adding meta variables

viash-hub · Aug 26, 2024 · aa2c460 · aa2c460
1 parent 146ca1f
commit aa2c460
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Showing 2 changed files with 4 additions and 1 deletion.
diff --git a/src/bcftools/bcftools_sort/config.vsh.yaml b/src/bcftools/bcftools_sort/config.vsh.yaml
@@ -39,13 +39,14 @@ argument_groups:
     arguments:
       - name: --output_type
         type: string
+        choices: [b, u, z, v]
         description: | 
           Compresses or uncompresses the output.
           The options are:
             b: compressed BCF, 
             u: uncompressed BCF, 
             z: compressed VCF, 
-            v: uncompressed VCF.
+            v: uncompressed VCF.        
 
 resources:
   - type: bash_script

diff --git a/src/bcftools/bcftools_sort/script.sh b/src/bcftools/bcftools_sort/script.sh
@@ -10,5 +10,7 @@ set -eo pipefail
 bcftools sort \
     -o "$par_output" \
     ${par_output_type:+-O "$par_output_type"} \
+    ${meta_memory_mb:+-m "${meta_memory_mb}M"} \
+    ${meta_temp_dir:+-T "$meta_temp_dir"} \
     $par_input \