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bokulich-lab / q2-types-genomics

QIIME 2 types for genomics plugins.
BSD 3-Clause "New" or "Revised" License
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Duplicate semantic type #52

Closed JankoSet closed 1 year ago

JankoSet commented 1 year ago

Hello, I have recently started analysing metabarcoding data with QIIME2 and the pipelines I follow use this extension.

Unfortunately after installing the latest versions of both 'types-genomics' and 'types', I get the following error message: File "/.../.../miniconda3/envs/qiime2-2023.2/lib/python3.8/site-packages/qiime2/sdk/plugin_manager.py", line 162, in _integrate_plugin raise ValueError("Duplicate semantic type (%r) defined in" ValueError: Duplicate semantic type ('FeatureMap') defined in plugins: 'types-genomics' and 'types' --o-silva-sequences: command not found

What can be done (keep in mind I am very new to it, python and linux in general)?

misialq commented 1 year ago

Hey @JankoSet, thanks for opening the issue. I think you must have been a bit unlucky and installed q2-types-genomics before we completed the migration of that semantic type. If you try to perform the installation again all should work now. Do reach out if you're still encountering issues though!