diff --git a/SigProfilerAssignment/decomposition.py b/SigProfilerAssignment/decomposition.py index 1748b34..583443f 100644 --- a/SigProfilerAssignment/decomposition.py +++ b/SigProfilerAssignment/decomposition.py @@ -92,6 +92,7 @@ def convert_PDF_to_PNG(input_file_name, output_directory, page_names): def generate_sample_reconstruction( cosmic_sigs, samples_input, + mtype, activities, output_dir, recon_output_types, @@ -102,7 +103,6 @@ def generate_sample_reconstruction( # both = pdf generation + png conversion # png = pdf generation + png conversion + pdf removal project = "test_run" - mtype = "96" final_pdf = PdfWriter() samples = samples_input.copy(deep=True) @@ -1137,7 +1137,6 @@ def spa_analyze( if ( isinstance(sample_reconstruction_plots, str) and sample_reconstruction_plots.lower() in recon_output_types - and mutation_type == "96" and signature_database is None ): ss_recon_odir = os.path.join( @@ -1153,6 +1152,7 @@ def spa_analyze( generate_sample_reconstruction( cosmic_sig_ref, genomes, + mutation_type, cosmic_activities, ss_recon_odir, sample_reconstruction_plots,