diff plot_barplot.R @ 0:a8e03ffaaedc draft

planemo upload for repository https://github.com/asaim/galaxytools/tree/master/tools/plot_barplot commit 74beefba9d138c892208b103b52e706ab4313a4a-dirty

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/plot_barplot.R	Mon Apr 18 10:35:54 2016 -0400
@@ -0,0 +1,61 @@
+library('getopt')
+
+option_specification = matrix(c(
+  'input_file', 'i', 2, 'character',
+  'output_pdf_file', 'p', 2, 'character',
+  'output_png_file', 'o', 2, 'character',
+  'output_svg_file', 's', 2, 'character',
+  'data_column', 'd', 2, 'integer',
+  'names_column', 'n', 2, 'integer',
+  'xlab', 'x', 2, 'character',
+  'col', 'c', 2, 'character',
+  'bottom_margin', 'b', 2, 'integer',
+  'left_margin', 'l', 2, 'integer',
+  'top_margin', 't', 2, 'integer',
+  'right_margin', 'r', 2, 'integer',
+  'header','y',2,'logical'
+), byrow=TRUE, ncol=4);
+
+options = getopt(option_specification);
+
+header = TRUE
+if(!is.null(options$header)) header = options$header
+
+data = read.table(options$input_file, sep = '\t', h = header)
+
+data_column = 2
+if(!is.null(options$data_column)) data_column = options$data_column
+names_column = 1
+if(!is.null(options$names_column)) names_column = options$names_column
+
+margin = c(5,19,1,1)
+if(!is.null(options$bottom_margin)) margin[1] = options$bottom_margin
+if(!is.null(options$left_margin)) margin[2] = options$left_margin
+if(!is.null(options$top_margin)) margin[3] = options$top_margin
+if(!is.null(options$right_margin)) margin[4] = options$right_margin
+
+xlab = ""
+if(!is.null(options$xlab)) xlab = options$xlab
+
+col = "grey"
+if(!is.null(options$col)) col = options$col
+
+plot_barplot <- function(){
+    par(las=2)
+    par(mar=margin)
+    barplot(data[, data_column], horiz = T, xlab = xlab, 
+        names.arg = data[, names_column], col = col, cex.names=0.7, 
+        cex.axis = 0.8)
+}
+
+if(!is.null(options$output_pdf_file)){
+    pdf(options$output_pdf_file)
+    plot_barplot()
+    dev.off()
+}
+
+if(!is.null(options$output_svg_file)){
+    svg(options$output_svg_file)
+    plot_barplot()
+    dev.off()
+}
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