make deepsea_pca_n_components a config value

PMBio · Oct 19, 2023 · a702e31 · a702e31
1 parent fb0f1e0
commit a702e31
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Showing 2 changed files with 3 additions and 2 deletions.
diff --git a/pipelines/annotations.snakefile b/pipelines/annotations.snakefile
@@ -278,7 +278,7 @@ rule deepSea_PCA:
                 "python",
                 f"{annotation_python_file}",
                 "deepsea-pca",
-                "--n-components 100",
+                f"--n-components {config['deepsea_pca_n_components']}",
                 "{input}",
                 str(anno_dir / "deepSea_pca"/ "pca_matrix"),
                 str(anno_dir / "deepSea_pca"),

diff --git a/pipelines/config/deeprvat_annotation_config.yaml b/pipelines/config/deeprvat_annotation_config.yaml
@@ -32,4 +32,5 @@ pybedtools_tmp_path : output_dir/annotations/tmp/pybedtools
 n_jobs_deepripe : 32
 n_cores_merge_absplice : 32
 n_cores_absplice : 32
-deepsea_pca_pickle_filepath : annotations/deepSea_pca/pca.pkl
+deepsea_pca_pickle_filepath : annotations/deepSea_pca/pca.pkl
+deepsea_pca_n_components: 100