fix rule typos

ktmeaton · Mar 3, 2021 · 78c7b94 · 78c7b94
1 parent 645b185
commit 78c7b94
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/workflow/rules/alignment.smk b/workflow/rules/alignment.smk
@@ -147,7 +147,7 @@ rule snippy_multi:
         results_dir + "/snippy_multi/{reads_origin}/snippy-core.txt",
         #snp_aln = results_dir + "/snippy_multi/{reads_origin}/snippy-core.aln",
         full_aln            = results_dir + "/snippy_multi/{reads_origin}/snippy-core.full.aln",
-        log                 = logs_dir, "snippy_multi/{reads_origin}/snippy-core.log")
+        log                 = logs_dir    + "/snippy_multi/{reads_origin}/snippy-core.log",
     log:
         os.path.join(logs_dir, "snippy_multi","{reads_origin}","snippy-core.log")
     shell:

diff --git a/workflow/rules/targets.smk b/workflow/rules/targets.smk
@@ -265,7 +265,7 @@ parse_tree_all_input      = expand(results_dir + "/parse_tree/all/{locus_name}_f
                                missing_data = config["snippy_missing_data"])
 parse_tree_local_input    = [ x.replace("all", "local") for x in parse_tree_all_input ]
 parse_tree_sra_input      = [ x.replace("all", "sra") for x in parse_tree_all_input ]
-parse_tree_assembly_input = [ x.replace("all", "assembly") for x in parse_tree_scf_all_input ]
+parse_tree_assembly_input = [ x.replace("all", "assembly") for x in parse_tree_all_input ]
 
 
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