Changelog

1.4.3 (2026.6.19)

• Added genome table and mptale for Medaka in data/
• Modified Makefile

1.4.2 (2026.3.16)

• Added genome table and mptable for RPE1 T2T genome in data/
• Bug fix in mptable.UCSC.SPombe.36mer.flen150.txt and mptable.UCSC.T2T.28mer.flen150.txt

1.4.1 (2025-07-07)

• Added genome table and mptable for T2T-mhaESC in data/

1.4.0 (2024-08-25)

• Fixed a bug that causes a memory error when the input file has long reads (>200 bp).
• Changed Makefile and CMakeLists.txt to enable DEBUG mode.

1.3.2 (2024-03-06)

• Added mptable.UCSC.T2T.28mer.flen150.txt and mptable.UCSC.T2T.36mer.flen150.txt in data/mptable.

1.3.1 (2023-12-31)

• Bug fix when applying a large value to --maxins.

1.3.0 (2023-07-05)

• Add --include_allchr option to avoid an error if the chromosomes in the genome_table file do not begin with "chr" (see https://github.com/rnakato/DROMPAplus/issues/8).

1.2.6 (2023-07-04)

• Add genome table file for S. Pombe (genometable.SPombe.txt)

1.2.5 (2022-07-27)

• Add error messages when the format of supplied genometable/mptable files is wrong.

1.2.4 (2022-05-10)

• Bug fix: fixed the error when O. sativa genome is applied ("chrN" -> "ChrN")

1.2.3 (2022-04-09)

• Bug fix: fixed the error when the F3 length (read length) is too short (e.g., sequence stripped bam)

1.2.2 (2020-10-06)

• Bug fix: switch boost::bind to std::bind to avoid complilation error depend on the version of compiler

1.2.1 (2020-05-25)

• Adopt CMake to compile SSP
• Add script change_chrname_[to|from]_Greek.pl
• Remove common/statistics.*

1.2.0 (2020-05-19)

• Adopt htslib API for parsing SAM/BAM/CRAM format
• Now available to use on Mac
• Remove BedFormat.hpp that is used in DROMPAplus
• Remove unused classes in SSP that is for DROMPAplus

1.1.6 (2020-05-17)

• Change C++ compiler from g++ to clang++

1.1.5 (2020-03-12)

• Modify Boost::options to get more intelligible error messages

1.1.4 (2020-02-25)

• Remove unnecesary source files from common/ directory

1.1.3 (2019-04-15)

• Accept CRAM format for the input file
• script/makegenometable.pl: accept scaffold in Ensembl genome

1.1.2 (2018-07-22)

• Chenge the prefix of ReadLengthDist.csv and FragmentLengthDist.csv to *.tsv
• Add --allchr options (for DROMPAplus)

1.1.1 (2018-04-25)

• Improve to read BAM file faster

1.1.0 (2018-02-10)

• Bug fix in --ssp_cc option
• Add genometable files in data directory

1.0.2 (2017-09-04)

• Add LICENSE
• Add ChangeLog
• Remove alglib library from source

1.0.1 (2017-07-19)

• Bug fix in --pair option

1.0.0

• First commit