diff --git a/Dockerfile b/Dockerfile index cb59a7e..73a4ba2 100644 --- a/Dockerfile +++ b/Dockerfile @@ -27,9 +27,7 @@ FROM bioc_base COPY MeDUSA MeDUSA WORKDIR MeDUSA RUN chown rstudio /home/rstudio/*.xml -RUN R -e 'devtools::document()' -RUN R -e 'devtools::test()' -RUN R -e 'devtools::install(dependencies="never")' +RUN R -e 'devtools::check()' ### TO BUILD # docker build . -f Dockerfile -t lacdr/medusa diff --git a/MeDUSA/R/3_mz_subtraction.R b/MeDUSA/R/3_mz_subtraction.R index 22b9de2..ba4fd41 100644 --- a/MeDUSA/R/3_mz_subtraction.R +++ b/MeDUSA/R/3_mz_subtraction.R @@ -34,10 +34,10 @@ #' #' To remove values from "samples" that are lower than "blanks" * "threshold" #' -#' sample_mz <- MeDUSA::mztools_filter(input_mzObj,metadata,"blanks","type",F) -#' subtract_mz <- MeDUSA::mztools_filter(input_mzObj,metadata,"blanks","type",T) +#' sample_mz_obj <- MeDUSA::mztools_filter(input_mzObj,metadata,"blanks","type",F) +#' subtract_mz_obj <- MeDUSA::mztools_filter(input_mzObj,metadata,"blanks","type",T) #' -#' mz_subtraction(input_mz_obj, samples_meta, blanks_meta, threshold = "5" ) +#' mz_subtraction(sample_mz_obj, subtract_mz_obj, threshold = 5 ) # #' @export mz_subtraction <- function(sample_mz_obj, subtract_mz_obj , method = mean, threshold = 3) {