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Issues: broadinstitute/long-read-pipelines

Periodically remove stale branches
#132 opened May 26, 2020 by SHuang-Broad
Open 4
Workflow Documentation
#424 opened Sep 20, 2023 by bshifaw
Open 3
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Issues list

Make preemption dependent on expected length
#442 opened Jan 26, 2024 by SHuang-Broad
API to pull WDL documentation from Dockstore to Terra documentation
#441 opened Jan 23, 2024 by SHuang-Broad
Prep for SMRTLink v13
#439 opened Dec 1, 2023 by SHuang-Broad
@SHuang-Broad
Install samtools with libdeflate enabled optimization
#436 opened Nov 23, 2023 by SHuang-Broad
1
Use sysmetic monitor to check GCP's preemption rates
#434 opened Nov 20, 2023 by SHuang-Broad
1
Update Dockerfiles for Faster Conda Dependency Resolution
#433 opened Oct 31, 2023 by bshifaw
Make the finalization tasks take a manifest
#432 opened Oct 24, 2023 by SHuang-Broad
bump DV version to 1.6
#431 opened Oct 24, 2023 by SHuang-Broad
@SHuang-Broad
lr-metrics docker refers to a non-official build of GATK help wanted Extra attention is needed optimization
#427 opened Sep 27, 2023 by SHuang-Broad
@kvg
Assembly pipeline output should give bgz files not gz files high priority High priority
#426 opened Sep 27, 2023 by SHuang-Broad
@SHuang-Broad
Documentation for Epi and CNV pipelines documentation
#425 opened Sep 21, 2023 by SHuang-Broad
2 tasks
@SHuang-Broad
Workflow Documentation
#424 opened Sep 20, 2023 by bshifaw
@kvg @tedsharpe
@bshifaw @SHuang-Broad @fabio-cunial
3
Migrate all viable docker images to google artifact registry
#419 opened Aug 21, 2023 by bshifaw
Long read pipeline Canu issue with Mouse Genome reference
#416 opened Aug 12, 2023 by nikhil777shingte
2
Make Finalize.wdl tasks volatile
#414 opened Aug 7, 2023 by jamesemery
update all pacbio software to those packaged in the SMRTLink release
#407 opened May 5, 2023 by SHuang-Broad
ONTProcessBasecall Input Issue
#401 opened Apr 24, 2023 by hangsuUNC
Investigate if finalization steps could be improved with gcloud storage cp good first issue Good for newcomers optimization
#400 opened Apr 18, 2023 by SHuang-Broad
CNV pipeline needs to finalize results bug Something isn't working
#399 opened Apr 13, 2023 by SHuang-Broad
@SHuang-Broad
Replace LRConvertBCF workflow with a more efficient and up-to-date solution
#395 opened Apr 7, 2023 by bshifaw
@kvg
Go through the outputs of miniwdl check to clean up review-party things to be handled in the next review party
#394 opened Apr 6, 2023 by SHuang-Broad
Consider saving WGS FASTQ outputs in CoLoRd format good first issue Good for newcomers optimization
#387 opened Mar 10, 2023 by SHuang-Broad
Next iteration of WDL validator should enforce documentation documentation
#385 opened Mar 9, 2023 by SHuang-Broad
1
Review lr-utils conda / python envs.
#354 opened Jul 28, 2022 by jonn-smith
1
Complete implementation of lr-ref
#353 opened Jul 28, 2022 by jonn-smith
ProTip! Exclude everything labeled bug with -label:bug.