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Package 111/234 | Hostname | OS | Arch | BUILD | CHECK | BUILD BIN |
KEGGSOAP1.11.0J. ZhangLast Changed Date: 2007-04-24 11:31:42 -0700 Last Changed Rev: 24217 | lamb1 | Linux (SUSE 10.1) | x86_64 | OK | OK | |
wellington | Linux (SUSE 9.2) | i686 | OK | OK | ||
churchill | Solaris 2.9 | sparc | OK | ERROR | ||
lemming | Windows Server 2003 (32-bit) | x64 | OK | [ ERROR ] | OK |
Package: KEGGSOAP |
Version: 1.11.0 |
Command: D:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD check KEGGSOAP_1.11.0.tar.gz |
RetCode: 1 |
Time: 72.1 seconds |
Status: ERROR |
CheckDir: KEGGSOAP.Rcheck |
Warnings: NA |
* checking for working latex ... OK * using log directory 'D:/biocbld/bbs-2.1-bioc/meat/KEGGSOAP.Rcheck' * using R version 2.6.0 Under development (unstable) (2007-04-17 r41210) * checking for file 'KEGGSOAP/DESCRIPTION' ... OK * this is package 'KEGGSOAP' version '1.11.0' * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'KEGGSOAP' can be installed ... OK * checking package directory ... OK * checking for portable file names ... 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 ... OK * 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 * creating KEGGSOAP-Ex.R ... OK * checking examples ... ERROR Running examples in 'KEGGSOAP-Ex.R' failed. The error most likely occurred in: > ### * get.motifs.by.gene > > flush(stderr()); flush(stdout()) > > ### Name: get.motifs.by.gene > ### Title: Client-side interface to obtain the name of genes that are > ### homologous to a given gene > ### Aliases: get.motifs.by.gene > ### Keywords: datasets > > ### ** Examples > > if(require("SSOAP") && require("XML")){ + motifs <- get.motifs.by.gene("eco:b0002", "pfam") + sapply(motifs, function(x) x$motif_id) + } Error in converters[[which]](xmlValue(node)) : no applicable method for "as.integer" Execution halted
KEGGSOAP.Rcheck/00install.out:
installing R.css in D:/biocbld/bbs-2.1-bioc/meat/KEGGSOAP.Rcheck ---------- Making package KEGGSOAP ------------ adding build stamp to DESCRIPTION installing NAMESPACE file and metadata installing R files installing man source files installing indices installing help >>> Building/Updating help pages for package 'KEGGSOAP' Formats: text html latex example chm KEGGserver text html latex chm bget text html latex example chm get.genes.by.motifs text html latex example chm get.genes.by.organism text html latex example chm get.genes.by.pathway text html latex example chm get.motifs.by.gene text html latex example chm get.paralogs.by.gene text html latex example chm get.pathways.by.genes text html latex example chm getBestNeighbors text html latex example chm list.organisms text html latex example chm mark.pathway.by.objects text html latex example chm search.compounds.by.name text html latex example chm search.glycans.by.name text html latex example chm Microsoft HTML Help Compiler 4.74.8702 Compiling d:\biocbld\bbs-2.1-bioc\meat\KEGGSOAP.Rcheck\00_pkg_src\KEGGSOAP\chm\KEGGSOAP.chm Compile time: 0 minutes, 0 seconds 14 Topics 64 Local links 15 Internet links 1 Graphic Created d:\biocbld\bbs-2.1-bioc\meat\KEGGSOAP.Rcheck\00_pkg_src\KEGGSOAP\chm\KEGGSOAP.chm, 35,265 bytes Compression decreased file by 31,288 bytes. preparing package KEGGSOAP for lazy loading Loading required package: XML Loading required package: SSOAP Loading required package: RCurl adding MD5 sums * DONE (KEGGSOAP)