From a389225697d888de5e6a1cf2e8c40e322f65e2a4 Mon Sep 17 00:00:00 2001 From: Bora Uyar Date: Wed, 3 Jul 2024 19:54:02 +0200 Subject: [PATCH] replace DirectPredGCNN with GNNEarly for benchmarks --- .github/workflows/benchmarks.yml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/.github/workflows/benchmarks.yml b/.github/workflows/benchmarks.yml index 3deaf20..bfbe631 100644 --- a/.github/workflows/benchmarks.yml +++ b/.github/workflows/benchmarks.yml @@ -101,8 +101,8 @@ jobs: conda activate my_env flexynesis --data_path dataset2 --model_class MultiTripletNetwork --target_variables y --fusion_type early --hpo_iter 1 --features_min 50 --features_top_percentile 5 --log_transform False --data_types gex,meth --outdir . --prefix msi_triplet --early_stop_patience 3 --evaluate_baseline_performance False - - name: Run DirectPredGCNN + - name: Run GNNEarly shell: bash -l {0} run: | conda activate my_env - flexynesis --data_path dataset1 --model_class DirectPredGCNN --target_variables Erlotinib --fusion_type intermediate --hpo_iter 1 --features_min 50 --features_top_percentile 5 --log_transform False --data_types gex --outdir . --prefix erlotinib_direct --early_stop_patience 3 --use_loss_weighting False --evaluate_baseline_performance False --subsample 50 + flexynesis --data_path dataset1 --model_class GNNEarly --target_variables Erlotinib --fusion_type intermediate --hpo_iter 1 --features_min 50 --features_top_percentile 5 --log_transform False --data_types gex --outdir . --prefix erlotinib_direct --early_stop_patience 3 --use_loss_weighting False --evaluate_baseline_performance False --subsample 50