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Package 143/205OSArchBUILDCHECKBUILD BIN

pgUtils

1.5.2

Johannes Rainer		Linux (SUSE 9.2) x86_64 OK  WARNINGS 
Linux (SUSE 9.2) i686 OK [ WARNINGS ]
Solaris 2.9 sparc OK  OK 
Linux (SUSE 10.0) x86_64 OK  WARNINGS 
Windows Server 2003 x86_64 OK  ERROR  ERROR 
Windows XP i686 OK  ERROR skipped
Mac OS X (10.4.6) i686 OK  ERROR 
Package: pgUtils
Version: 1.5.2
Command: /loc/biocbuild/1.9d/R/bin/R CMD check pgUtils_1.5.2.tar.gz
RetCode: 0
Time: 37.9 seconds
Status: WARNINGS
CheckDir: pgUtils.Rcheck
Warnings: 4

Command output

* checking for working latex ... OK
* using log directory '/extra/loc/biocbuild/1.9d/Rpacks/pgUtils.Rcheck'
* using R version 2.4.0 alpha (2006-09-10 r39242)
* checking for file 'pgUtils/DESCRIPTION' ... OK
* this is package 'pgUtils' version '1.5.2'
* checking package dependencies ... WARNING
package 'methods' is used but not declared
See the information on DESCRIPTION files in the chapter 'Creating R
packages' of the 'Writing R Extensions' manual.
* checking if this is a source package ... OK
* checking whether package 'pgUtils' 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 syntax errors ... OK
* checking R files for non-ASCII characters ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking S3 generic/method consistency ... WARNING
Error in get(tname, envir = env) : recursive default argument reference
Error in as.environment(pos) : no item called "newtable" on the search list
Error: .onLoad failed in 'loadNamespace' for 'methods'
Execution halted
See section 'Generic functions and methods' of the 'Writing R Extensions'
manual.
* checking replacement functions ... OK
* checking foreign function calls ... WARNING
Error in get(tname, envir = env) : recursive default argument reference
Error in as.environment(pos) : no item called "newtable" on the search list
Error: .onLoad failed in 'loadNamespace' for 'methods'
Execution halted
See the chapter 'System and foreign language interfaces' of the 'Writing R
Extensions' manual.
* 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 ... WARNING
Error in get(tname, envir = env) : recursive default argument reference
Error in as.environment(pos) : no item called "newtable" on the search list
Error: .onLoad failed in 'loadNamespace' for 'methods'
Execution halted
* checking Rd \usage sections ... OK
* creating pgUtils-Ex.R ... OK
* checking examples ... OK
* creating pgUtils-manual.tex ... OK
* checking pgUtils-manual.tex ... OK

WARNING: There were 4 warnings, see
  /extra/loc/biocbuild/1.9d/Rpacks/pgUtils.Rcheck/00check.log
for details

pgUtils.Rcheck/00install.out:

* Installing *source* package 'pgUtils' ...
** R
** inst
** preparing package for lazy loading
Loading required package: Rdbi

Loading required package: RdbiPgSQL

** help
 >>> Building/Updating help pages for package 'pgUtils'
     Formats: text html latex example 
  AutoReference                     text    html    latex   example
  auto.fk.name                      text    html    latex   example
  auto.pk.name                      text    html    latex   example
  auto.pk.seq                       text    html    latex   example
  createDBTable                     text    html    latex   example
  createSequence                    text    html    latex
  dbColnames                        text    html    latex
  dbListDatabases                   text    html    latex
  dbListSequences                   text    html    latex
  deleteDBEntry                     text    html    latex   example
  do.log                            text    html    latex
  getRefAttribute-methods           text    html    latex
  getRefColumn-methods              text    html    latex
  getRefTable-methods               text    html    latex
  getSourceAttribute-methods        text    html    latex
  getSourceColumn-methods           text    html    latex
  insertIntoTable                   text    html    latex   example
  log.file                          text    html    latex
  log.level                         text    html    latex
  loggit                            text    html    latex   example
  searchIn                          text    html    latex   example
  updateDBTable                     text    html    latex   example
** building package indices ...
* DONE (pgUtils)