CRAN Package Check Results for Package psSubpathway

Last updated on 2024-03-12 07:50:03 CET.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.1.2 57.95 464.00 521.95 OK
r-devel-linux-x86_64-debian-gcc 0.1.2 46.65 357.39 404.04 OK
r-devel-linux-x86_64-fedora-clang 0.1.2 662.36 ERROR
r-devel-linux-x86_64-fedora-gcc 0.1.2 668.84 ERROR
r-devel-windows-x86_64 0.1.2 52.00 331.00 383.00 OK
r-patched-linux-x86_64 0.1.2 47.50 468.04 515.54 OK
r-release-linux-x86_64 0.1.2 42.96 459.17 502.13 OK
r-release-macos-arm64 0.1.2 9.00 ERROR
r-release-macos-x86_64 0.1.2 9.00 ERROR
r-release-windows-x86_64 0.1.2 65.00 416.00 481.00 OK
r-oldrel-macos-arm64 0.1.2 157.00 OK
r-oldrel-windows-x86_64 0.1.2 61.00 383.00 444.00 OK

Check Details

Version: 0.1.2
Check: examples
Result: ERROR Running examples in ‘psSubpathway-Ex.R’ failed The error most likely occurred in: > ### Name: DCSA > ### Title: Dynamic Changed Subpathway Analysis (DCSA) > ### Aliases: DCSA > > ### ** Examples > > # load depend package. > require(GSVA) Loading required package: GSVA > require(parallel) Loading required package: parallel > require(mpmi) Loading required package: mpmi Loading required package: KernSmooth KernSmooth 2.23 loaded Copyright M. P. Wand 1997-2009 > # get ACC disease stage gene expression profiling. > # ACCgenematrix<-get("DCgenematrix") > # get path of the sample disease stage phenotype files. > # Stagelabels<-system.file("extdata", "DClabels.cls", package = "psSubpathway") > # perform the DCSA method. > # DCSA(ACCgenematrix,input.cls=Stagelabels,nperm=50,fdr.th=0.01,parallel.sz=2) > # get the result of the SubSEA function > # DCSAresult<-get("DCspwresult") > # str(DCSAresult) > # head(DCSAresult$DCSA) > > # Simulated gene matrix. > genematrix <- matrix(rnorm(500*40), nrow=500, dimnames=list(1:500, 1:40)) > # Construct subpathway list data. > subpathwaylist <- as.list(sample(2:100, size=20, replace=TRUE)) > subpathwaylist <- lapply(subpathwaylist, function(n) sample(1:500, size=n, replace=FALSE)) > names(subpathwaylist)<-c(paste(rep("spw",20),c(1:20))) > # Construct sample labels data. > stagelabel<-list(phen=c("stage1","stage2","stage3","stage4"), + class.labes=c(rep("stage1",10),rep("stage2",10), + rep("stage3",10),rep("stage4",10))) > DCSAcs<-DCSA(genematrix,stagelabel,subpathwaylist,nperm=0,parallel.sz=1) Error in .local(gSets, ...) : unused arguments (min.sz = 1, max.sz = Inf) Calls: DCSA -> filterGeneSets -> filterGeneSets Execution halted Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Version: 0.1.2
Check: package dependencies
Result: ERROR Package required but not available: ‘GSVA’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. Flavors: r-release-macos-arm64, r-release-macos-x86_64