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Error: traitar phenotype

Open lanlan0210 opened this issue 1 year ago • 12 comments

Thank you for developing Traitar. I got an error message when I ran the software. The data used is the data in the test file you provided. command: traitar phenotype test samples.txt from_genes output_dir error: usage: traitar phenotype [-h] [-c CPUS] [-x PARALLEL] [-o] [-g {genbank,refseq,img,prodigal,metagenemark}] [-p PRIMARY_MODELS] [-s SECONDARY_MODELS] [-r REARRANGE_HEATMAP] [--no_heatmap_sample_clustering] [--no_heatmap_phenotype_clustering] [-f {png,pdf,svg,jpg}] pfam_dir input_dir sample2file {from_genes,from_nucleotides,from_annotation_summary} output_dir traitar phenotype: error: argument mode: invalid choice: 'output_dir' (choose from 'from_genes', 'from_nucleotides', 'from_annotation_summary'). Can you help me see how to solve it? Looking forward to your reply.

lanlan0210 avatar Jul 24 '23 12:07 lanlan0210