RAPTR-SV-v0.0.15

This release has the following new improvements:

• Bugfix for "preprocess mode" concurrency sorting
• Default temp file directory changed: now the current directory is your default temp file directory unless you use the "-p" option
• Slight performance increase

RAPTR-SV-v0.0.14

This version improves the "cluster" algorithm and has a bugfix for logging files.

RAPTR-SV-v0.0.13

This release provides a major bug-fix for smaller datasets. If the dataset contained fewer than 10,000 discordant reads, the sort algorithm would fail due to a lack of information.

RAPTR-SV-v0.0.12

Very minor update with better exception handling for MrsFast runtime instances.

RAPTR-SV-v0.0.11

This version is a minor bug-fix and contains better logging features.

RAPTR-SV-v0.0.10

New features!

• RAPTR-SV preprocess mode now supports variable length read BAM files by selecting the most common read length as a standard for read filtering/trimming
• preprocess mode also allows the user to designate the optimal read length size (if he/she is unsatisfied with the automatic detection) with the "-l" command line argument

Bug fixes

• Fixed bugs with logger statements
• Fixed the bug that prevented the program from deleting the temporary MrsFAST SAM file

RAPTR-SV-v0.0.9

This release has some minor improvements over the previous versions, including several bug fixes.

• Better logging
• Better threading potential
• Bug fixes

RAPTR-SV-v0.0.6

Improvements from the previous release:

• Better debug mode
• Improved readme and analysis walkthrough

RPSR-SV-v0.0.5

Improvements from initial release:

• minor bug fixes
• improvements to weight cover algorithm to increase threading
• dynamic programming set recalculation
• discordant read output file format change
• improvements to preprocessing algorithm

RAPTR-SV-v0.0.2.1-jdk1.7

This is a version of RAPTR-SV that is compatible with JDK version 1.7 and upwards. Better performance (and threading) is achieved with the use of the JDK1.8 RAPTR-SV; however, this release will allow the use of other Java programs that are only compatible with JDK1.7.