Danni Yu
| Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022) |
| git_url: https://git.bioconductor.org/packages/sSeq |
| git_branch: RELEASE_3_14 |
| git_last_commit: c0d3c30 |
| git_last_commit_date: 2021-10-26 12:08:04 -0400 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.14 |
|
This page was generated on 2022-04-13 12:07:25 -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 sSeq package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/sSeq.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 1878/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| sSeq 1.32.0 (landing page) Danni Yu
| 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: sSeq |
| Version: 1.32.0 |
| Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:sSeq.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings sSeq_1.32.0.tar.gz |
| StartedAt: 2022-04-13 03:34:03 -0400 (Wed, 13 Apr 2022) |
| EndedAt: 2022-04-13 03:47:41 -0400 (Wed, 13 Apr 2022) |
| EllapsedTime: 817.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: sSeq.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:sSeq.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings sSeq_1.32.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/sSeq.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 'sSeq/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'sSeq' version '1.32.0'
* 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 'sSeq' can be installed ... OK
* checking installed package size ... OK
* 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 'caTools' which was already attached by Depends.
Please remove these calls from your code.
Packages in Depends field not imported from:
'RColorBrewer' 'caTools'
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
drawMA_vol: no visible global function definition for 'par'
drawMA_vol: no visible global function definition for 'points'
drawMA_vol: no visible global function definition for 'abline'
ecdfAUC: no visible global function definition for 'ecdf'
ecdfAUC: no visible global function definition for 'trapz'
ecdfAUC: no visible global function definition for 'mtext'
ecdfAUC: no visible global function definition for 'axis'
ecdfAUC: no visible global function definition for 'box'
ecdfAUC: no visible global function definition for 'lines'
ecdfAUC: no visible global function definition for 'abline'
ecdfAUC: no visible global function definition for 'legend'
exactNBtest1: no visible global function definition for 'dnbinom'
getAdjustDisp: no visible global function definition for 'quantile'
getAdjustDisp: no visible global function definition for 'var'
getNormFactor : <anonymous>: no visible global function definition for
'median'
getQ: no visible global function definition for 'quantile'
getQ: no visible global function definition for 'cov'
getQ: no visible global function definition for 'var'
getQ: no visible global function definition for 'abline'
getQ: no visible global function definition for 'mtext'
getT: no visible global function definition for 'quantile'
getT: no visible global function definition for 'sd'
getT: no visible global function definition for 'cov'
getT: no visible global function definition for 'var'
getT: no visible global function definition for 'mtext'
getT: no visible global function definition for 'axis'
getT: no visible global function definition for 'abline'
getTgroup: no visible global function definition for 'quantile'
getTgroup: no visible global function definition for 'cov'
getTgroup: no visible global function definition for 'var'
getTgroup: no visible global function definition for 'mtext'
getTgroup: no visible global function definition for 'box'
getTgroup: no visible global function definition for 'axis'
getTgroup: no visible global function definition for 'abline'
nbinomTestForMatricesSH : int.func: no visible global function
definition for 'median'
nbinomTestForMatricesSH: no visible global function definition for
'dnbinom'
nbinomTestForMatricesSH: no visible global function definition for
'pchisq'
plotDispersion: no visible global function definition for 'brewer.pal'
plotDispersion: no visible global function definition for
'smoothScatter'
plotDispersion: no visible binding for global variable 'blues9'
plotDispersion: no visible global function definition for 'points'
plotDispersion: no visible global function definition for 'legend'
rnbinomMV: no visible global function definition for 'rnbinom'
rowVars: no visible binding for global variable 'var'
sim: no visible global function definition for 'rnorm'
Undefined global functions or variables:
abline axis blues9 box brewer.pal cov dnbinom ecdf legend lines
median mtext par pchisq points quantile rnbinom rnorm sd
smoothScatter trapz var
Consider adding
importFrom("grDevices", "blues9")
importFrom("graphics", "abline", "axis", "box", "legend", "lines",
"mtext", "par", "points", "smoothScatter")
importFrom("stats", "cov", "dnbinom", "ecdf", "median", "pchisq",
"quantile", "rnbinom", "rnorm", "sd", "var")
to your NAMESPACE file.
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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
nbTestSH 141.97 0.52 142.48
getTgroup 138.03 0.81 138.92
sSeq-package 137.11 0.36 137.47
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
sSeq-package 118.96 0.33 119.29
getTgroup 116.18 0.81 116.98
nbTestSH 114.32 0.44 114.78
* 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: 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.14-bioc/meat/sSeq.Rcheck/00check.log'
for details.
sSeq.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/sSeq_1.32.0.tar.gz && rm -rf sSeq.buildbin-libdir && mkdir sSeq.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=sSeq.buildbin-libdir sSeq_1.32.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL sSeq_1.32.0.zip && rm sSeq_1.32.0.tar.gz sSeq_1.32.0.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
14 366k 14 53811 0 0 253k 0 0:00:01 --:--:-- 0:00:01 253k
100 366k 100 366k 0 0 520k 0 --:--:-- --:--:-- --:--:-- 520k
install for i386
* installing *source* package 'sSeq' ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'sSeq'
finding HTML links ... done
Hammer2months html
Sultan html
Tuch html
countsTable html
drawMA_vol html
ecdfAUC html
equalSpace html
exactNBtest1 html
getAdjustDisp html
getNormFactor html
getQ html
getT html
getTgroup html
nbTestSH html
nbinomTestForMatricesSH html
plotDispersion html
rnbinomMV html
rowVars html
sSeq-package html
sim 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 'sSeq' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'sSeq' as sSeq_1.32.0.zip
* DONE (sSeq)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'sSeq' successfully unpacked and MD5 sums checked
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sSeq.Rcheck/examples_i386/sSeq-Ex.timings
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sSeq.Rcheck/examples_x64/sSeq-Ex.timings
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