test tweak

mhcflurry/class1_neural_network.py

@@ -81,7 +81,7 @@ class Class1NeuralNetwork(object):
         validation_split=0.1,
         early_stopping=True,
         minibatch_size=128,
-        random_negative_rate=0.2,
+        random_negative_rate=0.0,
         random_negative_constant=25,
         random_negative_affinity_min=20000.0,
         random_negative_affinity_max=50000.0,

test/test_train_and_related_commands.py

@@ -64,7 +64,6 @@ def run_and_check(n_jobs=0):
         "--allele", "HLA-A*02:01", "HLA-A*03:01",
         "--out-models-dir", models_dir,
         "--num-jobs", str(n_jobs),
-        "--ignore-inequalities",
     ]
     print("Running with args: %s" % args)
     subprocess.check_call(args)
@@ -117,7 +116,6 @@ def run_and_check_with_model_selection(n_jobs=1):
         "--allele", "HLA-A*02:01", "HLA-A*03:01",
         "--out-models-dir", models_dir1,
         "--num-jobs", str(n_jobs),
-        "--ignore-inequalities",
         "--held-out-fraction-reciprocal", "10",
         "--n-models", "1",
     ]