Commit 459d1a28 authored by Holger Brandl's avatar Holger Brandl

inced commons dependencies

parent cd68fe72
......@@ -22,6 +22,7 @@ Options:
opts <- docopt(doc, commandArgs(TRUE)) ## does not work when spining
## florio_11b: setwd("/lustre/projects/bioinfo/holger/projects/florio_11b/cuffdiff/dge_report"); opts <- docopt(doc, "--constrasts contrasts.txt --pcutoff 0.01 /projects/bioinfo/holger/projects/florio_11b/cuffdiff")
# opts <- docopt(doc, "--undirected ..")
# opts <- docopt(doc, "..")
# opts <- docopt(doc, paste(Sys.getenv("DGE_PARAMS"), ".."))
## todo use commandArgs here!!
#opts <- docopt(doc, paste(Sys.getenv("DGE_PARAMS"), paste(commandArgs(TRUE), collapse=" ")))
......@@ -47,8 +48,8 @@ if(is.na(file.info(cuffdb_directory)$isdir)){
}
devtools::source_url("https://raw.githubusercontent.com/holgerbrandl/datautils/master/R/core_commons.R")
devtools::source_url("https://raw.githubusercontent.com/holgerbrandl/datautils/v1.8/R/ggplot_commons.R")
devtools::source_url("https://raw.githubusercontent.com/holgerbrandl/datautils/v1.10/R/core_commons.R")
devtools::source_url("https://raw.githubusercontent.com/holgerbrandl/datautils/v1.10/R/ggplot_commons.R")
devtools::source_url("https://raw.githubusercontent.com/holgerbrandl/datautils/master/R/bio/diffex_commons.R")
#+ results='asis', echo=FALSE
......
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