fix cage file path naming
Browse files
genomics-long-range-benchmark.py
CHANGED
@@ -202,24 +202,24 @@ class CagePredictionHandler(GenomicLRATaskHandler):
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self.reference_genome = Fasta(reference_genome_file, one_based_attributes=False)
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self.coordinate_csv_file = dl_manager.download_and_extract(
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-
"
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)
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train_file_dict = {}
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for train_key, train_file in self.generate_npz_filenames(
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"train", self.NUM_TRAIN, folder="
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):
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train_file_dict[train_key] = dl_manager.download(train_file)
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test_file_dict = {}
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for test_key, test_file in self.generate_npz_filenames(
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"test", self.NUM_TEST, folder="
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):
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test_file_dict[test_key] = dl_manager.download(test_file)
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valid_file_dict = {}
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for valid_key, valid_file in self.generate_npz_filenames(
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"valid", self.NUM_VALID, folder="
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):
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valid_file_dict[valid_key] = dl_manager.download(valid_file)
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self.reference_genome = Fasta(reference_genome_file, one_based_attributes=False)
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self.coordinate_csv_file = dl_manager.download_and_extract(
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+
"cage_prediction/sequences_coordinates.csv"
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)
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train_file_dict = {}
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for train_key, train_file in self.generate_npz_filenames(
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"train", self.NUM_TRAIN, folder="cage_prediction/targets_subset"
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):
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train_file_dict[train_key] = dl_manager.download(train_file)
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test_file_dict = {}
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for test_key, test_file in self.generate_npz_filenames(
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+
"test", self.NUM_TEST, folder="cage_prediction/targets_subset"
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):
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test_file_dict[test_key] = dl_manager.download(test_file)
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valid_file_dict = {}
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for valid_key, valid_file in self.generate_npz_filenames(
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+
"valid", self.NUM_VALID, folder="cage_prediction/targets_subset"
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):
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valid_file_dict[valid_key] = dl_manager.download(valid_file)
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