Changeset 7773 for branches/UKMO/dev_r5785_SSS_obsoper/NEMOGCM/SETTE/all_functions.sh

Timestamp:

2017-03-09T13:52:43+01:00 (7 years ago)

Author:

mattmartin

Message:

Committing updates after doing the following:

• merging the branch dev_r4650_general_vert_coord_obsoper@7763 into this branch
• updating it so that the following OBS changes were implemented correctly on top of the simplification changes:
  • generalised vertical coordinate for profile obs. This was done so that is now the default option.
  • sst bias correction implemented with the new simplified obs code.
  • included the biogeochemical obs types int he new simplified obs code.
  • included the changes to exclude obs in the boundary for limited area models
  • included other changes for the efficiency of the obs operator to remove global arrays.

File:

• branches/UKMO/dev_r5785_SSS_obsoper/NEMOGCM/SETTE/all_functions.sh (modified) (4 diffs, 1 prop)

branches/UKMO/dev_r5785_SSS_obsoper/NEMOGCM/SETTE/all_functions.sh

@@ -79 +79 @@
 # ==========
 #
-# $Id$
+# $Id: all_functions.sh 4316 2013-11-26 15:43:56Z clevy $
 #
 #   * creation
@@ -286 +286 @@
         echo "################" >> ${SETTE_DIR}/output.sette
 
+        inxml=$1
         VAR_NAME=$( grep "^.*<.*file_definition.*type.*=" ${EXE_DIR}/$1 | sed -e "s% *\!.*%%" )
         if [ ${#VAR_NAME} -eq 0 ]
         then
+# This may have failed because the job is using XIOS_2.0 conventions and the file descriptions have moved to file_def.xml
+# Check again in case this is the case
+          VAR_NAME=$( grep "^.*<.*file_definition.*type.*=" ${EXE_DIR}/file_def.xml | sed -e "s% *\!.*%%" )
+          inxml="file_def.xml"
+          if [ ${#VAR_NAME} -eq 0 ]
+          then
                 echo "doing \"set_xio_file_type $@\". "
                 echo "xml_tag: file_definition with variable: type is empty"
-                echo "confirm that an appropriate file_definition is in \"${EXE_DIR}/$1\" "
+                echo "confirm that an appropriate file_definition is in \"${EXE_DIR}/$1\" or file_def.xml"
                 echo "exit"
                 echo "error in executing script : set_xio_file_type $@" >> ${SETTE_DIR}/output.sette
                 echo "....." >> ${SETTE_DIR}/output.sette
                 exit 1
+          fi
         fi
         if [ $2 == "one_file" ] 
         then
-           sed -e "s:multiple_file:one_file:" ${EXE_DIR}/$1 > ${EXE_DIR}/$1.tmp
+           sed -e "s:multiple_file:one_file:" ${EXE_DIR}/$inxml > ${EXE_DIR}/$inxml.tmp
         else
-           sed -e "s:one_file:multiple_file:" ${EXE_DIR}/$1 > ${EXE_DIR}/$1.tmp
-        fi
-        mv ${EXE_DIR}/$1.tmp ${EXE_DIR}/$1
+           sed -e "s:one_file:multiple_file:" ${EXE_DIR}/$inxml > ${EXE_DIR}/$inxml.tmp
+        fi
+        mv ${EXE_DIR}/$inxml.tmp ${EXE_DIR}/$inxml
 
         echo "finished script : set_xio_file_type $@" >> ${SETTE_DIR}/output.sette
@@ -336 +344 @@
         if [ ${#VAR_NAME} -eq 0 ]
         then
+# This may have failed because the iodef file is using XIOS_2.0 syntax where "boolean" has reduced to "bool"
+# Check again in case this is the case
+          VAR_NAME=$( grep "^.*<.*variable id.*=.*using_server.*=.*bool" ${EXE_DIR}/$1 | sed -e "s% *\!.*%%" )
+           if [ ${#VAR_NAME} -eq 0 ]
+           then
                 echo "doing \"set_xio_using_server $@\". "
-                echo "xml_tag: "variable id=using_server" with variable: boolean is empty"
+                echo "xml_tag: "variable id=using_server" with either variable: boolean or bool is empty"
                 echo "confirm that an appropriate variable id is in \"${EXE_DIR}/$1\" "
                 echo "exit"
@@ -343 +356 @@
                 echo "....." >> ${SETTE_DIR}/output.sette
                 exit 1
+           fi
         fi
         if [ $2 == "false" ]