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Remove conda need
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Rendrick27 committed May 12, 2024
1 parent 858d8af commit 1b9bf24
Showing 1 changed file with 0 additions and 8 deletions.
8 changes: 0 additions & 8 deletions Snakefile
Original file line number Diff line number Diff line change
Expand Up @@ -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}"

Expand Down Expand Up @@ -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"
Expand All @@ -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,
Expand All @@ -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:
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