v1.0.15

LibStatGen.1.0.15 Release Notes - Released 02/12/2021

• Fixes various build errors
• CigarHelper - update clip from end to return an error if the clip position is past the end of the read
• Removed redundant pos member of vcf record.
• Adds VcfRecordInfo::getInfoPair().
• FASTQ - update so it isn't an error if there is a single blank line at the end of the file (multiple blank lines will still result in an error being reported)
• Modified warnings() to print out to stderr rather than stdout
• VcfFile - add getFileName method
• Update bam/test for testing single record file's IsEOF
• SamFile::IsEOF - update for SamFiles to check SamInterface to see if the first Record has been read, but not processed - to avoid returning EOF for file with a single record before the record was processed
• SamValidation - only validate cigar and seq are same length if seq is not '*'
• BAM - update validation since SM tag is no longer a required RG field
• bam, SamRecord, add filename to some error messages
• README: change to Markdown syntax
• FastQ - update validation to allow interleaved
• SamFile - add improved support for reading streams

v1.0.14

Version 1.0.14

v1.0.13

LibStatGen.1.0.13 Release Notes - Released 2/20/2015

• https://github.com/statgen/libStatGen/archive/v1.0.13.tar.gz
• Contains classes for general processing (string, reference file, parameters), bam, glf, fastq, and vcf
• General Updates:
  • Added knetfile support to InputFile (only for bgzf files if KNET_ON=1 is set on compile line
  • GzipHeader - fix signed/unsigned comparison compile issue
  • Upgrade bgzf (also allow append mode)
• Makefiles Updates:
  • Update dependencies to fix/improve some compiling issues
• PhoneHome Updates:
  • Allow PhoneHome to be a legacy parameter
  • Update new version available message to stand out more
  • Fix bugs in checks for new version since it wasn't finding it.
• BAM Updates:
  • SamReferenceInfo operator== - fix to not check hash, since hash could be different for same info
  • Pileup - improve error message for buffer overrun
• VCF Updates:
  • Add option to update GT field
  • Add subset samples parameter to ReadRecord
  • Improve handling of adding CO header

v1.0.12

LibStatGen.1.0.12 Release Notes - Released 5/14/2014

Contains classes for general processing (string, reference file, parameters), bam, glf, fastq, and vcf
General Updates:

• Improve Makefiles for adding additional libraries/creating external libraries
• Cleanup compiling for mingw
• Cleanup Copyrights

BAM Updates:

• Update rmTags & getTagsString to accept ',' delimiter rather than just ';'

v1.0.11

LibStatGen.1.0.11 Release Notes - Released 2/28/2014

General Updates:

• Cleanup compile warnings - should improve compatibility with Windows, RedHat, and older and newer compilers
• StringBasics: Improve off-by-one overflow handling (from github user wavexx)

BAM Updates:

• Fix it to properly handle 'B' & 'f' tags
• Fix handling of duplicate tags

PhoneHome Updates:

• Add parameters names (not values) to PhoneHome URL

VCF Updates:

• Move allele count logic from VcfFileReader into VcfRecord.