updated localrules for Snakefiles

PAQR/part_one.Snakefile

@@ -7,7 +7,7 @@ import os
 import numpy as np
 import yaml
 
-localrules: create_log_dir, merge_TIN_vals, TIN_assessment, plot_full_trans_TIN_distributions, all
+localrules: create_log_dir, bam_index, merge_TIN_vals, TIN_assessment, plot_full_trans_TIN_distributions, infer_valid_samples, all
 
 ################################################################################
 # define the target rule

PAQR/part_two.Snakefile

@@ -77,7 +77,6 @@ rule create_coverages:
 # infer used poly(A) sites based on the coverage profiles
 # and determine for those the relative usage
 #-------------------------------------------------------------------------------
-
 rule infer_relative_usage:
     input:
         coverages = lambda wildcards: expand(wildcards.study + "/coverages/{sample_na}.pkl", sample_na = [line.rstrip().split("\t")[0] for line in open(wildcards.study + "/no_bias_samples.out", "r").readlines()])