diff options
Diffstat (limited to 'bh20seqanalyzer')
| -rw-r--r-- | bh20seqanalyzer/main.py | 19 |
1 files changed, 11 insertions, 8 deletions
diff --git a/bh20seqanalyzer/main.py b/bh20seqanalyzer/main.py index f2bb234..f18a93a 100644 --- a/bh20seqanalyzer/main.py +++ b/bh20seqanalyzer/main.py @@ -364,17 +364,20 @@ def main(): logging.info("Starting up, monitoring %s for uploads" % (args.uploader_project)) while True: - seqanalyzer.move_fastq_to_fasta_results() + try: + seqanalyzer.move_fastq_to_fasta_results() - new_collections = arvados.util.list_all(api.collections().list, filters=[["owner_uuid", "=", args.uploader_project]]) - at_least_one_new_valid_seq = False - for c in new_collections: - at_least_one_new_valid_seq = seqanalyzer.validate_upload(c, args.revalidate) or at_least_one_new_valid_seq + new_collections = arvados.util.list_all(api.collections().list, filters=[["owner_uuid", "=", args.uploader_project]]) + at_least_one_new_valid_seq = False + for c in new_collections: + at_least_one_new_valid_seq = seqanalyzer.validate_upload(c, args.revalidate) or at_least_one_new_valid_seq - if at_least_one_new_valid_seq and not args.no_start_analysis: - seqanalyzer.start_pangenome_analysis() + if at_least_one_new_valid_seq and not args.no_start_analysis: + seqanalyzer.start_pangenome_analysis() - seqanalyzer.copy_most_recent_result() + seqanalyzer.copy_most_recent_result() + except Exception as e: + logging.exeception("Error in main loop") if args.once: break |