pseudo obigrep for tests

python/obitools3/obigrep.py

@@ -0,0 +1,51 @@
+import sys
+import argparse
+
+from obitools3.obidms._obidms import OBIDMS
+
+if __name__ == '__main__': 
+    
+    parser = argparse.ArgumentParser(description='Pseudo obigrep.')
+    
+    parser.add_argument('-V', '--view', dest='view', type=str,
+                       help='Name of the view that should be considered')    
+
+    parser.add_argument('-N', '--new_view', dest='new_view', type=str,
+                       help='Name of the new view that should be created')    
+    
+#     parser.add_argument('-k', '--key', dest='key', type=str,
+#                        help='Name of the key that should be considered')
+# 
+#     parser.add_argument('-c', '--comp', dest='comparison', type=int,
+#                        help='Comparison to be made: -1:< ; 0:== ; 1:>')
+# 
+#     parser.add_argument('-v', '--value', dest='value', type=object,
+#                        help='Value to be compared')
+
+    args = parser.parse_args()
+    
+    d = OBIDMS('tdms')
+    
+    #condition = 1
+    line_selec = []
+    
+    v = d.open_view(args.view)
+    
+    i = 0
+    for l in v :
+        if l['score'] > 350 : 
+            line_selec.append(i)
+        i+=1
+        
+    new_v = d.new_view(args.new_view, view_to_clone=v, line_selection=line_selec, view_type="NUC_SEQS_VIEW", comments="obigrep "+args.view+" to "+args.new_view) #args.key+" "+str(args.comparison)+" "+str(args.value)+" "+)
+
+    print("\n")
+    print(new_v.__repr__())
+
+    v.save_and_close()
+    new_v.save_and_close()
+    
+    d.close()
+
+    print("\nDone.")
+