Bug Fixes
minimap2: Fixed a memory leak that was exposed by using a different matching score in the updated preset values.
minimap2: Fixed a bug that caused some incorrect SA tag values.
minimap2: Fixed a crash caused by
pthread_setaffinity_np
.fq2bam (BWA-MEM + GATK): Fixed a crash when passing
--bwa-options="-C"
with no comments in the input fastq file(s).mutectcaller: Fixed an invalid GPU memory access in force calling mode (
--mutect-alleles
).mutectcaller: Fixed additional records in output VCF file when passing
--pon
.somatic (Somatic Variant Caller): Fixed a read group ID conflict error in tumor-normal mode when
--tumor-read-group-id-prefix
was not passed from the user.haplotypecaller: Fixed an out-of-order issue in the output BAM when passing
--htvc-bam-output
.deepvariant: Fixed a bug where certain kernels from multiple pipelines (streams) were launched on the default stream.