From 47a963be4edadb3b95ceeeef1b8070efffa339f2 Mon Sep 17 00:00:00 2001 From: mikejiang Date: Wed, 18 Nov 2020 14:50:23 -0800 Subject: [PATCH] rm deprecated arg --- vignettes/gates.Rmd | 2 +- vignettes/introduction.Rmd | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/vignettes/gates.Rmd b/vignettes/gates.Rmd index 65f654e..e7f5f5c 100644 --- a/vignettes/gates.Rmd +++ b/vignettes/gates.Rmd @@ -82,7 +82,7 @@ gs_update_channels(gs2, map = data.frame(old = c("B710-A") #redundant cs <- gs_cyto_data(gs3) -fr <- cs[[1]] +fr <- cs[[1, return = "flowFrame"]] new_col <- exprs(fr)[,8,drop=F] colnames(new_col) <- "channelA" fr <- fr_append_cols(fr, new_col) diff --git a/vignettes/introduction.Rmd b/vignettes/introduction.Rmd index c3f9b79..e48198d 100644 --- a/vignettes/introduction.Rmd +++ b/vignettes/introduction.Rmd @@ -70,7 +70,7 @@ new_col <- exprs(fr)[,8,drop=F] colnames(new_col) <- "channelA" fr <- fr_append_cols(fr, new_col) write.FCS(fr, files[2]) -cqc_data[[2]] <- load_cytoframe_from_fcs(thisfile, is_h5 = TRUE) +cqc_data[[2]] <- load_cytoframe_from_fcs(thisfile) #typo cf <- cqc_data[[2]]