Nolwenn Le Meur
| Snapshot Date: 2022-03-17 13:55:23 -0400 (Thu, 17 Mar 2022) |
| git_url: https://git.bioconductor.org/packages/SLGI |
| git_branch: master |
| git_last_commit: dc93f14 |
| git_last_commit_date: 2022-01-10 10:27:08 -0400 (Mon, 10 Jan 2022) |
| Back to Multiple platform build/check report for BioC 3.15 |
|
This page was generated on 2022-03-18 11:08:43 -0400 (Fri, 18 Mar 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-02-17 r81757) -- "Unsuffered Consequences" | 4334 |
| riesling1 | Windows Server 2019 Standard | x64 | R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" | 4097 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-02-17 r81757 ucrt) -- "Unsuffered Consequences" | 4083 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2022-03-02 r81842) -- "Unsuffered Consequences" | 4134 |
| 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 SLGI package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SLGI.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. |
| Package 1825/2090 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Nolwenn Le Meur
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| riesling1 | Windows Server 2019 Standard / x64 | OK | OK | WARNINGS | OK | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| Package: SLGI |
| Version: 1.55.1 |
| Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SLGI.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings SLGI_1.55.1.tar.gz |
| StartedAt: 2022-03-17 20:19:27 -0400 (Thu, 17 Mar 2022) |
| EndedAt: 2022-03-17 20:22:44 -0400 (Thu, 17 Mar 2022) |
| EllapsedTime: 196.7 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: SLGI.Rcheck |
| Warnings: 1 |
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### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SLGI.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings SLGI_1.55.1.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/SLGI.Rcheck'
* using R Under development (unstable) (2021-11-21 r81221)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'SLGI/DESCRIPTION' ... OK
* this is package 'SLGI' version '1.55.1'
* 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 'SLGI' can be installed ... WARNING
Found the following significant warnings:
Warning: Package 'RpsiXML' is deprecated and will be removed from Bioconductor
Warning: Package 'ScISI' is deprecated and will be removed from Bioconductor
Warning: Package 'SLGI' is deprecated and will be removed from Bioconductor
See 'D:/biocbuild/bbs-3.15-bioc/meat/SLGI.Rcheck/00install.out' for details.
* checking installed package size ... NOTE
installed size is 16.1Mb
sub-directories of 1Mb or more:
data 4.2Mb
extdata 11.3Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
Packages listed in more than one of Depends, Imports, Suggests, Enhances:
'ScISI' 'lattice' 'GO.db'
A package should be listed in only one of these fields.
* 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
* 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 'GO.db' 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 ... 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 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 ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
iSummary 10.28 3.70 13.99
compare 6.02 4.37 10.39
modelSLGI 6.27 1.66 7.92
plot 5.75 0.69 6.44
normInteraction 3.01 3.20 6.22
siResult-class 5.31 0.64 5.95
topInteraction 2.73 2.84 5.58
* 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: 1 WARNING, 3 NOTEs
See
'D:/biocbuild/bbs-3.15-bioc/meat/SLGI.Rcheck/00check.log'
for details.
SLGI.Rcheck/00install.out
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###
### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL SLGI
###
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* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'SLGI' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Warning messages:
1: Package 'RpsiXML' is deprecated and will be removed from Bioconductor
version 3.16
2: Package 'ScISI' is deprecated and will be removed from Bioconductor
version 3.16
No methods found in package 'BiocGenerics' for request: 'plot' when loading 'SLGI'
** help
*** installing help indices
converting help for package 'SLGI'
finding HTML links ... done
Atong html
AtongFnDomain html
AtongPair html
Boeke html
SDL html
SGA html
SGD.SL html
TFmat html
byComplex html
comemberIn html
compare html
congruence html
createSquareMatrix html
dSLAM.GPL1444 html
domainDist html
essglist html
getInteraction html
getSharedDomains html
getSharedInteraction html
getTestedPairs html
getUniquePairs html
gi2005 html
gi2007 html
gi2Interactome html
hyperG html
iSummary html
modelSLGI html
normInteraction html
plot html
seqMatcherAlign html
sharedBy html
sharedInt html
siResult-class html
test2Interact html
topInteraction html
twoWayTable html
withinComplex html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: Package 'RpsiXML' is deprecated and will be removed from Bioconductor
version 3.16
Warning: Package 'ScISI' is deprecated and will be removed from Bioconductor
version 3.16
No methods found in package 'BiocGenerics' for request: 'plot' when loading 'SLGI'
Warning: Package 'SLGI' is deprecated and will be removed from Bioconductor
version 3.16
** testing if installed package can be loaded from final location
Warning: Package 'RpsiXML' is deprecated and will be removed from Bioconductor
version 3.16
Warning: Package 'ScISI' is deprecated and will be removed from Bioconductor
version 3.16
No methods found in package 'BiocGenerics' for request: 'plot' when loading 'SLGI'
Warning: Package 'SLGI' is deprecated and will be removed from Bioconductor
version 3.16
** testing if installed package keeps a record of temporary installation path
* DONE (SLGI)
Making 'packages.html' ...Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
DESCRIPTION file of package 'RTN' is missing or broken
done
SLGI.Rcheck/SLGI-Ex.timings
| name | user | system | elapsed | |
| Atong | 0.00 | 0.01 | 0.02 | |
| AtongFnDomain | 2.71 | 0.19 | 2.89 | |
| AtongPair | 0.03 | 0.03 | 0.06 | |
| SDL | 0.02 | 0.00 | 0.01 | |
| SGA | 0 | 0 | 0 | |
| SGD.SL | 0.14 | 0.02 | 0.16 | |
| TFmat | 0.08 | 0.01 | 0.09 | |
| byComplex | 0.83 | 0.08 | 0.91 | |
| comemberIn | 0.20 | 0.08 | 0.28 | |
| compare | 6.02 | 4.37 | 10.39 | |
| congruence | 0 | 0 | 0 | |
| createSquareMatrix | 0.07 | 0.02 | 0.10 | |
| domainDist | 1.43 | 0.09 | 1.51 | |
| essglist | 0.01 | 0.02 | 0.03 | |
| getInteraction | 0 | 0 | 0 | |
| getSharedDomains | 0.02 | 0.00 | 0.02 | |
| getSharedInteraction | 0 | 0 | 0 | |
| getTestedPairs | 0.01 | 0.00 | 0.01 | |
| getUniquePairs | 0.02 | 0.00 | 0.02 | |
| gi2005 | 0.04 | 0.01 | 0.06 | |
| gi2007 | 0.13 | 0.00 | 0.13 | |
| gi2Interactome | 0 | 0 | 0 | |
| hyperG | 0.00 | 0.02 | 0.01 | |
| iSummary | 10.28 | 3.70 | 13.99 | |
| modelSLGI | 6.27 | 1.66 | 7.92 | |
| normInteraction | 3.01 | 3.20 | 6.22 | |
| plot | 5.75 | 0.69 | 6.44 | |
| seqMatcherAlign | 0 | 0 | 0 | |
| sharedBy | 1.69 | 0.03 | 1.71 | |
| sharedInt | 0.02 | 0.00 | 0.02 | |
| siResult-class | 5.31 | 0.64 | 5.95 | |
| test2Interact | 0 | 0 | 0 | |
| topInteraction | 2.73 | 2.84 | 5.58 | |
| twoWayTable | 2.66 | 0.10 | 2.75 | |
| withinComplex | 0.23 | 0.06 | 0.30 | |