diff --git a/Snakefile b/Snakefile index 57dc04d..88d8e9b 100644 --- a/Snakefile +++ b/Snakefile @@ -64,8 +64,6 @@ rule Best_AICc_model: "trim/{sample}.fasta.out", "trim/{sample}.fasta.topos", "trim/{sample}.fasta.tree" - conda: - "envs/yamlfile.yaml" shell: "modeltest-ng -i {input.trim} -t ml > {output}" @@ -103,8 +101,6 @@ rule maximum_likelihood_tree_step_1: "tree/concatenated.fasta.raxml.mlTrees", "tree/concatenated.fasta.raxml.rba", "tree/concatenated.fasta.raxml.startTree" - conda: - "envs/yamlfile.yaml" params: threads=multiprocessing.cpu_count(), outgroup="Macrobiotus_rybaki" @@ -120,8 +116,6 @@ rule maximum_likelihood_tree_step_2: "tree/concatenated.fasta.raxml.bootstraps", "tree/concatenated.fasta.raxml.log", "tree/concatenated.fasta.raxml.rba" - conda: - "envs/yamlfile.yaml" params: threads=multiprocessing.cpu_count(), bootstrap_trees=10000000, @@ -138,8 +132,6 @@ rule maximum_likelihood_tree_step_3: output: "tree/concatenated.fasta.raxml.bestTree.raxml.support", "tree/concatenated.fasta.raxml.bestTree.raxml.log" - conda: - "envs/yamlfile.yaml" params: threads=multiprocessing.cpu_count(), shell: