Nolwenn Le Meur
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/SLGI |
| Branch: RELEASE_3_10 |
| Last Commit: 2252de8 |
| Last Changed Date: 2019-10-29 13:07:54 -0400 (Tue, 29 Oct 2019) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:18:16 -0400 (Wed, 15 Apr 2020).
| Package 1613/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| SLGI 1.46.0 Nolwenn Le Meur
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: SLGI |
| Version: 1.46.0 |
| Command: C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:SLGI.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings SLGI_1.46.0.tar.gz |
| StartedAt: 2020-04-15 06:43:39 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 06:50:23 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 403.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SLGI.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:SLGI.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings SLGI_1.46.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.10-bioc/meat/SLGI.Rcheck'
* using R version 3.6.3 (2020-02-29)
* 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 '1.46.0'
* 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 'SLGI' can be installed ... OK
* checking installed package size ... NOTE
installed size is 16.0Mb
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
* 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 '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 ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
siResult-class 13.35 5.52 18.88
plot 10.88 6.61 17.48
modelSLGI 12.06 4.39 16.47
iSummary 11.71 3.11 14.81
compare 8.87 4.98 13.86
topInteraction 7.35 3.81 11.15
normInteraction 5.26 3.25 8.52
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
iSummary 19.43 3.74 23.18
compare 11.21 6.28 17.48
siResult-class 14.85 1.26 16.11
plot 14.28 1.53 15.81
modelSLGI 12.44 0.73 13.17
topInteraction 7.22 1.63 8.96
normInteraction 6.16 0.78 6.94
* 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: 3 NOTEs
See
'C:/Users/biocbuild/bbs-3.10-bioc/meat/SLGI.Rcheck/00check.log'
for details.
SLGI.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/SLGI_1.46.0.tar.gz && rm -rf SLGI.buildbin-libdir && mkdir SLGI.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SLGI.buildbin-libdir SLGI_1.46.0.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL SLGI_1.46.0.zip && rm SLGI_1.46.0.tar.gz SLGI_1.46.0.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
100 8105k 100 8105k 0 0 16.6M 0 --:--:-- --:--:-- --:--:-- 16.7M
install for i386
* installing *source* package 'SLGI' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
No methods found in package 'Biobase' for request: 'listlen' when loading 'RpsiXML'
No methods found in package 'annotate' for requests: 'pubmed', 'buildPubMedAbst' when loading 'RpsiXML'
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
No methods found in package 'Biobase' for request: 'listlen' when loading 'RpsiXML'
No methods found in package 'annotate' for requests: 'pubmed', 'buildPubMedAbst' when loading 'RpsiXML'
No methods found in package 'BiocGenerics' for request: 'plot' when loading 'SLGI'
** testing if installed package can be loaded from final location
No methods found in package 'Biobase' for request: 'listlen' when loading 'RpsiXML'
No methods found in package 'annotate' for requests: 'pubmed', 'buildPubMedAbst' when loading 'RpsiXML'
No methods found in package 'BiocGenerics' for request: 'plot' when loading 'SLGI'
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'SLGI' ...
** testing if installed package can be loaded
No methods found in package 'Biobase' for request: 'listlen' when loading 'RpsiXML'
No methods found in package 'annotate' for requests: 'pubmed', 'buildPubMedAbst' when loading 'RpsiXML'
No methods found in package 'BiocGenerics' for request: 'plot' when loading 'SLGI'
* MD5 sums
packaged installation of 'SLGI' as SLGI_1.46.0.zip
* DONE (SLGI)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'SLGI' successfully unpacked and MD5 sums checked
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SLGI.Rcheck/examples_i386/SLGI-Ex.timings
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SLGI.Rcheck/examples_x64/SLGI-Ex.timings
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