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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: /home/biocbuild/1.9d/R/bin/R CMD check gaggle_1.1.0.tar.gz |
RetCode: 1 |
Time: 25.0 seconds |
Status: ERROR |
CheckDir: gaggle.Rcheck |
Warnings: NA |
* checking for working latex ... OK * using log directory '/home/biocbuild/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 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 R files for library.dynam ... OK * checking S3 generic/method consistency ... WARNING createObject.FindClass org/systemsbiology/gaggle/geese/rShell/RShellGoose failed Exception in thread "main" java.lang.InternalError at java.util.zip.Inflater.init(Native Method) at java.util.zip.Inflater.(Inflater.java:75) at java.util.zip.ZipFile.getInflater(ZipFile.java:375) at java.util.zip.ZipFile.getInputStream(ZipFile.java:320) at java.util.zip.ZipFile.getInputStream(ZipFile.java:286) at java.util.jar.JarFile.hasClassPathAttribute(JarFile.java:462) at java.util.jar.JavaUtilJarAccessImpl.jarFileHasClassPathAttribute(JavaUtilJarAccessImpl.java:15) at sun.misc.URLClassPath$JarLoader.getClassPath(URLClassPath.java:809) at sun.misc.URLClassPath.getLoader(URLClassPath.java:293) at sun.misc.URLClassPath.getResource(URLClassPath.java:160) at java.net.URLClassLoader$1.run(URLClassLoader.java:192) at java.security.AccessController.doPrivileged(Native Method) at java.net.URLClassLoader.findClass(URLClassLoader.java:188) at java.lang.ClassLoader.loadClass(ClassLoader.java:306) at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:268) at java.lang.ClassLoader.loadClass(ClassLoader.java:251) at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:319) Error: package/namespace load failed for 'gaggle' Call sequence: 2: stop(gettextf("package/namespace load failed for '%s'", libraryPkgName(package)), call. = FALSE, domain = NA) 1: library(package, lib.loc = lib.loc, character.only = TRUE, verbose = FALSE) Execution halted See section 'Generic functions and methods' of the 'Writing R Extensions' manual. * checking replacement functions ... WARNING createObject.FindClass org/systemsbiology/gaggle/geese/rShell/RShellGoose failed Exception in thread "main" java.lang.InternalError at java.util.zip.Inflater.init(Native Method) at java.util.zip.Inflater. (Inflater.java:75) at java.util.zip.ZipFile.getInflater(ZipFile.java:375) at java.util.zip.ZipFile.getInputStream(ZipFile.java:320) at java.util.zip.ZipFile.getInputStream(ZipFile.java:286) at java.util.jar.JarFile.hasClassPathAttribute(JarFile.java:462) at java.util.jar.JavaUtilJarAccessImpl.jarFileHasClassPathAttribute(JavaUtilJarAccessImpl.java:15) at sun.misc.URLClassPath$JarLoader.getClassPath(URLClassPath.java:809) at sun.misc.URLClassPath.getLoader(URLClassPath.java:293) at sun.misc.URLClassPath.getResource(URLClassPath.java:160) at java.net.URLClassLoader$1.run(URLClassLoader.java:192) at java.security.AccessController.doPrivileged(Native Method) at java.net.URLClassLoader.findClass(URLClassLoader.java:188) at java.lang.ClassLoader.loadClass(ClassLoader.java:306) at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:268) at java.lang.ClassLoader.loadClass(ClassLoader.java:251) at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:319) Error: package/namespace load failed for 'gaggle' Call sequence: 2: stop(gettextf("package/namespace load failed for '%s'", libraryPkgName(package)), call. = FALSE, domain = NA) 1: library(package, lib.loc = lib.loc, character.only = TRUE, verbose = FALSE) Execution halted In R, the argument of a replacement function which corresponds to the right hand side must be named 'value'. * checking foreign function calls ... WARNING createObject.FindClass org/systemsbiology/gaggle/geese/rShell/RShellGoose failed Exception in thread "main" java.lang.InternalError at java.util.zip.Inflater.init(Native Method) at java.util.zip.Inflater. (Inflater.java:75) at java.util.zip.ZipFile.getInflater(ZipFile.java:375) at java.util.zip.ZipFile.getInputStream(ZipFile.java:320) at java.util.zip.ZipFile.getInputStream(ZipFile.java:286) at java.util.jar.JarFile.hasClassPathAttribute(JarFile.java:462) at java.util.jar.JavaUtilJarAccessImpl.jarFileHasClassPathAttribute(JavaUtilJarAccessImpl.java:15) at sun.misc.URLClassPath$JarLoader.getClassPath(URLClassPath.java:809) at sun.misc.URLClassPath.getLoader(URLClassPath.java:293) at sun.misc.URLClassPath.getResource(URLClassPath.java:160) at java.net.URLClassLoader$1.run(URLClassLoader.java:192) at java.security.AccessController.doPrivileged(Native Method) at java.net.URLClassLoader.findClass(URLClassLoader.java:188) at java.lang.ClassLoader.loadClass(ClassLoader.java:306) at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:268) at java.lang.ClassLoader.loadClass(ClassLoader.java:251) at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:319) Error: package/namespace load failed for 'gaggle' Call sequence: 2: stop(gettextf("package/namespace load failed for '%s'", libraryPkgName(package)), call. = FALSE, domain = NA) 1: library(package, lib.loc = lib.loc, character.only = TRUE, verbose = FALSE) Execution halted See section 'System and foreign language interfaces' of the 'Writing R Extensions' manual. * checking Rd files ... OK * checking for missing documentation entries ... ERROR Error: package/namespace load failed for 'gaggle'
gaggle.Rcheck/00install.out:
* Installing *source* package 'gaggle' ... ** R ** inst ** preparing package for lazy loading Loading required package: rJava Loading required package: graph Loading required package: Ruuid Loading required package: Ruuid ** help >>> Building/Updating help pages for package 'gaggle' Formats: text html latex example broadcast text html latex geese text html latex getCluster text html latex getHashMap text html latex getMatrix text html latex getNameList text html latex getNetwork text html latex getSpecies text html latex getTargetGoose text html latex hideGoose text html latex setSpecies text html latex setTargetGoose text html latex showGoose text html latex testGagglePackage text html latex ** building package indices ... * DONE (gaggle)