READ_ALIGNMENT2 -- read 2nd alignment

FILE = <string:1>	'default'	partial or complete filename
DIRECTORY = <string:1>	''	directory list (e.g., 'dir1:dir2:dir3:./:/')
ALIGN_CODES2 = <string:0>	'all'	align codes for alignment2
ALIGNMENT_FORMAT = <string:1>	'PIR'	format of the alignment file: 'PIR' | 'PAP' | 'QUANTA' | 'INSIGHT' | 'FASTA'
REMOVE_GAPS = <logical:1>	on	whether to remove all-gap positions in input alignment
STOP_ON_ERROR = <integer:1>	1	whether to stop on error

Output:

MODELLER_STATUS = <integer:1>

Description:

This command reads the sequences and/or their alignment from a text file into the second alignment array. The two alignments can be compared by the COMPARE_ALIGNMENTS command.

Example: See READ_ALIGNMENT command.