Fixed discrepancy with previous merged from filter-new-addresses into…

… filter_query
phac-nml · May 16, 2024 · e4d5031 · e4d5031
1 parent 6cf40c3
commit e4d5031
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Showing 2 changed files with 3 additions and 49 deletions.
diff --git a/modules/local/filter/main.nf b/modules/local/filter/main.nf
diff --git a/modules/local/filter_query/main.nf b/modules/local/filter_query/main.nf
@@ -13,7 +13,7 @@ process FILTER_QUERY {
     val out_format
 
     output:
-    path("new_addresses.csv"),  emit: csv
+    path("new_addresses.*"),    emit: csv
     path("versions.yml"),       emit: versions
 
     script:
@@ -31,11 +31,8 @@ process FILTER_QUERY {
         ${addresses} \\
         --filter '\$id == \"$queryID\"' \\
         --delimiter "${delimiter}" \\
-        --out-delimiter "${out_delimiter}" \\
-        --out-file ${outputFile}.tmp
-
-    csvtk cut -f 1,2 ${outputFile}.tmp > ${outputFile}.${out_extension}
-    rm ${outputFile}.tmp
+        --out-delimiter "${out_delimiter}" | \\
+    csvtk cut -f id,address > ${outputFile}.${out_extension}
 
     cat <<-END_VERSIONS > versions.yml
     "${task.process}":