From 07131fa94d255d7c2b537111fde4d5c986eba5b5 Mon Sep 17 00:00:00 2001 From: Godwin Ani Date: Thu, 13 Mar 2025 17:21:03 -0400 Subject: [PATCH] Update trees.py --- PTL2/Scripts/trees.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/PTL2/Scripts/trees.py b/PTL2/Scripts/trees.py index a555525..f16d603 100644 --- a/PTL2/Scripts/trees.py +++ b/PTL2/Scripts/trees.py @@ -46,7 +46,7 @@ def run(params): if params.tree_method == 'iqtree': os.system('iqtree2 -s ' + guidance_path + '/' + file + ' -m LG+G -T 10 --prefix ' + tax_iqtree_outdir + '/' + file.split('.')[0].split('_preguidance')[0] + '.IQTree') elif params.tree_method == 'iqtree_fast': - os.system('iqtree2 -s ' + guidance_path + '/' + file + ' -m LG+G -T 10 --fast --prefix ' + tax_iqtree_outdir + '/' + file.split('.')[0].split('_preguidance')[0] + '.IQTree') + os.system('/usr/local/bin/iqtree -s ' + guidance_path + '/' + file + ' -m LG+G -T 10 --fast --prefix ' + tax_iqtree_outdir + '/' + file.split('.')[0].split('_preguidance')[0] + '.IQTree') #Copy over the final output if os.path.isfile(tax_iqtree_outdir + '/' + file.split('.')[0].split('_preguidance')[0] + '.IQTree.treefile'):