diff --git a/cg_lims/EPPs/files/smrt_link/models.py b/cg_lims/EPPs/files/smrt_link/models.py index c05f6095..ea0b4c8c 100644 --- a/cg_lims/EPPs/files/smrt_link/models.py +++ b/cg_lims/EPPs/files/smrt_link/models.py @@ -149,10 +149,10 @@ def get_sample_setup_row(self) -> List[str]: def _build_plate_dict(process: Process) -> Dict[Any, Any]: """Create a sequencing plate dict containing plate position (int) and Container object""" - containers = process.output_containers() - plate_1 = process.udf.get("Plate 1") - plate_2 = process.udf.get("Plate 2") - plate_dict = {} + containers: List[Container] = process.output_containers() + plate_1: str = process.udf.get("Plate 1") + plate_2: str = process.udf.get("Plate 2") + plate_dict: Dict[Any, Any] = {} for container in containers: if container.name == plate_1: plate_dict[1] = container.name diff --git a/cg_lims/EPPs/files/smrt_link/run_design.py b/cg_lims/EPPs/files/smrt_link/run_design.py index 3211cf90..4b8d8f8c 100644 --- a/cg_lims/EPPs/files/smrt_link/run_design.py +++ b/cg_lims/EPPs/files/smrt_link/run_design.py @@ -14,7 +14,7 @@ @options.file_placeholder() @click.pass_context def create_smrtlink_run_design(ctx, file: str): - """Create pooling calculation .csv files for SMRT Link import.""" + """Create a run design .csv file for SMRT Link import.""" LOG.info(f"Running {ctx.command_path} with params: {ctx.params}") process: Process = ctx.obj["process"] diff --git a/cg_lims/EPPs/udf/calculate/revio_pooling.py b/cg_lims/EPPs/udf/calculate/revio_pooling.py index cb93ff5f..556dc3a9 100644 --- a/cg_lims/EPPs/udf/calculate/revio_pooling.py +++ b/cg_lims/EPPs/udf/calculate/revio_pooling.py @@ -125,7 +125,7 @@ def revio_pooling( target_volume_udf: str, target_concentration_udf: str, ): - """Calculate and set the pooling aliquots needed to prepare for Revio sequencing.""" + """Calculate and set the pooling aliquots needed for pooling SMRTbell libraries.""" LOG.info(f"Running {ctx.command_path} with params: {ctx.params}")