mptp 0.2.5

Added

• Likelihood ratio test for the multi method
• Added implementation for the incomplete gamma function

Removed

• Dependency for GNU scientific library

Notes

1. The file mptp-src-0.2.5.tar.gz contains the mPTP source code and does not require autotools installed.
2. Files v0.2.5.tar.gz and v0.2.5.zip are generated by GitHub, and require autotools installed (as when cloning the repository).

mptp 0.2.4

Changes

• If we do not manage to generate a random starting delimitation with the wanted number of species (randomly chosen), we use the currently generated delimitation instead.

Notes

1. The pre-compiled linux binary mptp-0.2.4-linux-x86_64.tar.gz is compiled statically with libgsl support.
2. The file mptp-src-0.2.4.tar.gz contains the mPTP source code and does not require autotools installed.
3. Files v0.2.4.tar.gz and v0.2.4.zip are generated by GitHub, and require autotools installed (as when cloning the repository).

mptp 0.2.3

Changes

• Replaced hsearch() which was causing an (innocent) error message on OSX with custom hashtable
• Corrected file name in error messages when failing to open files

Notes

1. The pre-compiled linux binary mptp-0.2.3-linux-x86_64.tar.gz is compiled statically with libgsl support.
2. The file mptp-src-0.2.3.tar.gz contains the mPTP source code and does not require autotools installed.
3. Files v0.2.3.tar.gz and v0.2.3.zip are generated by GitHub, and require autotools installed (as when cloning the repository).

mptp 0.2.2

Changes

• Regular expressions now allow scientific notation when parsing branch lengths
• Improved accuracy of ASV score (takes into account tip species)
• Memory leaks when parsing incorrectly formatted trees

Notes

1. The pre-compiled linux binary mptp-0.2.2-linux-x86_64.tar.gz is compiled without libgsl support. Therefore the Likelihood Ratio Test (LRT) is disabled for the single-rate PTP model. To use libgsl (and therefore the LRT), please compile from source, given that libgsl is installed on your system.
2. The file mptp-src-0.2.2.tar.gz contains the mPTP source code and does not require autotools installed.
3. Files v0.2.2.tar.gz and v0.2.2.zip are generated by GitHub, and require autotools installed (as when cloning the repository).

mptp 0.2.1

Changes

• Updated ASV to consider only coalescent roots of ML delimitation
• Removed assertion stopping mptp when using random starting delimitations for MCMC

Notes

1. The pre-compiled linux binary mptp-0.2.1-linux-x86_64.tar.gz is compiled without libgsl support. Therefore the Likelihood Ratio Test (LRT) is disabled for the single-rate PTP model. To use libgsl (and therefore the LRT), please compile from source, given that libgsl is installed on your system.
2. The file mptp-src-0.2.1.tar.gz contains the mPTP source code and does not require autotools installed.
3. Files v0.2.1.tar.gz and v0.2.1.zip are generated by GitHub, and require autotools installed (as when cloning the repository).

mptp 0.2.0

Changes

• Fixed floating point exception error when constructing random trees, caused from dividing by zero
• Changed allocation from malloc to calloc, as it caused uninitialized variables when converting unrooted trees to rooted when using the MCMC method
• Fixed sample size for the the AIC with a correction for finite sample sizes

Notes

1. The pre-compiled linux binary mptp-0.2.0-linux-x86_64.tar.gz is compiled without libgsl support. Therefore the Likelihood Ratio Test (LRT) is disabled for the single-rate PTP model. To use libgsl (and therefore the LRT), please compile from source, given that libgsl is installed on your system.
2. The file mptp-src-0.2.0.tar.gz contains the mPTP source code and does not require autotools installed.
3. Files v0.2.0.tar.gz and v0.2.0.zip are generated by GitHub, and require autotools installed (as when cloning the repository).