Write alignment file in temporary directory#1997
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This avoids writing temporary IQ-TREE files next to the input alignment and removes the need to track and delete those intermediate files. There was a comment that indicated "clean_up" was parameterized to allow the user to check intermediate output, however in practice that parameter was never exposed in as a command line option.
This was referenced May 14, 2026
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Description of proposed changes
This avoids writing temporary IQ-TREE files next to the input alignment and removes the need to track and delete those intermediate files.
There was a comment that indicated "clean_up" was parameterized to allow the user to check intermediate output, however in practice that parameter was never exposed in as a command line option.
Related issue(s)
Follow-up to #1667 (comment)
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