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Package 54/187 | OS | Arch | BUILD | CHECK | BUILD BIN |
gaggle1.1.0Paul Shannon | Linux (SUSE 9.2) | x86_64 | OK | ERROR | |
Linux (SUSE 9.2) | i686 | OK | WARNINGS | ||
Solaris 2.9 | sparc | OK | ERROR | ||
Linux (SUSE 10.0) | x86_64 | OK | ERROR | ||
Windows Server 2003 | x86_64 | OK | [ WARNINGS ] | OK |
Package: gaggle |
Version: 1.1.0 |
Command: D:\biocbld\1.9d\R\bin\R.exe CMD check gaggle_1.1.0.tar.gz |
RetCode: 0 |
Time: 103.2 seconds |
Status: WARNINGS |
CheckDir: gaggle.Rcheck |
Warnings: 5 |
* checking for working latex ... OK * using log directory 'D:/biocbld/1.9d/Rpacks/gaggle.Rcheck' * using R version 2.4.0 Under development (unstable) (2006-06-04 r38279) * checking for file 'gaggle/DESCRIPTION' ... OK * this is package 'gaggle' version '1.1.0' * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'gaggle' 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 syntax errors ... OK * checking R files for non-ASCII characters ... OK * checking R files for library.dynam ... OK * checking S3 generic/method consistency ... WARNING Failed to connect to Gaggle Boss at rmi://localhost/gaggle: Connection refused to host: localhost; nested exception is: java.net.ConnectException: Connection refused: connect Possible causes: 1) You forgot to start a Gaggle Boss. 2) You are using an out-of-date Gaggle Boss. java.lang.NullPointerException at org.systemsbiology.gaggle.geese.rShell.RShellGoose.getGeeseNames(RShellGoose.java:731) tools::checkS3methods(package = "gaggle") See section 'Generic functions and methods' of the 'Writing R Extensions' manual. * checking replacement functions ... WARNING Failed to connect to Gaggle Boss at rmi://localhost/gaggle: Connection refused to host: localhost; nested exception is: java.net.ConnectException: Connection refused: connect Possible causes: 1) You forgot to start a Gaggle Boss. 2) You are using an out-of-date Gaggle Boss. java.lang.NullPointerException at org.systemsbiology.gaggle.geese.rShell.RShellGoose.getGeeseNames(RShellGoose.java:731) tools::checkReplaceFuns(package = "gaggle") In R, the argument of a replacement function which corresponds to the right hand side must be named 'value'. * checking foreign function calls ... WARNING Failed to connect to Gaggle Boss at rmi://localhost/gaggle: Connection refused to host: localhost; nested exception is: java.net.ConnectException: Connection refused: connect Possible causes: 1) You forgot to start a Gaggle Boss. 2) You are using an out-of-date Gaggle Boss. java.lang.NullPointerException at org.systemsbiology.gaggle.geese.rShell.RShellGoose.getGeeseNames(RShellGoose.java:731) tools::checkFF(package = "gaggle") See section 'System and foreign language interfaces' of the 'Writing R Extensions' manual. * checking Rd files ... OK * checking for missing documentation entries ... WARNING Failed to connect to Gaggle Boss at rmi://localhost/gaggle: Connection refused to host: localhost; nested exception is: java.net.ConnectException: Connection refused: connect Possible causes: 1) You forgot to start a Gaggle Boss. 2) You are using an out-of-date Gaggle Boss. java.lang.NullPointerException at org.systemsbiology.gaggle.geese.rShell.RShellGoose.getGeeseNames(RShellGoose.java:731) tools::undoc(package = "gaggle") All user-level objects in a package should have documentation entries. See chapter 'Writing R documentation files' in manual 'Writing R Extensions'. * checking for code/documentation mismatches ... WARNING Failed to connect to Gaggle Boss at rmi://localhost/gaggle: Connection refused to host: localhost; nested exception is: java.net.ConnectException: Connection refused: connect Possible causes: 1) You forgot to start a Gaggle Boss. 2) You are using an out-of-date Gaggle Boss. java.lang.NullPointerException at org.systemsbiology.gaggle.geese.rShell.RShellGoose.getGeeseNames(RShellGoose.java:731) tools::codoc(package = "gaggle") Failed to connect to Gaggle Boss at rmi://localhost/gaggle: Connection refused to host: localhost; nested exception is: java.net.ConnectException: Connection refused: connect Possible causes: 1) You forgot to start a Gaggle Boss. 2) You are using an out-of-date Gaggle Boss. java.lang.NullPointerException at org.systemsbiology.gaggle.geese.rShell.RShellGoose.getGeeseNames(RShellGoose.java:731) tools::codocData(package = "gaggle") Failed to connect to Gaggle Boss at rmi://localhost/gaggle: Connection refused to host: localhost; nested exception is: java.net.ConnectException: Connection refused: connect Possible causes: 1) You forgot to start a Gaggle Boss. 2) You are using an out-of-date Gaggle Boss. java.lang.NullPointerException at org.systemsbiology.gaggle.geese.rShell.RShellGoose.getGeeseNames(RShellGoose.java:731) tools::codocClasses(package = "gaggle") * checking Rd \usage sections ... OK * creating gaggle-Ex.R ... OK * checking examples ... OK * checking package vignettes in 'inst/doc' ... OK * creating gaggle-manual.tex ... OK * checking gaggle-manual.tex ... OK WARNING: There were 5 warnings, see D:/biocbld/1.9d/Rpacks/gaggle.Rcheck/00check.log for details
gaggle.Rcheck/00install.out:
installing R.css in D:/biocbld/1.9d/Rpacks/gaggle.Rcheck ---------- Making package gaggle ------------ adding build stamp to DESCRIPTION installing NAMESPACE file and metadata installing R files installing inst files installing man source files installing indices installing help >>> Building/Updating help pages for package 'gaggle' Formats: text html latex example chm broadcast text html latex chm geese text html latex chm getCluster text html latex chm getHashMap text html latex chm getMatrix text html latex chm getNameList text html latex chm getNetwork text html latex chm getSpecies text html latex chm getTargetGoose text html latex chm hideGoose text html latex chm setSpecies text html latex chm setTargetGoose text html latex chm showGoose text html latex chm testGagglePackage text html latex chm Microsoft HTML Help Compiler 4.74.8702 Compiling d:\biocbld\1.9d\Rpacks\gaggle.Rcheck\00_pkg_src\gaggle\chm\gaggle.chm Compile time: 0 minutes, 0 seconds 15 Topics 64 Local links 0 Internet links 1 Graphic Created d:\biocbld\1.9d\Rpacks\gaggle.Rcheck\00_pkg_src\gaggle\chm\gaggle.chm, 23,303 bytes Compression decreased file by 7,161 bytes. preparing package gaggle for lazy loading adding MD5 sums * DONE (gaggle)