Implements ALStructure wrapper

Author: StuntsPT

structure_threader/argparser.py

@@ -97,7 +97,7 @@ def argument_parser(args):
     run_opts.add_argument("-R", dest="replicates", type=int, required=False,
                           help="Number of replicate runs for each value "
                           "of K (default:%(default)s).\nIgnored for "
-                          "fastStructure and MavericK",
+                          "fastStructure, MavericK and ALStructure",
                           metavar="int", default=20)
 
     io_opts.add_argument("-i", dest="infile", type=str, required=True,

structure_threader/structure_threader.py

@@ -290,6 +290,7 @@ def full_run(arg):
         wrapped_prog = "alstructure"
         arg.threads = 1
         arg.notests = True
+        arg.k_list = [x for x in arg.k_list if x != 1]
 
     structure_threader(wrapped_prog, arg)