Commit 614ae91c authored by Christoffer Flensburg's avatar Christoffer Flensburg

Fixed a little bug.

parent a762d716
###########################################################
#
# This file reproduces the figures in
......@@ -95,20 +94,15 @@ cnaParts = unique(names(AMLASCATcnas))
donors = donors[donors %in% cnaParts]
amlDonors = donors
#some setup
plotDir = 'plots'
superFreq:::ensureDirectoryExists(plotDir)
#global that can redirect log output, but let's just send to cat here. Used in some internal superFreq functions.
catLog = cat
assign("catLog", cat, envir = .GlobalEnv)
#these two are normally set dynamically from the data. Doesn't matter here as we don't do any CNA calling in this script, so set to dummy values for internal functions to work.
assign(".systematicVariance", 0, envir = .GlobalEnv)
assign(".variantLoss", 0, envir = .GlobalEnv)
#setup plot directory
plotDir = 'plots'
superFreq:::ensureDirectoryExists(plotDir)
......
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