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updated running_plotting_scripts.R

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This commit is contained in:
Tanushree Tunstall 2021-09-07 11:16:41 +01:00
parent c9519b3b56
commit 686fd0cd80
24 changed files with 49 additions and 11 deletions
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8
scripts/plotting/get_plotting_dfs.R Normal file → Executable file
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@ -39,8 +39,8 @@ import_dirs(drug, gene)
#---------------------------
# call: plotting_data()
#---------------------------
if (!exists("infile_params") && exists("gene")){
#if (!is.character(infile_params) && exists("gene")){ # when running as cmd
#if (!exists("infile_params") && exists("gene")){
if (!is.character(infile_params) && exists("gene")){ # when running as cmd
#in_filename_params = paste0(tolower(gene), "_all_params.csv") #for pncA
in_filename_params = paste0(tolower(gene), "_comb_afor.csv") # part combined for gid
infile_params = paste0(outdir, "/", in_filename_params)
@ -67,8 +67,8 @@ cat("\nLigand distance cut off, colname:", LigDist_colname
#--------------------------------
# call: combining_dfs_plotting()
#--------------------------------
if (!exists("infile_metadata") && exists("gene")){
#if (!is.character(infile_metadata) && exists("gene")){ # when running as cmd
#if (!exists("infile_metadata") && exists("gene")){
if (!is.character(infile_metadata) && exists("gene")){ # when running as cmd
in_filename_metadata = paste0(tolower(gene), "_metadata.csv") # part combined for gid
infile_metadata = paste0(outdir, "/", in_filename_metadata)
cat("\nInput file for gene metadata not specified, assuming filename: ", infile_metadata, "\n")