multiSampleComparisonClonalCN easy to fix

[tkcaccia]

A few issue easy to fix.

• multiSampleComparisonClonalCN does not pass the parameters SUBCLONES and FIXED_NORMAL_CELLS to the function pipelineCNA
• The image could be saved as svg instead png
• in the function plotOncoHeat the rows below are inverted

ggplot2::ggsave(file.path(output_dir, paste0(samp, "OncoHeat.png")), device = "png", plotHeatmapOncoHeat$gtable, width=w, height=h, dpi=300) 
dev.off()

They should be

dev.off()
ggplot2::ggsave(file.path(output_dir, paste0(samp, "OncoHeat.png")), device = "png", plotHeatmapOncoHeat$gtable, width=w, height=h, dpi=300) 

• plotTSNE need a control. I report this error

Error in data.frame(x = tsne$Y[, 1], y = tsne$Y[, 2], Subclones = pred) : 
  arguments imply differing number of rows: 0, 40
In addition: There were 50 or more warnings (use warnings() to see the first 50)

the possibility of passing the dimensions of pre-made unsupervised analysis (tSNE, UMAP, KODAMA) should be possible