Paul Shannon
| Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022) |
| git_url: https://git.bioconductor.org/packages/igvR |
| git_branch: RELEASE_3_14 |
| git_last_commit: 2d7b52a |
| git_last_commit_date: 2021-10-26 12:44:17 -0400 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.14 |
|
This page was generated on 2022-04-13 12:06:44 -0400 (Wed, 13 Apr 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4324 |
| tokay2 | Windows Server 2012 R2 Standard | x64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4077 |
| machv2 | macOS 10.14.6 Mojave | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4137 |
| 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 | ||||
|
To the developers/maintainers of the igvR package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/igvR.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 917/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| igvR 1.14.0 (landing page) Paul Shannon
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| Package: igvR |
| Version: 1.14.0 |
| Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:igvR.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings igvR_1.14.0.tar.gz |
| StartedAt: 2022-04-12 21:21:54 -0400 (Tue, 12 Apr 2022) |
| EndedAt: 2022-04-12 21:29:49 -0400 (Tue, 12 Apr 2022) |
| EllapsedTime: 475.2 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: igvR.Rcheck |
| Warnings: 3 |
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### Running command:
###
### C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:igvR.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings igvR_1.14.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/igvR.Rcheck'
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'igvR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'igvR' version '1.14.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'igvR' can be installed ... OK
* checking installed package size ... NOTE
installed size is 11.6Mb
sub-directories of 1Mb or more:
browserCode 8.8Mb
extdata 2.0Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... WARNING
---- unloading
Error in .mergeMethodsTable(generic, mtable, tt, attach) :
trying to get slot "defined" from an object of a basic class ("environment") with no slots
Calls: unloadNamespace ... <Anonymous> -> .updateMethodsInTable -> .mergeMethodsTable
Execution halted
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... WARNING
---- unloading
Error in .mergeMethodsTable(generic, mtable, tt, attach) :
trying to get slot "defined" from an object of a basic class ("environment") with no slots
Calls: unloadNamespace ... <Anonymous> -> .updateMethodsInTable -> .mergeMethodsTable
Execution halted
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking include directives in Makefiles ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... WARNING
Found 'inst/doc/makefile': should be 'Makefile' and will be ignored
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 3 WARNINGs, 1 NOTE
See
'C:/Users/biocbuild/bbs-3.14-bioc/meat/igvR.Rcheck/00check.log'
for details.
igvR.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/igvR_1.14.0.tar.gz && rm -rf igvR.buildbin-libdir && mkdir igvR.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=igvR.buildbin-libdir igvR_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL igvR_1.14.0.zip && rm igvR_1.14.0.tar.gz igvR_1.14.0.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
4 10.4M 4 457k 0 0 810k 0 0:00:13 --:--:-- 0:00:13 810k
13 10.4M 13 1452k 0 0 940k 0 0:00:11 0:00:01 0:00:10 940k
29 10.4M 29 3140k 0 0 1233k 0 0:00:08 0:00:02 0:00:06 1233k
54 10.4M 54 5763k 0 0 1625k 0 0:00:06 0:00:03 0:00:03 1625k
87 10.4M 87 9312k 0 0 2048k 0 0:00:05 0:00:04 0:00:01 2048k
100 10.4M 100 10.4M 0 0 2198k 0 0:00:04 0:00:04 --:--:-- 2381k
install for i386
* installing *source* package 'igvR' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
See system.file("LICENSE", package="MotifDb") for use restrictions.
** help
*** installing help indices
converting help for package 'igvR'
finding HTML links ... done
BedpeInteractionsTrack-class html
DataFrameAnnotationTrack-class html
DataFrameQuantitativeTrack-class html
GRangesAnnotationTrack-class html
GRangesQuantitativeTrack-class html
GenomicAlignmentTrack-class html
QuantitativeTrack-class html
RemoteAlignmentTrack-class html
Track-class html
UCSCBedAnnotationTrack-class html
UCSCBedGraphQuantitativeTrack-class html
VariantTrack-class html
displayTrack html
enableMotifLogoPopups html
getGenomicRegion html
getSupportedGenomes html
getTrackNames html
igvAnnotationTrack-class html
igvR-class html
ping html
removeTracksByName html
saveToSVG html
setCustomGenome html
setGenome html
setTrackClickFunction html
showGenomicRegion html
showTrackLabels html
trackInfo html
trackSize-BedpeInteractionsTrack-method
html
trackSize-DataFrameAnnotationTrack-method
html
trackSize-DataFrameQuantitativeTrack-method
html
trackSize-GRangesAnnotationTrack-method
html
trackSize-GRangesQuantitativeTrack-method
html
trackSize-GenomicAlignmentTrack-method
html
trackSize-UCSCBedAnnotationTrack-method
html
trackSize-UCSCBedGraphQuantitativeTrack-method
html
trackSize-VariantTrack-method html
trackSize html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
See system.file("LICENSE", package="MotifDb") for use restrictions.
** testing if installed package can be loaded from final location
See system.file("LICENSE", package="MotifDb") for use restrictions.
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'igvR' ...
** testing if installed package can be loaded
See system.file("LICENSE", package="MotifDb") for use restrictions.
* MD5 sums
packaged installation of 'igvR' as igvR_1.14.0.zip
* DONE (igvR)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'igvR' successfully unpacked and MD5 sums checked
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igvR.Rcheck/examples_i386/igvR-Ex.timings
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igvR.Rcheck/examples_x64/igvR-Ex.timings
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