diff --git a/pgap.cwl b/pgap.cwl index 4232467..82bc3fb 100755 --- a/pgap.cwl +++ b/pgap.cwl @@ -184,6 +184,7 @@ steps: no_internet: no_internet make_uuid: make_uuid uuid_in: uuid_in + blast_hits_cache_data: blast_hits_cache_data out: [gbent, gbk, gff, nucleotide_fasta, protein_fasta, cds_nucleotide_fasta, cds_protein_fasta, sqn, initial_asndisc_error_diag, initial_asnval_error_diag, final_asndisc_error_diag, final_asnval_error_diag, checkm_raw, checkm_results] run: wf_common.cwl Generate_Annotation_Reports_gff_enhanced: diff --git a/scripts/pgap.py b/scripts/pgap.py index beb5d08..65eb7b9 100755 --- a/scripts/pgap.py +++ b/scripts/pgap.py @@ -258,8 +258,8 @@ def make_podman_cmd(self): log_dir = self.params.outputdir + '/debug/log' os.makedirs(log_dir, exist_ok=True) self.cmd.extend(['--volume', '{}:/log/srv'.format(log_dir)]) - if self.params.args.container_name: - self.cmd.extend(['--name', self.params.args.container_name]) + if self.params.args.container_name: + self.cmd.extend(['--name', self.params.args.container_name]) self.cmd.append(self.params.docker_image) def make_singularity_cmd(self):