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diff --git a/ENCSR227FVE/cherimoya.fold_1.evaluate.json b/ENCSR227FVE/cherimoya.fold_1.evaluate.json new file mode 100644 index 0000000000000000000000000000000000000000..c3985f14d1863aa2d0bdda78e95621834be2ff0e --- /dev/null +++ b/ENCSR227FVE/cherimoya.fold_1.evaluate.json @@ -0,0 +1,77 @@ +{ + "adam_lr": 0.001, + "adam_wd": 0.0, + "batch_size": 64, + "chroms": [ + "chr12", + "chr17" + ], + "controls": null, + "device": "cuda", + "dtype": "bfloat16", + "early_stopping": 20, + "exclusion_lists": [ + "https://www.encodeproject.org/files/ENCFF940NTE/@@download/ENCFF940NTE.bed.gz" + ], + "expansion": 2, + "in_window": 2114, + "loci": [ + "train_peaks.fold_1.bed", + "valid_peaks.fold_1.bed" + ], + "lw_lr": 0.001, + "lw_momentum": 0.9, + "lw_wd": 0.0, + "max_epochs": 20, + "max_jitter": 0, + "model": "cherimoya.fold_1.torch", + "muon_lr": 0.025, + "muon_wd": 0.03, + "n_filters": 128, + "n_layers": 9, + "n_warmup_epochs": 2, + "name": "cherimoya.fold_1", + "negative_ratio": 0.25, + 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0000000000000000000000000000000000000000..d739c37e71d7b484dfb4f74a080954fa0ed22d4a --- /dev/null +++ b/ENCSR227FVE/cherimoya.fold_2.evaluate.json @@ -0,0 +1,76 @@ +{ + "adam_lr": 0.001, + "adam_wd": 0.0, + "batch_size": 64, + "chroms": [ + "chr22", + "chr7" + ], + "controls": null, + "device": "cuda", + "dtype": "bfloat16", + "early_stopping": 20, + "exclusion_lists": [ + "https://www.encodeproject.org/files/ENCFF940NTE/@@download/ENCFF940NTE.bed.gz" + ], + "expansion": 2, + "in_window": 2114, + "loci": [ + "train_peaks.fold_2.bed", + "valid_peaks.fold_2.bed" + ], + "lw_lr": 0.001, + "lw_momentum": 0.9, + "lw_wd": 0.0, + "max_epochs": 20, + "max_jitter": 0, + "model": "cherimoya.fold_2.torch", + "muon_lr": 0.025, + "muon_wd": 0.03, + "n_filters": 128, + "n_layers": 9, + "n_warmup_epochs": 2, + "name": "cherimoya.fold_2", + "negative_ratio": 0.25, + "negatives": [ + "train_nonpeaks.fold_2.bed", + "valid_nonpeaks.fold_2.bed" + ], + "num_workers": 1, + "out_window": 1000, + 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of file diff --git a/ENCSR661AMM/cherimoya.fold_1.evaluate.json b/ENCSR661AMM/cherimoya.fold_1.evaluate.json new file mode 100644 index 0000000000000000000000000000000000000000..0b5c8f95c0ebe31d7e824ade7c669179592f070d --- /dev/null +++ b/ENCSR661AMM/cherimoya.fold_1.evaluate.json @@ -0,0 +1,77 @@ +{ + "adam_lr": 0.001, + "adam_wd": 0.0, + "batch_size": 64, + "chroms": [ + "chr12", + "chr17" + ], + "controls": null, + "device": "cuda", + "dtype": "bfloat16", + "early_stopping": 20, + "exclusion_lists": [ + "https://www.encodeproject.org/files/ENCFF940NTE/@@download/ENCFF940NTE.bed.gz" + ], + "expansion": 2, + "in_window": 2114, + "loci": [ + "train_peaks.fold_1.bed", + "valid_peaks.fold_1.bed" + ], + "lw_lr": 0.001, + "lw_momentum": 0.9, + "lw_wd": 0.0, + "max_epochs": 20, + "max_jitter": 0, + "model": "cherimoya.fold_1.torch", + "muon_lr": 0.025, + "muon_wd": 0.03, + "n_filters": 128, + "n_layers": 9, + "n_warmup_epochs": 2, + "name": "cherimoya.fold_1", + "negative_ratio": 0.25, + 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