2026-07-15 19:17:43 : Started OrthoFinder version 3.1.5
Command Line: /home/nishino/anaconda3/envs/orthofinder3/bin/orthofinder -b /home/nishino/orthofinder_work/SAR11_Results_Jul14_1/WorkingDirectory -t 80 -a 80

Search program: diamond
MSA program: famsa
Tree program: fasttree
Scoring matrix: BLOSUM62
Gap extend: 1
Gap open: 11

WorkingDirectory_Base: /home/nishino/orthofinder_work/SAR11_Results_Jul14_1/WorkingDirectory/

Species used: 
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385: ARS1.faa
#386: ARS1016.faa
#387: ARS1026.faa
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390: Baikal-G1.faa
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539: Uisw_127.faa
540: Uisw_130.faa
541: Uisw_134_02.faa
542: Uisw_136.faa
543: Uisw_137.faa

FN_Orthogroups: /home/nishino/orthofinder_work/SAR11_Results_Jul14_1/WorkingDirectory/OrthoFinder/Results_Jul15_2/WorkingDirectory/clusters_OrthoFinder_I1.2.txt_id_pairs.txt
WorkingDirectory_Trees: /home/nishino/orthofinder_work/SAR11_Results_Jul14_1/WorkingDirectory/OrthoFinder/Results_Jul15_2/WorkingDirectory/
2026-07-15 20:12:24 : OrthoFinder run completed
