Comments (3)
jakereps
commented on August 10, 2024
2
+1 for this feature. I'm not sure the relevance of upper/lowercase bases in sequence data, but if there were a way to add a type to support lowercase, or some sort of transformation that automatically casts the bases to uppercase, I'd be all for it! Just ran into an issue from performing MAFFT externally and forgetting the --preservecase flag, resulting in 150k+ lowercase sequences which prevented it from being imported into the Q2 ecosystem without manipulating the file to be uppercase.
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jairideout
commented on August 10, 2024
From the developers call today, it sounds like we'll update this format's sniffer to be more strict (so importing will fail) and provide a case-insensitive format.
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lizgehret
commented on August 10, 2024
Handled by #270, closing as completed.
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Related Issues (20)
- Importing manifest v1 without sample names produce unclear error HOT 1
- qiime 'taxonomy' tabulate error HOT 2
- Move matplotlib pin to >=3.2 HOT 2
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- Change Newick validation from `sniff` to `validate` HOT 1
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- ENH: transformer for BLAST6Format --> Metadata
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- new format / transformer for single-end demuliplexed files named by sample id HOT 1
- add usage examples to artifact classes HOT 1
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