Movatterモバイル変換

################################################################################################################################################################## Running command:######   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:scDesign3.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings scDesign3_1.8.0.tar.gz###############################################################################################################################################################* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/scDesign3.Rcheck’* using R version 4.5.2 (2025-10-31)* using platform: x86_64-pc-linux-gnu* R was compiled by    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0* running under: Ubuntu 24.04.3 LTS* using session charset: UTF-8* checking for file ‘scDesign3/DESCRIPTION’ ... OK* checking extension type ... Package* this is package ‘scDesign3’ version ‘1.8.0’* 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 ‘scDesign3’ can be installed ... OK* checking installed package size ... OK* checking package directory ... OK* checking ‘build’ directory ... OK* checking DESCRIPTION meta-information ... NOTELicense stub is invalid DCF.* 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 ... 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 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 ... OKExamples with CPU (user + system) or elapsed time > 5s                user system elapsedconstruct_data 6.781  0.367    7.15* checking for unstated dependencies in ‘tests’ ... OK* checking tests ...  Running ‘testthat.R’ OK* checking for unstated dependencies in vignettes ... OK* checking package vignettes ... OK* checking re-building of vignette outputs ... OK* checking PDF version of manual ... OK* DONEStatus: 1 NOTESee  ‘/home/biocbuild/bbs-3.22-bioc/meat/scDesign3.Rcheck/00check.log’for details.

################################################################################################################################################################## Running command:######   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL scDesign3###############################################################################################################################################################* installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’* installing *source* package ‘scDesign3’ ...** this is package ‘scDesign3’ version ‘1.8.0’** using staged installation** R** data** inst** byte-compile and prepare package for lazy loading** help*** installing help indices*** copying figures** 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 (scDesign3)

R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"Copyright (C) 2025 The R Foundation for Statistical ComputingPlatform: x86_64-pc-linux-gnuR 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.> library(testthat)> library(scDesign3)Registered S3 method overwritten by 'scDesign3':  method         from    predict.gamlss gamlss> > test_check("scDesign3")Loading required namespace: SingleCellExperimentConvert Residuals to UniformConverting EndCopula group embryonic day 3 startsVine Copula Estimation StartsTime difference of 0.1410036 secsVine Copula Estimation EndsCopula group embryonic day 4 startsVine Copula Estimation StartsTime difference of 0.03026891 secsVine Copula Estimation EndsCopula group embryonic day 5 startsVine Copula Estimation StartsTime difference of 0.05158377 secsVine Copula Estimation EndsCopula group embryonic day 6 startsVine Copula Estimation StartsTime difference of 0.05517125 secsVine Copula Estimation EndsCopula group embryonic day 7 startsVine Copula Estimation StartsTime difference of 0.06046915 secsVine Copula Estimation EndsUse the empirical quantile matrices from the original data; do not fit copula. This will make the result FIXED.Empirical quantile group embryonic day 3 startsEmpirical quantile group embryonic day 4 startsEmpirical quantile group embryonic day 5 startsEmpirical quantile group embryonic day 6 startsEmpirical quantile group embryonic day 7 startsConvert Residuals to Multivariate GaussianConverting EndCopula group embryonic day 3 startsCopula group embryonic day 4 startsCopula group embryonic day 5 startsCopula group embryonic day 6 startsCopula group embryonic day 7 startsUse Copula to sample a multivariate quantile matrixSample Copula group embryonic day 3 startsSample Copula group embryonic day 4 startsSample Copula group embryonic day 5 startsSample Copula group embryonic day 6 startsSample Copula group embryonic day 7 startsMultivariate quantile matrix is providedUse Copula to sample a multivariate quantile matrixSample Copula group embryonic day 3 startsSample Copula group embryonic day 4 startsSample Copula group embryonic day 5 startsSample Copula group embryonic day 6 startsSample Copula group embryonic day 7 startsInput Data Construction StartInput Data Construction EndStart Marginal FittingMarginal Fitting EndStart Copula FittingConvert Residuals to UniformConverting EndCopula group 1 startsVine Copula Estimation StartsTime difference of 0.1242018 secsVine Copula Estimation EndsCopula group 2 startsVine Copula Estimation StartsTime difference of 0.1547949 secsVine Copula Estimation EndsCopula group 3 startsVine Copula Estimation StartsTime difference of 0.1463251 secsVine Copula Estimation EndsCopula group 4 startsVine Copula Estimation StartsTime difference of 0.07783985 secsVine Copula Estimation EndsCopula Fitting EndStart Parameter ExtractionParameterExtraction EndStart Generate New DataUse Copula to sample a multivariate quantile matrixSample Copula group 1 startsSample Copula group 2 startsSample Copula group 3 startsSample Copula group 4 startsUse Copula to sample a multivariate quantile matrixSample Copula group 1 startsSample Copula group 2 startsSample Copula group 3 startsSample Copula group 4 startsNew Data Generating End[ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]══ Skipped tests (1) ═══════════════════════════════════════════════════════════• empty test (1): 'test-scDesign3.R:4:1'[ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]> > proc.time()   user  system elapsed  93.201   9.176  79.850