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Read access xml #337

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6f67bca
XIOS3 compatibility XML changes
mo-marqh Dec 2, 2025
4b071af
fix field_group
mo-marqh Dec 17, 2025
036fe4f
XML compatibility XIOS3
mo-marqh Dec 17, 2025
5436c8c
read access flag for jedi tests
mo-marqh Dec 17, 2025
81b62fe
update further XML for read_access
mo-marqh Dec 17, 2025
6c2ad07
read_access
mo-marqh Jan 20, 2026
0ff3746
more read_access, still failing ral tests tho
mo-marqh Jan 29, 2026
10a780e
revert accidental scalar references
mo-marqh Mar 2, 2026
d6133f7
simplify XML changes
mo-marqh Mar 4, 2026
cca3a53
revert a small number of XML changes to avoid XIOS2 error stating tha…
mo-marqh Mar 5, 2026
116d32f
increase memory for specific tasks - use of memory by XIOS attached m…
mo-marqh Mar 5, 2026
620c638
revert incorrectly configured read_access on write fields
mo-marqh Mar 9, 2026
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10 changes: 9 additions & 1 deletion applications/adjoint_tests/example/iodef.xml
View file
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Original file line number Diff line number Diff line change
Expand Up @@ -246,6 +246,7 @@

<!-- file definition for checkpoint read -->
<file id="lfric_checkpoint_read" name="lfric_checkpoint_read" mode="read" output_freq="1ts" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="restart_theta" name="theta" long_name="air_potential_temperature" standard_name="air_potential_temperature" unit="K" operation="instant" domain_ref="checkpoint_Wtheta" />
<field id="restart_exner" name="exner" long_name="exner_pressure" unit="1" operation="instant" domain_ref="checkpoint_W3" />
<field id="restart_rho" name="rho" long_name="air_density" standard_name="air_density" unit="kg m-3" operation="instant" domain_ref="checkpoint_W3" />
Expand All @@ -256,6 +257,7 @@
<field id="restart_m_ci" name="m_ci" long_name="m_ci" unit="kg/kg" operation="instant" domain_ref="checkpoint_Wtheta" />
<field id="restart_m_s" name="m_s" long_name="m_s" unit="kg/kg" operation="instant" domain_ref="checkpoint_Wtheta" />
<field id="restart_m_g" name="m_g" long_name="m_g" unit="kg/kg" operation="instant" domain_ref="checkpoint_Wtheta" />
</field_group>
</file>

<file id="lfric_diag" name="lfric_diag" output_freq="6h" convention="UGRID" enabled=".TRUE.">
Expand Down Expand Up @@ -297,6 +299,7 @@
<!-- File definition for reading in from a UM2LFRic FD UGRID format dump -->

<file id="read_lfric_fd_dump" name="lfric_fd_dump" mode="read" output_freq="1ts" convention="UGRID" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="read_h_u" name="h_u" long_name="horizontal_wind" standard_name="horizontal_wind" unit="m s-1" grid_ref="half_level_edge_grid" operation="instant" />
<field id="read_v_u" name="v_u" long_name="vertical_wind" standard_name="vertical_wind" unit="m s-1" grid_ref="full_level_face_grid" operation="instant" />
<field id="read_theta" name="theta" long_name="air_potential_temperature" standard_name="air_potential_temperature" unit="K" grid_ref="full_level_face_grid" operation="instant" />
Expand All @@ -306,16 +309,20 @@
<field id="read_m_cl" name="m_cl" long_name="cloud_liquid_water_mixing_ratio" unit="kg/kg" grid_ref="full_level_face_grid" operation="instant" />
<field id="read_m_s" name="m_s" long_name="snow_mixing_ratio" unit="kg/kg" grid_ref="full_level_face_grid" operation="instant" />
<field id="read_m_r" name="m_r" long_name="rain_mixing_ratio" unit="kg/kg" grid_ref="full_level_face_grid" operation="instant" />
</field_group>
</file>

<!-- ANCIL FILES -->

<file id="orography_mean_ancil" name="orography_mean_ancil" mode="read" output_freq="1ts" convention="UGRID" cyclic="false" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="surface_altitude" name="surface_altitude" long_name="Surface altitude" unit="m" operation="once" domain_ref="face"/>
</field_group>
</file>

<!-- LS files -->
<file id="ls" name="ls" mode="read" output_freq="1ts" convention="UGRID" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="ls_time" name="time" unit="seconds" operation="once" axis_ref="ls_axis" />
<field id="ls_theta_data" name="theta" long_name="air_potential_temperature" standard_name="air_potential_temperature" unit="K" grid_ref="full_level_face_time_grid" operation="once" />
<field id="ls_m_v_data" name="m_v" long_name="m_v" standard_name="m_v" unit="kg/kg" grid_ref="full_level_face_time_grid" operation="once" />
Expand All @@ -327,7 +334,8 @@
<field id="ls_u_in_w3_data" name="u_in_w3" long_name="NS wind" unit="m s-1" grid_ref="half_level_face_time_grid" operation="once"/>
<field id="ls_v_in_w3_data" name="v_in_w3" long_name="EW wind" unit="m s-1" grid_ref="half_level_face_time_grid" operation="once"/>
<field id="ls_w_in_wth_data" name="w_in_wth" long_name="Upward wind" unit="m s-1" grid_ref="full_level_face_time_grid" operation="once"/>
<field id="ls_land_fraction_data" name="land_area_fraction" long_name="land_area_fraction" unit="1" grid_ref="one_level_face_time_grid" operation="once" />
<field id="ls_land_fraction_data" name="land_area_fraction" long_name="land_area_fraction" unit="1" grid_ref="one_level_face_time_grid" operation="once" />
</field_group>
</file>

</file_definition>
Expand Down
2 changes: 2 additions & 0 deletions applications/gravity_wave/example/iodef.xml
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Original file line number Diff line number Diff line change
Expand Up @@ -74,9 +74,11 @@

<!-- file definition for checkpoint read -->
<file id="lfric_checkpoint_read" name="lfric_checkpoint" mode="read" output_freq="1ts" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="restart_pressure" name="pressure" long_name="air_pressure" standard_name="air_pressure" unit="Pa" operation="instant" domain_ref="checkpoint_W3" />
<field id="restart_buoyancy" name="buoyancy" long_name="buoyancy" unit="kg m s-2" operation="instant" domain_ref="checkpoint_Wtheta" />
<field id="restart_wind" name="wind" long_name="wind" unit="m s-1" operation="instant" domain_ref="checkpoint_W2" />
</field_group>
</file>

<file id="lfric_diag" name="lfric_diag" output_freq="1ts" convention="UGRID" enabled=".TRUE.">
Expand Down
14 changes: 11 additions & 3 deletions applications/gungho_model/lam_example/baroclinic/iodef.xml
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Original file line number Diff line number Diff line change
Expand Up @@ -238,6 +238,7 @@

<!-- file definition for checkpoint read -->
<file id="lfric_checkpoint_read" name="lfric_checkpoint_read" mode="read" output_freq="1ts" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="restart_theta" name="theta" long_name="air_potential_temperature" standard_name="air_potential_temperature" unit="K" operation="instant" domain_ref="checkpoint_Wtheta" />
<field id="restart_exner" name="exner" long_name="exner_pressure" unit="1" operation="instant" domain_ref="checkpoint_W3" />
<field id="restart_rho" name="rho" long_name="air_density" standard_name="air_density" unit="kg m-3" operation="instant" domain_ref="checkpoint_W3" />
Expand All @@ -248,6 +249,7 @@
<field id="restart_m_ci" name="m_ci" long_name="m_ci" unit="kg/kg" operation="instant" domain_ref="checkpoint_Wtheta" />
<field id="restart_m_s" name="m_s" long_name="m_s" unit="kg/kg" operation="instant" domain_ref="checkpoint_Wtheta" />
<field id="restart_m_g" name="m_g" long_name="m_g" unit="kg/kg" operation="instant" domain_ref="checkpoint_Wtheta" />
</field_group>
</file>

<file id="lfric_diag" name="lfric_diag" output_freq="6h" convention="UGRID" enabled=".TRUE.">
Expand Down Expand Up @@ -333,6 +335,7 @@
<!-- File definition for reading in from a UM2LFRic FD UGRID format dump -->

<file id="read_lfric_fd_dump" name="lfric_fd_dump" mode="read" output_freq="1ts" convention="UGRID" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="read_ew_wind_in_w3" name="ew_wind_in_w3" long_name="eastward_wind" standard_name="eastward_wind" unit="m s-1" grid_ref="half_level_face_grid" operation="instant" />
<field id="read_ns_wind_in_w3" name="ns_wind_in_w3" long_name="northward_wind" standard_name="northward_wind" unit="m s-1" grid_ref="half_level_face_grid" operation="instant" />
<field id="read_theta_in_wtheta" name="theta_in_wtheta" long_name="air_potential_temperature" standard_name="air_potential_temperature" unit="K" grid_ref="full_level_face_grid" operation="instant" />
Expand All @@ -343,23 +346,28 @@
<field id="read_mcl_in_wtheta" name="mcl_in_wtheta" long_name="cloud_liquid_water_mixing_ratio" unit="1" grid_ref="full_level_face_grid" operation="instant" />
<field id="read_mcf_in_wtheta" name="mcf_in_wtheta" long_name="cloud_ice_mixing_ratio" unit="1" grid_ref="full_level_face_grid" operation="instant" />
<field id="read_tstar" name="tstar" long_name="surface_temperature" standard_name="surface_temperature" unit="K" domain_ref="face" operation="instant" />
</field_group>
</file>

<!-- ANCIL FILES -->

<file id="orography_mean_ancil" name="orography_mean_ancil" mode="read" output_freq="1ts" convention="UGRID" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="surface_altitude" name="surface_altitude" long_name="Surface altitude" unit="m" operation="once" domain_ref="face"/>
</file>
</field_group>
</file>

<!-- LBC files -->
<file id="lbc" name="lbc" mode="read" output_freq="1ts" convention="UGRID" cyclic="true" enabled=".FALSE.">
<file id="lbc" name="lbc" mode="read" output_freq="1ts" convention="UGRID" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="lbc_time" name="time" unit="seconds" operation="once" axis_ref="lbc_axis" />
<field id="lbc_theta_data" name="theta" long_name="air_potential_temperature" standard_name="air_potential_temperature" unit="K" grid_ref="full_level_face_time_grid" operation="once" />
<field id="lbc_rho_data" name="rho" long_name="air_density" standard_name="air_density" unit="kg m-3" grid_ref="half_level_face_time_grid" operation="once"/>
<field id="lbc_exner_data" name="exner" long_name="exner_pressure" unit="1" grid_ref="half_level_face_time_grid" operation="once"/>
<field id="lbc_h_u_data" name="h_u" long_name="horizontal_wind" unit="m s-1" grid_ref="half_level_edge_time_grid" operation="once"/>
<field id="lbc_v_u_data" name="v_u" long_name="vertical_wind" standard_name="vertical_wind" unit="m s-1" grid_ref="full_level_face_time_grid" operation="once"/>
</file>
</field_group>
</file>

</file_definition>

Expand Down
16 changes: 12 additions & 4 deletions applications/gungho_model/lam_example/straka/iodef.xml
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Original file line number Diff line number Diff line change
Expand Up @@ -238,6 +238,7 @@

<!-- file definition for checkpoint read -->
<file id="lfric_checkpoint_read" name="lfric_checkpoint_read" mode="read" output_freq="1ts" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="restart_theta" name="theta" long_name="air_potential_temperature" standard_name="air_potential_temperature" unit="K" operation="instant" domain_ref="checkpoint_Wtheta" />
<field id="restart_exner" name="exner" long_name="exner_pressure" unit="1" operation="instant" domain_ref="checkpoint_W3" />
<field id="restart_rho" name="rho" long_name="air_density" standard_name="air_density" unit="kg m-3" operation="instant" domain_ref="checkpoint_W3" />
Expand All @@ -248,7 +249,8 @@
<field id="restart_m_ci" name="m_ci" long_name="m_ci" unit="kg/kg" operation="instant" domain_ref="checkpoint_Wtheta" />
<field id="restart_m_s" name="m_s" long_name="m_s" unit="kg/kg" operation="instant" domain_ref="checkpoint_Wtheta" />
<field id="restart_m_g" name="m_g" long_name="m_g" unit="kg/kg" operation="instant" domain_ref="checkpoint_Wtheta" />
</file>
</field_group>
</file>

<file id="lfric_diag" name="lfric_diag" output_freq="6h" convention="UGRID" enabled=".TRUE.">
<field_group group_ref="derived_fields" />
Expand Down Expand Up @@ -333,6 +335,7 @@
<!-- File definition for reading in from a UM2LFRic FD UGRID format dump -->

<file id="read_lfric_fd_dump" name="lfric_fd_dump" mode="read" output_freq="1ts" convention="UGRID" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="read_ew_wind_in_w3" name="ew_wind_in_w3" long_name="eastward_wind" standard_name="eastward_wind" unit="m s-1" grid_ref="half_level_face_grid" operation="instant" />
<field id="read_ns_wind_in_w3" name="ns_wind_in_w3" long_name="northward_wind" standard_name="northward_wind" unit="m s-1" grid_ref="half_level_face_grid" operation="instant" />
<field id="read_theta_in_wtheta" name="theta_in_wtheta" long_name="air_potential_temperature" standard_name="air_potential_temperature" unit="K" grid_ref="full_level_face_grid" operation="instant" />
Expand All @@ -343,23 +346,28 @@
<field id="read_mcl_in_wtheta" name="mcl_in_wtheta" long_name="cloud_liquid_water_mixing_ratio" unit="1" grid_ref="full_level_face_grid" operation="instant" />
<field id="read_mcf_in_wtheta" name="mcf_in_wtheta" long_name="cloud_ice_mixing_ratio" unit="1" grid_ref="full_level_face_grid" operation="instant" />
<field id="read_tstar" name="tstar" long_name="surface_temperature" standard_name="surface_temperature" unit="K" domain_ref="face" operation="instant" />
</field_group>
</file>

<!-- ANCIL FILES -->

<file id="orography_mean_ancil" name="orography_mean_ancil" mode="read" output_freq="1ts" convention="UGRID" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="surface_altitude" name="surface_altitude" long_name="Surface altitude" unit="m" operation="once" domain_ref="face"/>
</file>
</field_group>
</file>

<!-- LBC files -->
<file id="lbc" name="lbc" mode="read" output_freq="1ts" convention="UGRID" cyclic="true" enabled=".FALSE.">
<file id="lbc" name="lbc" mode="read" output_freq="1ts" convention="UGRID" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="lbc_time" name="time" unit="seconds" operation="once" axis_ref="lbc_axis" />
<field id="lbc_theta_data" name="theta" long_name="air_potential_temperature" standard_name="air_potential_temperature" unit="K" grid_ref="full_level_face_time_grid" operation="once" />
<field id="lbc_rho_data" name="rho" long_name="air_density" standard_name="air_density" unit="kg m-3" grid_ref="half_level_face_time_grid" operation="once"/>
<field id="lbc_exner_data" name="exner" long_name="exner_pressure" unit="1" grid_ref="half_level_face_time_grid" operation="once"/>
<field id="lbc_h_u_data" name="h_u" long_name="horizontal_wind" unit="m s-1" grid_ref="half_level_edge_time_grid" operation="once"/>
<field id="lbc_v_u_data" name="v_u" long_name="vertical_wind" standard_name="vertical_wind" unit="m s-1" grid_ref="full_level_face_time_grid" operation="once"/>
</file>
</field_group>
</file>

</file_definition>

Expand Down
10 changes: 9 additions & 1 deletion applications/jedi_lfric_tests/example/iodef.xml
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Original file line number Diff line number Diff line change
Expand Up @@ -253,6 +253,7 @@

<!-- file definition for checkpoint read -->
<file id="lfric_checkpoint_read" name="lfric_checkpoint_read" mode="read" output_freq="1ts" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="restart_theta" name="theta" long_name="air_potential_temperature" standard_name="air_potential_temperature" unit="K" operation="instant" domain_ref="checkpoint_Wtheta" />
<field id="restart_exner" name="exner" long_name="exner_pressure" unit="1" operation="instant" domain_ref="checkpoint_W3" />
<field id="restart_rho" name="rho" long_name="air_density" standard_name="air_density" unit="kg m-3" operation="instant" domain_ref="checkpoint_W3" />
Expand All @@ -263,6 +264,7 @@
<field id="restart_m_ci" name="m_ci" long_name="m_ci" unit="kg/kg" operation="instant" domain_ref="checkpoint_Wtheta" />
<field id="restart_m_s" name="m_s" long_name="m_s" unit="kg/kg" operation="instant" domain_ref="checkpoint_Wtheta" />
<field id="restart_m_g" name="m_g" long_name="m_g" unit="kg/kg" operation="instant" domain_ref="checkpoint_Wtheta" />
</field_group>
</file>

<file id="lfric_diag" name="lfric_diag" output_freq="6h" convention="UGRID" enabled=".TRUE.">
Expand Down Expand Up @@ -304,6 +306,7 @@
<!-- File definition for reading in from a UM2LFRic FD UGRID format dump -->

<file id="read_lfric_fd_dump" name="lfric_fd_dump" mode="read" output_freq="1ts" convention="UGRID" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="read_h_u" name="h_u" long_name="horizontal_wind" standard_name="horizontal_wind" unit="m s-1" grid_ref="half_level_edge_grid" operation="instant" />
<field id="read_v_u" name="v_u" long_name="vertical_wind" standard_name="vertical_wind" unit="m s-1" grid_ref="full_level_face_grid" operation="instant" />
<field id="read_theta" name="theta" long_name="air_potential_temperature" standard_name="air_potential_temperature" unit="K" grid_ref="full_level_face_grid" operation="instant" />
Expand All @@ -313,16 +316,20 @@
<field id="read_m_cl" name="m_cl" long_name="cloud_liquid_water_mixing_ratio" unit="kg/kg" grid_ref="full_level_face_grid" operation="instant" />
<field id="read_m_s" name="m_s" long_name="cloud_snow_mixing_ratio" unit="kg/kg" grid_ref="full_level_face_grid" operation="instant" />
<field id="read_m_r" name="m_r" long_name="rain_mixing_ratio" unit="kg/kg" grid_ref="full_level_face_grid" operation="instant" />
</field_group>
</file>

<!-- ANCIL FILES -->

<file id="orography_mean_ancil" name="orography_mean_ancil" mode="read" output_freq="1ts" convention="UGRID" cyclic="false" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="surface_altitude" name="surface_altitude" long_name="Surface altitude" unit="m" operation="once" domain_ref="face"/>
</field_group>
</file>

<!-- LS files -->
<file id="ls" name="ls" mode="read" output_freq="1ts" convention="UGRID" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="ls_time" name="time" unit="seconds" operation="once" axis_ref="ls_axis" />
<field id="ls_theta_data" name="theta" long_name="air_potential_temperature" standard_name="air_potential_temperature" unit="K" grid_ref="full_level_face_time_grid" operation="once" />
<field id="ls_m_v_data" name="m_v" long_name="m_v" standard_name="m_v" unit="kg/kg" grid_ref="full_level_face_time_grid" operation="once" />
Expand All @@ -336,7 +343,8 @@
<field id="ls_u_in_w3_data" name="u_in_w3" long_name="NS wind" unit="m s-1" grid_ref="half_level_face_time_grid" operation="once"/>
<field id="ls_v_in_w3_data" name="v_in_w3" long_name="EW wind" unit="m s-1" grid_ref="half_level_face_time_grid" operation="once"/>
<field id="ls_w_in_wth_data" name="w_in_wth" long_name="Upward wind" unit="m s-1" grid_ref="full_level_face_time_grid" operation="once"/>
<field id="ls_land_fraction_data" name="land_area_fraction" long_name="land_area_fraction" unit="1" grid_ref="one_level_face_time_grid" operation="once" />
<field id="ls_land_fraction_data" name="land_area_fraction" long_name="land_area_fraction" unit="1" grid_ref="one_level_face_time_grid" operation="once" />
</field_group>
</file>

</file_definition>
Expand Down
4 changes: 4 additions & 0 deletions applications/jedi_lfric_tests/example_forecast/iodef.xml
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Original file line number Diff line number Diff line change
Expand Up @@ -207,6 +207,7 @@
<!-- File definition for reading in from a UM2LFRic FD UGRID format dump -->

<file id="read_lfric_fd_dump" name="lfric_fd_dump" mode="read" output_freq="1ts" convention="UGRID" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="read_ew_wind_in_w3" name="ew_wind_in_w3" long_name="eastward_wind" standard_name="eastward_wind" unit="m s-1" grid_ref="half_level_face_grid" operation="instant" />
<field id="read_ns_wind_in_w3" name="ns_wind_in_w3" long_name="northward_wind" standard_name="northward_wind" unit="m s-1" grid_ref="half_level_face_grid" operation="instant" />
<field id="read_theta_in_wtheta" name="theta_in_wtheta" long_name="air_potential_temperature" standard_name="air_potential_temperature" unit="K" grid_ref="full_level_face_grid" operation="instant" />
Expand All @@ -217,12 +218,15 @@
<field id="read_mcl_in_wtheta" name="mcl_in_wtheta" long_name="cloud_liquid_water_mixing_ratio" unit="1" grid_ref="full_level_face_grid" operation="instant" />
<field id="read_mcf_in_wtheta" name="mcf_in_wtheta" long_name="cloud_ice_mixing_ratio" unit="1" grid_ref="full_level_face_grid" operation="instant" />
<field id="read_tstar" name="tstar" long_name="surface_temperature" standard_name="surface_temperature" unit="K" domain_ref="face" operation="instant" />
</field_group>
</file>

<!-- ANCIL FILES -->

<file id="orography_mean_ancil" name="orography_mean_ancil" mode="read" output_freq="1ts" convention="UGRID" cyclic="true" enabled=".FALSE.">
<field_group read_access=".TRUE.">
<field id="surface_altitude" name="surface_altitude" long_name="Surface altitude" unit="m" operation="once" domain_ref="face"/>
</field_group>
</file>

</file_definition>
Expand Down
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