From 8afff39435df9df2dac44eaf47814f305bdd5a73 Mon Sep 17 00:00:00 2001 From: alsmith Date: Fri, 15 Nov 2024 16:03:19 +0000 Subject: [PATCH] fix(geo_submission): update processed_data_files handling to check for output file names --- seqnado/workflow/rules/geo_submission.smk | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/seqnado/workflow/rules/geo_submission.smk b/seqnado/workflow/rules/geo_submission.smk index d119187c..b7d05761 100644 --- a/seqnado/workflow/rules/geo_submission.smk +++ b/seqnado/workflow/rules/geo_submission.smk @@ -39,7 +39,9 @@ def get_symlinked_files(wc: Any = None) -> List[str]: - if processed_files := geo_files.processed_data_files['output_file_name'].tolist(): + processed_files = geo_files.processed_data_files['output_file_name'] + + if processed_files.any(): processed_files = [outdir / fn for fn in processed_files] else: processed_files = []