Update Genome_database.py

Genome_database.py

@@ -6,8 +6,14 @@ import os
 import gzip
 import re
 
+class GenomeDatasetConfig(datasets.BuilderConfig):
+    def __init__(self, num_urls=None, **kwargs):
+        super(GenomeDatasetConfig, self).__init__(**kwargs)
+        self.num_urls = num_urls
+
 class GenomeDataset(datasets.GeneratorBasedBuilder):
     VERSION = datasets.Version("1.1.0")
+    BUILDER_CONFIG_CLASS = GenomeDatasetConfig
 
     def _info(self):
         return datasets.DatasetInfo(
@@ -26,11 +32,20 @@ class GenomeDataset(datasets.GeneratorBasedBuilder):
             })
         )
 
+    def load_genome_dataset(num_urls=None):
+    builder_kwargs = {}
+    if num_urls is not None:
+        builder_kwargs['config'] = GenomeDatasetConfig(num_urls=num_urls)
+    return load_dataset("GenomeDataset", builder_kwargs=builder_kwargs)
+    
     def _split_generators(self, dl_manager: datasets.DownloadManager) -> List[datasets.SplitGenerator]:
       urls_filepath = dl_manager.download_and_extract('urlfile.txt')
       with open(urls_filepath) as urls_file:
         downloaded_files = [line.rstrip() for line in urls_file]
 
+      num_urls = self.config.num_urls or len(downloaded_files)
+      downloaded_files = downloaded_files[:num_urls]
+
       train_files = downloaded_files[:int(len(downloaded_files) * 0.8)] # first 80% for training
       test_files = downloaded_files[int(len(downloaded_files) * 0.8):]  # last 20% for testing
 
@@ -79,8 +94,8 @@ class GenomeDataset(datasets.GeneratorBasedBuilder):
                                 elif feature.type == 'gene':
                                     continue
                                 else:
-                                    if feature.qualifiers.get('product') != ['NA']:
-                                        product = feature.qualifiers.get('product', ['NA'])[0]
+                                    if 'product' in feature.qualifiers:
+                                        product = feature.qualifiers.get('product')[0]
                                         region_type = 'coding'
                                         specific_class = feature.type
                                     else: