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From jo...@apache.org
Subject [08/10] climate git commit: CLIMATE-551 - Drop old RCMET toolkit from codebase
Date Mon, 10 Nov 2014 16:05:55 GMT
CLIMATE-551 - Drop old RCMET toolkit from codebase


Project: http://git-wip-us.apache.org/repos/asf/climate/repo
Commit: http://git-wip-us.apache.org/repos/asf/climate/commit/8c142c35
Tree: http://git-wip-us.apache.org/repos/asf/climate/tree/8c142c35
Diff: http://git-wip-us.apache.org/repos/asf/climate/diff/8c142c35

Branch: refs/heads/master
Commit: 8c142c356540428cd6117d59adbcb8c0db3732c0
Parents: cff5b54
Author: Michael Joyce <joyce@apache.org>
Authored: Fri Nov 7 09:22:10 2014 -0800
Committer: Michael Joyce <joyce@apache.org>
Committed: Fri Nov 7 09:22:10 2014 -0800

----------------------------------------------------------------------
 rcmet/LICENSE.txt                               |  218 ---
 rcmet/src/main/python/bin/rcmet.py              |  265 ----
 .../docs/Bottle Web Service Documentation.docx  |  Bin 179630 -> 0 bytes
 rcmet/src/main/python/docs/Makefile             |  153 --
 .../main/python/docs/RCMET_documentation.docx   |  Bin 190254 -> 0 bytes
 rcmet/src/main/python/docs/conf.py              |  260 ----
 rcmet/src/main/python/docs/index.rst            |   22 -
 rcmet/src/main/python/docs/make.bat             |  190 ---
 rcmet/src/main/python/docs/rcmes.cli.rst        |   19 -
 rcmet/src/main/python/docs/rcmes.rst            |   22 -
 rcmet/src/main/python/docs/rcmes.services.rst   |   51 -
 rcmet/src/main/python/docs/rcmes.storage.rst    |   27 -
 rcmet/src/main/python/docs/rcmes.toolkit.rst    |   27 -
 rcmet/src/main/python/docs/rcmes.utils.rst      |   19 -
 rcmet/src/main/python/rcmes/README              |    8 -
 rcmet/src/main/python/rcmes/__init__.py         |   19 -
 rcmet/src/main/python/rcmes/classes.py          |  229 ---
 rcmet/src/main/python/rcmes/cli/__init__.py     |   27 -
 .../python/rcmes/cli/do_rcmes_processing_sub.py |  734 ---------
 .../main/python/rcmes/cli/rcmet20_cordexAF.py   |  996 ------------
 rcmet/src/main/python/rcmes/cli/rcmet_ui.py     |  112 --
 .../main/python/rcmes/resources/cordexAF.cfg    |   30 -
 .../python/rcmes/resources/cordexSubRegions.txt |   25 -
 .../resources/watersheds/CAwsdCU_wgt_ep36_d01   |  189 ---
 .../resources/watersheds/CAwsdCU_wgt_ep36_d02   | 1248 ----------------
 .../resources/watersheds/CAwsdDWR_wgt_ep36_d01  |  341 -----
 .../resources/watersheds/CAwsdDWR_wgt_ep36_d02  | 1364 -----------------
 .../rcmes/resources/watersheds/shasta_d02.txt   |  276 ----
 rcmet/src/main/python/rcmes/storage/__init__.py |   18 -
 rcmet/src/main/python/rcmes/storage/db.py       |  359 -----
 rcmet/src/main/python/rcmes/storage/files.py    |  783 ----------
 rcmet/src/main/python/rcmes/storage/rcmed.py    |  129 --
 rcmet/src/main/python/rcmes/toolkit/__init__.py |   18 -
 .../main/python/rcmes/toolkit/do_data_prep.py   |  366 -----
 rcmet/src/main/python/rcmes/toolkit/metrics.py  | 1080 -------------
 .../main/python/rcmes/toolkit/metrics_kyo.py    |  718 ---------
 rcmet/src/main/python/rcmes/toolkit/plots.py    |  226 ---
 rcmet/src/main/python/rcmes/toolkit/process.py  | 1007 -------------
 .../src/main/python/rcmes/toolkit/visualize.py  |   17 -
 rcmet/src/main/python/rcmes/utils/__init__.py   |   20 -
 .../src/main/python/rcmes/utils/fortranfile.py  |  274 ----
 rcmet/src/main/python/rcmes/utils/misc.py       | 1413 ------------------
 rcmet/src/main/python/rcmes/utils/taylor.py     |  126 --
 .../tests/files/missingSubRegionParam.cfg       |    3 -
 .../tests/files/validSubRegionConfigFile.cfg    |    3 -
 .../main/python/tests/files/validSubRegions.cfg |    7 -
 rcmet/src/main/python/tests/test_files.py       |   87 --
 rcmet/src/main/python/tests/test_metrics.py     |   52 -
 rcmet/src/main/python/tests/test_misc.py        |   74 -
 rcmet/src/main/python/tests/test_process.py     |   44 -
 rcmet/src/main/resources/PyLintREADME.txt       |   26 -
 rcmet/src/main/resources/pyLintRcFile.txt       |  249 ---
 rcmet/src/main/resources/rcmet_use_case.txt     |   57 -
 53 files changed, 14027 deletions(-)
----------------------------------------------------------------------


http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/LICENSE.txt
----------------------------------------------------------------------
diff --git a/rcmet/LICENSE.txt b/rcmet/LICENSE.txt
deleted file mode 100644
index 511958f..0000000
--- a/rcmet/LICENSE.txt
+++ /dev/null
@@ -1,218 +0,0 @@
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http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/bin/rcmet.py
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/bin/rcmet.py b/rcmet/src/main/python/bin/rcmet.py
deleted file mode 100755
index 096c5da..0000000
--- a/rcmet/src/main/python/bin/rcmet.py
+++ /dev/null
@@ -1,265 +0,0 @@
-#!/usr/local/bin/python
-#
-# Licensed to the Apache Software Foundation (ASF) under one
-# or more contributor license agreements.  See the NOTICE file
-# distributed with this work for additional information
-# regarding copyright ownership.  The ASF licenses this file
-# to you under the Apache License, Version 2.0 (the
-# "License"); you may not use this file except in compliance
-# with the License.  You may obtain a copy of the License at
-#
-#    http://www.apache.org/licenses/LICENSE-2.0
-#
-# Unless required by applicable law or agreed to in writing,
-# software distributed under the License is distributed on an
-# "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
-# KIND, either express or implied.  See the License for the
-# specific language governing permissions and limitations
-# under the License.
-#
-""" DOCSTRING"""
-
-# Python Standard Lib Imports
-import argparse
-import ConfigParser
-import datetime
-import glob
-import os
-import sys
-
-
-# RCMES Imports
-import storage.rcmed as db
-from toolkit import do_data_prep, process, metrics
-from utils import misc
-from classes import JobProperties, Model, GridBox
-from cli import rcmet_ui as ui
-
-parser = argparse.ArgumentParser(description='Regional Climate Model Evaluation Toolkit.  Use -h for help and options')
-parser.add_argument('-c', '--config', dest='CONFIG', help='Path to an evaluation configuration file')
-args = parser.parse_args()
-
-def checkConfigSettings(config):
-    """ This function will check the SETTINGS block of the user supplied config file.
-    This will only check if the working and cache dirs are writable from this program.
-    Additional configuration parameters can be checked here later on.
-    
-    Input::
-        config - ConfigParser configuration object
-    
-    Output::
-        none - An exception will be raised if something goes wrong
-    """
-    settings = config.items('SETTINGS')
-    for key_val in settings:
-        # Check the user provided directories are valid
-        if key_val[0] == 'workDir' or key_val[0] == 'cacheDir':
-            _ =  misc.isDirGood(os.path.abspath(key_val[1]))
-
-        else:
-            pass    
-
-def setSettings(settings, config):
-    """
-    This function is used to set the values within the 'SETTINGS' dictionary when a user provides an external
-    configuration file.
-    
-    Input::
-        settings - Python Dictionary object that will collect the key : value pairs
-        config - A configparse object that contains the external config values
-    
-    Output::
-        None - The settings dictionary will be updated in place.
-    """
-    pass
-
-def generateModels(modelConfig):
-    """
-    This function will return a list of Model objects that can easily be used for 
-    metric computation and other processing tasks.
-    
-    Input::  
-        modelConfig - list of ('key', 'value') tuples.  Below is a list of valid keys
-            filenamepattern - string i.e. '/nas/run/model/output/MOD*precip*.nc'
-            latvariable - string i.e. 'latitude'
-            lonvariable - string i.e. 'longitude'
-            timevariable - string i.e. 't'
-            timestep - string 'monthly' | 'daily' | 'annual'
-            varname - string i.e. 'pr'
-
-    Output::
-        modelList - List of Model objects
-    """
-    # Setup the config Data Dictionary to make parsing easier later
-    configData = {}
-    for entry in modelConfig:
-        configData[entry[0]] = entry[1]
-
-    modelFileList = None
-    for keyValTuple in modelConfig:
-        if keyValTuple[0] == 'filenamePattern':
-            modelFileList = glob.glob(keyValTuple[1])
-            modelFileList.sort()
-
-    # Remove the filenamePattern from the dict since it is no longer used
-    configData.pop('filenamePattern')
-    
-    models = []
-    for modelFile in modelFileList:
-        # use getModelTimes(modelFile,timeVarName) to generate the modelTimeStep and time list
-        _ , configData['timeStep'] = process.getModelTimes(modelFile, configData['timeVariable'])
-        configData['filename'] = modelFile
-        model = Model(**configData)
-        models.append(model)
-    
-    return models
-
-def generateSettings(config):
-    """
-    Helper function to decouple the argument parsing from the Settings object creation
-    
-    Input::  
-        config - list of ('key', 'value') tuples.
-            workdir - string i.e. '/nas/run/rcmet/work/'
-            cachedir - string i.e. '/tmp/rcmet/cache/'
-    Output::
-        JobProperties - JobProperties Object
-    """
-    # Setup the config Data Dictionary to make parsing easier later
-    configData = {}
-    for entry in config:
-        configData[entry[0]] = entry[1]
-        
-    return JobProperties(**configData)
-
-def makeDatasetsDictionary(rcmedConfig):
-    """
-    Helper function to decouple the argument parsing from the RCMEDDataset object creation
-
-    Input::  
-        rcmedConfig - list of ('key', 'value') tuples.
-            obsDatasetId=3,10
-            obsParamId=36,32
-            obsTimeStep=monthly,monthly
-
-    Output::
-        datasetDict - Dictionary with dataset metadata
-    # Setup the config Data Dictionary to make parsing easier later
-    """
-    delimiter = ','
-    configData = {}
-    for entry in rcmedConfig:
-        if delimiter in entry[1]:
-            # print 'delim found - %s' % entry[1]
-            valueList = entry[1].split(delimiter)
-            configData[entry[0]] = valueList
-        else:
-            configData[entry[0]] = entry[1:]
-
-    return configData
-
-def tempGetYears():
-    startYear = int(raw_input('Enter start year YYYY \n'))
-    endYear = int(raw_input('Enter end year YYYY \n'))
-    # CGOODALE - Updating the Static endTime to be 31-DEC
-    startTime = datetime.datetime(startYear, 1, 1, 0, 0)
-    endTime = datetime.datetime(endYear, 12, 31, 0, 0)
-    return (startTime, endTime)
-
-
-def runUsingConfig(argsConfig):
-    """
-    This function is called when a user provides a configuration file to specify an evaluation job.
-
-    Input::
-        argsConfig - Path to a ConfigParser compliant file
-
-    Output::
-        Plots that visualize the evaluation job. These will be output to SETTINGS.workDir from the config file
-    """
-    
-    print 'Running using config file: %s' % argsConfig
-    # Parse the Config file
-    userConfig = ConfigParser.SafeConfigParser()
-    userConfig.optionxform = str # This is so the case is preserved on the items in the config file
-    userConfig.read(argsConfig)
-
-    try:
-        checkConfigSettings(userConfig)
-    except:
-        raise
-
-    jobProperties = generateSettings(userConfig.items('SETTINGS'))
-    workdir = jobProperties.workDir
-    
-    try:
-        gridBox = GridBox(jobProperties.latMin, jobProperties.lonMin, jobProperties.latMax,
-                          jobProperties.lonMax, jobProperties.gridLonStep, jobProperties.gridLatStep)
-    except:
-        gridBox = None
-
-    models = generateModels(userConfig.items('MODEL'))
-    
-    datasetDict = makeDatasetsDictionary(userConfig.items('RCMED'))
-
-
-    # Go get the parameter listing from the database
-    try:
-        params = db.getParams()
-    except:
-        raise
-
-    obsDatasetList = []
-    for param_id in datasetDict['obsParamId']:
-        for param in params:
-            if param['parameter_id'] == int(param_id):
-                obsDatasetList.append(param)
-            else:
-                pass
-
-    #TODO: Unhardcode this when we decided where this belongs in the Config File
-    jobProperties.maskOption = True
-    # User must provide startTime and endTime if not defined
-    if jobProperties.startDate == None or jobProperties.endDate == None:
-        jobProperties.startDate, jobProperties.endDate = misc.userDefinedStartEndTimes(obsDatasetList, models)
-
-    numOBS, numMDL, nT, ngrdY, ngrdX, Times, lons, lats, obsData, mdlData, obsList, mdlName = do_data_prep.prep_data(jobProperties, obsDatasetList, gridBox, models)
-
-    print 'Input and regridding of both obs and model data are completed. now move to metrics calculations'
-    
-    try:
-        subRegionConfig = misc.configToDict(userConfig.items('SUB_REGION'))
-        subRegions = misc.parseSubRegions(subRegionConfig)
-        # REORDER SUBREGION OBJECTS until we standardize on Python 2.7
-        # TODO Remove once Python 2.7 support is finalized
-        if subRegions:
-            subRegions.sort(key=lambda x:x.name)
-        
-    except ConfigParser.NoSectionError:
-        
-        counts = {'observations': numOBS,
-                  'models'      : numMDL,
-                  'times'       : nT}
-        subRegions = misc.getSubRegionsInteractively(counts, workdir)
-        
-        if len(subRegions) == 0:
-            print 'Processing without SubRegion support'
-        
-
-    # TODO: New function Call
-    fileOutputOption = jobProperties.writeOutFile
-    modelVarName = models[0].varName
-    metrics.metrics_plots(modelVarName, numOBS, numMDL, nT, ngrdY, ngrdX, Times, lons, lats, obsData, mdlData, obsList, mdlName, workdir, subRegions, fileOutputOption)
-
-
-if __name__ == "__main__":
-    
-    if args.CONFIG:
-        
-        runUsingConfig(args.CONFIG)
-
-    else:
-        print 'Interactive mode has been enabled'
-        ui.rcmetUI()
-
-    #rcmet_cordexAF()

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/docs/Bottle Web Service Documentation.docx
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/docs/Bottle Web Service Documentation.docx b/rcmet/src/main/python/docs/Bottle Web Service Documentation.docx
deleted file mode 100644
index a6fdd6f..0000000
Binary files a/rcmet/src/main/python/docs/Bottle Web Service Documentation.docx and /dev/null differ

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/docs/Makefile
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/docs/Makefile b/rcmet/src/main/python/docs/Makefile
deleted file mode 100644
index 9cf4b97..0000000
--- a/rcmet/src/main/python/docs/Makefile
+++ /dev/null
@@ -1,153 +0,0 @@
-# Makefile for Sphinx documentation
-#
-
-# You can set these variables from the command line.
-SPHINXOPTS    =
-SPHINXBUILD   = sphinx-build
-PAPER         =
-BUILDDIR      = _build
-
-# Internal variables.
-PAPEROPT_a4     = -D latex_paper_size=a4
-PAPEROPT_letter = -D latex_paper_size=letter
-ALLSPHINXOPTS   = -d $(BUILDDIR)/doctrees $(PAPEROPT_$(PAPER)) $(SPHINXOPTS) .
-# the i18n builder cannot share the environment and doctrees with the others
-I18NSPHINXOPTS  = $(PAPEROPT_$(PAPER)) $(SPHINXOPTS) .
-
-.PHONY: help clean html dirhtml singlehtml pickle json htmlhelp qthelp devhelp epub latex latexpdf text man changes linkcheck doctest gettext
-
-help:
-	@echo "Please use \`make <target>' where <target> is one of"
-	@echo "  html       to make standalone HTML files"
-	@echo "  dirhtml    to make HTML files named index.html in directories"
-	@echo "  singlehtml to make a single large HTML file"
-	@echo "  pickle     to make pickle files"
-	@echo "  json       to make JSON files"
-	@echo "  htmlhelp   to make HTML files and a HTML help project"
-	@echo "  qthelp     to make HTML files and a qthelp project"
-	@echo "  devhelp    to make HTML files and a Devhelp project"
-	@echo "  epub       to make an epub"
-	@echo "  latex      to make LaTeX files, you can set PAPER=a4 or PAPER=letter"
-	@echo "  latexpdf   to make LaTeX files and run them through pdflatex"
-	@echo "  text       to make text files"
-	@echo "  man        to make manual pages"
-	@echo "  texinfo    to make Texinfo files"
-	@echo "  info       to make Texinfo files and run them through makeinfo"
-	@echo "  gettext    to make PO message catalogs"
-	@echo "  changes    to make an overview of all changed/added/deprecated items"
-	@echo "  linkcheck  to check all external links for integrity"
-	@echo "  doctest    to run all doctests embedded in the documentation (if enabled)"
-
-clean:
-	-rm -rf $(BUILDDIR)/*
-
-html:
-	$(SPHINXBUILD) -b html $(ALLSPHINXOPTS) $(BUILDDIR)/html
-	@echo
-	@echo "Build finished. The HTML pages are in $(BUILDDIR)/html."
-
-dirhtml:
-	$(SPHINXBUILD) -b dirhtml $(ALLSPHINXOPTS) $(BUILDDIR)/dirhtml
-	@echo
-	@echo "Build finished. The HTML pages are in $(BUILDDIR)/dirhtml."
-
-singlehtml:
-	$(SPHINXBUILD) -b singlehtml $(ALLSPHINXOPTS) $(BUILDDIR)/singlehtml
-	@echo
-	@echo "Build finished. The HTML page is in $(BUILDDIR)/singlehtml."
-
-pickle:
-	$(SPHINXBUILD) -b pickle $(ALLSPHINXOPTS) $(BUILDDIR)/pickle
-	@echo
-	@echo "Build finished; now you can process the pickle files."
-
-json:
-	$(SPHINXBUILD) -b json $(ALLSPHINXOPTS) $(BUILDDIR)/json
-	@echo
-	@echo "Build finished; now you can process the JSON files."
-
-htmlhelp:
-	$(SPHINXBUILD) -b htmlhelp $(ALLSPHINXOPTS) $(BUILDDIR)/htmlhelp
-	@echo
-	@echo "Build finished; now you can run HTML Help Workshop with the" \
-	      ".hhp project file in $(BUILDDIR)/htmlhelp."
-
-qthelp:
-	$(SPHINXBUILD) -b qthelp $(ALLSPHINXOPTS) $(BUILDDIR)/qthelp
-	@echo
-	@echo "Build finished; now you can run "qcollectiongenerator" with the" \
-	      ".qhcp project file in $(BUILDDIR)/qthelp, like this:"
-	@echo "# qcollectiongenerator $(BUILDDIR)/qthelp/rcmes.qhcp"
-	@echo "To view the help file:"
-	@echo "# assistant -collectionFile $(BUILDDIR)/qthelp/rcmes.qhc"
-
-devhelp:
-	$(SPHINXBUILD) -b devhelp $(ALLSPHINXOPTS) $(BUILDDIR)/devhelp
-	@echo
-	@echo "Build finished."
-	@echo "To view the help file:"
-	@echo "# mkdir -p $$HOME/.local/share/devhelp/rcmes"
-	@echo "# ln -s $(BUILDDIR)/devhelp $$HOME/.local/share/devhelp/rcmes"
-	@echo "# devhelp"
-
-epub:
-	$(SPHINXBUILD) -b epub $(ALLSPHINXOPTS) $(BUILDDIR)/epub
-	@echo
-	@echo "Build finished. The epub file is in $(BUILDDIR)/epub."
-
-latex:
-	$(SPHINXBUILD) -b latex $(ALLSPHINXOPTS) $(BUILDDIR)/latex
-	@echo
-	@echo "Build finished; the LaTeX files are in $(BUILDDIR)/latex."
-	@echo "Run \`make' in that directory to run these through (pdf)latex" \
-	      "(use \`make latexpdf' here to do that automatically)."
-
-latexpdf:
-	$(SPHINXBUILD) -b latex $(ALLSPHINXOPTS) $(BUILDDIR)/latex
-	@echo "Running LaTeX files through pdflatex..."
-	$(MAKE) -C $(BUILDDIR)/latex all-pdf
-	@echo "pdflatex finished; the PDF files are in $(BUILDDIR)/latex."
-
-text:
-	$(SPHINXBUILD) -b text $(ALLSPHINXOPTS) $(BUILDDIR)/text
-	@echo
-	@echo "Build finished. The text files are in $(BUILDDIR)/text."
-
-man:
-	$(SPHINXBUILD) -b man $(ALLSPHINXOPTS) $(BUILDDIR)/man
-	@echo
-	@echo "Build finished. The manual pages are in $(BUILDDIR)/man."
-
-texinfo:
-	$(SPHINXBUILD) -b texinfo $(ALLSPHINXOPTS) $(BUILDDIR)/texinfo
-	@echo
-	@echo "Build finished. The Texinfo files are in $(BUILDDIR)/texinfo."
-	@echo "Run \`make' in that directory to run these through makeinfo" \
-	      "(use \`make info' here to do that automatically)."
-
-info:
-	$(SPHINXBUILD) -b texinfo $(ALLSPHINXOPTS) $(BUILDDIR)/texinfo
-	@echo "Running Texinfo files through makeinfo..."
-	make -C $(BUILDDIR)/texinfo info
-	@echo "makeinfo finished; the Info files are in $(BUILDDIR)/texinfo."
-
-gettext:
-	$(SPHINXBUILD) -b gettext $(I18NSPHINXOPTS) $(BUILDDIR)/locale
-	@echo
-	@echo "Build finished. The message catalogs are in $(BUILDDIR)/locale."
-
-changes:
-	$(SPHINXBUILD) -b changes $(ALLSPHINXOPTS) $(BUILDDIR)/changes
-	@echo
-	@echo "The overview file is in $(BUILDDIR)/changes."
-
-linkcheck:
-	$(SPHINXBUILD) -b linkcheck $(ALLSPHINXOPTS) $(BUILDDIR)/linkcheck
-	@echo
-	@echo "Link check complete; look for any errors in the above output " \
-	      "or in $(BUILDDIR)/linkcheck/output.txt."
-
-doctest:
-	$(SPHINXBUILD) -b doctest $(ALLSPHINXOPTS) $(BUILDDIR)/doctest
-	@echo "Testing of doctests in the sources finished, look at the " \
-	      "results in $(BUILDDIR)/doctest/output.txt."

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/docs/RCMET_documentation.docx
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/docs/RCMET_documentation.docx b/rcmet/src/main/python/docs/RCMET_documentation.docx
deleted file mode 100644
index 36cfd37..0000000
Binary files a/rcmet/src/main/python/docs/RCMET_documentation.docx and /dev/null differ

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/docs/conf.py
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/docs/conf.py b/rcmet/src/main/python/docs/conf.py
deleted file mode 100644
index 1be395f..0000000
--- a/rcmet/src/main/python/docs/conf.py
+++ /dev/null
@@ -1,260 +0,0 @@
-#
-# Licensed to the Apache Software Foundation (ASF) under one
-# or more contributor license agreements.  See the NOTICE file
-# distributed with this work for additional information
-# regarding copyright ownership.  The ASF licenses this file
-# to you under the Apache License, Version 2.0 (the
-# "License"); you may not use this file except in compliance
-# with the License.  You may obtain a copy of the License at
-#
-#    http://www.apache.org/licenses/LICENSE-2.0
-#
-# Unless required by applicable law or agreed to in writing,
-# software distributed under the License is distributed on an
-# "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
-# KIND, either express or implied.  See the License for the
-# specific language governing permissions and limitations
-# under the License.
-#
-# -*- coding: utf-8 -*-
-#
-# rcmes documentation build configuration file, created by
-# sphinx-quickstart on Tue Aug 14 14:18:41 2012.
-#
-# This file is execfile()d with the current directory set to its containing dir.
-#
-# Note that not all possible configuration values are present in this
-# autogenerated file.
-#
-# All configuration values have a default; values that are commented out
-# serve to show the default.
-
-import sys, os
-
-# If extensions (or modules to document with autodoc) are in another directory,
-# add these directories to sys.path here. If the directory is relative to the
-# documentation root, use os.path.abspath to make it absolute, like shown here.
-sys.path.insert(0, os.path.abspath('../'))
-
-# -- General configuration -----------------------------------------------------
-
-# If your documentation needs a minimal Sphinx version, state it here.
-#needs_sphinx = '1.0'
-
-# Add any Sphinx extension module names here, as strings. They can be extensions
-# coming with Sphinx (named 'sphinx.ext.*') or your custom ones.
-extensions = ['sphinx.ext.autodoc', 'sphinx.ext.todo', 'sphinx.ext.coverage']
-
-# Add any paths that contain templates here, relative to this directory.
-templates_path = ['_templates']
-
-# The suffix of source filenames.
-source_suffix = '.rst'
-
-# The encoding of source files.
-#source_encoding = 'utf-8-sig'
-
-# The master toctree document.
-master_doc = 'index'
-
-# General information about the project.
-project = u'rcmes'
-copyright = u'2012, Duane Waliser, Chris Mattmann, Jinwon Kim, Andrew Hart, Cameron Goodale, Paul Ramirez, Paul Zimdars, Kim Whitehall, Jesslyn Whittell, Peter Lean'
-
-# The version info for the project you're documenting, acts as replacement for
-# |version| and |release|, also used in various other places throughout the
-# built documents.
-#
-# The short X.Y version.
-version = '1.2'
-# The full version, including alpha/beta/rc tags.
-release = '1.2.0'
-
-# The language for content autogenerated by Sphinx. Refer to documentation
-# for a list of supported languages.
-#language = None
-
-# There are two options for replacing |today|: either, you set today to some
-# non-false value, then it is used:
-#today = ''
-# Else, today_fmt is used as the format for a strftime call.
-#today_fmt = '%B %d, %Y'
-
-# List of patterns, relative to source directory, that match files and
-# directories to ignore when looking for source files.
-exclude_patterns = ['_build']
-
-# The reST default role (used for this markup: `text`) to use for all documents.
-#default_role = None
-
-# If true, '()' will be appended to :func: etc. cross-reference text.
-#add_function_parentheses = True
-
-# If true, the current module name will be prepended to all description
-# unit titles (such as .. function::).
-#add_module_names = True
-
-# If true, sectionauthor and moduleauthor directives will be shown in the
-# output. They are ignored by default.
-#show_authors = False
-
-# The name of the Pygments (syntax highlighting) style to use.
-pygments_style = 'sphinx'
-
-# A list of ignored prefixes for module index sorting.
-#modindex_common_prefix = []
-
-
-# -- Options for HTML output ---------------------------------------------------
-
-# The theme to use for HTML and HTML Help pages.  See the documentation for
-# a list of builtin themes.
-html_theme = 'default'
-
-# Theme options are theme-specific and customize the look and feel of a theme
-# further.  For a list of options available for each theme, see the
-# documentation.
-#html_theme_options = {}
-
-# Add any paths that contain custom themes here, relative to this directory.
-#html_theme_path = []
-
-# The name for this set of Sphinx documents.  If None, it defaults to
-# "<project> v<release> documentation".
-#html_title = None
-
-# A shorter title for the navigation bar.  Default is the same as html_title.
-#html_short_title = None
-
-# The name of an image file (relative to this directory) to place at the top
-# of the sidebar.
-#html_logo = None
-
-# The name of an image file (within the static path) to use as favicon of the
-# docs.  This file should be a Windows icon file (.ico) being 16x16 or 32x32
-# pixels large.
-#html_favicon = None
-
-# Add any paths that contain custom static files (such as style sheets) here,
-# relative to this directory. They are copied after the builtin static files,
-# so a file named "default.css" will overwrite the builtin "default.css".
-html_static_path = ['_static']
-
-# If not '', a 'Last updated on:' timestamp is inserted at every page bottom,
-# using the given strftime format.
-#html_last_updated_fmt = '%b %d, %Y'
-
-# If true, SmartyPants will be used to convert quotes and dashes to
-# typographically correct entities.
-#html_use_smartypants = True
-
-# Custom sidebar templates, maps document names to template names.
-#html_sidebars = {}
-
-# Additional templates that should be rendered to pages, maps page names to
-# template names.
-#html_additional_pages = {}
-
-# If false, no module index is generated.
-#html_domain_indices = True
-
-# If false, no index is generated.
-#html_use_index = True
-
-# If true, the index is split into individual pages for each letter.
-#html_split_index = False
-
-# If true, links to the reST sources are added to the pages.
-#html_show_sourcelink = True
-
-# If true, "Created using Sphinx" is shown in the HTML footer. Default is True.
-#html_show_sphinx = True
-
-# If true, "(C) Copyright ..." is shown in the HTML footer. Default is True.
-#html_show_copyright = True
-
-# If true, an OpenSearch description file will be output, and all pages will
-# contain a <link> tag referring to it.  The value of this option must be the
-# base URL from which the finished HTML is served.
-#html_use_opensearch = ''
-
-# This is the file name suffix for HTML files (e.g. ".xhtml").
-#html_file_suffix = None
-
-# Output file base name for HTML help builder.
-htmlhelp_basename = 'rcmesdoc'
-
-
-# -- Options for LaTeX output --------------------------------------------------
-
-latex_elements = {
-# The paper size ('letterpaper' or 'a4paper').
-#'papersize': 'letterpaper',
-
-# The font size ('10pt', '11pt' or '12pt').
-#'pointsize': '10pt',
-
-# Additional stuff for the LaTeX preamble.
-#'preamble': '',
-}
-
-# Grouping the document tree into LaTeX files. List of tuples
-# (source start file, target name, title, author, documentclass [howto/manual]).
-latex_documents = [
-  ('index', 'rcmes.tex', u'rcmes Documentation',
-   u'Duane Waliser, Chris Mattmann, Jinwon Kim, Andrew Hart, Cameron Goodale, Paul Ramirez, Paul Zimdars, Kim Whitehall, Jesslyn Whittell, Peter Lean', 'manual'),
-]
-
-# The name of an image file (relative to this directory) to place at the top of
-# the title page.
-#latex_logo = None
-
-# For "manual" documents, if this is true, then toplevel headings are parts,
-# not chapters.
-#latex_use_parts = False
-
-# If true, show page references after internal links.
-#latex_show_pagerefs = False
-
-# If true, show URL addresses after external links.
-#latex_show_urls = False
-
-# Documents to append as an appendix to all manuals.
-#latex_appendices = []
-
-# If false, no module index is generated.
-#latex_domain_indices = True
-
-
-# -- Options for manual page output --------------------------------------------
-
-# One entry per manual page. List of tuples
-# (source start file, name, description, authors, manual section).
-man_pages = [
-    ('index', 'rcmes', u'rcmes Documentation',
-     [u'Duane Waliser, Chris Mattmann, Jinwon Kim, Andrew Hart, Cameron Goodale, Paul Ramirez, Paul Zimdars, Kim Whitehall, Jesslyn Whittell, Peter Lean'], 1)
-]
-
-# If true, show URL addresses after external links.
-#man_show_urls = False
-
-
-# -- Options for Texinfo output ------------------------------------------------
-
-# Grouping the document tree into Texinfo files. List of tuples
-# (source start file, target name, title, author,
-#  dir menu entry, description, category)
-texinfo_documents = [
-  ('index', 'rcmes', u'rcmes Documentation',
-   u'Duane Waliser, Chris Mattmann, Jinwon Kim, Andrew Hart, Cameron Goodale, Paul Ramirez, Paul Zimdars, Kim Whitehall, Jesslyn Whittell, Peter Lean', 'rcmes', 'One line description of project.',
-   'Miscellaneous'),
-]
-
-# Documents to append as an appendix to all manuals.
-#texinfo_appendices = []
-
-# If false, no module index is generated.
-#texinfo_domain_indices = True
-
-# How to display URL addresses: 'footnote', 'no', or 'inline'.
-#texinfo_show_urls = 'footnote'

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/docs/index.rst
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/docs/index.rst b/rcmet/src/main/python/docs/index.rst
deleted file mode 100644
index bf4c50f..0000000
--- a/rcmet/src/main/python/docs/index.rst
+++ /dev/null
@@ -1,22 +0,0 @@
-.. rcmes documentation master file, created by
-   sphinx-quickstart on Tue Aug 14 14:18:41 2012.
-   You can adapt this file completely to your liking, but it should at least
-   contain the root `toctree` directive.
-
-Welcome to rcmes's documentation!
-=================================
-
-Contents:
-
-.. toctree::
-   :maxdepth: 2
-
-
-
-Indices and tables
-==================
-
-* :ref:`genindex`
-* :ref:`modindex`
-* :ref:`search`
-

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/docs/make.bat
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/docs/make.bat b/rcmet/src/main/python/docs/make.bat
deleted file mode 100644
index 2225cc2..0000000
--- a/rcmet/src/main/python/docs/make.bat
+++ /dev/null
@@ -1,190 +0,0 @@
-@ECHO OFF
-
-REM Command file for Sphinx documentation
-
-if "%SPHINXBUILD%" == "" (
-	set SPHINXBUILD=sphinx-build
-)
-set BUILDDIR=_build
-set ALLSPHINXOPTS=-d %BUILDDIR%/doctrees %SPHINXOPTS% .
-set I18NSPHINXOPTS=%SPHINXOPTS% .
-if NOT "%PAPER%" == "" (
-	set ALLSPHINXOPTS=-D latex_paper_size=%PAPER% %ALLSPHINXOPTS%
-	set I18NSPHINXOPTS=-D latex_paper_size=%PAPER% %I18NSPHINXOPTS%
-)
-
-if "%1" == "" goto help
-
-if "%1" == "help" (
-	:help
-	echo.Please use `make ^<target^>` where ^<target^> is one of
-	echo.  html       to make standalone HTML files
-	echo.  dirhtml    to make HTML files named index.html in directories
-	echo.  singlehtml to make a single large HTML file
-	echo.  pickle     to make pickle files
-	echo.  json       to make JSON files
-	echo.  htmlhelp   to make HTML files and a HTML help project
-	echo.  qthelp     to make HTML files and a qthelp project
-	echo.  devhelp    to make HTML files and a Devhelp project
-	echo.  epub       to make an epub
-	echo.  latex      to make LaTeX files, you can set PAPER=a4 or PAPER=letter
-	echo.  text       to make text files
-	echo.  man        to make manual pages
-	echo.  texinfo    to make Texinfo files
-	echo.  gettext    to make PO message catalogs
-	echo.  changes    to make an overview over all changed/added/deprecated items
-	echo.  linkcheck  to check all external links for integrity
-	echo.  doctest    to run all doctests embedded in the documentation if enabled
-	goto end
-)
-
-if "%1" == "clean" (
-	for /d %%i in (%BUILDDIR%\*) do rmdir /q /s %%i
-	del /q /s %BUILDDIR%\*
-	goto end
-)
-
-if "%1" == "html" (
-	%SPHINXBUILD% -b html %ALLSPHINXOPTS% %BUILDDIR%/html
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Build finished. The HTML pages are in %BUILDDIR%/html.
-	goto end
-)
-
-if "%1" == "dirhtml" (
-	%SPHINXBUILD% -b dirhtml %ALLSPHINXOPTS% %BUILDDIR%/dirhtml
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Build finished. The HTML pages are in %BUILDDIR%/dirhtml.
-	goto end
-)
-
-if "%1" == "singlehtml" (
-	%SPHINXBUILD% -b singlehtml %ALLSPHINXOPTS% %BUILDDIR%/singlehtml
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Build finished. The HTML pages are in %BUILDDIR%/singlehtml.
-	goto end
-)
-
-if "%1" == "pickle" (
-	%SPHINXBUILD% -b pickle %ALLSPHINXOPTS% %BUILDDIR%/pickle
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Build finished; now you can process the pickle files.
-	goto end
-)
-
-if "%1" == "json" (
-	%SPHINXBUILD% -b json %ALLSPHINXOPTS% %BUILDDIR%/json
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Build finished; now you can process the JSON files.
-	goto end
-)
-
-if "%1" == "htmlhelp" (
-	%SPHINXBUILD% -b htmlhelp %ALLSPHINXOPTS% %BUILDDIR%/htmlhelp
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Build finished; now you can run HTML Help Workshop with the ^
-.hhp project file in %BUILDDIR%/htmlhelp.
-	goto end
-)
-
-if "%1" == "qthelp" (
-	%SPHINXBUILD% -b qthelp %ALLSPHINXOPTS% %BUILDDIR%/qthelp
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Build finished; now you can run "qcollectiongenerator" with the ^
-.qhcp project file in %BUILDDIR%/qthelp, like this:
-	echo.^> qcollectiongenerator %BUILDDIR%\qthelp\rcmes.qhcp
-	echo.To view the help file:
-	echo.^> assistant -collectionFile %BUILDDIR%\qthelp\rcmes.ghc
-	goto end
-)
-
-if "%1" == "devhelp" (
-	%SPHINXBUILD% -b devhelp %ALLSPHINXOPTS% %BUILDDIR%/devhelp
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Build finished.
-	goto end
-)
-
-if "%1" == "epub" (
-	%SPHINXBUILD% -b epub %ALLSPHINXOPTS% %BUILDDIR%/epub
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Build finished. The epub file is in %BUILDDIR%/epub.
-	goto end
-)
-
-if "%1" == "latex" (
-	%SPHINXBUILD% -b latex %ALLSPHINXOPTS% %BUILDDIR%/latex
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Build finished; the LaTeX files are in %BUILDDIR%/latex.
-	goto end
-)
-
-if "%1" == "text" (
-	%SPHINXBUILD% -b text %ALLSPHINXOPTS% %BUILDDIR%/text
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Build finished. The text files are in %BUILDDIR%/text.
-	goto end
-)
-
-if "%1" == "man" (
-	%SPHINXBUILD% -b man %ALLSPHINXOPTS% %BUILDDIR%/man
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Build finished. The manual pages are in %BUILDDIR%/man.
-	goto end
-)
-
-if "%1" == "texinfo" (
-	%SPHINXBUILD% -b texinfo %ALLSPHINXOPTS% %BUILDDIR%/texinfo
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Build finished. The Texinfo files are in %BUILDDIR%/texinfo.
-	goto end
-)
-
-if "%1" == "gettext" (
-	%SPHINXBUILD% -b gettext %I18NSPHINXOPTS% %BUILDDIR%/locale
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Build finished. The message catalogs are in %BUILDDIR%/locale.
-	goto end
-)
-
-if "%1" == "changes" (
-	%SPHINXBUILD% -b changes %ALLSPHINXOPTS% %BUILDDIR%/changes
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.The overview file is in %BUILDDIR%/changes.
-	goto end
-)
-
-if "%1" == "linkcheck" (
-	%SPHINXBUILD% -b linkcheck %ALLSPHINXOPTS% %BUILDDIR%/linkcheck
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Link check complete; look for any errors in the above output ^
-or in %BUILDDIR%/linkcheck/output.txt.
-	goto end
-)
-
-if "%1" == "doctest" (
-	%SPHINXBUILD% -b doctest %ALLSPHINXOPTS% %BUILDDIR%/doctest
-	if errorlevel 1 exit /b 1
-	echo.
-	echo.Testing of doctests in the sources finished, look at the ^
-results in %BUILDDIR%/doctest/output.txt.
-	goto end
-)
-
-:end

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/docs/rcmes.cli.rst
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/docs/rcmes.cli.rst b/rcmet/src/main/python/docs/rcmes.cli.rst
deleted file mode 100644
index c337ec5..0000000
--- a/rcmet/src/main/python/docs/rcmes.cli.rst
+++ /dev/null
@@ -1,19 +0,0 @@
-cli Package
-===========
-
-:mod:`do_rcmes_processing_sub` Module
--------------------------------------
-
-.. automodule:: rcmes.cli.do_rcmes_processing_sub
-    :members:
-    :undoc-members:
-    :show-inheritance:
-
-:mod:`rcmet_ui` Module
-----------------------
-
-.. automodule:: rcmes.cli.rcmet_ui
-    :members:
-    :undoc-members:
-    :show-inheritance:
-

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/docs/rcmes.rst
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/docs/rcmes.rst b/rcmet/src/main/python/docs/rcmes.rst
deleted file mode 100644
index 29e4be5..0000000
--- a/rcmet/src/main/python/docs/rcmes.rst
+++ /dev/null
@@ -1,22 +0,0 @@
-rcmes Package
-=============
-
-:mod:`rcmes` Package
---------------------
-
-.. automodule:: rcmes.__init__
-    :members:
-    :undoc-members:
-    :show-inheritance:
-
-Subpackages
------------
-
-.. toctree::
-
-    rcmes.cli
-    rcmes.services
-    rcmes.storage
-    rcmes.toolkit
-    rcmes.utils
-

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/docs/rcmes.services.rst
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/docs/rcmes.services.rst b/rcmet/src/main/python/docs/rcmes.services.rst
deleted file mode 100644
index d01b950..0000000
--- a/rcmet/src/main/python/docs/rcmes.services.rst
+++ /dev/null
@@ -1,51 +0,0 @@
-services Package
-================
-
-:mod:`decode_model_times` Module
---------------------------------
-
-.. automodule:: rcmes.services.decode_model_times
-    :members:
-    :undoc-members:
-    :show-inheritance:
-
-:mod:`find_latlon_var` Module
------------------------------
-
-.. automodule:: rcmes.services.find_latlon_var
-    :members:
-    :undoc-members:
-    :show-inheritance:
-
-:mod:`find_time_var` Module
----------------------------
-
-.. automodule:: rcmes.services.find_time_var
-    :members:
-    :undoc-members:
-    :show-inheritance:
-
-:mod:`list_vars_in_file` Module
--------------------------------
-
-.. automodule:: rcmes.services.list_vars_in_file
-    :members:
-    :undoc-members:
-    :show-inheritance:
-
-:mod:`main_ws` Module
----------------------
-
-.. automodule:: rcmes.services.main_ws
-    :members:
-    :undoc-members:
-    :show-inheritance:
-
-:mod:`run_rcmes_processing` Module
-----------------------------------
-
-.. automodule:: rcmes.services.run_rcmes_processing
-    :members:
-    :undoc-members:
-    :show-inheritance:
-

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/docs/rcmes.storage.rst
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/docs/rcmes.storage.rst b/rcmet/src/main/python/docs/rcmes.storage.rst
deleted file mode 100644
index f5b45c5..0000000
--- a/rcmet/src/main/python/docs/rcmes.storage.rst
+++ /dev/null
@@ -1,27 +0,0 @@
-storage Package
-===============
-
-:mod:`db` Module
-----------------
-
-.. automodule:: rcmes.storage.db
-    :members:
-    :undoc-members:
-    :show-inheritance:
-
-:mod:`files` Module
--------------------
-
-.. automodule:: rcmes.storage.files
-    :members:
-    :undoc-members:
-    :show-inheritance:
-
-:mod:`rcmed` Module
--------------------
-
-.. automodule:: rcmes.storage.rcmed
-    :members:
-    :undoc-members:
-    :show-inheritance:
-

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/docs/rcmes.toolkit.rst
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/docs/rcmes.toolkit.rst b/rcmet/src/main/python/docs/rcmes.toolkit.rst
deleted file mode 100644
index 25fec30..0000000
--- a/rcmet/src/main/python/docs/rcmes.toolkit.rst
+++ /dev/null
@@ -1,27 +0,0 @@
-toolkit Package
-===============
-
-:mod:`metrics` Module
----------------------
-
-.. automodule:: rcmes.toolkit.metrics
-    :members:
-    :undoc-members:
-    :show-inheritance:
-
-:mod:`plots` Module
--------------------
-
-.. automodule:: rcmes.toolkit.plots
-    :members:
-    :undoc-members:
-    :show-inheritance:
-
-:mod:`process` Module
----------------------
-
-.. automodule:: rcmes.toolkit.process
-    :members:
-    :undoc-members:
-    :show-inheritance:
-

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/docs/rcmes.utils.rst
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/docs/rcmes.utils.rst b/rcmet/src/main/python/docs/rcmes.utils.rst
deleted file mode 100644
index 696005c..0000000
--- a/rcmet/src/main/python/docs/rcmes.utils.rst
+++ /dev/null
@@ -1,19 +0,0 @@
-utils Package
-=============
-
-:mod:`fortranfile` Module
--------------------------
-
-.. automodule:: rcmes.utils.fortranfile
-    :members:
-    :undoc-members:
-    :show-inheritance:
-
-:mod:`misc` Module
-------------------
-
-.. automodule:: rcmes.utils.misc
-    :members:
-    :undoc-members:
-    :show-inheritance:
-

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/rcmes/README
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/rcmes/README b/rcmet/src/main/python/rcmes/README
deleted file mode 100644
index caee8d3..0000000
--- a/rcmet/src/main/python/rcmes/README
+++ /dev/null
@@ -1,8 +0,0 @@
-Regional Climate Model Evaluation System
-
-Installation instructions:
-   1) For python to discover this package you need to set the PYTHONPATH environment variable to point to this directory that the rcmes directory sits in.
-
-Usage instructions:
-   1) import rcmes
-

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/rcmes/__init__.py
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/rcmes/__init__.py b/rcmet/src/main/python/rcmes/__init__.py
deleted file mode 100644
index c523395..0000000
--- a/rcmet/src/main/python/rcmes/__init__.py
+++ /dev/null
@@ -1,19 +0,0 @@
-#
-# Licensed to the Apache Software Foundation (ASF) under one
-# or more contributor license agreements.  See the NOTICE file
-# distributed with this work for additional information
-# regarding copyright ownership.  The ASF licenses this file
-# to you under the Apache License, Version 2.0 (the
-# "License"); you may not use this file except in compliance
-# with the License.  You may obtain a copy of the License at
-#
-#    http://www.apache.org/licenses/LICENSE-2.0
-#
-# Unless required by applicable law or agreed to in writing,
-# software distributed under the License is distributed on an
-# "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
-# KIND, either express or implied.  See the License for the
-# specific language governing permissions and limitations
-# under the License.
-#
-""" Regional Climate Model Evaluation System"""
\ No newline at end of file

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/rcmes/classes.py
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/rcmes/classes.py b/rcmet/src/main/python/rcmes/classes.py
deleted file mode 100644
index 531da94..0000000
--- a/rcmet/src/main/python/rcmes/classes.py
+++ /dev/null
@@ -1,229 +0,0 @@
-#
-# Licensed to the Apache Software Foundation (ASF) under one
-# or more contributor license agreements.  See the NOTICE file
-# distributed with this work for additional information
-# regarding copyright ownership.  The ASF licenses this file
-# to you under the Apache License, Version 2.0 (the
-# "License"); you may not use this file except in compliance
-# with the License.  You may obtain a copy of the License at
-#
-#    http://www.apache.org/licenses/LICENSE-2.0
-#
-# Unless required by applicable law or agreed to in writing,
-# software distributed under the License is distributed on an
-# "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
-# KIND, either express or implied.  See the License for the
-# specific language governing permissions and limitations
-# under the License.
-#
-import calendar
-import os
-from datetime import datetime as datetime
-import urllib
-
-import storage.files as files
-import toolkit.process as process
-import utils.misc
-
-class BoundingBox(object):
-    
-    def __init__(self, latMin, lonMin, latMax, lonMax):
-        self.latMin = latMin
-        self.lonMin = lonMin
-        self.latMax = latMax
-        self.lonMax = lonMax
-        
-        
-class SubRegion(BoundingBox):
-    
-    def __init__(self, name, latMin, lonMin, latMax, lonMax):
-        BoundingBox.__init__(self, latMin, lonMin, latMax, lonMax)
-        self.name = name
-        
-class GridBox(BoundingBox):
-    
-    def __init__(self, latMin, lonMin, latMax, lonMax, lonStep, latStep):
-        BoundingBox.__init__(self, latMin, lonMin, latMax, lonMax)
-        self.lonStep = lonStep
-        self.latStep = latStep
-        self.lonCount = int((self.lonMax - self.lonMin) / self.lonStep) + 1
-        self.latCount = int((self.latMax - self.latMin) / self.latStep) + 1
-
-class JobProperties(object):
-    
-    def __init__(self, workDir, cacheDir, spatialGrid, temporalGrid, gridLonStep=None, gridLatStep=None, outputFile='false', 
-                 latMin=None, latMax=None, lonMin=None, lonMax=None, startDate=None, endDate=None):
-        self.workDir = os.path.abspath(workDir)
-        self.cacheDir = os.path.abspath(cacheDir)
-        self.spatialGrid = spatialGrid
-        self.temporalGrid = temporalGrid
-        
-        if gridLonStep and gridLatStep:
-            self.gridLonStep = float(gridLonStep)
-            self.gridLatStep = float(gridLatStep)
-        else:
-            self.gridLonStep = None
-            self.gridLatStep = None
-        
-        # Support for both User provided Dates, and Interactive Date Collection
-        if startDate and endDate:
-            self.startDate = datetime.strptime(startDate, '%Y%m%d')
-            self.endDate = datetime.strptime(endDate, '%Y%m%d')
-        else:
-            self.startDate = None
-            self.endDate = None
-
-        if outputFile.lower() == 'false':
-            self.writeOutFile = 'no'
-        elif outputFile.lower() == 'netcdf':
-            self.writeOutFile = 'nc'
-        else:
-            self.writeOutFile = False
-
-        if self.spatialGrid.lower() == 'user':
-            self.latMin = float(latMin)
-            self.latMax = float(latMax)
-            self.lonMin = float(lonMin)
-            self.lonMax = float(lonMax)
-
-    def obsDatasetCount(self):
-        self.parameterList = self.obsParamId.split(',')
-        count = len(self.paramterList)
-        return count
-    
-class Model(object):
-    
-    def __init__(self, *args, **kwargs):
-        """
-        This Class can be instantiated with either a single filename or a dictionary of parameters.
-        If a single filename is used, then the class will use internal methods to parse the file 
-        and set the needed attributes.
-        
-        Input (single file)::
-            filename - Full path to a local model file
-        
-        Input (keyword dictionary)::
-            filename - Full path to a local model file
-            latVariable - the name of the latitude variable within the file
-            lonVariable - the name of the longitude variable within the file
-            timeVariable - the name of the time variable within the file
-            timeStep - description of the time between readings ['hourly','daily','monthly','annual']
-            varName - name of the variable to analyze within the model
-            precipFlag - boolean telling if this is precipitation data
-        
-        Output::
-            Model object
-        """
-        if len(args) == 1:
-            self.filename = args[0]
-            self.name = os.path.basename(self.filename)
-            self.processModelFile()
-            self.precipFlag = False
-        if len(kwargs) == 7:
-            self.filename = kwargs['filename']
-            self.name = os.path.basename(self.filename)
-            self.latVariable = kwargs['latVariable']
-            self.lonVariable = kwargs['lonVariable']
-            self.timeVariable = kwargs['timeVariable']
-            self.timeStep = kwargs['timeStep']
-            self.varName = kwargs['varName']
-            self.times, _ = process.getModelTimes(self.filename, self.timeVariable)
-            self.minTime = min(self.times)
-            self.maxTime = max(self.times)
-            self.setLatitudeRange()
-            self.setLongitudeRange()
-    
-            if kwargs['precipFlag'] == 'True':
-                self.precipFlag = True
-            else:
-                self.precipFlag = False
-        
-    
-    def setLatitudeRange(self):
-        self.latMin, self.latMax = files.getVariableRange(self.filename, self.latVariable)
-    
-    def setLongitudeRange(self):
-        self.lonMin, self.lonMax = files.getVariableRange(self.filename, self.lonVariable)
-    
-    def processModelFile(self):
-        """ This series of steps should be consolidated to merely pass around a PyNIO object
-            Until then we will be opening the same file repeatedly.  And clearly wasting I/O
-        """
-        self.latVariable, self.lonVariable, self.latMin, self.latMax, self.lonMin, self.lonMax = files.findLatLonVarFromFile(self.filename)
-        self.timeVariable, modelVariables = files.findTimeVariable(self.filename)
-        self.times, self.timeStep = process.getModelTimes(self.filename, self.timeVariable)
-        self.varName = utils.misc.askUserForVariableName(modelVariables, "analysis")
-        self.minTime = min(self.times)
-        self.maxTime = max(self.times)
-        
-class Parameter(object):
-    def __init__(self, param_id, shortName=None, description=None, endDate=None ):
-        pass
-
-class RCMED(object):
-    def __init__(self):
-        pass
-    
-    def retriveData(self, parameter, dataBounds, timeStep=None):
-        # Returns the data
-        pass
-    
-    @classmethod
-    def isoDateString(self, pythonDate):
-        isoDate = pythonDate.strftime("%Y%m%dT%H%MZ")
-        return isoDate
-    
-    @classmethod
-    def jplUrl(self, datasetID, paramID, latMin, latMax, lonMin, lonMax, startTime, endTime, cachedir, timestep):
-        """ This will create a valid RCMED Query URL used to contact the JPL RCMED Instance"""
-        JPL_RCMED_URL = 'http://rcmes.jpl.nasa.gov/query-api/query.php?'
-
-        """This block will expand the Time Range based on the timestep to ensure complete temporal range coverage"""
-        expanded = False
-        if timestep.lower() == 'monthly':
-            if startTime.day != 1:
-                # Clean the startTime
-                startTimeString = startTime.strftime('%Y%m%d')
-                normalInputDatetimeString = startTimeString[:6] + '01'
-                startTime = datetime.strptime(normalInputDatetimeString, '%Y%m%d')
-                expanded = True
-            
-            lastDayOfMonth = calendar.monthrange(endTime.year, endTime.month)[1]
-            if endTime.day != lastDayOfMonth:
-                # Clean the endTime
-                endTimeString = endTime.strftime('%Y%m%d')
-                endTimeString = endTimeString[:6] + str(lastDayOfMonth)
-                endTime = datetime.strptime(endTimeString, '%Y%m%d')
-                expanded = True
-    
-        elif timestep.lower() == 'daily':
-            if startTime.hour != 0 or startTime.minute != 0 or startTime.second != 0:
-                datetimeString = startTime.strftime('%Y%m%d%H%M%S')
-                normalDatetimeString = datetimeString[:8] + '000000'
-                startTime = datetime.strptime(normalDatetimeString, '%Y%m%d%H%M%S')
-                expanded = True
-            
-            endTimeString = endTime.strftime('%Y%m%d%H%M%S')
-            endTimeString = endTimeString[:8] + '235959'
-            endTime = datetime.strptime(endTimeString, '%Y%m%d%H%M%S')
-        
-        if expanded:
-            print "Your date range selection has been expanded to ensure we return the largest number of available readings."
-            print "The new date Range is:  %s  through  %s" % (startTime.strftime('%Y-%m-%d %H:%M:%S'), endTime.strftime('%Y-%m-%d %H:%M:%S'))
-        
-        
-        timeStart = self.isoDateString(startTime)
-        timeEnd = self.isoDateString(endTime)
-        query = [('datasetId',datasetID), ('parameterId',paramID), ('latMin',latMin), ('latMax',latMax),
-                 ('lonMin', lonMin), ('lonMax',lonMax), ('timeStart', timeStart), ('timeEnd', timeEnd)]
-        queryURL = urllib.urlencode(query)
-        urlRequest = JPL_RCMED_URL+queryURL
-        
-        return urlRequest
-
-class RCMEDDataset(object):
-    
-    def __init__(self, obsDatasetId, obsParamId, obsTimeStep):
-        self.datasetId = obsDatasetId
-        self.parameterId = obsParamId
-        self.timeStep = obsTimeStep
\ No newline at end of file

http://git-wip-us.apache.org/repos/asf/climate/blob/8c142c35/rcmet/src/main/python/rcmes/cli/__init__.py
----------------------------------------------------------------------
diff --git a/rcmet/src/main/python/rcmes/cli/__init__.py b/rcmet/src/main/python/rcmes/cli/__init__.py
deleted file mode 100644
index f83c3f4..0000000
--- a/rcmet/src/main/python/rcmes/cli/__init__.py
+++ /dev/null
@@ -1,27 +0,0 @@
-#
-#  Licensed to the Apache Software Foundation (ASF) under one or more
-#  contributor license agreements.  See the NOTICE file distributed with
-#  this work for additional information regarding copyright ownership.
-#  The ASF licenses this file to You under the Apache License, Version 2.0
-#  (the "License"); you may not use this file except in compliance with
-#  the License.  You may obtain a copy of the License at
-#
-#      http://www.apache.org/licenses/LICENSE-2.0
-#
-#  Unless required by applicable law or agreed to in writing, software
-#  distributed under the License is distributed on an "AS IS" BASIS,
-#  WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
-#  See the License for the specific language governing permissions and
-#  limitations under the License.
-#
-"""This is the Command Line Interface Package
-
-Here we have a collection of modules that can be used to interact with the RCMES
-from the command line.
-
-Example:
-------------
-
->>> ./rcmet_ui.py
-
-"""
\ No newline at end of file


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