lionessPy saves file output regardless of 'save_single_network'

[jbeckman1]

Output from calling lionessPy is always saved to a folder 'lioness_output' regardless of what I enter into 'save_single_network' or 'save_dir'. I had interpreted setting 'save_single_network' to FALSE as preventing any output from being written into my working directory. Am I misunderstanding the scope of this argument?

[marouenbg]

Hi @jbeckman1 ,
Thank you for reporting this issue, I've updated lionessPy code to account for these parameters (#276). Please reinstall netZooR from the devel branch and let me know if this works.

[jbeckman1]

Hi @marouenbg , thanks for the quick reply. Unfortunately, I am still seeing a directory named lioness_output and the file lioness.npy regardless of those arguments. This was my test case from the example:

control_expression_file_path <- system.file("extdata", "expr10_reduced.txt", package = "netZooR", 
                                            mustWork = TRUE)
motif_file_path <- system.file("extdata", "chip_reduced.txt", package = "netZooR", mustWork = TRUE)
ppi_file_path <- system.file("extdata", "ppi_reduced.txt", package = "netZooR", mustWork = TRUE)

control_lioness_result <- lionessPy(expr_file = control_expression_file_path, 
                                    save_tmp = FALSE,
                                    motif_file = motif_file_path, 
                                    ppi_file = ppi_file_path, 
                                    modeProcess="union",
                                    start_sample=1, 
                                    end_sample=1, 
                                    precision="single", 
                                    save_single_network = FALSE, 
                                    save_dir = 'test')

[marouenbg]

My bad @jbeckman1, I pushed new code that should fix it #277

Let me know !

[jbeckman1]

Works perfectly! Thank you so much