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Package 159/234 | Hostname | OS | Arch | BUILD | CHECK | BUILD BIN |
pdInfoBuilder 1.2.0 Vince Carey Last Changed Date: 2007-10-02 17:41:09 -0700 Last Changed Rev: 27709 | lamb1 | Linux (SUSE 10.1) | x86_64 | OK | OK | |
wellington | Linux (SUSE 9.2) | i686 | OK | [ OK ] | ||
liverpool | Windows Server 2003 R2 (32-bit) | x64 | OK | OK | OK | |
pitt | Mac OS X (10.4.10) | i386 | OK | OK | OK |
Package: pdInfoBuilder |
Version: 1.2.0 |
Command: /loc/biocbuild/bbs-2.1-bioc/R/bin/R CMD check pdInfoBuilder_1.2.0.tar.gz |
RetCode: 0 |
Time: 163.3 seconds |
Status: OK |
CheckDir: pdInfoBuilder.Rcheck |
Warnings: 0 |
* checking for working latex ... OK * using log directory '/extra/loc/biocbuild/bbs-2.1-bioc/meat/pdInfoBuilder.Rcheck' * using R version 2.6.0 (2007-10-03) * checking for file 'pdInfoBuilder/DESCRIPTION' ... OK * this is package 'pdInfoBuilder' version '1.2.0' * checking package name space information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'pdInfoBuilder' can be installed ... OK * 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 whether the name space 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 dbImportLine.AFFYHUEX_DB.Transcript: possible error in dbInsert_multipart_data(conn, "protein_domains", protein_domains, acc2id, new_accessions, transcript_cluster_ID): unused argument(s) (new_accessions, transcript_cluster_ID) dbImportLine.AFFYHUEX_DB.Transcript: no visible binding for global variable 'acc2id' dbImportLine.AFFYHUEX_DB.Transcript: no visible binding for global variable 'new_accessions' dbImportLine.AFFYHUEX_DB.Transcript: possible error in dbInsert_multipart_data(conn, "protein_families", protein_families, acc2id, new_accessions, transcript_cluster_ID): unused argument(s) (new_accessions, transcript_cluster_ID) dbInitTableIds.AFFYHUEX_DB: no visible binding for global variable 'id0' importTrDicts: no visible binding for global variable 'transcript_cluster_table' importTrDicts: no visible binding for global variable 'acc2id_dict' importTrDicts: no visible binding for global variable 'TR2mrna_dict' importTrDicts : <anonymous>: no visible binding for global variable 'TR2mrna_dict' importTrDicts: no visible binding for global variable 'TR2mrna_details_dict' importTrDicts: no visible binding for global variable 'gene_dict' importTrDicts: no visible binding for global variable 'acc2genes_dict' * 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 line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking for portable use of $BLAS_LIBS ... OK * creating pdInfoBuilder-Ex.R ... OK * checking examples ... OK * checking package vignettes in 'inst/doc' ... OK * creating pdInfoBuilder-manual.tex ... OK * checking pdInfoBuilder-manual.tex ... OK
pdInfoBuilder.Rcheck/00install.out:
* Installing *source* package 'pdInfoBuilder' ... ** libs gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c pdInfoBuilder.c -o pdInfoBuilder.o gcc -std=gnu99 -shared -L/usr/local/lib -o pdInfoBuilder.so pdInfoBuilder.o -L/loc/biocbuild/bbs-2.1-bioc/R/lib -lR ** R ** inst ** preparing package for lazy loading 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: RSQLite Loading required package: DBI Loading required package: affxparser Loading required package: oligo Loading required package: splines Loading required package: preprocessCore Loading required package: AnnotationDbi Loading required package: oligoClasses This is the oligo package ** help >>> Building/Updating help pages for package 'pdInfoBuilder' Formats: text html latex example AffySNPCNVPDInfoPkgSeed-class text html latex example AffySNPPDInfoPkgSeed-class text html latex example PDInfoPkgSeed-class text html latex example PkgSeed-class text html latex example chipName text html latex makePdInfoPackage text html latex example ** building package indices ... * DONE (pdInfoBuilder)