diff --git a/downloads-generation/models_class1/generate_hyperparameters.py b/downloads-generation/models_class1/generate_hyperparameters.py index 579e88da06581b5c5bfca9510b3093ebc80bd698..65491eafdbd38902096af3d5e3308b40b118b912 100644 --- a/downloads-generation/models_class1/generate_hyperparameters.py +++ b/downloads-generation/models_class1/generate_hyperparameters.py @@ -64,8 +64,8 @@ base_hyperparameters = { grid = [] for train_subset in ["all", "quantitative"]: - for minibatch_size in [128, 512]: - for dense_layer_size in [8, 16, 32, 64, 128]: + for minibatch_size in [32]: + for dense_layer_size in [8, 16, 32, 64]: for l1 in [0.0, 0.001]: for num_lc in [0, 1, 2]: for lc_kernel_size in [3, 5]: diff --git a/downloads-generation/models_class1_unselected/GENERATE.sh b/downloads-generation/models_class1_unselected/GENERATE.sh index a3cdb5c0fa5e36e88407e1caacc5b22bb2c0f042..f9f3545cf868663076704c739a848239703c5389 100755 --- a/downloads-generation/models_class1_unselected/GENERATE.sh +++ b/downloads-generation/models_class1_unselected/GENERATE.sh @@ -38,6 +38,7 @@ PROCESSORS=$(getconf _NPROCESSORS_ONLN) echo "Detected processors: $PROCESSORS" time mhcflurry-class1-train-allele-specific-models \ + --allele HLA-A*02:01 HLA-A*01:01 HLA-A*03:01 HLA-A*11:01 HLA-A*24:02 HLA-B*07:02 HLA-B*15:01 \ --data "$(mhcflurry-downloads path data_curated)/curated_training_data.no_mass_spec.csv.bz2" \ --hyperparameters hyperparameters.yaml \ --out-models-dir models \