Post gfs netcdf (#22)

* Add capacity for reading fv3gfs netcdf files.

* Initializing 3D radar reflectivity in read interface for gfs in netcdf.

* Inlinepost (#1)

* modified:   jobs/JGLOBAL_NCEPPOST, scripts/exgdas_nceppost.sh.ecf, scripts/exgfs_nceppost.sh.ecf,  ush/gfs_nceppost.sh

Add an option INLINE_POST.  If it is true, the grib2 "master" file is produced by the inline post in the
forecast model.  gfs_nceppost.sh script is then skipped.  Also set FILTER=0 to turn off 5wav-filtered data.
The UPP still needs to be modified to read in netcdf history files to produce sflux, goes image and gtg products.

* add sflux to inlin post

* Add for new parm files for running inline post
 	new file:   parm/post_tag_gfs128
 	new file:   parm/post_tag_gfs65
 	new file:   parm/postcntrl_gfs_two.xml
 	new file:   parm/postxconfig-NT-GFS-TWO.txt

* Bug fix of in-line post in ex-scripts.

* Add control file at F00 for in-line post.

* Teak INITPOST_GFS_NETCDF.f.

* Add capacity of processing global FV3 outputs in netcdf in workflow scripts.

* Tweak reading netcdf 2D field from FV3 output.

* change physcon module to physcon_post in INITPOST_GFS_NETCDF.f.

* Sync the change of dbnet alert type for gtg product from NCO.

jobs/JGLOBAL_NCEPPOST

@@ -78,6 +78,7 @@ export HOMECRTM=${HOMECRTM:-${NWROOT}/lib/crtm/${crtm_ver}}
 export FIXCRTM=${CRTM_FIX:-${HOMECRTM}/fix}
 #export FIXCRTM=${FIXCRTM:-${NWROOThps}/hwrf.${hwrf_ver}/fix/hwrf-crtm-2.0.6}
 export PARMpost=${PARMpost:-$HOMEgfs/parm/post}
+export INLINE_POST=${WRITE_DOPOST:-".false."}
 
 if [ $RUN_ENVIR = "nco" ]; then
     export COMIN=${COMIN:-$ROTDIR/$RUN.$PDY/$cyc}

parm/makefile

@@ -22,6 +22,8 @@ GEFSANLFLATFILENAME     = postxconfig-NT-GEFS-ANL.txt
 GEFSF00FLATFILENAME     = postxconfig-NT-GEFS-F00.txt
 FV3SARFLATFILENAME      = postxconfig-NT-fv3sar.txt
 HAFSFLATFILENAME        = postxconfig-NT-hafs.txt
+GFSTWOFLATFILENAME      = postxconfig-NT-GFS-TWO.txt
+GFSTWOF00FLATFILENAME   = postxconfig-NT-GFS-F00-TWO.txt
 
 
 # Source Post XML file
@@ -45,6 +47,8 @@ GEFSCTRLF00FILENAME     = postcntrl_gefs_f00.xml
 FV3SARAVAILXMLFILENAME  = fv3sar_post_avblflds.xml
 FV3SARCTRLFILENAME      = fv3sar.xml
 HAFSCTRLFILENAME        = hafs.xml
+GFSTWOCTRLFILENAME      = postcntrl_gfs_two.xml
+GFSTWOF00CTRLFILENAME   = postcntrl_gfs_f00_two.xml
 
 
 # Post flat file generator
@@ -65,6 +69,8 @@ PERLXMLGEFSANL		= /usr/bin/perl $(PERLXML) $(GEFSANLCTRLFILENAME) $(GFSAVAILXMLF
 PERLXMLGEFSF00		= /usr/bin/perl $(PERLXML) $(GEFSCTRLF00FILENAME) $(GFSAVAILXMLFILENAME) $(GEFSF00FLATFILENAME)
 PERLXMLFV3SAR		= /usr/bin/perl $(PERLXML) $(FV3SARCTRLFILENAME) $(FV3SARAVAILXMLFILENAME) $(FV3SARFLATFILENAME)
 PERLXMLHAFS             = /usr/bin/perl $(PERLXML) $(HAFSCTRLFILENAME) $(FV3SARAVAILXMLFILENAME) $(HAFSFLATFILENAME)
+PERLXMLGFSTWO           = /usr/bin/perl $(PERLXML) $(GFSTWOCTRLFILENAME) $(GFSAVAILXMLFILENAME) $(GFSTWOFLATFILENAME)
+PERLXMLGFSTWOF00        = /usr/bin/perl $(PERLXML) $(GFSTWOF00CTRLFILENAME) $(GFSAVAILXMLFILENAME) $(GFSTWOF00FLATFILENAME)
 
 
 # File to look for change
@@ -80,12 +86,14 @@ NGACXMLS = $(NGACAVAILXMLFILENAME) $(NGACCTRLFILENAME)
 GEFSXMLS = $(GFSAVAILXMLFILENAME) $(GEFSCTRLFILENAME)
 GEFSANLXMLS = $(GFSAVAILXMLFILENAME) $(GEFSANLCTRLFILENAME)
 GEFSF00XMLS = $(GFSAVAILXMLFILENAME) $(GEFSCTRLF00FILENAME)
-FV3SARXMLS  = $(NMMAVAILXMLFILENAME) $(FV3SARCTRLFILENAME)
-HAFSXMLS    = $(NMMAVAILXMLFILENAME) $(HAFSCTRLFILENAME)
+FV3SARXMLS  = $(FV3SARAVAILXMLFILENAME) $(FV3SARCTRLFILENAME)
+HAFSXMLS    = $(FV3SARAVAILXMLFILENAME) $(HAFSCTRLFILENAME)
+GFSTWOXMLS  = $(GFSAVAILXMLFILENAME) $(GFSTWOCTRLFILENAME)
+GFSTWOF00XMLS  = $(GFSAVAILXMLFILENAME) $(GFSTWOF00CTRLFILENAME)
 
 
 # If action is triggered; run the following
-all: $(GFSFLATFILENAME) $(GFSGOESFLATFILENAME) $(GFSANLFLATFILENAME) $(GFSF00FLATFILENAME) $(GFSFLUXFLATFILENAME) $(GFSFLUXF00FLATFILENAME) $(NMMFLATFILENAME) $(NGACFLATFILENAME) $(GEFSFLATFILENAME) $(GEFSANLFLATFILENAME) $(GEFSF00FLATFILENAME) $(FV3SARFLATFILENAME) $(HAFSFLATFILENAME)
+all: $(GFSFLATFILENAME) $(GFSGOESFLATFILENAME) $(GFSANLFLATFILENAME) $(GFSF00FLATFILENAME) $(GFSFLUXFLATFILENAME) $(GFSFLUXF00FLATFILENAME) $(NMMFLATFILENAME) $(NGACFLATFILENAME) $(GEFSFLATFILENAME) $(GEFSANLFLATFILENAME) $(GEFSF00FLATFILENAME) $(FV3SARFLATFILENAME) $(HAFSFLATFILENAME) $(GFSTWOFLATFILENAME) $(GFSTWOF00FLATFILENAME) 
 $(GFSFLATFILENAME): $(GFSXMLS)
 	$(PERLXMLGFS)
 $(GFSGOESFLATFILENAME): $(GFSGOESXMLS)
@@ -110,13 +118,17 @@ $(GEFSF00FLATFILENAME): $(GEFSF00XMLS)
 	$(PERLXMLGEFSF00)
 $(FV3SARFLATFILENAME): $(FV3SARXMLS)
 	$(PERLXMLFV3SAR)
-$(HAFSFLATFILENAME): $(FV3SARXMLS)
+$(HAFSFLATFILENAME): $(HAFSXMLS)
 	$(PERLXMLHAFS)
+$(GFSTWOFLATFILENAME): $(GFSTWOXMLS)
+	$(PERLXMLGFSTWO)
+$(GFSTWOF00FLATFILENAME): $(GFSTWOF00XMLS)
+	$(PERLXMLGFSTWOF00)
 
 
 # Make clean
 
 clean:
 	@echo
 	@echo '==== CLEAN ==================================================='
-	/bin/rm -f $(GFSFLATFILENAME) $(GFSGOESFLATFILENAME) $(GFSANLFLATFILENAME) $(GFSF00FLATFILENAME) $(NMMFLATFILENAME) $(NGACFLATFILENAME) $(GEFSFLATFILENAME) $(GEFSANLFLATFILENAME) $(GEFSF00FLATFILENAME) $(FV3SARFLATFILENAME) $(HAFSFLATFILENAME)
+	/bin/rm -f $(GFSFLATFILENAME) $(GFSGOESFLATFILENAME) $(GFSANLFLATFILENAME) $(GFSF00FLATFILENAME) $(NMMFLATFILENAME) $(NGACFLATFILENAME) $(GEFSFLATFILENAME) $(GEFSANLFLATFILENAME) $(GEFSF00FLATFILENAME) $(FV3SARFLATFILENAME) $(HAFSFLATFILENAME) $(GFSTWOFLATFILENAME) $(GFSTWOF00FLATFILENAME)

parm/post_tag_gfs128

@@ -0,0 +1,4 @@
+&NAMPGB
+  KPO=57,PO=1000.,975.,950.,925.,900.,875.,850.,825.,800.,775.,750.,725.,700.,675.,650.,625.,600.,575.,550.,525.,500.,475.,450.,425.,400.,375.,350.,325.,300.,275.,250.,225.,200.,175.,150.,125.,100.,70.,50.,40.,30.,20.,15.,10.,7.,5.,3.,2.,1.,0.7,0.4,0.2,0.1,0.07,0.04,0.02,0.01,
+  /
+EOF

parm/post_tag_gfs65

@@ -0,0 +1,4 @@
+&NAMPGB
+ KPO=50,PO=1000.,975.,950.,925.,900.,875.,850.,825.,800.,775.,750.,725.,700.,675.,650.,625.,600.,575.,550.,525.,500.,475.,450.,425.,400.,375.,350.,325.,300.,275.,250.,225.,200.,175.,150.,125.,100.,70.,50.,40.,30.,20.,15.,10.,7.,5.,3.,2.,1.,0.4,
+  /
+EOF