CRAN Package Check Results for Package structSSI

Last updated on 2019-01-16 15:48:52 CET.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.1.1 10.34 101.05 111.39 WARN
r-devel-linux-x86_64-debian-gcc 1.1.1 7.86 88.46 96.32 NOTE
r-devel-linux-x86_64-fedora-clang 1.1.1 147.12 NOTE
r-devel-linux-x86_64-fedora-gcc 1.1.1 142.97 NOTE
r-devel-windows-ix86+x86_64 1.1.1 16.00 121.00 137.00 NOTE
r-patched-linux-x86_64 1.1.1 10.44 100.57 111.01 ERROR
r-patched-solaris-x86 1.1.1 242.00 NOTE
r-release-linux-x86_64 1.1.1 10.83 101.26 112.09 ERROR
r-release-windows-ix86+x86_64 1.1.1 27.00 110.00 137.00 NOTE
r-release-osx-x86_64 1.1.1 NOTE
r-oldrel-windows-ix86+x86_64 1.1.1 16.00 173.00 189.00 NOTE
r-oldrel-osx-x86_64 1.1.1 NOTE

Check Details

Version: 1.1.1
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘phyloseq’
Flavors: r-devel-linux-x86_64-debian-clang, r-oldrel-osx-x86_64

Version: 1.1.1
Check: R code for possible problems
Result: NOTE
    PlotHypTree: no visible global function definition for ‘browseURL’
    treePValues: no visible global function definition for ‘lm’
    treePValues: no visible global function definition for ‘pf’
    plot,GBH-ANY: no visible binding for global variable ‘sorted.hyp’
    plot,GBH-ANY: no visible binding for global variable ‘pval’
    plot,GBH-ANY: no visible binding for global variable ‘group’
    plot,GBH-ANY: no visible binding for global variable ‘type’
    Undefined global functions or variables:
     browseURL group lm pf pval sorted.hyp type
    Consider adding
     importFrom("stats", "lm", "pf")
     importFrom("utils", "browseURL")
    to your NAMESPACE file.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-release-osx-x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 1.1.1
Check: data for non-ASCII characters
Result: WARN
     Error loading dataset 'chlamydiae':
     Error in .requirePackage(package) :
     unable to find required package 'phyloseq'
    
     The dataset(s) may use package(s) not declared in the DESCRIPTION file.
Flavor: r-devel-linux-x86_64-debian-clang

Version: 1.1.1
Check: examples
Result: ERROR
    Running examples in ‘structSSI-Ex.R’ failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: EstimatedHFDRControl
    > ### Title: Estimate FDR control variations for HFDR procedure
    > ### Aliases: EstimatedHFDRControl
    > ### Keywords: ~htest
    >
    > ### ** Examples
    >
    > library('igraph')
    
    Attaching package: ‘igraph’
    
    The following objects are masked from ‘package:stats’:
    
     decompose, spectrum
    
    The following object is masked from ‘package:base’:
    
     union
    
    > library('ape')
    
    Attaching package: ‘ape’
    
    The following objects are masked from ‘package:igraph’:
    
     edges, mst, ring
    
    >
    > alternative.indices <- sample(1:49, 30)
    > unadj.p.values <- vector("numeric", length = 49)
    > unadj.p.values[alternative.indices] <- runif(30, 0, 0.01)
    > unadj.p.values[-alternative.indices] <- runif(19, 0, 1)
    > unadj.p.values[c(1:5)] <- runif(5, 0, 0.01)
    > names(unadj.p.values) <- paste("Hyp ", c(1:49))
    >
    > tree <- as.igraph(rtree(25))
    Error in UseMethod("as.igraph") :
     no applicable method for 'as.igraph' applied to an object of class "phylo"
    Calls: as.igraph
    Execution halted
Flavors: r-patched-linux-x86_64, r-release-linux-x86_64

Version: 1.1.1
Check: tests
Result: ERROR
     Running ‘testGBHProcedures.R’ [4s/5s]
     Running ‘testHierarchicalMethods.R’ [3s/4s]
    Running the tests in ‘tests/testHierarchicalMethods.R’ failed.
    Complete output:
     > ## Test the hypothesesTree creation class.
     >
     > set.seed(130229)
     > library('structSSI')
     > library('ape')
     > library('igraph')
    
     Attaching package: 'igraph'
    
     The following objects are masked from 'package:ape':
    
     edges, mst, ring
    
     The following objects are masked from 'package:stats':
    
     decompose, spectrum
    
     The following object is masked from 'package:base':
    
     union
    
     > tree.1 <- as.igraph(rtree(10))
     Error in UseMethod("as.igraph") :
     no applicable method for 'as.igraph' applied to an object of class "phylo"
     Calls: as.igraph
     Execution halted
Flavor: r-patched-linux-x86_64

Version: 1.1.1
Check: tests
Result: ERROR
     Running ‘testGBHProcedures.R’ [3s/4s]
     Running ‘testHierarchicalMethods.R’ [4s/4s]
    Running the tests in ‘tests/testHierarchicalMethods.R’ failed.
    Complete output:
     > ## Test the hypothesesTree creation class.
     >
     > set.seed(130229)
     > library('structSSI')
     > library('ape')
     > library('igraph')
    
     Attaching package: 'igraph'
    
     The following objects are masked from 'package:ape':
    
     edges, mst, ring
    
     The following objects are masked from 'package:stats':
    
     decompose, spectrum
    
     The following object is masked from 'package:base':
    
     union
    
     > tree.1 <- as.igraph(rtree(10))
     Error in UseMethod("as.igraph") :
     no applicable method for 'as.igraph' applied to an object of class "phylo"
     Calls: as.igraph
     Execution halted
Flavor: r-release-linux-x86_64

Version: 1.1.1
Check: data for non-ASCII characters
Result: NOTE
     Error in .requirePackage(package) :
     unable to find required package 'phyloseq'
     Calls: <Anonymous> ... .extendsForS3 -> extends -> getClassDef -> .requirePackage
     Execution halted
Flavor: r-oldrel-osx-x86_64