CRAN Package Check Results for Package PeakSegDisk

Last updated on 2019-08-19 12:47:46 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2019.7.29 5.57 131.02 136.59 OK
r-devel-linux-x86_64-debian-gcc 2019.7.29 5.16 97.99 103.15 OK
r-devel-linux-x86_64-fedora-clang 2019.7.29 166.59 OK
r-devel-linux-x86_64-fedora-gcc 2019.7.29 145.23 OK
r-devel-windows-ix86+x86_64 2019.7.29 25.00 259.00 284.00 OK
r-patched-linux-x86_64 2019.7.29 5.44 122.32 127.76 OK
r-patched-solaris-x86 2019.7.29 219.90 ERROR
r-release-linux-x86_64 2019.7.29 5.63 122.71 128.34 OK
r-release-windows-ix86+x86_64 2019.7.29 25.00 194.00 219.00 OK
r-release-osx-x86_64 2019.7.29 ERROR
r-oldrel-windows-ix86+x86_64 2019.7.29 38.00 240.00 278.00 OK
r-oldrel-osx-x86_64 2019.7.29 ERROR

Check Details

Version: 2019.7.29
Check: examples
Result: ERROR
    Running examples in ‘PeakSegDisk-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: fread.first
    > ### Title: Quickly read first line
    > ### Aliases: fread.first
    >
    > ### ** Examples
    >
    >
    > library(PeakSegDisk)
    > r <- function(chrom, chromStart, chromEnd, coverage){
    + data.frame(chrom, chromStart, chromEnd, coverage)
    + }
    > four <- rbind(
    + r("chr1", 0, 10, 2),
    + r("chr1", 10, 20, 10),
    + r("chr1", 20, 30, 14),
    + r("chr1", 30, 40, 13))
    > write.table(
    + four, tmp <- tempfile(),
    + sep="\t", row.names=FALSE, col.names=FALSE)
    > pstr <- "10.5"
    > PeakSegFPOP_file(tmp, pstr)
    $bedGraph.file
    [1] "/tmp/RtmpcVaGUk/file15741466299b"
    
    $penalty
    [1] "10.5"
    
    >
    > outf <- function(suffix){
    + paste0(tmp, "_penalty=", pstr, "_", suffix)
    + }
    > segments.bed <- outf("segments.bed")
    > first.seg.line <- fread.first(segments.bed, col.name.list$segments)
    > last.seg.line <- fread.last(segments.bed, col.name.list$segments)
    Error in fread(file.name, skip = lines.int - 1L, col.names = col.name.vec) :
     !is.na(skip) is not TRUE
    Calls: fread.last -> fread -> stopifnot
    Execution halted
Flavor: r-patched-solaris-x86

Version: 2019.7.29
Check: examples
Result: ERROR
    Running examples in ‘PeakSegDisk-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: fread.first
    > ### Title: Quickly read first line
    > ### Aliases: fread.first
    >
    > ### ** Examples
    >
    >
    > library(PeakSegDisk)
    > r <- function(chrom, chromStart, chromEnd, coverage){
    + data.frame(chrom, chromStart, chromEnd, coverage)
    + }
    > four <- rbind(
    + r("chr1", 0, 10, 2),
    + r("chr1", 10, 20, 10),
    + r("chr1", 20, 30, 14),
    + r("chr1", 30, 40, 13))
    > write.table(
    + four, tmp <- tempfile(),
    + sep="\t", row.names=FALSE, col.names=FALSE)
    > pstr <- "10.5"
    > PeakSegFPOP_file(tmp, pstr)
    $bedGraph.file
    [1] "/private/tmp/Rtmphlr7H8/fileb8794ab411fa"
    
    $penalty
    [1] "10.5"
    
    >
    > outf <- function(suffix){
    + paste0(tmp, "_penalty=", pstr, "_", suffix)
    + }
    > segments.bed <- outf("segments.bed")
    > first.seg.line <- fread.first(segments.bed, col.name.list$segments)
    > last.seg.line <- fread.last(segments.bed, col.name.list$segments)
    Error in fread(file.name, skip = lines.int - 1L, col.names = col.name.vec) :
     !is.na(skip) is not TRUE
    Calls: fread.last -> fread -> stopifnot
    Execution halted
Flavor: r-release-osx-x86_64

Version: 2019.7.29
Check: examples
Result: ERROR
    Running examples in ‘PeakSegDisk-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: fread.first
    > ### Title: Quickly read first line
    > ### Aliases: fread.first
    >
    > ### ** Examples
    >
    >
    > library(PeakSegDisk)
    > r <- function(chrom, chromStart, chromEnd, coverage){
    + data.frame(chrom, chromStart, chromEnd, coverage)
    + }
    > four <- rbind(
    + r("chr1", 0, 10, 2),
    + r("chr1", 10, 20, 10),
    + r("chr1", 20, 30, 14),
    + r("chr1", 30, 40, 13))
    > write.table(
    + four, tmp <- tempfile(),
    + sep="\t", row.names=FALSE, col.names=FALSE)
    > pstr <- "10.5"
    > PeakSegFPOP_file(tmp, pstr)
    $bedGraph.file
    [1] "/private/tmp/RtmptkXP58/fileecae7897662"
    
    $penalty
    [1] "10.5"
    
    >
    > outf <- function(suffix){
    + paste0(tmp, "_penalty=", pstr, "_", suffix)
    + }
    > segments.bed <- outf("segments.bed")
    > first.seg.line <- fread.first(segments.bed, col.name.list$segments)
    > last.seg.line <- fread.last(segments.bed, col.name.list$segments)
    Error in fread(file.name, skip = lines.int - 1L, col.names = col.name.vec) :
     !is.na(skip) is not TRUE
    Calls: fread.last -> fread -> stopifnot
    Execution halted
Flavor: r-oldrel-osx-x86_64