Hi Mike, thank you for pointing out that there are other package which have the same situation.
Tobias Am 12.02.19 um 14:47 schrieb Mike Smith: > If you're sure these are false positives (and it looks like they are) > then you can use utils::globalVariables() outside of your function to > get rid of the note. It might also be worth pointing out that there > are also plenty of Bioconductor packages that don't do this and simply > have this mentioned in the check results e.g > http://bioconductor.org/checkResults/devel/bioc-LATEST/beadarray/malbec2-checksrc.html > > . > > Mike > > On Tue, 12 Feb 2019 at 08:35, web working <webwork...@posteo.de > <mailto:webwork...@posteo.de>> wrote: > > Hi, > > I am developing a Bioconductor package and can not get rid of some > warning messages. During devtools::check() I get the following > warning > messages: > > ... > summarizeDataFrame: no visible binding for global variable ‘name’ > summarizeDataFrame: no visible binding for global variable ‘gene’ > summarizeDataFrame: no visible binding for global variable ‘value’ > ... > > Here a short version of the function: > > #' Collapse rows with duplicated name column > #' > #' @param dat a \cite{tibble} with the columns name, gene and value > #' @importFrom plyr ddply > #' @import tibble > #' @return a \cite{tibble} > #' @export > #' > #' @examples > #' dat <- tibble(name = c(paste0("position", 1:5), paste0("position", > c(1:3))), gene = paste0("gene", 1:8), value = 1:8) > #' summarizeDataFrame(dat) > summarizeDataFrame <- function(dat){ > ddply(dat, "name", "summarize", > name=unique(name), > gene=paste(unique(gene), collapse = ","), > value=mean(value)) > } > > R interprets the "name", "gene" and "value" column names as variables > during the check. Does anyone has an idea how to change the syntax of > ddply or how to get rid of the warning message? > > Thanks in advance! > > Tobias > > _______________________________________________ > Bioc-devel@r-project.org <mailto:Bioc-devel@r-project.org> mailing > list > https://stat.ethz.ch/mailman/listinfo/bioc-devel > [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
