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This page was generated on 2025-10-06 11:41 -0400 (Mon, 06 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4832
merida1macOS 12.7.5 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4613
kjohnson1macOS 13.6.6 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4554
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4585
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

Package 1052/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
INSPEcT 1.38.0  (landing page)
Stefano de Pretis
Snapshot Date: 2025-10-02 13:40 -0400 (Thu, 02 Oct 2025)
git_url: https://git.bioconductor.org/packages/INSPEcT
git_branch: RELEASE_3_21
git_last_commit: 7870789
git_last_commit_date: 2025-04-15 10:51:53 -0400 (Tue, 15 Apr 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for INSPEcT on kunpeng2

To the developers/maintainers of the INSPEcT package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/INSPEcT.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results


Summary

Package: INSPEcT
Version: 1.38.0
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:INSPEcT.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings INSPEcT_1.38.0.tar.gz
StartedAt: 2025-10-03 10:27:20 -0000 (Fri, 03 Oct 2025)
EndedAt: 2025-10-03 10:44:27 -0000 (Fri, 03 Oct 2025)
EllapsedTime: 1027.0 seconds
RetCode: 0
Status:   OK  
CheckDir: INSPEcT.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD check --install=check:INSPEcT.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings INSPEcT_1.38.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/INSPEcT.Rcheck’
* using R Under development (unstable) (2025-02-19 r87757)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
    aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘INSPEcT/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘INSPEcT’ version ‘1.38.0’
* 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 ‘INSPEcT’ can be installed ... OK
* checking installed package size ... INFO
  installed size is  7.1Mb
  sub-directories of 1Mb or more:
    R      1.8Mb
    data   2.8Mb
* 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 code 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 loading without being on the library search path ... 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
output_pars: no visible global function definition for ‘plot.new’
plotSingleRNADynamic: no visible global function definition for ‘lines’
Undefined global functions or variables:
  lines plot.new
Consider adding
  importFrom("graphics", "lines", "plot.new")
to your NAMESPACE file.
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
  INSPEcT-class.Rd: featureNames
Please provide package anchors for all Rd \link{} targets not in the
package itself and the base packages.
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                                   user system elapsed
makeSimDataset                  121.789  0.606 122.728
quantifyExpressionsFromBAMs      48.188  2.238  51.191
INSPEcT_diffsteady-class         42.302  0.935  43.351
rocThresholds                    41.346  0.275  41.705
rocCurve                         40.865  0.367  41.319
makeSimModel                     40.583  0.135  40.829
plotMA                           39.283  0.195  39.556
compareSteady                    36.511  0.284  36.882
modelRates                       24.017  0.084  24.160
quantifyExpressionsFromTrCounts  22.539  0.807  23.396
newINSPEcT                       21.705  0.060  21.826
processingDelay                  20.019  0.052  20.117
makeOscillatorySimModel           9.822  0.083   9.937
compareSteadyNoNascent            7.829  0.032   7.881
inspectFromPCR                    5.083  0.020   5.117
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.21-bioc/meat/INSPEcT.Rcheck/00check.log’
for details.


Installation output

INSPEcT.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD INSTALL INSPEcT
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-library’
* installing *source* package ‘INSPEcT’ ...
** this is package ‘INSPEcT’ version ‘1.38.0’
** using staged installation
** R
** data
** 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 (INSPEcT)

Tests output


Example timings

INSPEcT.Rcheck/INSPEcT-Ex.timings

nameusersystemelapsed
AIC-INSPEcT-method0.1970.0000.199
Extract0.4660.0080.475
INSPEcT_diffsteady-class42.302 0.93543.351
calculateRatePvals0.2530.0050.259
chisqmodel0.1960.0000.198
chisqtest0.1890.0040.194
combine0.4510.0080.460
compareSteady36.511 0.28436.882
compareSteadyNoNascent7.8290.0327.881
convergence0.1900.0040.195
geneClass0.2540.0000.254
inHeatmap0.2390.0000.239
inspectFromPCR5.0830.0205.117
labeledSF0.1890.0080.197
logLik0.1940.0040.198
makeModelRates0.2560.0000.257
makeOscillatorySimModel9.8220.0839.937
makeSimDataset121.789 0.606122.728
makeSimModel40.583 0.13540.829
modelRates24.017 0.08424.160
modelRatesNF1.8360.0281.877
modelSelection0.1980.0000.198
modelingParams0.2260.0040.230
nGenes0.1960.0000.197
nTpts0.1960.0000.197
newINSPEcT21.705 0.06021.826
plotGene0.2710.0030.275
plotMA39.283 0.19539.556
processingDelay20.019 0.05220.117
quantifyExpressionsFromBAMs48.188 2.23851.191
quantifyExpressionsFromTrCounts22.539 0.80723.396
ratePvals0.1940.0000.195
ratesFirstGuess0.1890.0040.194
ratesFirstGuessVar0.1940.0000.194
removeModel0.3450.0080.354
rocCurve40.865 0.36741.319
rocThresholds41.346 0.27541.705
split0.3180.0240.343
tpts0.1890.0040.194
viewConfidenceIntervals0.1900.0040.195
viewModelRates0.1930.0000.194