Comments (10)
@khyox hey! I'm caught up in doctorate applications at the moment, we're anticipating a release in December before the holiday season
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hi @khyox thank you, it went well. we're in the process of doing some final code reviews prior to release, it's still imminent!
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Hi! Not the immediate future. Is there a specific case or dataset you have where you feel that would be vital? (ie. are you running into issues where process time is too long in the current implementation)
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@cmaceves Thanks for the quick response. No I didn't run into any issues - but just discovered iVar is the slow bottleneck in our pipeline and I found the CPU usage of iVar never exceeds 100% (top -c
).
I can imagine it is practical to use multiple CPUs to process a BAM file includes short reads, since you can just make chunks and deliver the chunks to sub-workers. That's the reason why I ask if you have plan to do so.
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@philiptzou Yeah - I agree that definitely seems within reason and practical as a feature request for future implementation. We're getting ready for a release in the next month or so, but will keep this in mind for future milestones. Thanks for brining this to our attention!
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@cmaceves Thank you!
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(...) We're getting ready for a release in the next month or so, but will keep this in mind for future milestones. (...)
Hi @cmaceves. Are you still planning an imminent new release? Thanks!
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Great news!! Thank you very much @cmaceves and best of luck with the applications! :)
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Hey @cmaceves! Hope you were lucky with your PhD applications.
I guess the release plans got delayed somehow. Are you still planning a new version soon? Thanks!
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Both great news! :) Thank you so much @cmaceves!
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Related Issues (20)
- primer trimming issue with small insert sizes
- Please update release HOT 2
- build from source fails with GCC >= 10 HOT 1
- Ivar-Freyja Pipeline creates +/- bases and "#Name?" cells HOT 1
- Automated minimum read length "-m" setting HOT 2
- Silent integer overflows in several ivar params
- Remove excess calls to insertionSort HOT 3
- ivar version command not updated accordingly
- Clarification of new ivar consensus -c (minimum insertion frequency) parameter
- slow performance of ivar 1.3.2 HOT 1
- ivar trim -f option incompatible with new piping functionality HOT 3
- ivar trim hangs when using -f parameter
- Further speedup in iVar Trim primer finding HOT 3
- clarification of ivar trim -e option HOT 1
- iVar variants weird output HOT 5
- Error building the docker image from the Dockerfile HOT 3
- Discrepancy between samtools depth and TOTAL_DEPTH in ivar HOT 1
- Segmentation fault (core dumped) HOT 5
- Header format error in ivar filtervariants HOT 1
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