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This page was generated on 2020-10-17 11:56:55 -0400 (Sat, 17 Oct 2020).
TO THE DEVELOPERS/MAINTAINERS OF THE ITALICS PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 905/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
ITALICS 2.48.0 Guillem Rigaill
| malbec2 | Linux (Ubuntu 18.04.4 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: ITALICS |
Version: 2.48.0 |
Command: C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ITALICS.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings ITALICS_2.48.0.tar.gz |
StartedAt: 2020-10-17 05:23:28 -0400 (Sat, 17 Oct 2020) |
EndedAt: 2020-10-17 05:27:37 -0400 (Sat, 17 Oct 2020) |
EllapsedTime: 249.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: ITALICS.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ITALICS.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings ITALICS_2.48.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.11-bioc/meat/ITALICS.Rcheck' * using R version 4.0.3 (2020-10-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'ITALICS/DESCRIPTION' ... OK * this is package 'ITALICS' version '2.48.0' * 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 'ITALICS' can be installed ... OK * checking installed package size ... OK * 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: 'affxparser' 'GLAD' 'oligo' 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 Packages in Depends field not imported from: 'ITALICSData' 'pd.mapping50k.xba240' 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 trainITALICS: warning in list.files(dir, full.name = TRUE): partial argument match of 'full.name' to 'full.names' * checking Rd files ... NOTE prepare_Rd: GLAD.GLAD.Rd:33: Dropping empty section \keyword prepare_Rd: ITALICSNew.Rd:82: Dropping empty section \keyword prepare_Rd: ITALICSTrain.Rd:43: Dropping empty section \keyword prepare_Rd: Model.GetConfDat.Rd:23: Dropping empty section \keyword prepare_Rd: Model.GetCorrection.Rd:20: Dropping empty section \keyword prepare_Rd: Model.GetEffet.Rd:20: Dropping empty section \keyword prepare_Rd: Model.GetModel.Rd:21: Dropping empty section \keyword prepare_Rd: Model.GetResidu.Rd:18: Dropping empty section \keyword prepare_Rd: New.AddInfo.Rd:24: Dropping empty section \keyword prepare_Rd: New.fromQuartetToSnp.Rd:31: Dropping empty section \keyword prepare_Rd: New.fromQuartetToSnp.Rd:25: Dropping empty section \examples prepare_Rd: New.fromSnpToQuartet.Rd:25: Dropping empty section \keyword prepare_Rd: New.getQuartet.Rd:27: Dropping empty section \keyword prepare_Rd: New.getSnpInfo.Rd:25: Dropping empty section \keyword prepare_Rd: New.readQuartetCopyNb.Rd:23: Dropping empty section \keyword * 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 ** running examples for arch 'x64' ... OK * 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-3.11-bioc/meat/ITALICS.Rcheck/00check.log' for details.
ITALICS.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/ITALICS_2.48.0.tar.gz && rm -rf ITALICS.buildbin-libdir && mkdir ITALICS.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=ITALICS.buildbin-libdir ITALICS_2.48.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL ITALICS_2.48.0.zip && rm ITALICS_2.48.0.tar.gz ITALICS_2.48.0.zip ### ############################################################################## ############################################################################## % 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 121k 100 121k 0 0 1799k 0 --:--:-- --:--:-- --:--:-- 1993k install for i386 * installing *source* package 'ITALICS' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading No methods found in package 'RSQLite' for request: 'dbListFields' when loading 'oligo' ** help *** installing help indices converting help for package 'ITALICS' finding HTML links ... done GLAD.GLAD html ITALICSNew html ITALICSTrain html Model.GetConfDat html Model.GetCorrection html Model.GetEffet html Model.GetModel html Model.GetResidu html New.AddInfo html New.fromQuartetToSnp html New.fromSnpToQuartet html New.getQuartet html New.getSnpInfo html New.readQuartetCopyNb html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location No methods found in package 'RSQLite' for request: 'dbListFields' when loading 'oligo' ** testing if installed package can be loaded from final location No methods found in package 'RSQLite' for request: 'dbListFields' when loading 'oligo' ** testing if installed package keeps a record of temporary installation path install for x64 * installing *source* package 'ITALICS' ... ** testing if installed package can be loaded No methods found in package 'RSQLite' for request: 'dbListFields' when loading 'oligo' * MD5 sums packaged installation of 'ITALICS' as ITALICS_2.48.0.zip * DONE (ITALICS) * installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library' package 'ITALICS' successfully unpacked and MD5 sums checked
ITALICS.Rcheck/examples_i386/ITALICS-Ex.timings
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ITALICS.Rcheck/examples_x64/ITALICS-Ex.timings
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