add modelname and outdir to ft2 treebuilder

Author: cactuskid

foldtree2/ft2treebuilder.py

@@ -34,6 +34,7 @@ def __init__ ( self , model , decoder_model = None, mafftmat = None , submat = N
 		self.raxml_path = raxml_path
 		self.raxmlng_path = raxml_path
 		self.modelname = model.split('/')[-1].split('.')[0]
+		
 		if charmaps is None:
 			self.rev_replace_dict_ord = { ord(v):ord(k) for k,v in self.replace_dict.items() }
 			self.raxml_path = raxml_path
@@ -666,9 +667,10 @@ def main():
 
 	if args.outdir is not None:
 		if not os.path.exists(args.outdir):
-			os.makedirs(args.outdir)
+			os.makedirs(args.outdir , exist_ok=True)
+	
 	if args.output_prefix is None:
-		args.output_prefix = 'encoded'
+		args.output_prefix = os.path.join(args.outdir, args.model.split('/')[-1])
 	else:
 		if not args.output_prefix.endswith('_'):
 			args.output_prefix += '_'

foldtree2/notebooks/benchmarks/alphabet_Information_content_benchmark.ipynb

@@ -4091,7 +4091,7 @@
      "output_type": "stream",
      "text": [
       "\n",
-      "   Family: 1372175\n"
+      "   Family: 1058114\n"
      ]
     }
    ],