Add atmos subfolder to relevant DMPDIR paths for authoritative develop and GFS v16.3 implementation

[MichaelLueken]

It has been decided to add a $COMPONENT (atmos) subfolder into the global dump archive (GDA) folders:

$CDUMP.$PDY/$cyc -> $CDUMP.$PDY/$cyc/atmos

This will bring the GDA in alignment with related updates to add a $COMPONENT (atmos) subfolder into the GFS and OBSPROC com structures. This is also needed for running the GFS and using compath.py for defining COM paths.

This update is targeted for both the develop branch and the GFSv16.3 package.

From @KateFriedman-NOAA issue #802, adding $COMPONENT to $DMPDIR/$CDUMP.$PDY/$cyc and $DMPDIR/$CDUMP.$gPDY/$gcyc so they look like:

$DMPDIR/$CDUMP.$PDY/$cyc/$COMPONENT
$DMPDIR/$CDUMP.$gPDY/$gcyc/$COMPONENT

This will be done to the following JJOBS:

JGDAS_ATMOS_ANALYSIS_DIAG:    export COMIN_OBS="$DMPDIR/$CDUMP.$PDY/$cyc"
JGDAS_ATMOS_ANALYSIS_DIAG:    export COMIN_GES_OBS="$DMPDIR/$GDUMP.$gPDY/$gcyc"
JGDAS_ATMOS_CHGRES_FORENKF:    export COMIN_OBS="$DMPDIR/$CDUMP.$PDY/$cyc"
JGDAS_ATMOS_CHGRES_FORENKF:    export COMIN_GES_OBS="$DMPDIR/$GDUMP.$gPDY/$gcyc"
JGDAS_ENKF_DIAG:    export COMIN_OBS="$DMPDIR/$CDUMP.$PDY/$cyc"
JGDAS_ENKF_DIAG:    export COMIN_GES_OBS="$DMPDIR/$GDUMP.$gPDY/$gcyc"
JGDAS_ENKF_ECEN:    export COMIN_OBS="$DMPDIR/$CDUMP.$PDY/$cyc"
JGDAS_ENKF_ECEN:    export COMIN_GES_OBS="$DMPDIR/$GDUMP.$gPDY/$gcyc"
JGDAS_ENKF_SELECT_OBS:    export COMIN_OBS="$DMPDIR/$CDUMP.$PDY/$cyc"
JGDAS_ENKF_SELECT_OBS:    export COMIN_GES_OBS="$DMPDIR/$GDUMP.$gPDY/$gcyc"
JGDAS_ENKF_SFC:    export COMIN_OBS="$DMPDIR/$CDUMP.$PDY/$cyc"
JGDAS_ENKF_SFC:    export COMIN_GES_OBS="$DMPDIR/$GDUMP.$gPDY/$gcyc"
JGLOBAL_ATMOS_ANALYSIS:    export COMIN_OBS="$DMPDIR/$CDUMP.$PDY/$cyc"
JGLOBAL_ATMOS_ANALYSIS:    export COMIN_GES_OBS="$DMPDIR/$GDUMP.$gPDY/$gcyc"
JGLOBAL_ATMOS_ANALYSIS_CALC:    export COMIN_OBS="$DMPDIR/$CDUMP.$PDY/$cyc"
JGLOBAL_ATMOS_ANALYSIS_CALC:    export COMIN_GES_OBS="$DMPDIR/$GDUMP.$gPDY/$gcyc"

This work won't go into develop and release/gfsda.v16.3.0 won't be created (please see issue #391) until atmos symlinks are in place for all GDAs.

This work will be done in feature/atmos_update.

[MichaelLueken]

In 649893c

Added $COMPONENT to both $DMPDIR/$CDUMP.$PDY/$cyc and $DMPDIR/$CDUMP.$gPDY/$gcyc for:

• jobs/JGDAS_ATMOS_ANALYSIS_DIAG
• jobs/JGDAS_ATMOS_CHGRES_FORENKF
• jobs/JGDAS_ENKF_DIAG
• jobs/JGDAS_ENKF_ECEN
• jobs/JGDAS_ENKF_SELECT_OBS
• jobs/JGDAS_ENKF_SFC
• jobs/JGLOBAL_ATMOS_ANALYSIS
• jobs/JGLOBAL_ATMOS_ANALYSIS_CALC

[MichaelLueken]

In b1b4ca9:

Update ush/calcanl_gfs.py to apply patch to make the chgres_inc.x executable run sequentially instead of at the same time.