<p><b>dwj07@fsu.edu</b> 2012-12-05 13:35:42 -0700 (Wed, 05 Dec 2012)</p><p><br>
        -- BRANCH COMMIT --<br>
<br>
        Changing bottomDepth to be positive (as it's supposed to be) in get_init_conditions subroutine.<br>
</p><hr noshade><pre><font color="gray">Modified: branches/ocean_projects/ocean_test_cases_staging/ocean/advective_transport/basin_src/get_init_conds.F
===================================================================
--- branches/ocean_projects/ocean_test_cases_staging/ocean/advective_transport/basin_src/get_init_conds.F        2012-12-05 18:22:05 UTC (rev 2343)
+++ branches/ocean_projects/ocean_test_cases_staging/ocean/advective_transport/basin_src/get_init_conds.F        2012-12-05 20:35:42 UTC (rev 2344)
@@ -32,7 +32,7 @@
     hZLevel(i) = h_total_max / nVertLevelsMOD
 end do
 
-bottomDepthNew(:) = -h_total_max
+bottomDepthNew(:) = h_total_max
 
 ! basin-mod
 !Specify Density values for isopycnal levels

Modified: branches/ocean_projects/ocean_test_cases_staging/ocean/baroclinic_channel/basin_src/get_init_conds.F
===================================================================
--- branches/ocean_projects/ocean_test_cases_staging/ocean/baroclinic_channel/basin_src/get_init_conds.F        2012-12-05 18:22:05 UTC (rev 2343)
+++ branches/ocean_projects/ocean_test_cases_staging/ocean/baroclinic_channel/basin_src/get_init_conds.F        2012-12-05 20:35:42 UTC (rev 2344)
@@ -39,7 +39,7 @@
     vertCoord(i) =  i * h_total_max / nVertLevelsMOD
 end do
 
-bottomDepthNew(:) = -h_total_max
+bottomDepthNew(:) = h_total_max
 
 ! basin-mod
 !Specify Density values for isopycnal levels

Modified: branches/ocean_projects/ocean_test_cases_staging/ocean/idealized_acc/basin_src/get_init_conds.F
===================================================================
--- branches/ocean_projects/ocean_test_cases_staging/ocean/idealized_acc/basin_src/get_init_conds.F        2012-12-05 18:22:05 UTC (rev 2343)
+++ branches/ocean_projects/ocean_test_cases_staging/ocean/idealized_acc/basin_src/get_init_conds.F        2012-12-05 20:35:42 UTC (rev 2344)
@@ -33,7 +33,7 @@
     hZLevel(i) =  h_total_max / nVertLevelsMOD
 end do
 
-bottomDepthNew(:) = -h_total_max
+bottomDepthNew(:) = h_total_max
 
 write(6,*) ' adding noise to layer thickness'
 r = 0.0

Modified: branches/ocean_projects/ocean_test_cases_staging/ocean/internal_waves/basin_src/get_init_conds.F
===================================================================
--- branches/ocean_projects/ocean_test_cases_staging/ocean/internal_waves/basin_src/get_init_conds.F        2012-12-05 18:22:05 UTC (rev 2343)
+++ branches/ocean_projects/ocean_test_cases_staging/ocean/internal_waves/basin_src/get_init_conds.F        2012-12-05 20:35:42 UTC (rev 2344)
@@ -39,7 +39,7 @@
 
 end do
 
-bottomDepthNew(:) = -h_total_max
+bottomDepthNew(:) = h_total_max
 
 ! basin-mod
 !Specify Density values for isopycnal levels

Modified: branches/ocean_projects/ocean_test_cases_staging/ocean/internal_waves/makeMeshes.sh
===================================================================
--- branches/ocean_projects/ocean_test_cases_staging/ocean/internal_waves/makeMeshes.sh        2012-12-05 18:22:05 UTC (rev 2343)
+++ branches/ocean_projects/ocean_test_cases_staging/ocean/internal_waves/makeMeshes.sh        2012-12-05 20:35:42 UTC (rev 2344)
@@ -239,7 +239,7 @@
 
                 ## Copy executable to run directory
                 if [ $# -ge 1 ]; then
-                        if [ -e ${RUN_NAME}/ocean_model.exe ]; then
+                        if [ -e ${BASE_DIR}/ocean_model.exe ]; then
                                 unlink ${BASE_DIR}/ocean_model.exe
                         fi
                         ln -s $1 ${BASE_DIR}/ocean_model.exe

Modified: branches/ocean_projects/ocean_test_cases_staging/ocean/lock_exchange/basin_src/get_init_conds.F
===================================================================
--- branches/ocean_projects/ocean_test_cases_staging/ocean/lock_exchange/basin_src/get_init_conds.F        2012-12-05 18:22:05 UTC (rev 2343)
+++ branches/ocean_projects/ocean_test_cases_staging/ocean/lock_exchange/basin_src/get_init_conds.F        2012-12-05 20:35:42 UTC (rev 2344)
@@ -28,7 +28,7 @@
     hZLevel(i) =  h_total_max / nVertLevelsMOD
 end do
 
-bottomDepthNew(:) = -h_total_max
+bottomDepthNew(:) = h_total_max
 
 ! basin-mod
 !Specify Density values for isopycnal levels

Modified: branches/ocean_projects/ocean_test_cases_staging/ocean/temporal_convergence/basin_src/get_init_conds.F
===================================================================
--- branches/ocean_projects/ocean_test_cases_staging/ocean/temporal_convergence/basin_src/get_init_conds.F        2012-12-05 18:22:05 UTC (rev 2343)
+++ branches/ocean_projects/ocean_test_cases_staging/ocean/temporal_convergence/basin_src/get_init_conds.F        2012-12-05 20:35:42 UTC (rev 2344)
@@ -36,7 +36,7 @@
     vertCoord(i) =  i * h_total_max / nVertLevelsMOD
 end do
 
-bottomDepthNew(:) = -h_total_max
+bottomDepthNew(:) = h_total_max
 
 ! basin-mod
 !Specify Density values for isopycnal levels

</font>
</pre>