From 783f52f19afa64cd627a4d33afb73e13e4426831 Mon Sep 17 00:00:00 2001
From: VIE Benoit <vie@sxphynh>
Date: Mon, 30 Jan 2023 16:39:19 +0100
Subject: [PATCH] bugfixes for mesonh compilation

---
 src/common/aux/modd_nsv.f90             |  9 +++
 src/common/micro/lima.F90               | 42 ++++++++----
 src/common/micro/lima_sedimentation.F90 |  6 +-
 src/mesonh/micro/lima_adjust.f90        |  2 +-
 tools/check_commit_mesonh.sh            | 91 +++++++++++--------------
 5 files changed, 81 insertions(+), 69 deletions(-)

diff --git a/src/common/aux/modd_nsv.f90 b/src/common/aux/modd_nsv.f90
index ec95d8957..569539c40 100644
--- a/src/common/aux/modd_nsv.f90
+++ b/src/common/aux/modd_nsv.f90
@@ -30,6 +30,7 @@
 !!       V. Vionnet     07/17   add blowing snow
 !  P. Wautelet 10/03/2021: add CSVNAMES and CSVNAMES_A to store the name of all the scalar variables
 !  B. Vie         06/2021: add prognostic supersaturation for LIMA
+!  A. Costes      12/2021: add Blaze fire model smoke
 !
 !-------------------------------------------------------------------------------
 !
@@ -145,6 +146,10 @@ INTEGER,DIMENSION(JPMODELMAX)::NSV_FF_A = 0    ! number of ForeFire scalar varia
 INTEGER,DIMENSION(JPMODELMAX)::NSV_FFBEG_A = 0 ! with indices in the range :
 INTEGER,DIMENSION(JPMODELMAX)::NSV_FFEND_A = 0 ! NSV_FFBEG_A...NSV_FFEND_A
 #endif
+! Blaze smoke indexes
+INTEGER,DIMENSION(JPMODELMAX)::NSV_FIRE_A = 0    ! number of Blaze smoke scalar variables
+INTEGER,DIMENSION(JPMODELMAX)::NSV_FIREBEG_A = 0 ! with indices in the range :
+INTEGER,DIMENSION(JPMODELMAX)::NSV_FIREEND_A = 0 ! NSV_FIREBEG_A...NSV_FIREEND_A
 !
 INTEGER,DIMENSION(JPMODELMAX)::NSV_SNW_A = 0    ! number of blowing snow scalar
 INTEGER,DIMENSION(JPMODELMAX)::NSV_SNWBEG_A = 0 ! with indices in the range :
@@ -251,6 +256,10 @@ INTEGER :: NSV_FF    = 0 ! number of ForeFire scalar variables
 INTEGER :: NSV_FFBEG = 0 ! with indices in the range :
 INTEGER :: NSV_FFEND = 0 ! NSV_FFBEG...NSV_FFEND
 #endif
+! Blaze smoke
+INTEGER :: NSV_FIRE    = 0 ! number of Blaze smoke scalar variables
+INTEGER :: NSV_FIREBEG = 0 ! with indices in the range :
+INTEGER :: NSV_FIREEND = 0 ! NSV_FIREBEG...NSV_FIREEND
 !
 INTEGER :: NSV_SNW     = 0 ! number of blowing snow scalar variables
 INTEGER :: NSV_SNWBEG  = 0 ! with indices in the range :
diff --git a/src/common/micro/lima.F90 b/src/common/micro/lima.F90
index 1944e9d42..e90bc6cb0 100644
--- a/src/common/micro/lima.F90
+++ b/src/common/micro/lima.F90
@@ -672,13 +672,20 @@ PINPRS=0.
 PINPRG=0.
 PINPRH=0.
 if ( BUCONF%lbu_enable ) then
-  if ( BUCONF%lbudget_th )                         call BUDGET_STORE_INIT_PHY(D, TBUDGETS(NBUDGET_TH), 'SEDI', zths(:, :, :) * prhodj(:, :, :) )
-  if ( BUCONF%lbudget_rc .and. nmom_c.ge.1 .and. lsedc ) call BUDGET_STORE_INIT_PHY(D, TBUDGETS(NBUDGET_RC), 'SEDI', zrcs(:, :, :) * prhodj(:, :, :) )
-  if ( BUCONF%lbudget_rr .and. nmom_r.ge.1 ) call BUDGET_STORE_INIT_PHY(D, TBUDGETS(NBUDGET_RR), 'SEDI', zrrs(:, :, :) * prhodj(:, :, :) )
-  if ( BUCONF%lbudget_ri .and. nmom_i.ge.1 .and. lsedi ) call BUDGET_STORE_INIT_PHY(D, TBUDGETS(NBUDGET_RI), 'SEDI', zris(:, :, :) * prhodj(:, :, :) )
-  if ( BUCONF%lbudget_rs .and. nmom_s.ge.1 ) call BUDGET_STORE_INIT_PHY(D, TBUDGETS(NBUDGET_RS), 'SEDI', zrss(:, :, :) * prhodj(:, :, :) )
-  if ( BUCONF%lbudget_rg .and. nmom_g.ge.1 ) call BUDGET_STORE_INIT_PHY(D, TBUDGETS(NBUDGET_RG), 'SEDI', zrgs(:, :, :) * prhodj(:, :, :) )
-  if ( BUCONF%lbudget_rh .and. nmom_h.ge.1 ) call BUDGET_STORE_INIT_PHY(D, TBUDGETS(NBUDGET_RH), 'SEDI', zrhs(:, :, :) * prhodj(:, :, :) )
+   if ( BUCONF%lbudget_th ) &
+        call BUDGET_STORE_INIT_PHY(D, TBUDGETS(NBUDGET_TH), 'SEDI', zths(:, :, :) * prhodj(:, :, :) )
+   if ( BUCONF%lbudget_rc .and. nmom_c.ge.1 .and. lsedc ) &
+        call BUDGET_STORE_INIT_PHY(D, TBUDGETS(NBUDGET_RC), 'SEDI', zrcs(:, :, :) * prhodj(:, :, :) )
+   if ( BUCONF%lbudget_rr .and. nmom_r.ge.1 ) &
+        call BUDGET_STORE_INIT_PHY(D, TBUDGETS(NBUDGET_RR), 'SEDI', zrrs(:, :, :) * prhodj(:, :, :) )
+   if ( BUCONF%lbudget_ri .and. nmom_i.ge.1 .and. lsedi ) &
+        call BUDGET_STORE_INIT_PHY(D, TBUDGETS(NBUDGET_RI), 'SEDI', zris(:, :, :) * prhodj(:, :, :) )
+   if ( BUCONF%lbudget_rs .and. nmom_s.ge.1 ) &
+        call BUDGET_STORE_INIT_PHY(D, TBUDGETS(NBUDGET_RS), 'SEDI', zrss(:, :, :) * prhodj(:, :, :) )
+   if ( BUCONF%lbudget_rg .and. nmom_g.ge.1 ) &
+        call BUDGET_STORE_INIT_PHY(D, TBUDGETS(NBUDGET_RG), 'SEDI', zrgs(:, :, :) * prhodj(:, :, :) )
+   if ( BUCONF%lbudget_rh .and. nmom_h.ge.1 ) &
+        call BUDGET_STORE_INIT_PHY(D, TBUDGETS(NBUDGET_RH), 'SEDI', zrhs(:, :, :) * prhodj(:, :, :) )
   if ( BUCONF%lbudget_sv ) then
     if ( lsedc .and. nmom_c.ge.2) &
       call BUDGET_STORE_INIT_PHY(D, TBUDGETS(NBUDGET_SV1 - 1 + nsv_lima_nc), 'SEDI', zccs(:, :, :) * prhodj(:, :, :) )
@@ -725,13 +732,20 @@ ZTHS(:,:,:) = ZT(:,:,:) / ZEXN(:,:,:) * ZINV_TSTEP
 ! Call budgets
 !
 if ( BUCONF%lbu_enable ) then
-  if ( BUCONF%lbudget_th )                         call BUDGET_STORE_END_PHY(D, TBUDGETS(NBUDGET_TH), 'SEDI', zths(:, :, :) * prhodj(:, :, :) )
-  if ( BUCONF%lbudget_rc .and. nmom_c.ge.1 .and. lsedc ) call BUDGET_STORE_END_PHY(D, TBUDGETS(NBUDGET_RC), 'SEDI', zrcs(:, :, :) * prhodj(:, :, :) )
-  if ( BUCONF%lbudget_rr .and. nmom_r.ge.2 ) call BUDGET_STORE_END_PHY(D, TBUDGETS(NBUDGET_RR), 'SEDI', zrrs(:, :, :) * prhodj(:, :, :) )
-  if ( BUCONF%lbudget_ri .and. nmom_i.ge.1 .and. lsedi ) call BUDGET_STORE_END_PHY(D, TBUDGETS(NBUDGET_RI), 'SEDI', zris(:, :, :) * prhodj(:, :, :) )
-  if ( BUCONF%lbudget_rs .and. nmom_s.ge.1 ) call BUDGET_STORE_END_PHY(D, TBUDGETS(NBUDGET_RS), 'SEDI', zrss(:, :, :) * prhodj(:, :, :) )
-  if ( BUCONF%lbudget_rg .and. nmom_g.ge.1 ) call BUDGET_STORE_END_PHY(D, TBUDGETS(NBUDGET_RG), 'SEDI', zrgs(:, :, :) * prhodj(:, :, :) )
-  if ( BUCONF%lbudget_rh .and. nmom_h.ge.1 ) call BUDGET_STORE_END_PHY(D, TBUDGETS(NBUDGET_RH), 'SEDI', zrhs(:, :, :) * prhodj(:, :, :) )
+   if ( BUCONF%lbudget_th ) &
+        call BUDGET_STORE_END_PHY(D, TBUDGETS(NBUDGET_TH), 'SEDI', zths(:, :, :) * prhodj(:, :, :) )
+   if ( BUCONF%lbudget_rc .and. nmom_c.ge.1 .and. lsedc ) &
+        call BUDGET_STORE_END_PHY(D, TBUDGETS(NBUDGET_RC), 'SEDI', zrcs(:, :, :) * prhodj(:, :, :) )
+   if ( BUCONF%lbudget_rr .and. nmom_r.ge.2 ) &
+        call BUDGET_STORE_END_PHY(D, TBUDGETS(NBUDGET_RR), 'SEDI', zrrs(:, :, :) * prhodj(:, :, :) )
+   if ( BUCONF%lbudget_ri .and. nmom_i.ge.1 .and. lsedi ) &
+        call BUDGET_STORE_END_PHY(D, TBUDGETS(NBUDGET_RI), 'SEDI', zris(:, :, :) * prhodj(:, :, :) )
+   if ( BUCONF%lbudget_rs .and. nmom_s.ge.1 ) &
+        call BUDGET_STORE_END_PHY(D, TBUDGETS(NBUDGET_RS), 'SEDI', zrss(:, :, :) * prhodj(:, :, :) )
+   if ( BUCONF%lbudget_rg .and. nmom_g.ge.1 ) &
+        call BUDGET_STORE_END_PHY(D, TBUDGETS(NBUDGET_RG), 'SEDI', zrgs(:, :, :) * prhodj(:, :, :) )
+   if ( BUCONF%lbudget_rh .and. nmom_h.ge.1 ) &
+        call BUDGET_STORE_END_PHY(D, TBUDGETS(NBUDGET_RH), 'SEDI', zrhs(:, :, :) * prhodj(:, :, :) )
   if ( BUCONF%lbudget_sv ) then
     if ( lsedc .and. nmom_c.ge.2 ) &
       call BUDGET_STORE_END_PHY(D, TBUDGETS(NBUDGET_SV1 - 1 + nsv_lima_nc), 'SEDI', zccs(:, :, :) * prhodj(:, :, :) )
diff --git a/src/common/micro/lima_sedimentation.F90 b/src/common/micro/lima_sedimentation.F90
index 22a347365..bbf6b492a 100644
--- a/src/common/micro/lima_sedimentation.F90
+++ b/src/common/micro/lima_sedimentation.F90
@@ -236,10 +236,12 @@ DO JN = 1 ,  NSPLITSED(KID)
       END IF
 
       ZWSEDR(:,:,1:D%NKT) = UNPACK( ZZW(:),MASK=GSEDIM(:,:,:),FIELD=0.0 )
-      ZWSEDR(:,:,D%NKTB:D%NKTE) = MIN( ZWSEDR(:,:,D%NKTB:D%NKTE), PRS(:,:,D%NKTB:D%NKTE) * PRHODREF(:,:,D%NKTB:D%NKTE) / ZW(:,:,D%NKTB:D%NKTE) )
+      ZWSEDR(:,:,D%NKTB:D%NKTE) = MIN( ZWSEDR(:,:,D%NKTB:D%NKTE), PRS(:,:,D%NKTB:D%NKTE) &
+           * PRHODREF(:,:,D%NKTB:D%NKTE) / ZW(:,:,D%NKTB:D%NKTE) )
       IF (KMOMENTS==2) THEN
          ZWSEDC(:,:,1:D%NKT) = UNPACK( ZZX(:),MASK=GSEDIM(:,:,:),FIELD=0.0 )
-         ZWSEDC(:,:,D%NKTB:D%NKTE) = MIN( ZWSEDC(:,:,D%NKTB:D%NKTE), PCS(:,:,D%NKTB:D%NKTE) * PRHODREF(:,:,D%NKTB:D%NKTE) / ZW(:,:,D%NKTB:D%NKTE) )
+         ZWSEDC(:,:,D%NKTB:D%NKTE) = MIN( ZWSEDC(:,:,D%NKTB:D%NKTE), PCS(:,:,D%NKTB:D%NKTE) &
+              * PRHODREF(:,:,D%NKTB:D%NKTE) / ZW(:,:,D%NKTB:D%NKTE) )
       END IF
       
       DO JK = D%NKTB , D%NKTE
diff --git a/src/mesonh/micro/lima_adjust.f90 b/src/mesonh/micro/lima_adjust.f90
index b0d00f584..da2ff335a 100644
--- a/src/mesonh/micro/lima_adjust.f90
+++ b/src/mesonh/micro/lima_adjust.f90
@@ -372,7 +372,7 @@ IF ( NMOM_C.GE.2 .AND. NMOD_CCN.GE.1 ) THEN
    PNAS(:,:,:,:) = PSVS(:,:,:,NSV_LIMA_CCN_ACTI:NSV_LIMA_CCN_ACTI+NMOD_CCN-1)
 END IF
 !
-IF ( NOMM_I.GE.2 .AND. NMOD_IFN.GE.1 ) THEN
+IF ( NMOM_I.GE.2 .AND. NMOD_IFN.GE.1 ) THEN
    ALLOCATE( PIFS(SIZE(PRHODJ,1),SIZE(PRHODJ,2),SIZE(PRHODJ,3),NMOD_IFN) )
    ALLOCATE( PINS(SIZE(PRHODJ,1),SIZE(PRHODJ,2),SIZE(PRHODJ,3),NMOD_IFN) )
    PIFS(:,:,:,:) = PSVS(:,:,:,NSV_LIMA_IFN_FREE:NSV_LIMA_IFN_FREE+NMOD_IFN-1)
diff --git a/tools/check_commit_mesonh.sh b/tools/check_commit_mesonh.sh
index c8b7fc53d..b31063a2c 100755
--- a/tools/check_commit_mesonh.sh
+++ b/tools/check_commit_mesonh.sh
@@ -3,10 +3,10 @@
 #set -x
 set -e
 
-#The folowing environment variables can be defined:
-# REFDIR: directory in which the reference compilation directory can be found
-# TARGZDIR: directory where tar.gz files are searched for
-# MNHPACK: directory where tests are build
+# Repertoire où Mesonh MNH-V5-5-0 officiel est installe
+#REFDIR=$HOME
+# Repertoire où MNH-V5-5-0_PHYEX.tar.gz modifie pour accueillir PHYEX se trouve
+#TARGZDIR=$HOME
 
 availTests="007_16janvier/008_run2, 007_16janvier/008_run2_turb3D, 007_16janvier/008_run2_lredf, COLD_BUBBLE/002_mesonh, 
             ARMLES/RUN, COLD_BUBBLE_3D/002_mesonh,OCEAN_LES/004_run2"
@@ -14,7 +14,6 @@ defaultTest="007_16janvier/008_run2"
 separator='_' #- be carrefull, gmkpack (at least on belenos) has multiple allergies (':', '.', '@')
               #- seprator must be in sync with prep_code.sh separator
 
-#Notes for v5.5.0
 #For the OCEAN_LES/004_run2 case, results obtained are different from those obtained with the original version
 #of Meso-NH because of new developments and bug correction. The reference version is given by commit e053c59.
 #In this commit two modifications must be done in turb/mode_tke_eps_sources.f90 to change twice LOCEAN into OOCEAN.
@@ -84,7 +83,7 @@ done
 
 MNHPACK=${MNHPACK:=$HOME/MesoNH/PHYEX}
 REFDIR=${REFDIR:=$PHYEXTOOLSDIR/pack/}
-TARGZDIR=${TARGZDIR:=/home/rodierq/UBUNTU22/PHYEX}
+TARGZDIR=${TARGZDIR:=/home/rodierq}
 if [ -z "${tests-}" ]; then
   tests=$defaultTest
 elif [ $tests == 'ALL' ]; then
@@ -104,43 +103,26 @@ if [ -z "${commit-}" ]; then
   exit 2
 fi
 
-#Name, directory and reference for compiling and executing user pack
-if echo $commit | grep '/' | grep -v '^tags/' > /dev/null; then
-  fromdir=$commit
-  content_mesonh_version=$(scp $commit/src/mesonh/mesonh_version.json /dev/stdout 2>/dev/null || echo "")
-else
-  fromdir=''
-  if [[ $commit == mesonh${separator}* ]]; then
-    mesonh_version_file="mesonh_version.json"
-  else
-    mesonh_version_file="src/mesonh/mesonh_version.json"
-  fi
-  if echo $commit | grep '^tags/' > /dev/null; then
-    urlcommit=$(echo $commit | cut -d / -f 2-)
-  else
-    urlcommit=$commit
-  fi
-  content_mesonh_version=$(wget --no-check-certificate https://raw.githubusercontent.com/$PHYEXREPOuser/PHYEX/${urlcommit}/$mesonh_version_file -O - 2>/dev/null || echo "")
-fi
-refversion=$(content_mesonh_version=$content_mesonh_version python3 -c "import json, os; v=os.environ['content_mesonh_version']; print(json.loads(v if len(v)!=0 else '{}').get('refversion', 'MNH-V5-5-0'))")
-if [ $refversion == "MNH-V5-5-0" ]; then
-  targzsuffix="_PHYEX"
-else
-  targzsuffix=""
-fi
-tag=$(echo $commit | sed 's/\//'${separator}'/g' | sed 's/:/'${separator}'/g' | sed 's/\./'${separator}'/g')
-name=${refversion}-$tag
-[ $suppress -eq 1 -a -d $MNHPACK/$name ] && rm -rf $MNHPACK/$name
-
 #Two possibilities are supported for the simulations
 # - they can be done in the the pack we are currently checking
 # - they can be done in the reference pack
 #They are done in the current pack except if the reference pack
 #already contains a tested simulation
 #To check this, we use the case 007_16janvier/008_run2_turb3D
-run_in_ref=$(ls -d $REFDIR/${refversion}/MY_RUN/KTEST/007_16janvier/008_run2_turb3D_* 2> /dev/null | tail -1 |wc -l)
+run_in_ref=$(ls -d $REFDIR/MNH-V5-5-0/MY_RUN/KTEST/007_16janvier/008_run2_turb3D_* 2> /dev/null | tail -1 |wc -l)
+
+#Name and directory for compiling and executing user pack
+fromdir=''
+if echo $commit | grep '/' > /dev/null; then
+  fromdir=$commit
+  tag=$(echo $commit | sed 's/\//'${separator}'/g' | sed 's/:/'${separator}'/g' | sed 's/\./'${separator}'/g')
+else
+  tag=$commit
+fi
+name=MNH-V5-5-1-$tag
+[ $suppress -eq 1 -a -d $MNHPACK/$name ] && rm -rf $MNHPACK/$name
 if [ $run_in_ref -eq 1 ]; then
-  path_user_beg=$REFDIR/${refversion} #pack directory containing the simulation
+  path_user_beg=$REFDIR/MNH-V5-5-1 #pack directory containing the simulation
   path_user_end=_$tag #to be appended to the 'run' simulation directory
 else
   path_user_beg=$MNHPACK/$name #pack directory containing the simulation
@@ -155,9 +137,9 @@ if echo $reference | grep '/' > /dev/null; then
 else
   reftag=$reference
 fi
-refname=${refversion}-$reftag
+refname=MNH-V5-5-1-$reftag
 if [ $run_in_ref -eq 1 ]; then
-  path_ref_beg=$REFDIR/${refversion}
+  path_ref_beg=$REFDIR/MNH-V5-5-1
   if [ "$reference" == "" ]; then
     path_ref_end=
   else
@@ -166,9 +148,9 @@ if [ $run_in_ref -eq 1 ]; then
 else
   path_ref_end=
   if [ "$reference" == "" ]; then
-    path_ref_beg=$REFDIR/${refversion}
+    path_ref_beg=$REFDIR/MNH-V5-5-1
   else
-    path_ref_beg=$MNHPACK/${refversion}-$reftag
+    path_ref_beg=$MNHPACK/MNH-V5-5-1-$reftag
   fi
 fi
 
@@ -182,10 +164,15 @@ if [ $compilation -eq 1 ]; then
 
   # Prepare the pack
   cd $MNHPACK
-  cp $TARGZDIR/${refversion}${targzsuffix}.tar.gz .
-  tar xfz ${refversion}${targzsuffix}.tar.gz 
-  rm ${refversion}${targzsuffix}.tar.gz
-  mv ${refversion} $name
+#  cp $TARGZDIR/MNH-V5-5-0_PHYEX.tar.gz .
+#  tar xfz MNH-V5-5-0_PHYEX.tar.gz 
+#  rm MNH-V5-5-0_PHYEX.tar.gz
+#  mv MNH-V5-5-0 $name
+  cp $TARGZDIR/MNH-V5-5-1-1abfa259.tar.gz .
+  tar xfz MNH-V5-5-1-1abfa259.tar.gz 
+  rm MNH-V5-5-1-1abfa259.tar.gz 
+  mv MNH-V5-5-1-1abfa259 $name
+
   cd $name/src
   rm -rf PHYEX
 
@@ -222,7 +209,7 @@ if [ $compilation -eq 1 ]; then
   fi
 
   cd $MNHPACK/$name/src/PHYEX/turb
-  # Delete files of ${refversion}/src/MNH and MNH/src/LIB/SURCOUCHE/src with same name
+  # Delete files of MNH-V5-5-0/src/MNH and MNH/src/LIB/SURCOUCHE/src with same name
   for rep in turb micro conv aux ; do
     cd ../$rep
     for f in *.f90; do
@@ -233,7 +220,7 @@ if [ $compilation -eq 1 ]; then
   done
   cd ..
   
-  # Delete old files of ${refversion}/src/MNH that is now called by mode_... NO /aux NEEDED!
+  # Delete old files of MNH-V5-5-0/src/MNH that is now called by mode_... NO /aux NEEDED!
   find turb micro conv -name 'mode_*' > remove_non_mode.sh
   sed -i 's/turb\/mode_/rm -f MNH\//g' remove_non_mode.sh
   sed -i 's/micro\/mode_/rm -f MNH\//g' remove_non_mode.sh
@@ -277,13 +264,13 @@ if [ $run -ge 1 ]; then
     case=$(echo $t | cut -d / -f 1)
     exedir=$(echo $t | cut -d / -f 2)
     if [ $run_in_ref -eq 1 ]; then
-      cd $REFDIR/${refversion}/MY_RUN/KTEST/$case/
+      cd $REFDIR/MNH-V5-5-1/MY_RUN/KTEST/$case/
       [ ! -d ${exedir}_$commit ] && cp -R ${exedir} ${exedir}_$commit
-      cd $REFDIR/${refversion}/MY_RUN/KTEST/$case/${exedir}_$commit
+      cd $REFDIR/MNH-V5-5-1/MY_RUN/KTEST/$case/${exedir}_$commit
     else
       #If the test case didn't exist in the tar.gz, we copy it from from the reference version
       rep=$MNHPACK/$name/MY_RUN/KTEST/$case
-      [ ! -d $rep ] && cp -r $REFDIR/${refversion}/MY_RUN/KTEST/$case $rep
+      [ ! -d $rep ] && cp -r $REFDIR/MNH-V5-5-1/MY_RUN/KTEST/$case $rep
       cd $rep
 
       #Loop on the directories
@@ -294,18 +281,18 @@ if [ $run -ge 1 ]; then
             if [ $rep == ${exedir} ]; then
               #this is the case we want to run
               rm -rf $rep
-              cp -r $REFDIR/${refversion}/MY_RUN/KTEST/$case/$rep .
+              cp -r $REFDIR/MNH-V5-5-1/MY_RUN/KTEST/$case/$rep .
             fi
           else
             #This directory might be neede to run the test case, we take the reference version
             rm -rf $rep
-            ln -s $REFDIR/${refversion}/MY_RUN/KTEST/$case/$rep 
+            ln -s $REFDIR/MNH-V5-5-1/MY_RUN/KTEST/$case/$rep 
           fi
         fi
       done
 
       #In case subcase does not exist we create it
-      [ ! -d ${exedir} ] && cp -r $REFDIR/${refversion}/MY_RUN/KTEST/$case/${exedir} .
+      [ ! -d ${exedir} ] && cp -r $REFDIR/MNH-V5-5-1/MY_RUN/KTEST/$case/${exedir} .
       cd ${exedir}
     fi
 
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