypeJ'
getK: no visible binding for global variable 'value'
getK: no visible global function definition for '.'
getK: no visible binding for global variable 'wt'
getL: no visible binding for global variable 'j'
getL: no visible binding for global variable 'cellTypeI'
getL: no visible binding for global variable 'i'
getL: no visible binding for global variable 'd'
getL: no visible binding for global variable 'cellTypeJ'
getL: no visible binding for global variable 'value'
getL: no visible global function definition for '.'
getL: no visible binding for global variable 'wt'
inhomLocalK: no visible binding for global variable 'i'
regionMap: no visible binding for global variable 'Var1'
regionMap: no visible binding for global variable 'Var2'
regionMap: no visible binding for global variable 'Freq'
regionMap: no visible binding for global variable 'Freq2'
Undefined global functions or variables:
  . Freq Freq2 Var1 Var2 cellTypeI cellTypeJ d i j value wt
* 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
Examples with CPU (user + system) or elapsed time > 5s
             user system elapsed
lisa         9.77   0.20    9.80
hatchingPlot 8.63   0.33    8.97
lisaClust    7.45   0.24    7.47
scale_region 6.03   0.12    6.02
* 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
  'F:/biocbuild/bbs-3.16-bioc/meat/lisaClust.Rcheck/00check.log'
for details.



Installation output

lisaClust.Rcheck/00install.out

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###
### Running command:
###
###   F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL lisaClust
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.16-bioc/R/library'
* installing *source* package 'lisaClust' ...
** 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 (lisaClust)

Tests output


Example timings

lisaClust.Rcheck/lisaClust-Ex.timings

nameusersystemelapsed
hatchingPlot8.630.338.97
inhomLocalK0.370.050.44
lisa9.770.209.80
lisaClust7.450.247.47
regionMap4.280.114.38
scale_region6.030.126.02