'archive': fix bug with logging file for 'staging' to 'final' archive.

Author: pjbriggs

auto_process_ngs/commands/archive_cmd.py

@@ -488,14 +488,14 @@ def archive(ap,archive_dir=None,platform=None,year=None,
         # Add to logging file
         if logging_file is not None:
             print(f"Adding details to logging file: {logging_file}")
-            run_details = report_concise(ap)
+            run_details = report_concise(AutoProcess(os.path.join(archive_dir, final_dest)))
             log_data_cmd = Command("log_seq_data.sh",
                                    logging_file,
                                    "-u",
                                    os.path.join(archive_dir,final_dest),
                                    run_details)
+            print(f"Running {log_data_cmd}")
             if not dry_run:
-                print(f"Running {log_data_cmd}")
                 status = log_data_cmd.run_subprocess()
                 if status != 0:
                     logger.warning(f"Logging run to {logging_file} failed "