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.gitattributes

@@ -53,3 +53,5 @@ saved_model/**/* filter=lfs diff=lfs merge=lfs -text
 *.jpg filter=lfs diff=lfs merge=lfs -text
 *.jpeg filter=lfs diff=lfs merge=lfs -text
 *.webp filter=lfs diff=lfs merge=lfs -text
+textbooks/en/InternalMed_Harrison.jsonl filter=lfs diff=lfs merge=lfs -text
+textbooks/en/Surgery_Schwartz.jsonl filter=lfs diff=lfs merge=lfs -text

medqa_corpus_en.py

@@ -117,7 +117,6 @@ def get_med_qa_textbooks(location, subset_name):
                     yield json.loads(line)
 
 
-# TODO: Name of the dataset usually matches the script name with CamelCase instead of snake_case
 class MedQACorpus(datasets.GeneratorBasedBuilder):
     """MedQA Textbook (English) with emphasis on domain of Clinical Medicine and other subsets."""
 
@@ -150,12 +149,22 @@ class MedQACorpus(datasets.GeneratorBasedBuilder):
     def _split_generators(self, dl_manager):
         urls = _URLS[0]
         data_dir = Path(dl_manager.download_and_extract(urls))
-        self.base_dir = data_dir / "data_clean" / "textbooks" / "en"
+        self.base_dir = data_dir / "textbooks" / "en"
 
         return [
             datasets.SplitGenerator(name=datasets.Split.TRAIN)
         ]
 
     def _generate_examples(self):
+        print(f"Generating examples in {self.base_dir} under {self.config.name}")
         for key, record in enumerate(get_med_qa_textbooks(self.base_dir, self.config.name)):
             yield key, record
+
+# if __name__ == '__main__':
+#     c = MedQACorpus()
+#     c.base_dir = Path('/home/chimezie/Projects/Oori/medical_llm/MedQACorpus/textbooks/en')
+#     c.config.name = "basic_biology"
+#     for k, r in c._generate_examples():
+#         print(k, r)
+#         break
+#

textbooks/en/InternalMed_Harrison.jsonl

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:9a4eb18276b36e916300cc8095a52f08529c5f22405a2595539e465593a656ce
+size 23687472

textbooks/en/Surgery_Schwartz.jsonl

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:8a75e5c2a1c6ab533c9e06c6eb6153e2c08f9f41b1e3c443056a91b07e07575f
+size 12089605