CRAN Package Check Results for Package detectRUNS

Last updated on 2020-04-25 01:52:59 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.9.6 31.95 80.96 112.91 OK
r-devel-linux-x86_64-debian-gcc 0.9.6 23.28 61.71 84.99 OK
r-devel-linux-x86_64-fedora-clang 0.9.6 143.54 NOTE
r-devel-linux-x86_64-fedora-gcc 0.9.6 137.64 OK
r-devel-windows-ix86+x86_64 0.9.6 85.00 146.00 231.00 NOTE
r-patched-linux-x86_64 0.9.6 28.43 76.61 105.04 OK
r-patched-osx-x86_64 0.9.6 WARN
r-patched-solaris-x86 0.9.6 175.30 OK
r-release-linux-x86_64 0.9.6 21.60 74.93 96.53 OK
r-release-windows-ix86+x86_64 0.9.6 78.00 143.00 221.00 OK
r-release-osx-x86_64 0.9.6 NOTE
r-oldrel-windows-ix86+x86_64 0.9.6 49.00 189.00 238.00 OK
r-oldrel-osx-x86_64 0.9.6 NOTE

Check Details

Version: 0.9.6
Check: installed package size
Result: NOTE
     installed size is 5.5Mb
     sub-directories of 1Mb or more:
     extdata 2.1Mb
     libs 2.6Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-ix86+x86_64, r-patched-osx-x86_64, r-release-osx-x86_64, r-oldrel-osx-x86_64

Version: 0.9.6
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building ‘detectRUNS.vignette.Rmd’ using rmarkdown
    You are using the method: SLIDING WINDOWS
    Analysing Runs of Homozygosity (ROHom)
    Window size: 15
    Threshold for calling SNP in a Run: 0.05
    N. of RUNS for individual H114 is: 15
    N. of RUNS for individual H115 is: 19
    N. of RUNS for individual H116 is: 17
    N. of RUNS for individual H26 is: 18
    N. of RUNS for individual H32 is: 10
    N. of RUNS for individual H38 is: 4
    N. of RUNS for individual H44 is: 5
    N. of RUNS for individual H56 is: 5
    N. of RUNS for individual H50 is: 16
    N. of RUNS for individual H27 is: 12
    N. of RUNS for individual H33 is: 15
    N. of RUNS for individual H39 is: 6
    N. of RUNS for individual H45 is: 13
    N. of RUNS for individual H51 is: 21
    N. of RUNS for individual H57 is: 11
    N. of RUNS for individual H28 is: 9
    N. of RUNS for individual H34 is: 8
    N. of RUNS for individual H40 is: 12
    N. of RUNS for individual H46 is: 19
    N. of RUNS for individual H52 is: 7
    N. of RUNS for individual H58 is: 4
    N. of RUNS for individual H29 is: 11
    N. of RUNS for individual H35 is: 20
    N. of RUNS for individual H41 is: 13
    N. of RUNS for individual H47 is: 13
    N. of RUNS for individual H53 is: 13
    N. of RUNS for individual H59 is: 12
    N. of RUNS for individual H30 is: 7
    N. of RUNS for individual H42 is: 6
    N. of RUNS for individual H48 is: 14
    N. of RUNS for individual H54 is: 15
    N. of RUNS for individual H60 is: 8
    N. of RUNS for individual H31 is: 5
    N. of RUNS for individual H37 is: 7
    N. of RUNS for individual H43 is: 3
    N. of RUNS for individual H49 is: 11
    N. of RUNS for individual H55 is: 18
    N. of RUNS for individual H1 is: 8
    N. of RUNS for individual H9 is: 7
    N. of RUNS for individual H17 is: 19
    N. of RUNS for individual H2 is: 11
    N. of RUNS for individual H10 is: 8
    N. of RUNS for individual H19 is: 10
    N. of RUNS for individual H3 is: 8
    N. of RUNS for individual H11 is: 8
    N. of RUNS for individual H20 is: 23
    N. of RUNS for individual H4 is: 7
    N. of RUNS for individual H12 is: 8
    N. of RUNS for individual H21 is: 19
    N. of RUNS for individual H13 is: 11
    N. of RUNS for individual H22 is: 20
    N. of RUNS for individual H6 is: 7
    N. of RUNS for individual H14 is: 9
    N. of RUNS for individual H7 is: 19
    N. of RUNS for individual H15 is: 9
    N. of RUNS for individual H24 is: 10
    N. of RUNS for individual H8 is: 12
    N. of RUNS for individual H16 is: 22
    N. of RUNS for individual H25 is: 14
    N. of RUNS for individual H64 is: 21
    N. of RUNS for individual H62 is: 11
    N. of RUNS for individual H63 is: 6
    N. of RUNS for individual H118 is: 19
    N. of RUNS for individual H119 is: 15
    N. of RUNS for individual H120 is: 14
    N. of RUNS for individual H121 is: 22
    N. of RUNS for individual H122 is: 16
    N. of RUNS for individual H123 is: 10
    N. of RUNS for individual H124 is: 18
    N. of RUNS for individual H125 is: 14
    N. of RUNS for individual H126 is: 16
    N. of RUNS for individual H127 is: 20
    N. of RUNS for individual H128 is: 19
    N. of RUNS for individual H129 is: 9
    N. of RUNS for individual H130 is: 21
    N. of RUNS for individual H131 is: 21
    N. of RUNS for individual H132 is: 17
    N. of RUNS for individual H133 is: 19
    N. of RUNS for individual H134 is: 16
    N. of RUNS for individual H135 is: 15
    N. of RUNS for individual H136 is: 10
    N. of RUNS for individual H137 is: 19
    N. of RUNS for individual H138 is: 11
    N. of RUNS for individual H139 is: 19
    N. of RUNS for individual H140 is: 15
    N. of RUNS for individual H141 is: 19
    N. of RUNS for individual H142 is: 17
    N. of RUNS for individual H143 is: 15
    N. of RUNS for individual H144 is: 14
    N. of RUNS for individual H145 is: 17
    N. of RUNS for individual H146 is: 18
    N. of RUNS for individual H147 is: 13
    N. of RUNS for individual H148 is: 14
    N. of RUNS for individual H149 is: 15
    N. of RUNS for individual H150 is: 17
    N. of RUNS for individual H151 is: 18
    N. of RUNS for individual H152 is: 13
    N. of RUNS for individual H153 is: 17
    N. of RUNS for individual H154 is: 21
    N. of RUNS for individual H155 is: 16
    You are using the method: CONSECUTIVE RUNS
    Analysing Runs of Homozygosity (ROHom)
    You are using the method: SLIDING WINDOWS
    Analysing Runs of Heterozygosity (ROHet)
    Window size: 10
    Threshold for calling SNP in a Run: 0.05
    N. of RUNS for individual H114 is: 17
    N. of RUNS for individual H115 is: 15
    N. of RUNS for individual H116 is: 22
    N. of RUNS for individual H26 is: 25
    N. of RUNS for individual H32 is: 27
    N. of RUNS for individual H38 is: 37
    N. of RUNS for individual H44 is: 26
    N. of RUNS for individual H56 is: 30
    N. of RUNS for individual H50 is: 16
    N. of RUNS for individual H27 is: 23
    N. of RUNS for individual H33 is: 27
    N. of RUNS for individual H39 is: 23
    N. of RUNS for individual H45 is: 28
    N. of RUNS for individual H51 is: 25
    N. of RUNS for individual H57 is: 19
    N. of RUNS for individual H28 is: 29
    N. of RUNS for individual H34 is: 26
    N. of RUNS for individual H40 is: 22
    N. of RUNS for individual H46 is: 24
    N. of RUNS for individual H52 is: 26
    N. of RUNS for individual H58 is: 19
    N. of RUNS for individual H29 is: 19
    N. of RUNS for individual H35 is: 17
    N. of RUNS for individual H41 is: 22
    N. of RUNS for individual H47 is: 26
    N. of RUNS for individual H53 is: 26
    N. of RUNS for individual H59 is: 32
    N. of RUNS for individual H30 is: 36
    N. of RUNS for individual H42 is: 30
    N. of RUNS for individual H48 is: 26
    N. of RUNS for individual H54 is: 22
    N. of RUNS for individual H60 is: 22
    N. of RUNS for individual H31 is: 27
    N. of RUNS for individual H37 is: 29
    N. of RUNS for individual H43 is: 24
    N. of RUNS for individual H49 is: 21
    N. of RUNS for individual H55 is: 21
    N. of RUNS for individual H1 is: 21
    N. of RUNS for individual H9 is: 17
    N. of RUNS for individual H17 is: 18
    N. of RUNS for individual H2 is: 29
    N. of RUNS for individual H10 is: 24
    N. of RUNS for individual H19 is: 29
    N. of RUNS for individual H3 is: 23
    N. of RUNS for individual H11 is: 31
    N. of RUNS for individual H20 is: 16
    N. of RUNS for individual H4 is: 27
    N. of RUNS for individual H12 is: 19
    N. of RUNS for individual H21 is: 12
    N. of RUNS for individual H13 is: 17
    N. of RUNS for individual H22 is: 20
    N. of RUNS for individual H6 is: 24
    N. of RUNS for individual H14 is: 28
    N. of RUNS for individual H7 is: 23
    N. of RUNS for individual H15 is: 28
    N. of RUNS for individual H24 is: 37
    N. of RUNS for individual H8 is: 27
    N. of RUNS for individual H16 is: 18
    N. of RUNS for individual H25 is: 24
    N. of RUNS for individual H64 is: 14
    N. of RUNS for individual H62 is: 31
    N. of RUNS for individual H63 is: 37
    N. of RUNS for individual H118 is: 19
    N. of RUNS for individual H119 is: 21
    N. of RUNS for individual H120 is: 17
    N. of RUNS for individual H121 is: 22
    N. of RUNS for individual H122 is: 26
    N. of RUNS for individual H123 is: 21
    N. of RUNS for individual H124 is: 26
    N. of RUNS for individual H125 is: 21
    N. of RUNS for individual H126 is: 19
    N. of RUNS for individual H127 is: 23
    N. of RUNS for individual H128 is: 26
    N. of RUNS for individual H129 is: 9
    N. of RUNS for individual H130 is: 21
    N. of RUNS for individual H131 is: 21
    N. of RUNS for individual H132 is: 24
    N. of RUNS for individual H133 is: 21
    N. of RUNS for individual H134 is: 17
    N. of RUNS for individual H135 is: 24
    N. of RUNS for individual H136 is: 23
    N. of RUNS for individual H137 is: 21
    N. of RUNS for individual H138 is: 22
    N. of RUNS for individual H139 is: 26
    N. of RUNS for individual H140 is: 20
    N. of RUNS for individual H141 is: 16
    N. of RUNS for individual H142 is: 22
    N. of RUNS for individual H143 is: 24
    N. of RUNS for individual H144 is: 20
    N. of RUNS for individual H145 is: 19
    N. of RUNS for individual H146 is: 20
    N. of RUNS for individual H147 is: 14
    N. of RUNS for individual H148 is: 20
    N. of RUNS for individual H149 is: 22
    N. of RUNS for individual H150 is: 21
    N. of RUNS for individual H151 is: 23
    N. of RUNS for individual H152 is: 25
    N. of RUNS for individual H153 is: 22
    N. of RUNS for individual H154 is: 19
    N. of RUNS for individual H155 is: 20
    You are using the method: CONSECUTIVE RUNS
    Analysing Runs of Heterozygosity (ROHet)
    Checking files...
    Using class: 6
    Total genome length: 290826950
    calculating Froh on all genome
    Total genome length: 290826950
    calculating Froh chromosome by chromosome
    Total genome length: 290826950
    calculating Froh by Class
    Class created: 0-6Class created: 6-12Class created: 12-24Class created: 24-48Class created: >48
    Calculating SNPs inside ROH
    Calculation % SNP in ROH
    Chromosome founds: 2
    Calculation % SNP in ROH finish
    Threshold used: 70
    I found only Runs data frame. GOOD!
    Calculation % SNP in ROH
    Chromosome founds: 2
    Calculation % SNP in ROH finish
    checking: Jacobs
    checking: Navajo-Churro
    Total genome length: 290826950
    calculating Froh on all genome
    Total genome length: 290826950
    calculating Froh chromosome by chromosome
    Total genome length: 290826950
    calculating Froh on all genome
    Loading file from detectRUNS
    dyld: lazy symbol binding failed: Symbol not found: ____chkstk_darwin
     Referenced from: /usr/local/bin/pandoc (which was built for Mac OS X 10.15)
     Expected in: /usr/lib/libSystem.B.dylib
    
    dyld: Symbol not found: ____chkstk_darwin
     Referenced from: /usr/local/bin/pandoc (which was built for Mac OS X 10.15)
     Expected in: /usr/lib/libSystem.B.dylib
    
    Error: processing vignette 'detectRUNS.vignette.Rmd' failed with diagnostics:
    pandoc document conversion failed with error 6
    --- failed re-building ‘detectRUNS.vignette.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘detectRUNS.vignette.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-patched-osx-x86_64