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NOTES: (1) a maintainance reboot of lemming prevented these builds to complete on this machine (2) these are the last builds with R 2.6.0 (2007-06-03 r41797) on lamb1 and lemming, next builds will be with R 2.6.0 (2007-06-10 r41908) configured with --enable-strict-barrier |
Package 220/238 | Hostname | OS | Arch | BUILD | CHECK | BUILD BIN |
splicegear1.9.0LaurentLast Changed Date: 2007-05-11 21:56:41 -0700 Last Changed Rev: 24616 | lamb1 | Linux (SUSE 10.1) | x86_64 | OK | WARNINGS | |
wellington | Linux (SUSE 9.2) | i686 | OK | [ WARNINGS ] | ||
churchill | Solaris 2.9 | sparc | ERROR | skipped | ||
lemming | Windows Server 2003 (32-bit) | x64 | OK | skipped | skipped |
Package: splicegear |
Version: 1.9.0 |
Command: /loc/biocbuild/bbs-2.1-bioc/R/bin/R CMD check splicegear_1.9.0.tar.gz |
RetCode: 0 |
Time: 140.8 seconds |
Status: WARNINGS |
CheckDir: splicegear.Rcheck |
Warnings: 1 |
* checking for working latex ... OK * using log directory '/extra/loc/biocbuild/bbs-2.1-bioc/meat/splicegear.Rcheck' * using R version 2.6.0 Under development (unstable) (2007-06-03 r41797) * checking for file 'splicegear/DESCRIPTION' ... OK * this is package 'splicegear' version '1.9.0' * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'splicegear' can be installed ... WARNING Found the following significant warnings: Warning: The phenoData class is deprecated, use AnnotatedDataFrame (with ExpressionSet) instead Warning: The phenoData class is deprecated, use AnnotatedDataFrame (with ExpressionSet) instead Warning: The phenoData class is deprecated, use AnnotatedDataFrame (with ExpressionSet) instead Warning: The exprSet class is deprecated, use ExpressionSet instead See '/extra/loc/biocbuild/bbs-2.1-bioc/meat/splicegear.Rcheck/00install.out' for details. * checking package directory ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking DESCRIPTION meta-information ... OK * checking top-level 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 for unstated dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE grid.plot.SpliceExprSet: no visible binding for global variable 'm.ylim' isSpliceSiteOnProbe: no visible global function definition for 'error' * checking Rd files ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking data for non-ASCII characters ... OK * creating splicegear-Ex.R ... OK * checking examples ... OK * checking package vignettes in 'inst/doc' ... OK * creating splicegear-manual.tex ... OK * checking splicegear-manual.tex ... OK WARNING: There was 1 warning, see /extra/loc/biocbuild/bbs-2.1-bioc/meat/splicegear.Rcheck/00check.log for details
splicegear.Rcheck/00install.out:
* Installing *source* package 'splicegear' ... ** R ** data ** inst ** preparing package for lazy loading Loading required package: grid Loading required package: Biobase Loading required package: tools Welcome to Bioconductor Vignettes contain introductory material. To view, type 'openVignette()'. To cite Bioconductor, see 'citation("Biobase")' and for packages 'citation(pkgname)'. Loading required package: XML Loading required package: annotate Loading required package: AnnotationDbi Loading required package: DBI Loading required package: RSQLite Warning: The phenoData class is deprecated, use AnnotatedDataFrame (with ExpressionSet) instead Warning: The phenoData class is deprecated, use AnnotatedDataFrame (with ExpressionSet) instead Warning: The phenoData class is deprecated, use AnnotatedDataFrame (with ExpressionSet) instead Warning: The exprSet class is deprecated, use ExpressionSet instead ** help Note: unmatched right brace in 'grid.helpers' on or after line 28 Note: unmatched right brace in 'plot.SpliceSitesGenomic' on or after line 6 >>> Building/Updating help pages for package 'splicegear' Formats: text html latex example Probes-class text html latex example SpliceExprSet-class text html latex example SpliceSites-class text html latex example SpliceSitesGenomic-class text html latex example as.data.frame.SpliceExprSet text html latex example barplot.SpliceSites text html latex example buildSpliceSites text html latex example getRelSignStrength text html latex example grid.helpers text html latex grid.plot.SpliceSites text html latex example isProbeOnSpliceSite text html latex example matchprobes2Probes text html latex plot.SpliceExprSet text html latex example plot.SpliceSites text html latex example plot.SpliceSitesGenomic text html latex example sort.SpliceExprSet text html latex example spliceset text html latex example split.SpliceSites text html latex example ** building package indices ... * DONE (splicegear)