Back to Multiple platform build/check report for BioC 3.15
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This page was generated on 2022-01-22 11:07:07 -0500 (Sat, 22 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.4 LTS)x86_64R Under development (unstable) (2022-01-05 r81451) -- "Unsuffered Consequences" 4163
riesling1Windows Server 2019 Standardx64R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" 4058
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2021-12-21 r81400 ucrt) -- "Unsuffered Consequences" 4000
merida1macOS 10.14.6 Mojavex86_64R Under development (unstable) (2022-01-05 r81451) -- "Unsuffered Consequences" 4117
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

INSTALL results for exomeCopy on riesling1


To the developers/maintainers of the exomeCopy package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/exomeCopy.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 611/2075HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
exomeCopy 1.41.1  (landing page)
Michael Love
Snapshot Date: 2022-01-21 13:55:18 -0500 (Fri, 21 Jan 2022)
git_url: https://git.bioconductor.org/packages/exomeCopy
git_branch: master
git_last_commit: 953e9d0
git_last_commit_date: 2021-11-20 04:00:19 -0500 (Sat, 20 Nov 2021)
nebbiolo1Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    OK    NA    NA  
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  NO, package depends on 'IRanges' which is not available
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: exomeCopy
Version: 1.41.1
Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL exomeCopy
StartedAt: 2022-01-21 15:49:44 -0500 (Fri, 21 Jan 2022)
EndedAt: 2022-01-21 15:50:35 -0500 (Fri, 21 Jan 2022)
EllapsedTime: 51.7 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
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###
### Running command:
###
###   D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL exomeCopy
###
##############################################################################
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* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'exomeCopy' ...
** using staged installation
** libs
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c exomeCopy.c -o exomeCopy.o
C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o exomeCopy.dll tmp.def exomeCopy.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LD:/biocbuild/bbs-3.15-bioc/R/bin/x64 -lR
installing to D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-exomeCopy/00new/exomeCopy/libs/x64
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'exomeCopy'
    finding HTML links ... done
    ExomeCopy-class                         html  
    compileCopyCountSegments                html  
    copyCountSegments                       html  
    countBamInGRanges                       html  
    finding level-2 HTML links ... done

    exomeCopy-package                       html  
    exomeCopy                               html  
    exomecounts                             html  
    generateBackground                      html  
    getGCcontent                            html  
    negLogLike                              html  
    plot.exomeCopyObject                    html  
    plotCompiledCNV                         html  
    subdivideGRanges                        html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (exomeCopy)
Making 'packages.html' ...Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
  DESCRIPTION file of package 'QDNAseq' is missing or broken
Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
  DESCRIPTION file of package 'Rbowtie2' is missing or broken
Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
  DESCRIPTION file of package 'spatialDE' is missing or broken
 done