Switch back to dense layer size 32 from 16

openvax · Nov 30, 2017 · d65f774 · d65f774
1 parent bdee833
commit d65f774
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Showing 11 changed files with 10 additions and 62 deletions.
diff --git a/downloads-generation/models_class1/hyperparameters.yaml b/downloads-generation/models_class1/hyperparameters.yaml
@@ -42,9 +42,7 @@
 ],
 "activation": "relu",
 "output_activation": "sigmoid",
-"layer_sizes": [
-    16
-],
+"layer_sizes": [32],
 "dense_layer_l1_regularization": 0.001,
 "batch_normalization": false,
 "dropout_probability": 0.0,

diff --git a/downloads-generation/models_class1_experiments1/GENERATE.sh b/downloads-generation/models_class1_experiments1/GENERATE.sh
@@ -40,7 +40,7 @@ time mhcflurry-class1-train-allele-specific-models \
     --allele $ALLELES 2>&1 | tee -a LOG.standard.txt &
 
 # Model variations on qualitative + quantitative
-for mod in 0local_noL1 0local 2local widelocal dense8 dense32 dense64 noL1 onehot embedding
+for mod in 0local_noL1 0local 2local widelocal dense16 dense64 noL1 onehot embedding
 do
     cp $SCRIPT_DIR/hyperparameters-${mod}.yaml .
     mkdir models-${mod}

diff --git a/downloads-generation/models_class1_experiments1/hyperparameters-0local.yaml b/downloads-generation/models_class1_experiments1/hyperparameters-0local.yaml
@@ -37,7 +37,7 @@
 "activation": "relu",
 "output_activation": "sigmoid",
 "layer_sizes": [
-    16 
+    32
 ],
 "dense_layer_l1_regularization": 0.001,
 "batch_normalization": false,

diff --git a/downloads-generation/models_class1_experiments1/hyperparameters-0local_noL1.yaml b/downloads-generation/models_class1_experiments1/hyperparameters-0local_noL1.yaml
@@ -37,7 +37,7 @@
 "activation": "relu",
 "output_activation": "sigmoid",
 "layer_sizes": [
-    16
+    32
 ],
 "dense_layer_l1_regularization": 0.0,
 "batch_normalization": false,

diff --git a/downloads-generation/models_class1_experiments1/hyperparameters-2local.yaml b/downloads-generation/models_class1_experiments1/hyperparameters-2local.yaml
@@ -47,7 +47,7 @@
 "activation": "relu",
 "output_activation": "sigmoid",
 "layer_sizes": [
-   16 
+   32
 ],
 "dense_layer_l1_regularization": 0.001,
 "batch_normalization": false,

diff --git a/..._experiments1/hyperparameters-dense8.yaml → ...experiments1/hyperparameters-dense16.yaml b/..._experiments1/hyperparameters-dense8.yaml → ...experiments1/hyperparameters-dense16.yaml
@@ -42,7 +42,7 @@
 "activation": "relu",
 "output_activation": "sigmoid",
 "layer_sizes": [
-   8 
+   16
 ],
 "dense_layer_l1_regularization": 0.001,
 "batch_normalization": false,

diff --git a/downloads-generation/models_class1_experiments1/hyperparameters-dense32.yaml b/downloads-generation/models_class1_experiments1/hyperparameters-dense32.yaml
diff --git a/downloads-generation/models_class1_experiments1/hyperparameters-embedding.yaml b/downloads-generation/models_class1_experiments1/hyperparameters-embedding.yaml
@@ -43,7 +43,7 @@
 "activation": "relu",
 "output_activation": "sigmoid",
 "layer_sizes": [
-   16 
+   32
 ],
 "dense_layer_l1_regularization": 0.001,
 "batch_normalization": false,

diff --git a/downloads-generation/models_class1_experiments1/hyperparameters-noL1.yaml b/downloads-generation/models_class1_experiments1/hyperparameters-noL1.yaml
@@ -42,7 +42,7 @@
 "activation": "relu",
 "output_activation": "sigmoid",
 "layer_sizes": [
-   16 
+   32
 ],
 "dense_layer_l1_regularization": 0.0,
 "batch_normalization": false,

diff --git a/downloads-generation/models_class1_experiments1/hyperparameters-onehot.yaml b/downloads-generation/models_class1_experiments1/hyperparameters-onehot.yaml
@@ -42,7 +42,7 @@
 "activation": "relu",
 "output_activation": "sigmoid",
 "layer_sizes": [
-   16 
+   32
 ],
 "dense_layer_l1_regularization": 0.001,
 "batch_normalization": false,

diff --git a/downloads-generation/models_class1_experiments1/hyperparameters-widelocal.yaml b/downloads-generation/models_class1_experiments1/hyperparameters-widelocal.yaml
@@ -43,7 +43,7 @@
 "activation": "relu",
 "output_activation": "sigmoid",
 "layer_sizes": [
-   16 
+   32
 ],
 "dense_layer_l1_regularization": 0.001,
 "batch_normalization": false,