Version 2.7.1

This release supports the new Apple Mx (ARM) chips and Linux (ARM) chips.

Major Features:

• A new option -l is added to assign the starting rate matrix.
• Detailed README has been added.
• Updated user manual.
• Updated license file.
• Bug fixes to improve software stability.

Note: The way to compile the source codes has been changed. Please refer to the README.

Usage of the option -l for assigning the starting rate matrix.

-l <start matrix>   : The rate matrix to start from. It is not a file,
                        but a string representing the rate matrix.
                        For example: -l 1,1,1,1,1,2,1,1,2,2,2,2,2,2

For example:

./HAL2 data.phy tree.txt -l 1,1,1,1,1,2,1,1,2,2,2,2,2,2

The above command starts the iteration from the rate matrix: 1,1,1,1,1,2,1,1,2,2,2,2,2,2

Version 2.7

This release supports the new Apple Mx (ARM) chips and Linux (ARM) chips.

Major Features:

A new option "-l" is added to assign the starting rate matrix.

For example:
./HAL2 data.phy tree.txt -l 1,1,1,1,1,2,1,1,2,2,2,2,2,2 -r data.NEW-BU.chkpt.txt

The above command recovers from the check-point file data.NEW-BU.chkpt.txt and starts the iteration from the rate matrix: 1,1,1,1,1,2,1,1,2,2,2,2,2,2

Version 2.6.6

• Some bugs have been fixed.
• AIC/BIC values are displayed with five decimal places.
• CMakeList.txt file has been added.
• Binary files are included.

Version 2.6.5

V2.6.5

Clear the unnecessary files

Version 2.6.4

V2.6.4

version 2.6.4