Lucy-Forrest-Lab / Lucy-Forrest-Lab/AlignMe
Remove blank lines from alignments
Open
Nobody has claimed this yet.
- Dominant language
- C++
- Stars
- 6
- Forks
- 0
- PR merge metrics
- No merged PRs in 30d
Description
When creating alignments with exactly 60-characters, the ClustalW alignments print out with a blank line in anticipation of the next line to be filled. The blank lines break alignment readers like biopython.
Contributor guide
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First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Reproduce the issue with an alignment whose sequence length is exactly 60 characters and inspect the code that formats ClustalW output. Trace why an empty line is emitted before the next block, then verify that the output contains no blank line and remains readable by alignment readers such as Biopython.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- cpp
- Domain
- bioinformatics
- Issue type
- Bug
- Difficulty
- 2/5
- Estimated time
- 1-3 hours
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100