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Felipe Zapata  committed e526ef1

Add import function from biolite and fix genetree.comands.sh

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  • Parent commits 636b41c
  • Branches issue-61

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File agalma/genetree.py

 from biolite import report
 from biolite import utils
 from biolite import wrappers
+from biolite import config
 
 from biolite.pipeline import Pipeline
 
 		for phylip in glob.glob(os.path.join(phylip_dir, '*.phy')):
 			basename = os.path.splitext(os.path.basename(phylip))[0]
 			print >>f, '{0} {1} {2} {3} {4} {5} -T {6}'.format(
-				config.get_command('raxmlHPC-PTHREADS')[0], phylip, basename, model, 
+				config.get_command('raxml')[0], phylip, basename, model, 
 				all_trees_dir, raxml_flags, config.get_resource('threads'))
 	# Run RAxML
 	wrappers.Parallel(