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ArrayList cannot be cast to class String in VariantContextConverter

Status: Open.

#2419 In bigdatagenomics/adam;

· heuermh opened on Jun 26, 2025

Update Spark dependency version to 4.x

Status: Open.

#2418 In bigdatagenomics/adam;

· heuermh opened on Jun 26, 2025

Refactoring Error Logging Inconsistencies in MdTag.scala

Status: Open.

#2401 In bigdatagenomics/adam;

· joonkang-git opened on Aug 2, 2024

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1.0.2

Missing Fastq reads

Status: Open.

#2385 In bigdatagenomics/adam;

· SidWeng opened on Mar 24, 2023

StackOverflowError in avro SpecificDatumWriter

Status: Open.

#2349 In bigdatagenomics/adam;

· heuermh opened on Nov 29, 2021

Add Scala 2.13 to build

Status: Open.

#2335 In bigdatagenomics/adam;

· heuermh opened on Oct 12, 2021

Spare not needed groupBy when calling toFragments() on AlignmentDataset

Status: Open.

#2281 In bigdatagenomics/adam;

· benraha opened on Nov 7, 2020

Improve Ensembl VEP mapping to TranscriptEffect

Status: Open.

#2279 In bigdatagenomics/adam;

· heuermh opened on Oct 28, 2020

saveAsSam converts null mapping qualities to 0 instead of 255

Status: Open.

#2272 In bigdatagenomics/adam;

· heuermh opened on Sep 4, 2020

I'm failing to use this package

Status: Open.

#2225 In bigdatagenomics/adam;

· Hoeze opened on Oct 10, 2019

Save as CRAM precondition incorrectly fails on sorted Parquet input

Status: Open.

#2214 In bigdatagenomics/adam;

· heuermh opened on Sep 25, 2019

Refactor Dataset save methods for consistency

Status: Open.

#2199 In bigdatagenomics/adam;

· heuermh opened on Aug 26, 2019