Fix bug in samples processed output

sc2ts/cli.py

@@ -301,12 +301,14 @@ def _run_extend(out_path, verbose, log_file, **params):
     resource_usage = summarise_usage(ts)
     logger.info(resource_usage)
     print("resources:", resource_usage, file=sys.stderr)
-    df = pd.DataFrame(
-        ts.metadata["sc2ts"]["daily_stats"][date]["samples_processed"]
-    ).set_index("scorpio")
-    del df["total_hmm_cost"]
-    df = df[list(df.columns)[::-1]].sort_values("total")
-    print(df, file=sys.stderr)
+    data = ts.metadata["sc2ts"]["daily_stats"][date]["samples_processed"]
+    if len(data) > 0:
+        df = pd.DataFrame(
+            ts.metadata["sc2ts"]["daily_stats"][date]["samples_processed"]
+        ).set_index("scorpio")
+        del df["total_hmm_cost"]
+        df = df[list(df.columns)[::-1]].sort_values("total")
+        print(df, file=sys.stderr)
 
 
 @click.command()
@@ -401,12 +403,16 @@ def infer(config_file, start, stop, force):
                 params.update(override_set["parameters"])
 
         base_ts = ts_file_pattern.format(date=date)
-        with cf.ProcessPoolExecutor(1) as executor:
-            future = executor.submit(
-                _run_extend, base_ts, log_level, log_file, **params
-            )
-            # Block and wait, raising exception if it occured
-            future.result()
+        if True:
+            _run_extend(base_ts, log_level, log_file, **params)
+
+        else:
+            with cf.ProcessPoolExecutor(1) as executor:
+                future = executor.submit(
+                    _run_extend, base_ts, log_level, log_file, **params
+                )
+                # Block and wait, raising exception if it occured
+                future.result()
 
 
 @click.command()