…d sensor flags (iasi, hirs, airs, etc.) to the qc_irsnd subroutine.

… cloud detection routine.

…d_detect and statistical_cloud_detect

… subroutine.

If a channel used by the CO2_slicing routine has a missing value, reject the profile.

… subroutine.

If a channel used by the CO2_slicing routine is bad/missing, reject the profile.

…ult. These flags include airs_co2, cris_co2, iasi_co2, hirs_co2 and goessndr_co2. When the flag is true the subroutine co2_cloud_detect will be used to determine cloud layer.

…IIRS cloud information within the CrIS bufr. Added namelist flags to determine which cloud detection routine to use. If cris_co2, airs_co2, iasi_co2, hirs_co2 and/or goessnder_co2 are true, use the co2_cloud_detect subroutine. The original cloud detection subroutine (statistical_cloud_detect) is the default if any flags are missing or set to false.

…bset. Also added logic if CO2_cloud_detect is used,specific channels must be available and pass minimum quality control.

…SI subset. CO2 required channels must also pass minimal quality control or profile will be rejected.

…ubset. Also added logic if CO2_cloud_detect is used,specific channels must be available and pass minimum quality control. AIRS is no longer an operational data set so these changes were never properly tested.

…e available and pass minimum quality control. These are channels 3 - 7 which are the basic CO2 sounding channels of this instrument.

…ch channel pair only tested a specific layer. All channel pairs should test from the tropopause to their pre determined level. Starting from the tropopause with each channel pair finds considerably more cirrus. A CrIS channel was changed in the 3rd pair, cloud thresholds were adjusted lower. There were other cosmetic changes like the radiative transfer integration, changed the subroutine name of the emc_legacy cloud test, etc.

…loud_and_aerosol_detection software. Specifically you will see the variable chan_level. Other variables were added (radiance_overcast, radiance_ratio) to compute chan_level.

… software. These include cris_cads, iasi_cads, and airs_cads. These variables need to be added to the script exglobal_atmos_analysis.sh to call this routine.

…routine) requires chan_level to be added in this routine. chan_level is NOT used in this routine and should NOT change the value of any variable going out of this subroutine.

…outine qc_irsnd. This variable is used in qc_irsnd when determining the clear/cloudy channels for the IR sensors AIRS, IASI, and CrIS.

…tware. This module contains the code (subroutines) developed by ECMWF and available on the NWP SAF.

…contains the setup and call routines for the cloud_and_aerosol_detection software. There are several code additions, deletions, and reorganizations in this push.

…_aerosol_detection software. This code is available from the NWP SAF and is specifically version 3. The only code changes made to these subroutines are to be compatible with the GSI. Logic changes were kept to a minimum.

…F90. Added an 11 - 12 micron test to qcmod to remove potential low level clouds.

…S) for use in CADS. These are NOT complete yet.

…in the fix_gsi directory.

In this case the IASI_CLDDET.NL was modified to NOT use the AVHRR cluster information as it is not ready yet.
AIRS_CLDDET.NL
CRIS_CLDDET.NL
IASI_CLDDET.NL
IASING_CLDDET.NL
IRS_CLDDET.NL

Fixed conflict in gsimod.f90 and removed exglobal_atmos_analysis.sh

Conflicts:
	scripts/exglobal_atmos_analysis.sh
	src/gsi/gsimod.F90

…d CrIS into the CADS

…ange answer.

…mager instead of viirs or avhrr. Other minor format changes.

…luster information is missing.

Adding this new bufr library resolves some data overflow problems that cause the GSI to crash.

Merge remote-tracking branch 'emc/develop' into CADS_for_Andrew

Conflicts:
	fix
	src/gsi/qcmod.f90
	src/gsi/read_iasi.f90

…current merge

…coefficient file exists. If the file does not exist, disable the imager calculations and the imager test within the Cloud and Aerosol Detection Software (CADS).

Removed some excess write statements in the CADS read namelist files.

Merge remote-tracking branch 'emc/develop' into CADS_for_Andrew

…to CADS_for_Andrew

…rbose = true.

…he cloud height array. The other with abi2km bias correction array.

Conflicts:
	src/gsi/read_iasi.f90
	src/gsi/setuprad.f90

…ient in qcmod.f90

added logic to look for CRTM files for j1/n20 and j2/n21, fixed reviewer comments in read_cris.f90
fixed reviewer comments in read_iasi.f90
major changes to the CADS if blocks.  Moved initialization of most variables outside of the nobs loop, added if test for the existance of the imager data.

…rray out of bounds from abi2km with this commit

… CADS.

…t. CrIS band 1 on NPP has failed. The band 1 failure creates a lot of I/O statements from the CADS cloud test quality control. These changes reject CrIS profiles when cris_cads = .true. and band 1 is missing. If cris_cads = .false., nothing changes. The verbose flag was also added to the CADS output.

…from Russ) and removed the redundant zero declarations. In crtm_interface.f90, removed the if (iasi .and. iasi_cads and etc. statements to break the compiler circular dependencies (from Russ). Added cloudp to subroutine qc_geocsr in qcmod.f90 (From Russ).

… is changed and cenlon is removed from the qc_irsnd argument list. In setuprad.f90, cenlon is removed from the qc_irsnd argument list. In read_cris.f90, 714 is replaced with the parameter band_2_start and some TODO comments were added.