Finalize LucaVirus GPU WDL smoke support

Require LucaVirus executions to use GPU mode and narrow workflow metadata to protein FASTA inputs.

Add local Cromwell GPU configuration, miniWDL and Cromwell test inputs, empty-input and protein smoke fixtures, and a documented integration plan.

Ignore local Cromwell run outputs so generated logs and metadata do not get committed.

Author: carze

.gitignore

@@ -78,4 +78,10 @@ tools/conda-tools/
 # miniWDL
 default.profraw
 
-.vscode/
+# Local Cromwell run artifacts
+/cromwell-executions/
+/_LAST
+/*.cromwell.out
+/*.metadata.json
+
+.vscode/