* using log directory 'd:/Rcompile/CRANpkg/local/3.3/BatchExperiments.Rcheck' * using R version 3.3.2 (2016-10-31) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * checking for file 'BatchExperiments/DESCRIPTION' ... OK * this is package 'BatchExperiments' version '1.4.1' * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking whether package 'BatchExperiments' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over 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 package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking use of S3 registration ... OK * checking dependencies in R code ... NOTE Unexported objects imported by ':::' calls: 'BatchJobs:::addIntModulo' 'BatchJobs:::buffer' 'BatchJobs:::checkDir' 'BatchJobs:::checkId' 'BatchJobs:::checkIds' 'BatchJobs:::checkPart' 'BatchJobs:::createShardedDirs' 'BatchJobs:::dbConnectToJobsDB' 'BatchJobs:::dbCreateJobStatusTable' 'BatchJobs:::dbDoQuery' 'BatchJobs:::dbFindDone' 'BatchJobs:::dbFindRunning' 'BatchJobs:::dbRemoveJobs' 'BatchJobs:::dbSelectWithIds' 'BatchJobs:::getJobDirs' 'BatchJobs:::getJobInfoInternal' 'BatchJobs:::getKillJob' 'BatchJobs:::getListJobs' 'BatchJobs:::getRandomSeed' 'BatchJobs:::getResult' 'BatchJobs:::isRegistryDir' 'BatchJobs:::makeRegistryInternal' 'BatchJobs:::saveRegistry' 'BatchJobs:::seeder' 'BatchJobs:::syncRegistry' See the note in ?`:::` about the use of this operator. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE addExperiments.ExperimentRegistry: no visible global function definition for 'is' applyJobFunction.ExperimentRegistry: no visible global function definition for 'setNames' calcDynamic: no visible global function definition for 'setNames' checkExperimentRegistry: no visible global function definition for 'head' dbSummarizeExperiments: no visible global function definition for 'setNames' designIterator: no visible global function definition for 'setNames' getIndex : exprToIndex: no visible global function definition for 'capture.output' getProblemFilePaths: no visible global function definition for 'setNames' updateRegistry.ExperimentRegistry: no visible global function definition for 'packageVersion' Undefined global functions or variables: capture.output head is packageVersion setNames Consider adding importFrom("methods", "is") importFrom("stats", "setNames") importFrom("utils", "capture.output", "head", "packageVersion") to your NAMESPACE file (and ensure that your DESCRIPTION Imports field contains 'methods'). * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... [18s] OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... [55s] OK Running 'run-all.R' [54s] * checking PDF version of manual ... OK * DONE Status: 2 NOTEs