From 274caf99cd80c683fda426361f063d09128c5517 Mon Sep 17 00:00:00 2001 From: andrewjpage Date: Mon, 19 Mar 2012 09:47:17 +0000 Subject: [PATCH] send in most recent phylip file to raxml --- run_gubbins.pl | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/run_gubbins.pl b/run_gubbins.pl index 23bcec37..adfcc6d5 100755 --- a/run_gubbins.pl +++ b/run_gubbins.pl @@ -48,7 +48,7 @@ =head1 METHODS $previous_tree = "-t $previous_tree_name"; $base_filename = $previous_tree_name; } - system("$tree_builder_exec -s $starting_base_filename.phylip -n $filename.$current_time.iteration_$i $previous_tree"); + system("$tree_builder_exec -s $previous_tree_name.phylip -n $filename.$current_time.iteration_$i $previous_tree"); system("$gubbins_exec -r $input_multi_fasta_alignment_file $starting_base_filename.vcf $current_tree $starting_base_filename.phylip"); }