[Dart-dev] [3718] DART/trunk/models: Rename merge_obs_seq to obs_sequence_tool to reflect the

nancy at ucar.edu nancy at ucar.edu
Mon Dec 15 15:42:48 MST 2008


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Modified: DART/trunk/models/9var/work/input.nml
===================================================================
--- DART/trunk/models/9var/work/input.nml	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/9var/work/input.nml	2008-12-15 22:42:48 UTC (rev 3718)
@@ -115,27 +115,62 @@
   output_obs_kind_mod_file = '../../../obs_kind/obs_kind_mod.f90', 
                input_files = '../../../obs_def/obs_def_1d_state_mod.f90'  /
 
-&restart_file_utility_nml
+
+&obs_sequence_tool_nml
+   num_input_files   = 2,
+   filename_seq      = 'obs_seq.one', 'obs_seq.two',
+   filename_out      = 'obs_seq.processed',
+   first_obs_days    = -1,
+   first_obs_seconds = -1,
+   last_obs_days     = -1,
+   last_obs_seconds  = -1,
+   print_only        = .false.,
+   gregorian_cal     = .false.
+   /
+
+# other possible obs tool namelist items:
+#
+# keep only the U and V radiosonde winds:
+#   obs_types          = 'RADIOSONDE_U_WIND_COMPONENT',
+#                        'RADIOSONDE_V_WIND_COMPONENT',
+#   keep_types         = .true.,
+#
+# remove the U and V radiosonde winds:
+#   obs_types          = 'RADIOSONDE_U_WIND_COMPONENT',
+#                        'RADIOSONDE_V_WIND_COMPONENT',
+#   keep_types         = .false.,
+#
+# keep only observations with a DART QC of 0:
+#   qc_metadata        = 'Dart quality control',
+#   min_qc             = 0,
+#   max_qc             = 0,
+#
+# keep only radiosonde temp obs between 250 and 300 K:
+#   copy_metadata      = 'NCEP BUFR observation',
+#   copy_type          = 'RADIOSONDE_TEMPERATURE',
+#   min_copy           = 250.0,
+#   max_copy           = 300.0,
+#
+
+
+&restart_file_tool_nml
    input_file_name              = "filter_restart",
    output_file_name             = "filter_updated_restart",
-   ens_size                     =  1,
+   ens_size                     = 1,
    single_restart_file_in       = .true.,
    single_restart_file_out      = .true.,
    write_binary_restart_files   = .true.,
    overwrite_data_time          = .false.,
-   new_data_days                =  -1,
-   new_data_secs                =  -1,
+   new_data_days                = -1,
+   new_data_secs                = -1,
    input_is_model_advance_file  = .false.,
    output_is_model_advance_file = .false.,
    overwrite_advance_time       = .false.,
-   new_advance_days             =  -1,
-   new_advance_secs             =  -1   /
+   new_advance_days             = -1,
+   new_advance_secs             = -1,
+   gregorian_cal                = .false.
+/
 
-&merge_obs_seq_nml
-   num_input_files = 2,
-   filename_seq    = 'obs_seq.one', 'obs_seq.two',
-   filename_out    = 'obs_seq.merged'  /
-
 &obs_diag_nml
    obs_sequence_name  = 'obs_seq.final',
    iskip_days         = 0,

Deleted: DART/trunk/models/9var/work/mkmf_merge_obs_seq
===================================================================
--- DART/trunk/models/9var/work/mkmf_merge_obs_seq	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/9var/work/mkmf_merge_obs_seq	2008-12-15 22:42:48 UTC (rev 3718)
@@ -1,15 +0,0 @@
-#!/bin/csh
-#
-# Data Assimilation Research Testbed -- DART
-# Copyright 2004-2007, Data Assimilation Research Section
-# University Corporation for Atmospheric Research
-# Licensed under the GPL -- www.gpl.org/licenses/gpl.html
-#
-# <next few lines under version control, do not edit>
-# $URL$
-# $Id$
-# $Revision$
-# $Date$
-#
-../../../mkmf/mkmf -p merge_obs_seq -t ../../../mkmf/mkmf.template -c"-Duse_netCDF" \
- -a "../../.." path_names_merge_obs_seq

Copied: DART/trunk/models/9var/work/mkmf_obs_sequence_tool (from rev 3708, DART/trunk/models/9var/work/mkmf_merge_obs_seq)
===================================================================
--- DART/trunk/models/9var/work/mkmf_obs_sequence_tool	                        (rev 0)
+++ DART/trunk/models/9var/work/mkmf_obs_sequence_tool	2008-12-15 22:42:48 UTC (rev 3718)
@@ -0,0 +1,15 @@
+#!/bin/csh
+#
+# Data Assimilation Research Testbed -- DART
+# Copyright 2004-2007, Data Assimilation Research Section
+# University Corporation for Atmospheric Research
+# Licensed under the GPL -- www.gpl.org/licenses/gpl.html
+#
+# <next few lines under version control, do not edit>
+# $URL$
+# $Id$
+# $Revision$
+# $Date$
+#
+../../../mkmf/mkmf -p obs_sequence_tool -t ../../../mkmf/mkmf.template -c"-Duse_netCDF" \
+ -a "../../.." path_names_obs_sequence_tool

Deleted: DART/trunk/models/9var/work/path_names_merge_obs_seq
===================================================================
--- DART/trunk/models/9var/work/path_names_merge_obs_seq	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/9var/work/path_names_merge_obs_seq	2008-12-15 22:42:48 UTC (rev 3718)
@@ -1,14 +0,0 @@
-obs_sequence/merge_obs_seq.f90
-obs_sequence/obs_sequence_mod.f90
-obs_kind/obs_kind_mod.f90
-obs_def/obs_def_mod.f90
-cov_cutoff/cov_cutoff_mod.f90
-assim_model/assim_model_mod.f90
-models/9var/model_mod.f90
-common/types_mod.f90
-location/oned/location_mod.f90
-random_seq/random_seq_mod.f90
-random_nr/random_nr_mod.f90
-time_manager/time_manager_mod.f90
-utilities/utilities_mod.f90
-mpi_utilities/null_mpi_utilities_mod.f90

Copied: DART/trunk/models/9var/work/path_names_obs_sequence_tool (from rev 3708, DART/trunk/models/9var/work/path_names_merge_obs_seq)
===================================================================
--- DART/trunk/models/9var/work/path_names_obs_sequence_tool	                        (rev 0)
+++ DART/trunk/models/9var/work/path_names_obs_sequence_tool	2008-12-15 22:42:48 UTC (rev 3718)
@@ -0,0 +1,14 @@
+obs_sequence/obs_sequence_tool.f90
+obs_sequence/obs_sequence_mod.f90
+obs_kind/obs_kind_mod.f90
+obs_def/obs_def_mod.f90
+cov_cutoff/cov_cutoff_mod.f90
+assim_model/assim_model_mod.f90
+models/9var/model_mod.f90
+common/types_mod.f90
+location/oned/location_mod.f90
+random_seq/random_seq_mod.f90
+random_nr/random_nr_mod.f90
+time_manager/time_manager_mod.f90
+utilities/utilities_mod.f90
+mpi_utilities/null_mpi_utilities_mod.f90

Modified: DART/trunk/models/ikeda/work/input.nml
===================================================================
--- DART/trunk/models/ikeda/work/input.nml	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/ikeda/work/input.nml	2008-12-15 22:42:48 UTC (rev 3718)
@@ -117,27 +117,62 @@
   output_obs_kind_mod_file = '../../../obs_kind/obs_kind_mod.f90', 
                input_files = '../../../obs_def/obs_def_1d_state_mod.f90'  /
 
-&restart_file_utility_nml
+
+&obs_sequence_tool_nml
+   num_input_files   = 2,
+   filename_seq      = 'obs_seq.one', 'obs_seq.two',
+   filename_out      = 'obs_seq.processed',
+   first_obs_days    = -1,
+   first_obs_seconds = -1,
+   last_obs_days     = -1,
+   last_obs_seconds  = -1,
+   print_only        = .false.,
+   gregorian_cal     = .false.
+   /
+
+# other possible obs tool namelist items:
+#
+# keep only the U and V radiosonde winds:
+#   obs_types          = 'RADIOSONDE_U_WIND_COMPONENT',
+#                        'RADIOSONDE_V_WIND_COMPONENT',
+#   keep_types         = .true.,
+#
+# remove the U and V radiosonde winds:
+#   obs_types          = 'RADIOSONDE_U_WIND_COMPONENT',
+#                        'RADIOSONDE_V_WIND_COMPONENT',
+#   keep_types         = .false.,
+#
+# keep only observations with a DART QC of 0:
+#   qc_metadata        = 'Dart quality control',
+#   min_qc             = 0,
+#   max_qc             = 0,
+#
+# keep only radiosonde temp obs between 250 and 300 K:
+#   copy_metadata      = 'NCEP BUFR observation',
+#   copy_type          = 'RADIOSONDE_TEMPERATURE',
+#   min_copy           = 250.0,
+#   max_copy           = 300.0,
+#
+
+
+&restart_file_tool_nml
    input_file_name              = "filter_restart",
    output_file_name             = "filter_updated_restart",
-   ens_size                     =  1,
+   ens_size                     = 1,
    single_restart_file_in       = .true.,
    single_restart_file_out      = .true.,
    write_binary_restart_files   = .true.,
    overwrite_data_time          = .false.,
-   new_data_days                =  -1,
-   new_data_secs                =  -1,
+   new_data_days                = -1,
+   new_data_secs                = -1,
    input_is_model_advance_file  = .false.,
    output_is_model_advance_file = .false.,
    overwrite_advance_time       = .false.,
-   new_advance_days             =  -1,
-   new_advance_secs             =  -1   /
+   new_advance_days             = -1,
+   new_advance_secs             = -1,
+   gregorian_cal                = .false.
+/
 
-&merge_obs_seq_nml
-   num_input_files = 2,
-   filename_seq    = 'obs_seq.one', 'obs_seq.two',
-   filename_out    = 'obs_seq.merged'  /
-
 &obs_diag_nml
    obs_sequence_name  = 'obs_seq.final',
    iskip_days         = 0,

Deleted: DART/trunk/models/ikeda/work/mkmf_merge_obs_seq
===================================================================
--- DART/trunk/models/ikeda/work/mkmf_merge_obs_seq	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/ikeda/work/mkmf_merge_obs_seq	2008-12-15 22:42:48 UTC (rev 3718)
@@ -1,15 +0,0 @@
-#!/bin/csh
-#
-# Data Assimilation Research Testbed -- DART
-# Copyright 2004-2007, Data Assimilation Research Section
-# University Corporation for Atmospheric Research
-# Licensed under the GPL -- www.gpl.org/licenses/gpl.html
-#
-# <next few lines under version control, do not edit>
-# $URL$
-# $Id$
-# $Revision$
-# $Date$
-#
-../../../mkmf/mkmf -p merge_obs_seq -t ../../../mkmf/mkmf.template -c"-Duse_netCDF" \
- -a "../../.." path_names_merge_obs_seq

Copied: DART/trunk/models/ikeda/work/mkmf_obs_sequence_tool (from rev 3708, DART/trunk/models/ikeda/work/mkmf_merge_obs_seq)
===================================================================
--- DART/trunk/models/ikeda/work/mkmf_obs_sequence_tool	                        (rev 0)
+++ DART/trunk/models/ikeda/work/mkmf_obs_sequence_tool	2008-12-15 22:42:48 UTC (rev 3718)
@@ -0,0 +1,15 @@
+#!/bin/csh
+#
+# Data Assimilation Research Testbed -- DART
+# Copyright 2004-2007, Data Assimilation Research Section
+# University Corporation for Atmospheric Research
+# Licensed under the GPL -- www.gpl.org/licenses/gpl.html
+#
+# <next few lines under version control, do not edit>
+# $URL$
+# $Id$
+# $Revision$
+# $Date$
+#
+../../../mkmf/mkmf -p obs_sequence_tool -t ../../../mkmf/mkmf.template -c"-Duse_netCDF" \
+ -a "../../.." path_names_obs_sequence_tool

Deleted: DART/trunk/models/ikeda/work/path_names_merge_obs_seq
===================================================================
--- DART/trunk/models/ikeda/work/path_names_merge_obs_seq	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/ikeda/work/path_names_merge_obs_seq	2008-12-15 22:42:48 UTC (rev 3718)
@@ -1,14 +0,0 @@
-obs_sequence/merge_obs_seq.f90
-obs_sequence/obs_sequence_mod.f90
-obs_kind/obs_kind_mod.f90
-obs_def/obs_def_mod.f90
-cov_cutoff/cov_cutoff_mod.f90
-assim_model/assim_model_mod.f90
-models/ikeda/model_mod.f90
-common/types_mod.f90
-location/oned/location_mod.f90
-random_seq/random_seq_mod.f90
-random_nr/random_nr_mod.f90
-time_manager/time_manager_mod.f90
-utilities/utilities_mod.f90
-mpi_utilities/null_mpi_utilities_mod.f90

Copied: DART/trunk/models/ikeda/work/path_names_obs_sequence_tool (from rev 3708, DART/trunk/models/ikeda/work/path_names_merge_obs_seq)
===================================================================
--- DART/trunk/models/ikeda/work/path_names_obs_sequence_tool	                        (rev 0)
+++ DART/trunk/models/ikeda/work/path_names_obs_sequence_tool	2008-12-15 22:42:48 UTC (rev 3718)
@@ -0,0 +1,14 @@
+obs_sequence/obs_sequence_tool.f90
+obs_sequence/obs_sequence_mod.f90
+obs_kind/obs_kind_mod.f90
+obs_def/obs_def_mod.f90
+cov_cutoff/cov_cutoff_mod.f90
+assim_model/assim_model_mod.f90
+models/ikeda/model_mod.f90
+common/types_mod.f90
+location/oned/location_mod.f90
+random_seq/random_seq_mod.f90
+random_nr/random_nr_mod.f90
+time_manager/time_manager_mod.f90
+utilities/utilities_mod.f90
+mpi_utilities/null_mpi_utilities_mod.f90

Modified: DART/trunk/models/lorenz_04/work/input.nml
===================================================================
--- DART/trunk/models/lorenz_04/work/input.nml	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/lorenz_04/work/input.nml	2008-12-15 22:42:48 UTC (rev 3718)
@@ -121,26 +121,61 @@
   output_obs_kind_mod_file = '../../../obs_kind/obs_kind_mod.f90', 
                input_files = '../../../obs_def/obs_def_1d_state_mod.f90'  /
 
-&restart_file_utility_nml
+&obs_sequence_tool_nml
+   num_input_files   = 2,
+   filename_seq      = 'obs_seq.one', 'obs_seq.two',
+   filename_out      = 'obs_seq.processed',
+   first_obs_days    = -1,
+   first_obs_seconds = -1,
+   last_obs_days     = -1,
+   last_obs_seconds  = -1,
+   print_only        = .false.,
+   gregorian_cal     = .false.
+   /
+
+# other possible obs tool namelist items:
+#
+# keep only the U and V radiosonde winds:
+#   obs_types          = 'RADIOSONDE_U_WIND_COMPONENT',
+#                        'RADIOSONDE_V_WIND_COMPONENT',
+#   keep_types         = .true.,
+#
+# remove the U and V radiosonde winds:
+#   obs_types          = 'RADIOSONDE_U_WIND_COMPONENT',
+#                        'RADIOSONDE_V_WIND_COMPONENT',
+#   keep_types         = .false.,
+#
+# keep only observations with a DART QC of 0:
+#   qc_metadata        = 'Dart quality control',
+#   min_qc             = 0,
+#   max_qc             = 0,
+#
+# keep only radiosonde temp obs between 250 and 300 K:
+#   copy_metadata      = 'NCEP BUFR observation',
+#   copy_type          = 'RADIOSONDE_TEMPERATURE',
+#   min_copy           = 250.0,
+#   max_copy           = 300.0,
+#
+
+
+&restart_file_tool_nml
    input_file_name              = "filter_restart",
    output_file_name             = "filter_updated_restart",
-   ens_size                     =  1,
+   ens_size                     = 1,
    single_restart_file_in       = .true.,
    single_restart_file_out      = .true.,
    write_binary_restart_files   = .true.,
    overwrite_data_time          = .false.,
-   new_data_days                =  -1,
-   new_data_secs                =  -1,
+   new_data_days                = -1,
+   new_data_secs                = -1,
    input_is_model_advance_file  = .false.,
    output_is_model_advance_file = .false.,
    overwrite_advance_time       = .false.,
-   new_advance_days             =  -1,
-   new_advance_secs             =  -1   /
+   new_advance_days             = -1,
+   new_advance_secs             = -1,
+   gregorian_cal                = .false.
+/
 
-&merge_obs_seq_nml
-   num_input_files = 2,
-   filename_seq    = 'obs_seq.one', 'obs_seq.two',
-   filename_out    = 'obs_seq.merged'  /
 
 &obs_diag_nml
    obs_sequence_name  = 'obs_seq.final',

Deleted: DART/trunk/models/lorenz_04/work/mkmf_merge_obs_seq
===================================================================
--- DART/trunk/models/lorenz_04/work/mkmf_merge_obs_seq	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/lorenz_04/work/mkmf_merge_obs_seq	2008-12-15 22:42:48 UTC (rev 3718)
@@ -1,15 +0,0 @@
-#!/bin/csh
-#
-# Data Assimilation Research Testbed -- DART
-# Copyright 2004-2007, Data Assimilation Research Section
-# University Corporation for Atmospheric Research
-# Licensed under the GPL -- www.gpl.org/licenses/gpl.html
-#
-# <next few lines under version control, do not edit>
-# $URL$
-# $Id$
-# $Revision$
-# $Date$
-#
-../../../mkmf/mkmf -p merge_obs_seq -t ../../../mkmf/mkmf.template -c"-Duse_netCDF" \
- -a "../../.." path_names_merge_obs_seq

Copied: DART/trunk/models/lorenz_04/work/mkmf_obs_sequence_tool (from rev 3708, DART/trunk/models/lorenz_04/work/mkmf_merge_obs_seq)
===================================================================
--- DART/trunk/models/lorenz_04/work/mkmf_obs_sequence_tool	                        (rev 0)
+++ DART/trunk/models/lorenz_04/work/mkmf_obs_sequence_tool	2008-12-15 22:42:48 UTC (rev 3718)
@@ -0,0 +1,15 @@
+#!/bin/csh
+#
+# Data Assimilation Research Testbed -- DART
+# Copyright 2004-2007, Data Assimilation Research Section
+# University Corporation for Atmospheric Research
+# Licensed under the GPL -- www.gpl.org/licenses/gpl.html
+#
+# <next few lines under version control, do not edit>
+# $URL$
+# $Id$
+# $Revision$
+# $Date$
+#
+../../../mkmf/mkmf -p obs_sequence_tool -t ../../../mkmf/mkmf.template -c"-Duse_netCDF" \
+ -a "../../.." path_names_obs_sequence_tool

Deleted: DART/trunk/models/lorenz_04/work/path_names_merge_obs_seq
===================================================================
--- DART/trunk/models/lorenz_04/work/path_names_merge_obs_seq	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/lorenz_04/work/path_names_merge_obs_seq	2008-12-15 22:42:48 UTC (rev 3718)
@@ -1,14 +0,0 @@
-obs_sequence/merge_obs_seq.f90
-obs_sequence/obs_sequence_mod.f90
-obs_kind/obs_kind_mod.f90
-obs_def/obs_def_mod.f90
-cov_cutoff/cov_cutoff_mod.f90
-assim_model/assim_model_mod.f90
-models/lorenz_04/model_mod.f90
-common/types_mod.f90
-location/oned/location_mod.f90
-random_seq/random_seq_mod.f90
-random_nr/random_nr_mod.f90
-time_manager/time_manager_mod.f90
-utilities/utilities_mod.f90
-mpi_utilities/null_mpi_utilities_mod.f90

Copied: DART/trunk/models/lorenz_04/work/path_names_obs_sequence_tool (from rev 3708, DART/trunk/models/lorenz_04/work/path_names_merge_obs_seq)
===================================================================
--- DART/trunk/models/lorenz_04/work/path_names_obs_sequence_tool	                        (rev 0)
+++ DART/trunk/models/lorenz_04/work/path_names_obs_sequence_tool	2008-12-15 22:42:48 UTC (rev 3718)
@@ -0,0 +1,14 @@
+obs_sequence/obs_sequence_tool.f90
+obs_sequence/obs_sequence_mod.f90
+obs_kind/obs_kind_mod.f90
+obs_def/obs_def_mod.f90
+cov_cutoff/cov_cutoff_mod.f90
+assim_model/assim_model_mod.f90
+models/lorenz_04/model_mod.f90
+common/types_mod.f90
+location/oned/location_mod.f90
+random_seq/random_seq_mod.f90
+random_nr/random_nr_mod.f90
+time_manager/time_manager_mod.f90
+utilities/utilities_mod.f90
+mpi_utilities/null_mpi_utilities_mod.f90

Modified: DART/trunk/models/lorenz_63/work/input.nml
===================================================================
--- DART/trunk/models/lorenz_63/work/input.nml	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/lorenz_63/work/input.nml	2008-12-15 22:42:48 UTC (rev 3718)
@@ -117,27 +117,62 @@
   output_obs_kind_mod_file = '../../../obs_kind/obs_kind_mod.f90', 
                input_files = '../../../obs_def/obs_def_1d_state_mod.f90'  /
 
-&restart_file_utility_nml
+
+&obs_sequence_tool_nml
+   num_input_files   = 2,
+   filename_seq      = 'obs_seq.one', 'obs_seq.two',
+   filename_out      = 'obs_seq.processed',
+   first_obs_days    = -1,
+   first_obs_seconds = -1,
+   last_obs_days     = -1,
+   last_obs_seconds  = -1,
+   print_only        = .false.,
+   gregorian_cal     = .false.
+   /
+
+# other possible obs tool namelist items:
+#
+# keep only the U and V radiosonde winds:
+#   obs_types          = 'RADIOSONDE_U_WIND_COMPONENT',
+#                        'RADIOSONDE_V_WIND_COMPONENT',
+#   keep_types         = .true.,
+#
+# remove the U and V radiosonde winds:
+#   obs_types          = 'RADIOSONDE_U_WIND_COMPONENT',
+#                        'RADIOSONDE_V_WIND_COMPONENT',
+#   keep_types         = .false.,
+#
+# keep only observations with a DART QC of 0:
+#   qc_metadata        = 'Dart quality control',
+#   min_qc             = 0,
+#   max_qc             = 0,
+#
+# keep only radiosonde temp obs between 250 and 300 K:
+#   copy_metadata      = 'NCEP BUFR observation',
+#   copy_type          = 'RADIOSONDE_TEMPERATURE',
+#   min_copy           = 250.0,
+#   max_copy           = 300.0,
+#
+
+
+&restart_file_tool_nml
    input_file_name              = "filter_restart",
    output_file_name             = "filter_updated_restart",
-   ens_size                     =  1,
+   ens_size                     = 1,
    single_restart_file_in       = .true.,
    single_restart_file_out      = .true.,
    write_binary_restart_files   = .true.,
    overwrite_data_time          = .false.,
-   new_data_days                =  -1,
-   new_data_secs                =  -1,
+   new_data_days                = -1,
+   new_data_secs                = -1,
    input_is_model_advance_file  = .false.,
    output_is_model_advance_file = .false.,
    overwrite_advance_time       = .false.,
-   new_advance_days             =  -1,
-   new_advance_secs             =  -1   /
+   new_advance_days             = -1,
+   new_advance_secs             = -1,
+   gregorian_cal                = .false.
+/
 
-&merge_obs_seq_nml
-   num_input_files = 2,
-   filename_seq    = 'obs_seq.one', 'obs_seq.two',
-   filename_out    = 'obs_seq.merged'  /
-
 &obs_diag_nml
    obs_sequence_name  = 'obs_seq.final',
    iskip_days         = 0,

Deleted: DART/trunk/models/lorenz_63/work/mkmf_merge_obs_seq
===================================================================
--- DART/trunk/models/lorenz_63/work/mkmf_merge_obs_seq	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/lorenz_63/work/mkmf_merge_obs_seq	2008-12-15 22:42:48 UTC (rev 3718)
@@ -1,15 +0,0 @@
-#!/bin/csh
-#
-# Data Assimilation Research Testbed -- DART
-# Copyright 2004-2007, Data Assimilation Research Section
-# University Corporation for Atmospheric Research
-# Licensed under the GPL -- www.gpl.org/licenses/gpl.html
-#
-# <next few lines under version control, do not edit>
-# $URL$
-# $Id$
-# $Revision$
-# $Date$
-#
-../../../mkmf/mkmf -p merge_obs_seq -t ../../../mkmf/mkmf.template -c"-Duse_netCDF" \
- -a "../../.." path_names_merge_obs_seq

Copied: DART/trunk/models/lorenz_63/work/mkmf_obs_sequence_tool (from rev 3708, DART/trunk/models/lorenz_63/work/mkmf_merge_obs_seq)
===================================================================
--- DART/trunk/models/lorenz_63/work/mkmf_obs_sequence_tool	                        (rev 0)
+++ DART/trunk/models/lorenz_63/work/mkmf_obs_sequence_tool	2008-12-15 22:42:48 UTC (rev 3718)
@@ -0,0 +1,15 @@
+#!/bin/csh
+#
+# Data Assimilation Research Testbed -- DART
+# Copyright 2004-2007, Data Assimilation Research Section
+# University Corporation for Atmospheric Research
+# Licensed under the GPL -- www.gpl.org/licenses/gpl.html
+#
+# <next few lines under version control, do not edit>
+# $URL$
+# $Id$
+# $Revision$
+# $Date$
+#
+../../../mkmf/mkmf -p obs_sequence_tool -t ../../../mkmf/mkmf.template -c"-Duse_netCDF" \
+ -a "../../.." path_names_obs_sequence_tool

Deleted: DART/trunk/models/lorenz_63/work/path_names_merge_obs_seq
===================================================================
--- DART/trunk/models/lorenz_63/work/path_names_merge_obs_seq	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/lorenz_63/work/path_names_merge_obs_seq	2008-12-15 22:42:48 UTC (rev 3718)
@@ -1,14 +0,0 @@
-obs_sequence/merge_obs_seq.f90
-obs_sequence/obs_sequence_mod.f90
-obs_kind/obs_kind_mod.f90
-obs_def/obs_def_mod.f90
-cov_cutoff/cov_cutoff_mod.f90
-assim_model/assim_model_mod.f90
-models/lorenz_63/model_mod.f90
-common/types_mod.f90
-location/oned/location_mod.f90
-random_seq/random_seq_mod.f90
-random_nr/random_nr_mod.f90
-time_manager/time_manager_mod.f90
-utilities/utilities_mod.f90
-mpi_utilities/null_mpi_utilities_mod.f90

Copied: DART/trunk/models/lorenz_63/work/path_names_obs_sequence_tool (from rev 3708, DART/trunk/models/lorenz_63/work/path_names_merge_obs_seq)
===================================================================
--- DART/trunk/models/lorenz_63/work/path_names_obs_sequence_tool	                        (rev 0)
+++ DART/trunk/models/lorenz_63/work/path_names_obs_sequence_tool	2008-12-15 22:42:48 UTC (rev 3718)
@@ -0,0 +1,14 @@
+obs_sequence/obs_sequence_tool.f90
+obs_sequence/obs_sequence_mod.f90
+obs_kind/obs_kind_mod.f90
+obs_def/obs_def_mod.f90
+cov_cutoff/cov_cutoff_mod.f90
+assim_model/assim_model_mod.f90
+models/lorenz_63/model_mod.f90
+common/types_mod.f90
+location/oned/location_mod.f90
+random_seq/random_seq_mod.f90
+random_nr/random_nr_mod.f90
+time_manager/time_manager_mod.f90
+utilities/utilities_mod.f90
+mpi_utilities/null_mpi_utilities_mod.f90

Modified: DART/trunk/models/lorenz_84/work/input.nml
===================================================================
--- DART/trunk/models/lorenz_84/work/input.nml	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/lorenz_84/work/input.nml	2008-12-15 22:42:48 UTC (rev 3718)
@@ -118,27 +118,61 @@
   output_obs_kind_mod_file = '../../../obs_kind/obs_kind_mod.f90', 
                input_files = '../../../obs_def/obs_def_1d_state_mod.f90'  /
 
-&restart_file_utility_nml
+&obs_sequence_tool_nml
+   num_input_files   = 2,
+   filename_seq      = 'obs_seq.one', 'obs_seq.two',
+   filename_out      = 'obs_seq.processed',
+   first_obs_days    = -1,
+   first_obs_seconds = -1,
+   last_obs_days     = -1,
+   last_obs_seconds  = -1,
+   print_only        = .false.,
+   gregorian_cal     = .false.
+   /
+
+# other possible obs tool namelist items:
+#
+# keep only the U and V radiosonde winds:
+#   obs_types          = 'RADIOSONDE_U_WIND_COMPONENT',
+#                        'RADIOSONDE_V_WIND_COMPONENT',
+#   keep_types         = .true.,
+#
+# remove the U and V radiosonde winds:
+#   obs_types          = 'RADIOSONDE_U_WIND_COMPONENT',
+#                        'RADIOSONDE_V_WIND_COMPONENT',
+#   keep_types         = .false.,
+#
+# keep only observations with a DART QC of 0:
+#   qc_metadata        = 'Dart quality control',
+#   min_qc             = 0,
+#   max_qc             = 0,
+#
+# keep only radiosonde temp obs between 250 and 300 K:
+#   copy_metadata      = 'NCEP BUFR observation',
+#   copy_type          = 'RADIOSONDE_TEMPERATURE',
+#   min_copy           = 250.0,
+#   max_copy           = 300.0,
+#
+
+
+&restart_file_tool_nml
    input_file_name              = "filter_restart",
    output_file_name             = "filter_updated_restart",
-   ens_size                     =  1,
+   ens_size                     = 1,
    single_restart_file_in       = .true.,
    single_restart_file_out      = .true.,
    write_binary_restart_files   = .true.,
    overwrite_data_time          = .false.,
-   new_data_days                =  -1,
-   new_data_secs                =  -1,
+   new_data_days                = -1,
+   new_data_secs                = -1,
    input_is_model_advance_file  = .false.,
    output_is_model_advance_file = .false.,
    overwrite_advance_time       = .false.,
-   new_advance_days             =  -1,
-   new_advance_secs             =  -1   /
+   new_advance_days             = -1,
+   new_advance_secs             = -1,
+   gregorian_cal                = .false.
+/
 
-&merge_obs_seq_nml
-   num_input_files = 2,
-   filename_seq    = 'obs_seq.one', 'obs_seq.two',
-   filename_out    = 'obs_seq.merged'  /
-
 &obs_diag_nml
    obs_sequence_name  = 'obs_seq.final',
    iskip_days         = 0,

Deleted: DART/trunk/models/lorenz_84/work/mkmf_merge_obs_seq
===================================================================
--- DART/trunk/models/lorenz_84/work/mkmf_merge_obs_seq	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/lorenz_84/work/mkmf_merge_obs_seq	2008-12-15 22:42:48 UTC (rev 3718)
@@ -1,15 +0,0 @@
-#!/bin/csh
-#
-# Data Assimilation Research Testbed -- DART
-# Copyright 2004-2007, Data Assimilation Research Section
-# University Corporation for Atmospheric Research
-# Licensed under the GPL -- www.gpl.org/licenses/gpl.html
-#
-# <next few lines under version control, do not edit>
-# $URL$
-# $Id$
-# $Revision$
-# $Date$
-#
-../../../mkmf/mkmf -p merge_obs_seq -t ../../../mkmf/mkmf.template -c"-Duse_netCDF" \
- -a "../../.." path_names_merge_obs_seq

Copied: DART/trunk/models/lorenz_84/work/mkmf_obs_sequence_tool (from rev 3708, DART/trunk/models/lorenz_84/work/mkmf_merge_obs_seq)
===================================================================
--- DART/trunk/models/lorenz_84/work/mkmf_obs_sequence_tool	                        (rev 0)
+++ DART/trunk/models/lorenz_84/work/mkmf_obs_sequence_tool	2008-12-15 22:42:48 UTC (rev 3718)
@@ -0,0 +1,15 @@
+#!/bin/csh
+#
+# Data Assimilation Research Testbed -- DART
+# Copyright 2004-2007, Data Assimilation Research Section
+# University Corporation for Atmospheric Research
+# Licensed under the GPL -- www.gpl.org/licenses/gpl.html
+#
+# <next few lines under version control, do not edit>
+# $URL$
+# $Id$
+# $Revision$
+# $Date$
+#
+../../../mkmf/mkmf -p obs_sequence_tool -t ../../../mkmf/mkmf.template -c"-Duse_netCDF" \
+ -a "../../.." path_names_obs_sequence_tool

Deleted: DART/trunk/models/lorenz_84/work/path_names_merge_obs_seq
===================================================================
--- DART/trunk/models/lorenz_84/work/path_names_merge_obs_seq	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/lorenz_84/work/path_names_merge_obs_seq	2008-12-15 22:42:48 UTC (rev 3718)
@@ -1,14 +0,0 @@
-obs_sequence/merge_obs_seq.f90
-obs_sequence/obs_sequence_mod.f90
-obs_kind/obs_kind_mod.f90
-obs_def/obs_def_mod.f90
-cov_cutoff/cov_cutoff_mod.f90
-assim_model/assim_model_mod.f90
-models/lorenz_84/model_mod.f90
-common/types_mod.f90
-location/oned/location_mod.f90
-random_seq/random_seq_mod.f90
-random_nr/random_nr_mod.f90
-time_manager/time_manager_mod.f90
-utilities/utilities_mod.f90
-mpi_utilities/null_mpi_utilities_mod.f90

Copied: DART/trunk/models/lorenz_84/work/path_names_obs_sequence_tool (from rev 3708, DART/trunk/models/lorenz_84/work/path_names_merge_obs_seq)
===================================================================
--- DART/trunk/models/lorenz_84/work/path_names_obs_sequence_tool	                        (rev 0)
+++ DART/trunk/models/lorenz_84/work/path_names_obs_sequence_tool	2008-12-15 22:42:48 UTC (rev 3718)
@@ -0,0 +1,14 @@
+obs_sequence/obs_sequence_tool.f90
+obs_sequence/obs_sequence_mod.f90
+obs_kind/obs_kind_mod.f90
+obs_def/obs_def_mod.f90
+cov_cutoff/cov_cutoff_mod.f90
+assim_model/assim_model_mod.f90
+models/lorenz_84/model_mod.f90
+common/types_mod.f90
+location/oned/location_mod.f90
+random_seq/random_seq_mod.f90
+random_nr/random_nr_mod.f90
+time_manager/time_manager_mod.f90
+utilities/utilities_mod.f90
+mpi_utilities/null_mpi_utilities_mod.f90

Modified: DART/trunk/models/lorenz_96/work/input.nml
===================================================================
--- DART/trunk/models/lorenz_96/work/input.nml	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/lorenz_96/work/input.nml	2008-12-15 22:42:48 UTC (rev 3718)
@@ -116,27 +116,62 @@
   output_obs_kind_mod_file = '../../../obs_kind/obs_kind_mod.f90', 
                input_files = '../../../obs_def/obs_def_1d_state_mod.f90'  /
 
-&restart_file_utility_nml
+
+&obs_sequence_tool_nml
+   num_input_files   = 2,
+   filename_seq      = 'obs_seq.one', 'obs_seq.two',
+   filename_out      = 'obs_seq.processed',
+   first_obs_days    = -1,
+   first_obs_seconds = -1,
+   last_obs_days     = -1,
+   last_obs_seconds  = -1,
+   print_only        = .false.,
+   gregorian_cal     = .false.
+   /
+
+# other possible obs tool namelist items:
+#
+# keep only the U and V radiosonde winds:
+#   obs_types          = 'RADIOSONDE_U_WIND_COMPONENT',
+#                        'RADIOSONDE_V_WIND_COMPONENT',
+#   keep_types         = .true.,
+#
+# remove the U and V radiosonde winds:
+#   obs_types          = 'RADIOSONDE_U_WIND_COMPONENT',
+#                        'RADIOSONDE_V_WIND_COMPONENT',
+#   keep_types         = .false.,
+#
+# keep only observations with a DART QC of 0:
+#   qc_metadata        = 'Dart quality control',
+#   min_qc             = 0,
+#   max_qc             = 0,
+#
+# keep only radiosonde temp obs between 250 and 300 K:
+#   copy_metadata      = 'NCEP BUFR observation',
+#   copy_type          = 'RADIOSONDE_TEMPERATURE',
+#   min_copy           = 250.0,
+#   max_copy           = 300.0,
+#
+
+
+&restart_file_tool_nml
    input_file_name              = "filter_restart",
    output_file_name             = "filter_updated_restart",
-   ens_size                     =  1,
+   ens_size                     = 1,
    single_restart_file_in       = .true.,
    single_restart_file_out      = .true.,
    write_binary_restart_files   = .true.,
    overwrite_data_time          = .false.,
-   new_data_days                =  -1,
-   new_data_secs                =  -1,
+   new_data_days                = -1,
+   new_data_secs                = -1,
    input_is_model_advance_file  = .false.,
    output_is_model_advance_file = .false.,
    overwrite_advance_time       = .false.,
-   new_advance_days             =  -1,
-   new_advance_secs             =  -1   /
+   new_advance_days             = -1,
+   new_advance_secs             = -1,
+   gregorian_cal                = .false.
+/
 
-&merge_obs_seq_nml
-   num_input_files = 2,
-   filename_seq    = 'obs_seq.one', 'obs_seq.two',
-   filename_out    = 'obs_seq.merged'  /
-
 &obs_diag_nml
    obs_sequence_name  = 'obs_seq.final',
    iskip_days         = 0,

Deleted: DART/trunk/models/lorenz_96/work/mkmf_merge_obs_seq
===================================================================
--- DART/trunk/models/lorenz_96/work/mkmf_merge_obs_seq	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/lorenz_96/work/mkmf_merge_obs_seq	2008-12-15 22:42:48 UTC (rev 3718)
@@ -1,15 +0,0 @@
-#!/bin/csh
-#
-# Data Assimilation Research Testbed -- DART
-# Copyright 2004-2007, Data Assimilation Research Section
-# University Corporation for Atmospheric Research
-# Licensed under the GPL -- www.gpl.org/licenses/gpl.html
-#
-# <next few lines under version control, do not edit>
-# $URL$
-# $Id$
-# $Revision$
-# $Date$
-#
-../../../mkmf/mkmf -p merge_obs_seq -t ../../../mkmf/mkmf.template -c"-Duse_netCDF" \
- -a "../../.." path_names_merge_obs_seq

Copied: DART/trunk/models/lorenz_96/work/mkmf_obs_sequence_tool (from rev 3708, DART/trunk/models/lorenz_96/work/mkmf_merge_obs_seq)
===================================================================
--- DART/trunk/models/lorenz_96/work/mkmf_obs_sequence_tool	                        (rev 0)
+++ DART/trunk/models/lorenz_96/work/mkmf_obs_sequence_tool	2008-12-15 22:42:48 UTC (rev 3718)
@@ -0,0 +1,15 @@
+#!/bin/csh
+#
+# Data Assimilation Research Testbed -- DART
+# Copyright 2004-2007, Data Assimilation Research Section
+# University Corporation for Atmospheric Research
+# Licensed under the GPL -- www.gpl.org/licenses/gpl.html
+#
+# <next few lines under version control, do not edit>
+# $URL$
+# $Id$
+# $Revision$
+# $Date$
+#
+../../../mkmf/mkmf -p obs_sequence_tool -t ../../../mkmf/mkmf.template -c"-Duse_netCDF" \
+ -a "../../.." path_names_obs_sequence_tool

Copied: DART/trunk/models/lorenz_96/work/mkmf_restart_file_tool (from rev 3708, DART/trunk/models/lorenz_96/work/mkmf_restart_file_utility)
===================================================================
--- DART/trunk/models/lorenz_96/work/mkmf_restart_file_tool	                        (rev 0)
+++ DART/trunk/models/lorenz_96/work/mkmf_restart_file_tool	2008-12-15 22:42:48 UTC (rev 3718)
@@ -0,0 +1,15 @@
+#!/bin/csh
+#
+# Data Assimilation Research Testbed -- DART
+# Copyright 2004-2007, Data Assimilation Research Section
+# University Corporation for Atmospheric Research
+# Licensed under the GPL -- www.gpl.org/licenses/gpl.html
+#
+# <next few lines under version control, do not edit>
+# $URL$
+# $Id$
+# $Revision$
+# $Date$
+#
+../../../mkmf/mkmf -p restart_file_tool -t ../../../mkmf/mkmf.template -c"-Duse_netCDF" \
+ -a "../../.." path_names_restart_file_tool

Deleted: DART/trunk/models/lorenz_96/work/mkmf_restart_file_utility
===================================================================
--- DART/trunk/models/lorenz_96/work/mkmf_restart_file_utility	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/lorenz_96/work/mkmf_restart_file_utility	2008-12-15 22:42:48 UTC (rev 3718)
@@ -1,15 +0,0 @@
-#!/bin/csh
-#
-# Data Assimilation Research Testbed -- DART
-# Copyright 2004-2007, Data Assimilation Research Section
-# University Corporation for Atmospheric Research
-# Licensed under the GPL -- www.gpl.org/licenses/gpl.html
-#
-# <next few lines under version control, do not edit>
-# $URL$
-# $Id$
-# $Revision$
-# $Date$
-#
-../../../mkmf/mkmf -p restart_file_utility -t ../../../mkmf/mkmf.template -c"-Duse_netCDF" \
- -a "../../.." path_names_restart_file_utility

Deleted: DART/trunk/models/lorenz_96/work/path_names_merge_obs_seq
===================================================================
--- DART/trunk/models/lorenz_96/work/path_names_merge_obs_seq	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/lorenz_96/work/path_names_merge_obs_seq	2008-12-15 22:42:48 UTC (rev 3718)
@@ -1,14 +0,0 @@
-obs_sequence/merge_obs_seq.f90
-obs_sequence/obs_sequence_mod.f90
-obs_kind/obs_kind_mod.f90
-obs_def/obs_def_mod.f90
-cov_cutoff/cov_cutoff_mod.f90
-assim_model/assim_model_mod.f90
-models/lorenz_96/model_mod.f90
-common/types_mod.f90
-location/oned/location_mod.f90
-random_seq/random_seq_mod.f90
-random_nr/random_nr_mod.f90
-time_manager/time_manager_mod.f90
-utilities/utilities_mod.f90
-mpi_utilities/null_mpi_utilities_mod.f90

Copied: DART/trunk/models/lorenz_96/work/path_names_obs_sequence_tool (from rev 3708, DART/trunk/models/lorenz_96/work/path_names_merge_obs_seq)
===================================================================
--- DART/trunk/models/lorenz_96/work/path_names_obs_sequence_tool	                        (rev 0)
+++ DART/trunk/models/lorenz_96/work/path_names_obs_sequence_tool	2008-12-15 22:42:48 UTC (rev 3718)
@@ -0,0 +1,14 @@
+obs_sequence/obs_sequence_tool.f90
+obs_sequence/obs_sequence_mod.f90
+obs_kind/obs_kind_mod.f90
+obs_def/obs_def_mod.f90
+cov_cutoff/cov_cutoff_mod.f90
+assim_model/assim_model_mod.f90
+models/lorenz_96/model_mod.f90
+common/types_mod.f90
+location/oned/location_mod.f90
+random_seq/random_seq_mod.f90
+random_nr/random_nr_mod.f90
+time_manager/time_manager_mod.f90
+utilities/utilities_mod.f90
+mpi_utilities/null_mpi_utilities_mod.f90

Copied: DART/trunk/models/lorenz_96/work/path_names_restart_file_tool (from rev 3708, DART/trunk/models/lorenz_96/work/path_names_restart_file_utility)
===================================================================
--- DART/trunk/models/lorenz_96/work/path_names_restart_file_tool	                        (rev 0)
+++ DART/trunk/models/lorenz_96/work/path_names_restart_file_tool	2008-12-15 22:42:48 UTC (rev 3718)
@@ -0,0 +1,19 @@
+utilities/restart_file_tool.f90
+ensemble_manager/ensemble_manager_mod.f90
+assim_tools/assim_tools_mod.f90
+adaptive_inflate/adaptive_inflate_mod.f90
+sort/sort_mod.f90
+cov_cutoff/cov_cutoff_mod.f90
+reg_factor/reg_factor_mod.f90
+obs_sequence/obs_sequence_mod.f90
+obs_kind/obs_kind_mod.f90
+obs_def/obs_def_mod.f90
+assim_model/assim_model_mod.f90
+models/lorenz_96/model_mod.f90
+common/types_mod.f90
+location/oned/location_mod.f90
+random_seq/random_seq_mod.f90
+random_nr/random_nr_mod.f90
+time_manager/time_manager_mod.f90
+utilities/utilities_mod.f90
+mpi_utilities/null_mpi_utilities_mod.f90

Deleted: DART/trunk/models/lorenz_96/work/path_names_restart_file_utility
===================================================================
--- DART/trunk/models/lorenz_96/work/path_names_restart_file_utility	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/lorenz_96/work/path_names_restart_file_utility	2008-12-15 22:42:48 UTC (rev 3718)
@@ -1,19 +0,0 @@
-utilities/restart_file_utility.f90
-ensemble_manager/ensemble_manager_mod.f90
-assim_tools/assim_tools_mod.f90
-adaptive_inflate/adaptive_inflate_mod.f90
-sort/sort_mod.f90
-cov_cutoff/cov_cutoff_mod.f90
-reg_factor/reg_factor_mod.f90
-obs_sequence/obs_sequence_mod.f90
-obs_kind/obs_kind_mod.f90
-obs_def/obs_def_mod.f90
-assim_model/assim_model_mod.f90
-models/lorenz_96/model_mod.f90
-common/types_mod.f90
-location/oned/location_mod.f90
-random_seq/random_seq_mod.f90
-random_nr/random_nr_mod.f90
-time_manager/time_manager_mod.f90
-utilities/utilities_mod.f90
-mpi_utilities/null_mpi_utilities_mod.f90

Modified: DART/trunk/models/lorenz_96_2scale/work/input.nml
===================================================================
--- DART/trunk/models/lorenz_96_2scale/work/input.nml	2008-12-15 18:59:46 UTC (rev 3717)
+++ DART/trunk/models/lorenz_96_2scale/work/input.nml	2008-12-15 22:42:48 UTC (rev 3718)
@@ -122,27 +122,62 @@
   output_obs_kind_mod_file = '../../../obs_kind/obs_kind_mod.f90', 
                input_files = '../../../obs_def/obs_def_1d_state_mod.f90'  /
 
-&restart_file_utility_nml
+
+&obs_sequence_tool_nml
+   num_input_files   = 2,
+   filename_seq      = 'obs_seq.one', 'obs_seq.two',
+   filename_out      = 'obs_seq.processed',
+   first_obs_days    = -1,
+   first_obs_seconds = -1,
+   last_obs_days     = -1,
+   last_obs_seconds  = -1,
+   print_only        = .false.,
+   gregorian_cal     = .false.
+   /
+
+# other possible obs tool namelist items:
+#
+# keep only the U and V radiosonde winds:
+#   obs_types          = 'RADIOSONDE_U_WIND_COMPONENT',
+#                        'RADIOSONDE_V_WIND_COMPONENT',
+#   keep_types         = .true.,
+#
+# remove the U and V radiosonde winds:

@@ Diff output truncated at 40000 characters. @@


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