fix cage file path naming
Browse files
genomics-long-range-benchmark.py
CHANGED
|
@@ -202,24 +202,24 @@ class CagePredictionHandler(GenomicLRATaskHandler):
|
|
| 202 |
self.reference_genome = Fasta(reference_genome_file, one_based_attributes=False)
|
| 203 |
|
| 204 |
self.coordinate_csv_file = dl_manager.download_and_extract(
|
| 205 |
-
"
|
| 206 |
)
|
| 207 |
|
| 208 |
train_file_dict = {}
|
| 209 |
for train_key, train_file in self.generate_npz_filenames(
|
| 210 |
-
"train", self.NUM_TRAIN, folder="
|
| 211 |
):
|
| 212 |
train_file_dict[train_key] = dl_manager.download(train_file)
|
| 213 |
|
| 214 |
test_file_dict = {}
|
| 215 |
for test_key, test_file in self.generate_npz_filenames(
|
| 216 |
-
"test", self.NUM_TEST, folder="
|
| 217 |
):
|
| 218 |
test_file_dict[test_key] = dl_manager.download(test_file)
|
| 219 |
|
| 220 |
valid_file_dict = {}
|
| 221 |
for valid_key, valid_file in self.generate_npz_filenames(
|
| 222 |
-
"valid", self.NUM_VALID, folder="
|
| 223 |
):
|
| 224 |
valid_file_dict[valid_key] = dl_manager.download(valid_file)
|
| 225 |
|
|
|
|
| 202 |
self.reference_genome = Fasta(reference_genome_file, one_based_attributes=False)
|
| 203 |
|
| 204 |
self.coordinate_csv_file = dl_manager.download_and_extract(
|
| 205 |
+
"cage_prediction/sequences_coordinates.csv"
|
| 206 |
)
|
| 207 |
|
| 208 |
train_file_dict = {}
|
| 209 |
for train_key, train_file in self.generate_npz_filenames(
|
| 210 |
+
"train", self.NUM_TRAIN, folder="cage_prediction/targets_subset"
|
| 211 |
):
|
| 212 |
train_file_dict[train_key] = dl_manager.download(train_file)
|
| 213 |
|
| 214 |
test_file_dict = {}
|
| 215 |
for test_key, test_file in self.generate_npz_filenames(
|
| 216 |
+
"test", self.NUM_TEST, folder="cage_prediction/targets_subset"
|
| 217 |
):
|
| 218 |
test_file_dict[test_key] = dl_manager.download(test_file)
|
| 219 |
|
| 220 |
valid_file_dict = {}
|
| 221 |
for valid_key, valid_file in self.generate_npz_filenames(
|
| 222 |
+
"valid", self.NUM_VALID, folder="cage_prediction/targets_subset"
|
| 223 |
):
|
| 224 |
valid_file_dict[valid_key] = dl_manager.download(valid_file)
|
| 225 |
|