From 167910a99a859c1d7d5e05d8385c86885f7b7a28 Mon Sep 17 00:00:00 2001 From: Thomas Litfin Date: Fri, 26 Sep 2025 10:00:57 +1000 Subject: [PATCH] Get id from file basenames with dir input --- samplesheetutils/binaries/create_samplesheet.py | 5 ++--- 1 file changed, 2 insertions(+), 3 deletions(-) diff --git a/samplesheetutils/binaries/create_samplesheet.py b/samplesheetutils/binaries/create_samplesheet.py index a7676a1..7683045 100644 --- a/samplesheetutils/binaries/create_samplesheet.py +++ b/samplesheetutils/binaries/create_samplesheet.py @@ -145,9 +145,8 @@ def create_samplesheet(): for i_file_name in file_list: with open(i_file_name, "r") as fp: - fasta_data = read_fasta(fp, read_data=True, single_line=(not args.monomer)) - sample_data.extend(fasta_data) - logger.debug(f"Added sample {i_file_name}, {fasta_data}") + sample_data.append(Sample(os.path.splitext(os.path.basename(fp.name))[0], fp.name, "")) + logger.debug(f"Added sample {i_file_name}, {sample_data[-1]}") samplesheet_path = args.output_file logger.debug(f"Sample data array length: {len(sample_data)}")