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The AEGeAn core code was originally designed with the expectation that features (such as exons) that are associated with multiple mRNAs would be present in multiple times. It doesn't appear to handle …
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Reported by Yao-Cheng Lin (yao-cheng.lin@psb.vib-ugent.be):
> I tried to compile your latest github release and got this error. Any idea of the problem?
```
yaocheng@aspseq:~/src/AEGeAn$ make clean
…
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Distinguish between useful content and boilerplate.
Doing some prelim research:
- Boilerplate detection using shallow text features. http://www.decom.ufop.br/menotti/rp122/sem/sem1-brayan-milton-art.…
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The `GtNodeStream` provides a nice solution for processing annotation data while loading it into memory and/or writing it to disk. AEGeAn does not yet utilize this interface, but it has a lot to gain …
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When only the CDS is provided explicitly (no exon or UTR features), ParsEval attempts to infer UTRs. Of course it fails, since without exons explicitly provided, there is no way to infer UTRs (whether…
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Just tested out Semantic-UI tonight and my "Sign Out" link wasn't working. It comes down to this line which stops propagation of the events which means jquery-ujs is unable to catch and send the data-…
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- Check out `man ar`
- add core AEGeAn classes and modules to `libaegean.a` library
- should be accessible by arbitrary C code with `-laegean` flag
- will need a script to create documentation from an…
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AEGeAn has not been analyzed for memory leaks in quite a while, and I suspect there are several. It is time.
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BitBucket was originally used for hosting AEGeAn, and some issues are still being tracked there. These need to be addressed and/or ported over to Github.
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There is some Cairo-related graphics code in the AgnPairwiseCompareLocus class. I should consider moving this to the PeReports module, as graphics for other AEGeAn tools aren't on the roadmap any time…