* using log directory 'd:/RCompile/CRANincoming/R-devel/rtpcr.Rcheck' * using R Under development (unstable) (2026-02-10 r89394 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 14.3.0 GNU Fortran (GCC) 14.3.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * current time: 2026-02-11 19:55:30 UTC * checking for file 'rtpcr/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'rtpcr' version '2.1.4' * package encoding: UTF-8 * checking CRAN incoming feasibility ... NOTE Maintainer: 'Ghader Mirzaghaderi ' Number of updates in past 6 months: 7 * 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 'rtpcr' can be installed ... OK * checking installed package size ... 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ERROR Running examples in 'rtpcr-Ex.R' failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: ANOVA_DDCt > ### Title: Delta Delta Ct ANOVA analysis with optional model specification > ### Aliases: ANOVA_DDCt > > ### ** Examples > > data1 <- read.csv(system.file("extdata", "data_2factorBlock3ref.csv", package = "rtpcr")) > ANOVA_DDCt(x = data1, + numOfFactors = 2, + numberOfrefGenes = 3, + block = "block", + mainFactor.column = 2, + p.adj = "none") Relative Expression gene contrast ddCt RE log2FC LCL UCL se Lower.se.RE 1 PO L1 0.00000 1.00000 0.00000 0.00000 0.00000 0.00000 1.00000 2 PO L2 vs L1 -0.94610 1.92666 0.94610 1.25860 2.94934 0.16301 1.72082 3 PO L3 vs L1 -2.19198 4.56931 2.19198 3.08069 6.77724 0.20409 3.96657 4 NLM L1 0.00000 1.00000 0.00000 0.00000 0.00000 0.00000 1.00000 5 NLM L2 vs L1 0.86568 0.54879 -0.86568 0.39830 0.75614 0.10971 0.50860 6 NLM L3 vs L1 -1.44341 2.71964 1.44341 1.94670 3.79946 0.20250 2.36347 Upper.se.RE Lower.se.log2FC Upper.se.log2FC pvalue sig 1 1.00000 0.00000 0.00000 1.00000 2 2.15713 0.84502 1.05928 0.00116 ** 3 5.26364 1.90283 2.52506 0.00000 *** 4 1.00000 0.00000 0.00000 1.00000 5 0.59215 -0.93407 -0.80229 0.00018 *** 6 3.12947 1.25439 1.66093 0.00000 *** The L1 level was used as calibrator. Note: Using default model for statistical analysis: wDCt ~ block + Concentration * Type > > data2 <- read.csv(system.file("extdata", "data_1factor_one_ref.csv", package = "rtpcr")) > ANOVA_DDCt(x = data2, + numOfFactors = 1, + numberOfrefGenes = 1, + block = NULL, + mainFactor.column = 1, + p.adj = "none") Relative Expression gene contrast ddCt RE log2FC LCL UCL 1 C2H2_26 control 0.00000 1.00000 0.00000 0.00000 0.00000 2 C2H2_26 treatment vs control 1.19333 0.43729 -1.19333 0.19262 0.99273 3 C2H2_01 control 0.00000 1.00000 0.00000 0.00000 0.00000 4 C2H2_01 treatment vs control -2.00667 4.01853 2.00667 2.45984 6.56487 5 C2H2_12 control 0.00000 1.00000 0.00000 0.00000 0.00000 6 C2H2_12 treatment vs control -0.72000 1.64718 0.72000 0.95945 2.82787 se Lower.se.RE Upper.se.RE Lower.se.log2FC Upper.se.log2FC pvalue sig 1 0.00000 1.00000 1.00000 0.00000 0.00000 1.00000 2 0.42602 0.32548 0.58751 -1.60326 -0.88822 0.04875 * 3 0.00000 1.00000 1.00000 0.00000 0.00000 1.00000 4 0.25504 3.36738 4.79558 1.68152 2.39469 0.00141 ** 5 0.00000 1.00000 1.00000 0.00000 0.00000 1.00000 6 0.28083 1.35582 2.00115 0.59264 0.87472 0.06239 . The control level was used as calibrator. Note: Using default model for statistical analysis: wDCt ~ Condition > > # Repeated measure analysis > a <- ANOVA_DDCt(data_repeated_measure_1, + numOfFactors = 1, + numberOfrefGenes = 1, + block = NULL, + mainFactor.column = 1, + p.adj = "none", model = wDCt ~ time + (1 | id)) Error in forceNewMerMod(res, reference = model) : could not find function "forceNewMerMod" Calls: ANOVA_DDCt ... suppressMessages -> withCallingHandlers -> -> as_lmerModLT Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... [18s] OK * checking HTML version of manual ... OK * DONE Status: 1 ERROR, 1 NOTE