Closed jbeckman1 closed 1 year ago
Hi @jbeckman1 ,
Thank you for reporting this issue, I've updated lionessPy code to account for these parameters (https://github.com/netZoo/netZooR/pull/276). Please reinstall netZooR from the devel
branch and let me know if this works.
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')
My bad @jbeckman1, I pushed new code that should fix it https://github.com/netZoo/netZooR/pull/277
Let me know !
Works perfectly! Thank you so much
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?