Hi, I'm trying to R CMD check a package, however I have hit a snag. There seems to be a problem with the creation of the /html files (the only file that's constructed here is the 00Index.html). I've tested each of the .Rd files independently with R CMD Rdconv, they all happily create html files without complaint.
R CMD check <package> gives the no warnings. I'm therefore curious why this hasn't created the html files for the package, I think I must be missing something. * using log directory /home/me/scratch/CellProfileR.Rcheck * using R version 2.12.2 (2011-02-25) * using platform: i686-pc-linux-gnu (32-bit) * using session charset: UTF-8 * checking for file CellProfileR/DESCRIPTION ... OK * checking extension type ... Package * this is package CellProfileR version 1.0 * checking package dependencies ... OK * checking if this is a source package ... OK * checking for executable files ... OK * checking whether package CellProfileR 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 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 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 ... NOTE prepare_Rd: CellProfile-R-internal.Rd:10: Dropping empty section \usage prepare_Rd: CellProfile-R-internal.Rd:12: Dropping empty section \arguments prepare_Rd: CellProfile-R-internal.Rd:22: Dropping empty section \value prepare_Rd: CellProfile-R-internal.Rd:25: Dropping empty section \note prepare_Rd: CellProfile-R-internal.Rd:23: Dropping empty section \references prepare_Rd: CellProfile-R-internal.Rd:29: Dropping empty section \seealso prepare_Rd: CellProfile-R-internal.Rd:30: Dropping empty section \examples prepare_Rd: CellProfile-R-package.Rd:43: Dropping empty section \seealso prepare_Rd: CellProfile-R-package.Rd:44: Dropping empty section \examples prepare_Rd: createUnifiedTable.Rd:59-61: Dropping empty section \note prepare_Rd: createUnifiedTable.Rd:53-55: Dropping empty section \references prepare_Rd: fileConnect.Rd:47-49: Dropping empty section \note prepare_Rd: fileConnect.Rd:41-43: Dropping empty section \references prepare_Rd: fileConnect.Rd:53-55: Dropping empty section \seealso prepare_Rd: loadTable.Rd:29-31: Dropping empty section \details prepare_Rd: loadTable.Rd:41-43: Dropping empty section \note prepare_Rd: loadTable.Rd:35-37: Dropping empty section \references prepare_Rd: mapMetadataToTable.Rd:53-55: Dropping empty section \note prepare_Rd: mapMetadataToTable.Rd:47-49: Dropping empty section \references prepare_Rd: mapMetadataToTable.Rd:59-61: Dropping empty section \seealso prepare_Rd: mySqlConnect.Rd:27-29: Dropping empty section \details prepare_Rd: mySqlConnect.Rd:39-41: Dropping empty section \note prepare_Rd: mySqlConnect.Rd:33-35: Dropping empty section \references prepare_Rd: mySqlConnect.Rd:43-45: Dropping empty section \seealso prepare_Rd: mySqlConnect.Rd:46: Dropping empty section \examples prepare_Rd: recastDatabaseTable.Rd:39-41: Dropping empty section \note prepare_Rd: recastDatabaseTable.Rd:36-38: Dropping empty section \author prepare_Rd: recastDatabaseTable.Rd:33-35: Dropping empty section \references prepare_Rd: recastDatabaseTable.Rd:45-47: Dropping empty section \seealso prepare_Rd: saveTable.Rd:20-22: Dropping empty section \details prepare_Rd: saveTable.Rd:30-32: Dropping empty section \note prepare_Rd: saveTable.Rd:24-26: Dropping empty section \references prepare_Rd: saveTable.Rd:36-38: Dropping empty section \seealso prepare_Rd: saveTable.Rd:39: Dropping empty section \examples prepare_Rd: splitTableOnVariable.Rd:18: Dropping empty section \details prepare_Rd: splitTableOnVariable.Rd:24-26: Dropping empty section \note prepare_Rd: splitTableOnVariable.Rd:20-22: Dropping empty section \references prepare_Rd: splitTableOnVariable.Rd:30-32: Dropping empty section \seealso prepare_Rd: sqLiteConnect.Rd:34-36: Dropping empty section \note prepare_Rd: sqLiteConnect.Rd:28-30: Dropping empty section \references prepare_Rd: sqLiteConnect.Rd:40-42: Dropping empty section \seealso * 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 data for non-ASCII characters ... OK * checking examples ... OK * checking PDF version of manual ... OK > sessionInfo() R version 2.12.2 (2011-02-25) Platform: i686-pc-linux-gnu (32-bit) locale: [1] LC_CTYPE=en_GB.utf8 LC_NUMERIC=C [3] LC_TIME=en_GB.utf8 LC_COLLATE=en_GB.utf8 [5] LC_MONETARY=C LC_MESSAGES=en_GB.utf8 [7] LC_PAPER=en_GB.utf8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_GB.utf8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] MASS_7.3-7 loaded via a namespace (and not attached): [1] tools_2.12.2 [[alternative HTML version deleted]]
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