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BUG: SampleData[AlphaDiversity] -> Metadata doesn't work with tuples #200

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thermokarst opened this issue Nov 14, 2018 · 1 comment
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bug-sev:3|medium bug-type:3|stops-work It is no longer possible to use QIIME 2 in this way. lang:python Python 3 scope:2|most-projects Most projects are impacted by this change. src:forum From the QIIME 2 Forum. type:bug Something is wrong. type:discussion Targeted discussion on implementations.

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@thermokarst
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Bug Description
Some SampleData[AlphaDiversity] Artifacts contain tuples of numbers (for example, chao1). The transformer to qiime2.Metadata explodes when it sees this.

Steps to reproduce the behavior

  1. Produce a Chao1 SampleData[AlphaDiversity] Artifact.
  2. qiime metadata tabulate --m-input-file chao1_ci.qza --o-visualization chao1_ci.qzv
  3. See error

Expected behavior
Transforming SampleData[AlphaDiversity] to Metadata should work.

Questions

  1. Do we solve this in the transformer, or the format, or both, or neither?

References

  1. Originating forum post
@thermokarst thermokarst added type:bug Something is wrong. bug-sev:3|medium bug-type:3|stops-work It is no longer possible to use QIIME 2 in this way. lang:python Python 3 scope:2|most-projects Most projects are impacted by this change. src:forum From the QIIME 2 Forum. type:discussion Targeted discussion on implementations. labels Nov 14, 2018
@thermokarst
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This is an old issue, and one I suspect has been documented somewhere else, so if we ever find the xref, let's merge here into this issue.

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Labels
bug-sev:3|medium bug-type:3|stops-work It is no longer possible to use QIIME 2 in this way. lang:python Python 3 scope:2|most-projects Most projects are impacted by this change. src:forum From the QIIME 2 Forum. type:bug Something is wrong. type:discussion Targeted discussion on implementations.
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