Mercurial > repos > rliterman > csp2

diff CSP2/bin/chooseRefs.py @ 39:93393808f415

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"planemo upload"
author rliterman
date Thu, 12 Dec 2024 13:53:15 -0500
parents 893a6993efe3
children
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--- a/CSP2/bin/chooseRefs.py	Wed Dec 11 12:04:20 2024 -0500
+++ b/CSP2/bin/chooseRefs.py	Thu Dec 12 13:53:15 2024 -0500
@@ -186,6 +186,8 @@
 non_ref_df = cluster_df.loc[~cluster_df['Isolate_ID'].isin(refs_chosen)].sort_values('Base_Score', ascending=False)
 non_ref_df['Is_Ref'] = False
 final_ref_df['Is_Ref'] = True
-pd.concat([final_ref_df, non_ref_df]).reset_index(drop=True).to_csv(ref_file, index=False, sep="\t")
+
+with open(ref_file, 'w') as f:
+    pd.concat([final_ref_df, non_ref_df]).reset_index(drop=True).to_csv(f, index=False, sep="\t")
 
 print(",".join(final_ref_df['Path'].tolist()))
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