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feat(deposition): submit EMBL flatfile instead of fasta for better nucleotide metadata #2947

Merged
merged 21 commits into from
Oct 4, 2024
Merged

feat(deposition): submit EMBL flatfile instead of fasta for better nucleotide metadata #2947

merged 21 commits into from
Oct 4, 2024

Commits on Oct 4, 2024

  1. test adding authors

    @anna-parker
    anna-parker committed Oct 4, 2024
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  2. little fix

    @anna-parker
    anna-parker committed Oct 4, 2024
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  3. test

    @anna-parker
    anna-parker committed Oct 4, 2024
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  4. Switch from a fasta to a flatfile with authors

    @anna-parker
    anna-parker committed Oct 4, 2024
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  5. remove authors from manifest

    @anna-parker
    anna-parker committed Oct 4, 2024
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  6. do not break assembly creation rule

    @anna-parker
    anna-parker committed Oct 4, 2024
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  7. improve try catch

    @anna-parker
    anna-parker committed Oct 4, 2024
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  8. zip file - ena only accepts zipped files

    @anna-parker
    anna-parker committed Oct 4, 2024
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  9. fix gzip

    @anna-parker
    anna-parker committed Oct 4, 2024
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  10. return zipped file

    @anna-parker
    anna-parker committed Oct 4, 2024
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  11. add topology

    @anna-parker
    anna-parker committed Oct 4, 2024
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  12. Log errors in file

    @anna-parker
    anna-parker committed Oct 4, 2024
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  13. small fix

    @anna-parker
    anna-parker committed Oct 4, 2024
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  14. one more time

    @anna-parker
    anna-parker committed Oct 4, 2024
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  15. fixed

    @anna-parker
    anna-parker committed Oct 4, 2024
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  16. Allow for multiple sequences

    @anna-parker
    anna-parker committed Oct 4, 2024
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  17. fix tests

    @anna-parker
    anna-parker committed Oct 4, 2024
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  18. fix tests

    @anna-parker
    anna-parker committed Oct 4, 2024
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  19. Add country and collection_date

    @anna-parker
    anna-parker committed Oct 4, 2024
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  20. Update ena-submission/Snakefile

    @anna-parker
    anna-parker authored Oct 4, 2024
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  21. tiny refactor

    @corneliusroemer
    corneliusroemer authored Oct 4, 2024
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