Mon Feb 11, 2019 5:42 pm by nkhanbham
We are now having problems in Cytofkit with the change in code post-Bioclite deprecation.
Previously we were using the following (and it worked)
source("https://bioconductor.org/biocLite.R")
biocLite("cytofkit")
install.packages("devtools")
devtools::install_github("RGLab/flowCore", ref = "trunk")
library("cytofkit")
cytofkit_GUI()
We have tried the new code from Bioconductor :
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("cytofkit", version = "3.8")
then
library("cytofkit")
There are multiple dependencies that flag up (Rccp, httpuv, BiocParallel, colorspace, ggplot2 which require separate installation. In the end the GUI command doesnt work.
cytofkit_GUI()
Error in cytofkit_GUI() : could not find function "cytofkit_GUI"
Its isnt clear whether we need more code in after the cytofkit install code before running the GUI command.
Can anyone help please?
NK