store xrefs and more debug

DessimozLab · Aug 23, 2024 · dca3ad6 · dca3ad6
1 parent 51a1c74
commit dca3ad6
Showing 1 changed file with 3 additions and 1 deletion.
diff --git a/modules/local/hdf5import/main.nf b/modules/local/hdf5import/main.nf
@@ -11,14 +11,16 @@ process ADD_GENOMES {
 
     output:
         path "OmaServer.h5", emit: db_h5
+        path "SourceXRefs.h5", emit: source_xref_h5
 
     script:
         """
-        oma-build genomes \
+        oma-build -vv genomes \
                 --db OmaServer.h5 \
                 --gs-tsv $gs_tsv \
                 --tax-tsv $tax_tsv \
                 --oma-groups $oma_groups \
+                --xref-db SourceXRefs.h5 \
                 --genomes $genomes_json
         """