Added some input sanitization.

Author: StuntsPT

.eric5project/4Pipe4.e4q

@@ -1,6 +1,6 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!DOCTYPE UserProject SYSTEM "UserProject-4.0.dtd">
 <!-- eric5 user project file for project 4Pipe4 -->
-<!-- Saved: 2014-11-29, 00:13:20 -->
+<!-- Saved: 2014-11-30, 00:33:24 -->
 <!-- Copyright (C) 2014 Francisco Pina-Martins, f.pinamartins@gmail.com -->
 <UserProject version="4.0"/>

.eric5project/4Pipe4.e4t

@@ -1,7 +1,7 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!DOCTYPE Tasks SYSTEM "Tasks-5.1.dtd">
 <!-- eric5 tasks file for project 4Pipe4 -->
-<!-- Saved: 2014-11-29, 00:13:20 -->
+<!-- Saved: 2014-11-30, 00:33:24 -->
 <Tasks version="5.1">
   <ProjectScanFilter></ProjectScanFilter>
 </Tasks>

BAM_to_TCS.py

@@ -119,6 +119,7 @@ def TCSwriter(bamfile_name):
             TCS.write(TCS_line)
 
     TCS.close()
+    bamfile.close()
 
 
 def covs_and_quals(bases):