Hi!
I need some help. I am currently trying to export a biom table from a .tsv format.
I run the following command:
biom add-metadata
-i exported/feature-table.biom
-o table-with-taxonomy.biom
--observation-metadata-fp biom-taxonomy.tsv
--sc-separated taxonomy
But the following error appeared:
Traceback (most recent call last):
File "/Users/giulianapazmino/miniconda3/envs/qiime2-2023.2/bin/biom", line 11, in
sys.exit(cli())
File "/Users/giulianapazmino/miniconda3/envs/qiime2-2023.2/lib/python3.8/site-packages/click/core.py", line 1130, in call
return self.main(*args, **kwargs)
File "/Users/giulianapazmino/miniconda3/envs/qiime2-2023.2/lib/python3.8/site-packages/click/core.py", line 1055, in main
rv = self.invoke(ctx)
File "/Users/giulianapazmino/miniconda3/envs/qiime2-2023.2/lib/python3.8/site-packages/click/core.py", line 1657, in invoke
return _process_result(sub_ctx.command.invoke(sub_ctx))
File "/Users/giulianapazmino/miniconda3/envs/qiime2-2023.2/lib/python3.8/site-packages/click/core.py", line 1404, in invoke
return ctx.invoke(self.callback, **ctx.params)
File "/Users/giulianapazmino/miniconda3/envs/qiime2-2023.2/lib/python3.8/site-packages/click/core.py", line 760, in invoke
return __callback(*args, **kwargs)
File "/Users/giulianapazmino/miniconda3/envs/qiime2-2023.2/lib/python3.8/site-packages/biom/cli/metadata_adder.py", line 104, in add_metadata
result = _add_metadata(table, sample_metadata_f, observation_metadata_f,
File "/Users/giulianapazmino/miniconda3/envs/qiime2-2023.2/lib/python3.8/site-packages/biom/cli/metadata_adder.py", line 170, in _add_metadata
observation_metadata = MetadataMap.from_file(
File "/Users/giulianapazmino/miniconda3/envs/qiime2-2023.2/lib/python3.8/site-packages/biom/parse.py", line 537, in from_file
raise BiomParseException("No header line was found in mapping "
biom.exception.BiomParseException: No header line was found in mapping file.
How can I fix it?