Output RPM folds for all_si_22G.

This is an attempt to generate more interesting output when the genome
has extra transgenes.

small_RNA-seq/small_RNA-seq.snakefile

@@ -849,6 +849,8 @@ rule all:
         #expand(OPJ(feature_counts_dir, "summaries", "{lib}_{rep}_nb_non_structural.txt"), filtered_product, lib=LIBS, rep=REPS),
         #OPJ(mapping_dir, f"RPM_folds_{size_selected}", "all", "pisimi_mean_log2_RPM_fold.txt"),
         OPJ(mapping_dir, f"RPM_folds_{size_selected}", "all", f"pimi{SI_MIN}G_mean_log2_RPM_fold.txt"),
+        # To have RPM (folds) for transgenes (which are not in prot_si category)
+        OPJ(mapping_dir, f"RPM_folds_{size_selected}", "all", f"all_si_{SI_MIN}G_mean_log2_RPM_fold.txt"),
         # Not looking ad deseq2 results any more
         #expand(OPJ(mapping_dir, f"deseq2_{size_selected}", "all", "pisimi_{fold_type}.txt"), fold_type=["log2FoldChange"]),
         #expand(OPJ(mapping_dir, "RPM_folds_%s" % size_selected, "{contrast}", "{contrast}_{small_type}_RPM_folds.txt"), contrast=IP_CONTRASTS, small_type=DE_TYPES),