8000 Add check that gene segment consensus fasta exist before concatenation · Issue #5 · peterk87/nf-flu · GitHub
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Add check that gene segment consensus fasta exist before concatenation #5

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peterk87 opened this issue Jun 11, 2021 · 1 comment
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Add check that gene segment consensus fasta exist before concatenation #5

peterk87 opened this issue Jun 11, 2021 · 1 comment
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cat: can't open 'sample/amended_consensus/*.fa': No such file or directory`

Check for samples with no assembly before trying concatenation of fasta files.

Related to #3
@peterk87 peterk87 added the bug Something isn't working label Jun 11, 2021
@peterk87 peterk87 self-assigned this Jun 11, 2021
@peterk87 peterk87 mentioned this issue Jun 15, 2021
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peterk87 added a commit that referenced this issue Jun 15, 2021
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Merge pull request #6 from peterk87/fix-5-empty-assembly
b21b3df 
Add check that IRMA consensus sequences exist to fix #5
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To keep the code consistent with lots of contributors, we run automated code consistency checks.
To fix this CI test, please run:

  • Install markdownlint-cli
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    • Automatically: markdownlint . --config .github/markdownlint.yml --fix
    • Manually resolve anything left from markdownlint . --config .github/markdownlint.yml

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peterk87 added a commit that referenced this issue Sep 1, 2022
@peterk87
Merge pull request #5 from peterk87/fix-fasta-db-concat
3125cda 
Fix ref seq FASTA concatenation issue
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