Move application files under src directory. Update Readmes

- Remove callign asymmetric search script directly command.
  It doesn't work anymore on calling directly due to internal package
  import issues

src/main.py

@@ -0,0 +1,69 @@
+from typing import Optional
+from fastapi import FastAPI
+from search_type import asymmetric
+from processor.org_mode.org_to_jsonl import org_to_jsonl
+from utils.helpers import is_none_or_empty
+import argparse
+import pathlib
+import uvicorn
+
+app = FastAPI()
+
+
+@app.get('/search')
+def search(q: str, n: Optional[int] = 5, t: Optional[str] = 'notes'):
+    if q is None or q == '':
+        print(f'No query param (q) passed in API call to initiate search')
+        return {}
+
+    user_query = q
+    results_count = n
+
+    if t == 'notes':
+        # query notes
+        hits = asymmetric.query_notes(
+            user_query,
+            corpus_embeddings,
+            entries,
+            bi_encoder,
+            cross_encoder,
+            top_k)
+
+        # collate and return results
+        return asymmetric.collate_results(hits, entries, results_count)
+
+    else:
+        return {}
+
+
+@app.get('/regenerate')
+def regenerate():
+    # Extract Entries, Generate Embeddings
+    extracted_entries, computed_embeddings, _, _, _ = asymmetric.setup(args.input_files, args.input_filter, args.compressed_jsonl, args.embeddings, regenerate=True, verbose=args.verbose)
+
+    # Now Update State
+    # update state variables after regeneration complete
+    # minimize time the application is in inconsistent, partially updated state
+    global corpus_embeddings
+    global entries
+    entries = extracted_entries
+    corpus_embeddings = computed_embeddings
+
+    return {'status': 'ok', 'message': 'regeneration completed'}
+
+
+if __name__ == '__main__':
+    # Setup Argument Parser
+    parser = argparse.ArgumentParser(description="Expose API for Semantic Search")
+    parser.add_argument('--input-files', '-i', nargs='*', help="List of org-mode files to process")
+    parser.add_argument('--input-filter', type=str, default=None, help="Regex filter for org-mode files to process")
+    parser.add_argument('--compressed-jsonl', '-j', type=pathlib.Path, default=pathlib.Path(".notes.jsonl.gz"), help="Compressed JSONL formatted notes file to compute embeddings from")
+    parser.add_argument('--embeddings', '-e', type=pathlib.Path, default=pathlib.Path(".notes_embeddings.pt"), help="File to save/load model embeddings to/from")
+    parser.add_argument('--regenerate', action='store_true', default=False, help="Regenerate embeddings from org-mode files. Default: false")
+    parser.add_argument('--verbose', action='count', default=0, help="Show verbose conversion logs. Default: 0")
+    args = parser.parse_args()
+
+    entries, corpus_embeddings, bi_encoder, cross_encoder, top_k = asymmetric.setup(args.input_files, args.input_filter, args.compressed_jsonl, args.embeddings, args.regenerate, args.verbose)
+
+    # Start Application Server
+    uvicorn.run(app)