Wubing Zhang
| Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022) |
| git_url: https://git.bioconductor.org/packages/MAGeCKFlute |
| git_branch: RELEASE_3_14 |
| git_last_commit: e03a467 |
| git_last_commit_date: 2021-10-26 12:40:34 -0400 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.14 |
|
This page was generated on 2022-04-13 12:06:49 -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 MAGeCKFlute package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MAGeCKFlute.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 1036/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| MAGeCKFlute 1.14.0 (landing page) Wubing Zhang
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: MAGeCKFlute |
| Version: 1.14.0 |
| Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MAGeCKFlute.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings MAGeCKFlute_1.14.0.tar.gz |
| StartedAt: 2022-04-12 22:11:04 -0400 (Tue, 12 Apr 2022) |
| EndedAt: 2022-04-12 22:15:45 -0400 (Tue, 12 Apr 2022) |
| EllapsedTime: 280.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: MAGeCKFlute.Rcheck |
| Warnings: 0 |
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### Running command:
###
### C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MAGeCKFlute.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings MAGeCKFlute_1.14.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/MAGeCKFlute.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 'MAGeCKFlute/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'MAGeCKFlute' 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 ... NOTE
Found the following hidden files and directories:
.travis.yml
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking whether package 'MAGeCKFlute' can be installed ... OK
* checking installed package size ... NOTE
installed size is 14.2Mb
sub-directories of 1Mb or more:
extdata 13.5Mb
* 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 ... OK
* 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 ... OK
* checking dependencies in R code ... NOTE
'library' or 'require' call to 'pathview' in package code.
Please use :: or requireNamespace() instead.
See section 'Suggested packages' in the 'Writing R Extensions' manual.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
arrangePathview: no visible global function definition for 'pathview'
Undefined global functions or variables:
pathview
* 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
enrich.ORT 6.65 0.07 6.86
ReadGMT 4.09 0.03 5.41
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
enrich.ORT 6.05 0.01 6.06
TransGeneID 5.05 0.08 5.14
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 4 NOTEs
See
'C:/Users/biocbuild/bbs-3.14-bioc/meat/MAGeCKFlute.Rcheck/00check.log'
for details.
MAGeCKFlute.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/MAGeCKFlute_1.14.0.tar.gz && rm -rf MAGeCKFlute.buildbin-libdir && mkdir MAGeCKFlute.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MAGeCKFlute.buildbin-libdir MAGeCKFlute_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL MAGeCKFlute_1.14.0.zip && rm MAGeCKFlute_1.14.0.tar.gz MAGeCKFlute_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
15 9881k 15 1497k 0 0 2182k 0 0:00:04 --:--:-- 0:00:04 2182k
53 9881k 53 5242k 0 0 3117k 0 0:00:03 0:00:01 0:00:02 3117k
100 9881k 100 9881k 0 0 3726k 0 0:00:02 0:00:02 --:--:-- 3727k
install for i386
* installing *source* package 'MAGeCKFlute' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'MAGeCKFlute'
finding HTML links ... done
BarView html
BatchRemove html
ConsistencyView html
CutoffCalling html
DensityDiffView html
DensityView html
EnrichAB html
EnrichAnalyzer html
EnrichSquare html
EnrichedFilter html
EnrichedGeneView html
EnrichedView html
FluteMLE html
REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/flutemle.html
FluteRRA html
HeatmapView html
IdentBarView html
IncorporateDepmap html
MAView html
MapRatesView html
NormalizeBeta html
REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/normalizebeta.html
OmitCommonEssential html
RankView html
REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/rankview.html
ReadBeta html
REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/readbeta.html
ReadGMT html
ReadRRA html
REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/readrra.html
ReadsgRRA html
ResembleDepmap html
ScatterView html
Selector html
SquareView html
REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/squareview.html
TransGeneID html
REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/transGeneID.html
ViolinView html
REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/violinview.html
VolcanoView html
arrangePathview html
enrich.GSE html
enrich.HGT html
enrich.ORT html
getCols html
getGeneAnn html
getOrg html
getOrtAnn html
gsGetter html
hclustView html
noEnrichPlot html
normalize.loess html
reexports html
retrieve_gs html
sgRankView 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
install for x64
* installing *source* package 'MAGeCKFlute' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MAGeCKFlute' as MAGeCKFlute_1.14.0.zip
* DONE (MAGeCKFlute)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'MAGeCKFlute' successfully unpacked and MD5 sums checked
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MAGeCKFlute.Rcheck/examples_i386/MAGeCKFlute-Ex.timings
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MAGeCKFlute.Rcheck/examples_x64/MAGeCKFlute-Ex.timings
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