Halvade v1.1.2

• better memory management, automatically use less memory when using picard
• some bugfixes
• RNA-seq: made the new genome from STAR unique to the halvade run to avoid reading a previous one

Halvade v1.1.0

Fix for the merge Bam option

Halvade v1.0.0

Halvade version 1.0.0

Changelog:

• Aligned BAM input fixes
• Added featureCount for RNA-seq
• make genomic regions based on BED file (e.g. genes for to avoid counting double in featureCount)

Halvade v0.4

Changelog:

• Added some optimizations regarding to container memory/vcore management
• aligned BAM input support
• 2 pass RNA pipeleine works when using gpfs/lustre

Halvade v0.3

release notes

• Latest stable dna-seq pipeline.
• Warning: Removed thread to send heartbeats to the framework, increasing the timeout is advised.

Halvade v0.2

Halvade v0.2

release notes

• improved load balancing due to better splitting of chromosomal regions
• changed framework classes, added base Reduce and Map classes
• fastq quality encoding check and recode if needed

Halvade v0.1

First release of Halvade, version 0.1.
This version supports running Halvade on a local cluster with HDFS or on Amazon EMR with Amazon S3 as storage.