When demultiplexing, report contains irrelevant line
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- Dominant language
- Python
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Description
Via #758
When demultiplexing like this:
cutadapt -g ^ACGT -g ^CCAA -o "out.{name}.fastq" tests/data/simple.fastq
The report contains this line:
Reads discarded as untrimmed: 0 (0.0%)
However, that line should only be printed when --discard-untrimmed was used.
Contributor guide
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
Start by running the demultiplexing command shown in the issue and inspect the generated report. Trace the report-generation entry point responsible for “Reads discarded as untrimmed”; done means that line appears only when --discard-untrimmed is supplied, while other report output remains unchanged.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- cli
- Issue type
- Bug
- Difficulty
- 2/5
- Estimated time
- 1-3 hours
- Activity status
- Stale
- Clarity
- Clearly specified
- Newbie friendliness
- 45/100