Comments (2)
Thanks for reporting this. The CSI format is not a part of SeqAn so we implemented something basic instead and kept the same API. The function jumpToOrphans, to find the unaligned readpairs in a BAM file is not used in the code and not implemented, but is just a stub. So even if clang complains about unused options the binary is still fine.
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Its good to hear this is a harmless warning, but can you not silence the warning in these cases? e.g. using a pragma or a void statement line inside the function (with an explanatory comment).
Having chopBAI compile without warnings would be a big improvement.
from chopbai.
Related Issues (11)
- Fails to accepts valid samtools style regions HOT 3
- Fails to find example.bai for example.bam HOT 1
- chopBAI does not include any functional tests
- chopBAI does not use continuous integration testing HOT 1
- Fails to accept regions where the reference has a colon HOT 1
- chopBAI --version and --help return failure error level HOT 2
- Option to create symlink to master BAM file?
- Document example with real world data HOT 3
- Mapped and placed counts in BAI not reported (samtools idxstats) HOT 4
- Make it clear if CSI is supported as well as BAI
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