Prepare abstracts

@@ -20,7 +20,7 @@ __author__ = 'CMendezC'
 # Execution:
 # Execution:
 # python3 prepare-abstracts.py
 # python3 prepare-abstracts.py
 # --inputPath /export/space1/users/compu2/bionlp/conditional-random-fields/data-sets
 # --inputPath /export/space1/users/compu2/bionlp/conditional-random-fields/data-sets
-# --inputFile text-annotated-abstracts-original.txt
+# --inputFile text-annotated-abstracts.txt
 # --outputPath /export/space1/users/compu2/bionlp/conditional-random-fields/data-sets/original
 # --outputPath /export/space1/users/compu2/bionlp/conditional-random-fields/data-sets/original
 # --dicPath /export/space1/users/compu2/bionlp/nlp-preprocessing-pipeline/dictionaries
 # --dicPath /export/space1/users/compu2/bionlp/nlp-preprocessing-pipeline/dictionaries
 # --dicFile genes.txt
 # --dicFile genes.txt
@@ -64,7 +64,7 @@ if __name__ == "__main__":
     with open(os.path.join(options.inputPath, options.inputFile), "r", encoding="utf-8", errors="replace") as iFile:
     with open(os.path.join(options.inputPath, options.inputFile), "r", encoding="utf-8", errors="replace") as iFile:
         print("Reading file..." + options.inputFile)
         print("Reading file..." + options.inputFile)
         for line in iFile:
         for line in iFile:
-            line = line.strip('\n')
+            line = line.strip('\r\n')
             for gene in reGene.findall(line):
             for gene in reGene.findall(line):
                 # print("genes: {}".format(gene))
                 # print("genes: {}".format(gene))
                 if gene not in hashGenes:
                 if gene not in hashGenes: