Add missing vertexPipelineStoresAndAtomics checks in ray query tests

Add missing vertexPipelineStoresAndAtomics checks in ray query tests

Affected tests:
dEQP-VK.ray_query.acceleration_structures.*.vertex_shader.*
dEQP-VK.ray_query.acceleration_structures.*.tess_control_shader.*
dEQP-VK.ray_query.acceleration_structures.*.tess_evaluation_shader.*
dEQP-VK.ray_query.acceleration_structures.*.geometry_shader.*
dEQP-VK.ray_query.ray_flags.vertex_shader.*
dEQP-VK.ray_query.ray_flags.tess_control_shader.*
dEQP-VK.ray_query.ray_flags.tess_evaluation_shader.*
dEQP-VK.ray_query.ray_flags.geometry_shader.*
dEQP-VK.ray_query.traversal_control.vertex_shader.*
dEQP-VK.ray_query.traversal_control.tess_control_shader.*
dEQP-VK.ray_query.traversal_control.tess_evaluation_shader.*
dEQP-VK.ray_query.traversal_control.geometry_shader.*

Components: Vulkan

VK-GL-CTS Issue: 3069

Change-Id: I49c37d292380fda47b113bf4fa14a6395f8e81a5