From 12894339c46d618d58eeeb24356362d6cc41cac6 Mon Sep 17 00:00:00 2001
From: Yi-Cheng Teng - NOAA GFDL
 <143743249+yichengt900@users.noreply.github.com>
Date: Sun, 21 Jan 2024 19:49:14 -0500
Subject: [PATCH] add doc files to archive (#7)

---
 ci/create_run_xml_from_template.bash         | 10 ++++++++++
 ci/ocean_ice_cobalt_experiments.template.xml | 15 +++++++++++++++
 ci/platforms.xml                             | 16 ++++++++--------
 3 files changed, 33 insertions(+), 8 deletions(-)

diff --git a/ci/create_run_xml_from_template.bash b/ci/create_run_xml_from_template.bash
index 033ecbb..be86f60 100755
--- a/ci/create_run_xml_from_template.bash
+++ b/ci/create_run_xml_from_template.bash
@@ -167,6 +167,16 @@ else
     exit 100
 fi
 
+# Check 
+if [ -d 19930101.extra.results ]; then rm -rf 19930101.extra.results ; fi
+tar -xvf ${DEV}/${USER}/github/cefi_NWA12_regression_${CURRENT_DATE}/NWA12_COBALT_V1/ncrc5.intel22-repro/archive/1x0m2d_1646x1o/ascii/19930101.ascii_out.tar ./19930101.extra.results/
+# MOM_parameter_doc.all
+diff -q ./19930101.extra.results/MOM_parameter_doc.all /gpfs/f5/cefi/proj-shared/github/ci_data/reference/NWA12_RT/1x0m2d_1646x1o/ascii/19930101.extra.results/MOM_parameter_doc.all > /dev/null || { echo "Error: MOM_parameter_doc.all are different, check and update ref! Exiting now..."; exit 1; }
+# SIS_parameter_doc.all
+diff -q ./19930101.extra.results/SIS_parameter_doc.all /gpfs/f5/cefi/proj-shared/github/ci_data/reference/NWA12_RT/1x0m2d_1646x1o/ascii/19930101.extra.results/SIS_parameter_doc.all > /dev/null || { echo "Error: SIS_parameter_doc.all are different, check and update ref! Exiting now..."; exit 1; }
+# ocean.stats
+diff -q ./19930101.extra.results/ocean.stats /gpfs/f5/cefi/proj-shared/github/ci_data/reference/NWA12_RT/1x0m2d_1646x1o/ascii/19930101.extra.results/ocean.stats > /dev/null || { echo "Error: ocean.stats are different, check and update ref! Exiting now..."; exit 1; }
+
 # Final clean-up
 rm -rf ${DEV}/${USER}/work/github/cefi_NWA12_regression_${CURRENT_DATE}
 rm -rf ${DEV}/${USER}/ptmp/github/cefi_NWA12_regression_${CURRENT_DATE}
diff --git a/ci/ocean_ice_cobalt_experiments.template.xml b/ci/ocean_ice_cobalt_experiments.template.xml
index 60df9f5..121f2fb 100644
--- a/ci/ocean_ice_cobalt_experiments.template.xml
+++ b/ci/ocean_ice_cobalt_experiments.template.xml
@@ -514,6 +514,21 @@ MOM_OVERRIDE_EOF
       </regression>
       <reference restart="$(ACR)/reference/NWA12_RT/1x0m2d_1646x1o/restart/19930103.tar"/>
     </runtime>
+
+    <postProcess>
+      <csh><![CDATA[
+         cd $work
+         #Make a directory to trick FRE to pick up and archive in ascii
+         mkdir extra.results
+         mv MOM_parameter_doc* SIS_parameter_doc* seaice.stats* ocean.stats* extra.results/
+         cp diag_table extra.results/.
+         #When the ocean uses a mask_table the ocean_static.nc file produced by the model run has holes in coordinates (geolon,geolat)
+         #This causes problems for ferret and python tools for analysis.
+         #Copy a non-masked version of ocean_static.nc to be saved as a history file to be used by the analysis scipts .
+         cp $work/INPUT/ocean_static_no_mask_table.nc $work/
+      ]]></csh>
+    </postProcess>
+
   </experiment>
 
   <!-- For a new run starting from non-restart initial conditions, this starts the first year as a new run and then restarts for subsequent years -->
diff --git a/ci/platforms.xml b/ci/platforms.xml
index 114a645..29a40e5 100644
--- a/ci/platforms.xml
+++ b/ci/platforms.xml
@@ -6,14 +6,14 @@
       <compiler type="intel-classic" version="2022.0.2"/>
       <project>$(NCRC_GROUP)</project>
       <directory stem="$(FRE_STEM)">
-        <root>$DEV/$USER/$(FRE_STEM)</root>
-        <scripts>$DEV/$USER/$(FRE_STEM)$(DEBUGLEVEL)/$(name)/$(platform)-$(target)/scripts</scripts>
-        <state>$DEV/$USER/$(FRE_STEM)$(DEBUGLEVEL)/$(name)/$(platform)-$(target)/state</state>
-        <src>$DEV/$USER/$(FRE_STEM)/$(BUILD_DATE)/$(name)/src</src>
-        <exec>$DEV/$USER/$(FRE_STEM)/$(BUILD_DATE)/$(name)/$(platform)-$(target)/exec</exec>
-        <archive>$SCRATCH/$USER/$(stem)$(DEBUGLEVEL)/$(name)/$(platform)-$(target)/archive</archive>
-        <stdout>$SCRATCH/$USER/$(stem)$(DEBUGLEVEL)/$(name)/$(platform)-$(target)/stdout</stdout>
-        <work>$SCRATCH/$USER/work/$(stem)/$FRE_JOBID</work>
+        <root>/gpfs/f5/$(project)/scratch/$USER/$(stem)</root>
+        <scripts>$(rootDir)/$(name)/$(platform)-$(target)/scripts</scripts>
+        <state>$(rootDir)/$(name)/$(platform)-$(target)/state</state>
+        <src>$(rootDir)/$(name)/src</src>
+        <exec>$(rootDir)/$(name)/$(platform)-$(target)/exec</exec>
+        <archive>$(rootDir)/$(name)/$(platform)-$(target)/archive</archive>
+        <stdout>$(rootDir)/$(name)/$(platform)-$(target)/stdout</stdout>
+	<work>/gpfs/f5/$(project)/scratch/$USER/work/$(stem)/$FRE_JOBID</work>
       </directory>
       <property name="EXEC_ROOT"         value="$DEV/$USER/$(stem)/$(BUILD_DATE)"/>
       <property name="F2003_FLAGS"       value=" -DINTERNAL_FILE_NML -g "/>