Issue_4

Adding the code for Issue_4 as well as the nextflow workflow

src/PrimingProb_Final.py

@@ -60,7 +60,7 @@ class Probability:
             gff (file): Gff file contains all the output information
         """
         # count interactions per script through fasta ID (first line of fasta)
-        mycounter = open("./Docker-Files/transcript.fasta", "r")
+        mycounter = open("../inputs/transcript.fasta", "r")
 
         mycounter_list = []
 
@@ -157,7 +157,7 @@ class Probability:
                 final_list.append(para_list[ss])
             del para_list[0:counter_list[bb]]
 
-        gff = open("./output/Potential_Priming_sites.txt", "w+")  # gff file
+        gff = open("../inputs/Potential_Priming_sites.txt", "w+")  # gff file
 
         for ll in range(0, len(final_list)):
             gff.write(str(final_list[ll][0]) +