Merge pull request #47 from PNNL-CompBio/v1.0.0

V1.0.0
PNNL-CompBio · Apr 5, 2022 · bc760a4 · bc760a4
2 parents deb4b98 + 649fecb
commit bc760a4
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Showing 2 changed files with 2 additions and 3 deletions.
diff --git a/snekmer/rules/cluster.smk b/snekmer/rules/cluster.smk
@@ -101,7 +101,7 @@ use rule unzip from process_input with:
 # read and process parameters from config
 use rule preprocess from process_input with:
     input:
-        fasta=lambda wildcards: join("input", f"{wildcards.nb}.{fa_map[wildcards.nb]}"),
+        fasta=lambda wildcards: join("input", f"{wildcards.nb}.{FA_MAP[wildcards.nb]}"),
     output:
         data=join(out_dir, "processed", "full", "{nb}.json"),
         desc=join(out_dir, "processed", "full", "{nb}_description.csv"),
@@ -124,7 +124,7 @@ use rule vectorize_full from kmerize with:
     input:
         kmers=join(out_dir, "labels", "full", "{nb}.txt"),
         params=join(out_dir, "processed", "{nb}.json"),
-        fasta=lambda wildcards: join("input", f"{wildcards.nb}.{fa_map[wildcards.nb]}"),
+        fasta=lambda wildcards: join("input", f"{wildcards.nb}.{FA_MAP[wildcards.nb]}"),
     log:
         join(out_dir, "features", "log", "{nb}.log"),
     output:

diff --git a/snekmer/rules/model.smk b/snekmer/rules/model.smk
@@ -375,7 +375,6 @@ rule model:
         )
 
         # collate ROC-AUC results
-        # collate PR-AUC results
         results["family"] += [family] * cv
         results["alphabet_name"] += [alphabet_name.lower()] * cv
         results["k"] += [config["k"]] * cv