fix test error

viash-hub · Feb 6, 2024 · a54ab73 · a54ab73
1 parent 9bdb3fa
commit a54ab73
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Showing 2 changed files with 4 additions and 4 deletions.
diff --git a/src/lofreq/call/config.vsh.yaml b/src/lofreq/call/config.vsh.yaml
@@ -234,7 +234,8 @@ functionality:
   test_resources:
     - type: bash_script
       path: test.sh
-    - path: test_data
+    - type: file
+      path: test_data
 platforms:
   - type: docker
     image: quay.io/biocontainers/lofreq:2.1.5--py38h794fc9e_10

diff --git a/src/lofreq/call/script.sh b/src/lofreq/call/script.sh
@@ -14,7 +14,7 @@
 [[ "$par_src_qual" == "false" ]] && unset par_src_qual
 [[ "$par_illumina_13" == "false" ]] && unset par_illumina_13
 [[ "$par_use_orphan" == "false" ]] && unset par_use_orphan
-[[ "$_plp_summary_only" == "false" ]] && unset _plp_summary_only
+[[ "$par_plp_summary_only" == "false" ]] && unset par_plp_summary_only
 [[ "$par_no_default_filter" == "false" ]] && unset par_no_default_filter
 [[ "$par_force_overwrite" == "false" ]] && unset par_force_overwrite
 [[ "$par_verbose" == "false" ]] && unset par_verbose
@@ -54,5 +54,4 @@ lofreq call \
   ${par_force_overwrite:+--force-overwrite} \
   ${par_verbose:+--verbose} \
   ${par_debug:+--debug} \
-  "$par_input"
-
+  "$par_input"