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 |
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