diff essential_climate_variables.xml @ 0:5c0ab9932311 draft

planemo upload for repository https://github.com/NordicESMhub/galaxy-tools/tree/master/tools/essential_climate_variables commit 49926d09bb7d28f07b24050d25c40f2ae875d6f7

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/essential_climate_variables.xml	Fri May 03 15:11:01 2019 -0400
@@ -0,0 +1,167 @@
+<tool id="cds_essential_variability" name="Copernicus Essential Climate Variables" version="0.1.4">
+    <description>for assessing climate variability</description>
+    <requirements>
+        <requirement type="package" version="3">python</requirement>
+        <requirement type="package" version="0.1.4">cdsapi</requirement>
+        <requirement type="package" version="1.9.6">cdo</requirement>
+    </requirements>
+    <command detect_errors="exit_code"><![CDATA[
+       HOME=`pwd`  &&
+       python3 '$__tool_directory__/ecv_retrieve.py'
+            'ecv-for-climate-change' '$variable'
+            --year '$year'
+        #if str($time_aggregation.selector) == '1_month'
+            --month '$time_aggregation.month'
+        #else
+            --month '01'
+        #end if
+           --time_aggregation '$time_aggregation.selector'
+           --product_type '$product_type'
+           --format 'tgz' --output 'tmp.tgz'
+           --verbose                                       &&
+           tar zxvf tmp.tgz                                &&
+           cat *.grib > tmp.grib                           &&
+           cdo -f nc -t ecmwf copy tmp.grib tmp.nc
+    ]]></command>
+    <inputs>
+        <param name="variable" type="select" multiple="true" label="Variable(s)">
+            <option value="surface_air_temperature" selected="true">Surface air temperature</option>
+            <option value="surface_air_relative_humidity" selected="true">Surface air relative humidity</option>
+            <option value="0_7cm_volumetric_soil_moisture" selected="true">0-7cm volumetric soil moisture</option>
+            <option value="precipitation" selected="true">Precipitation</option>
+            <option value="sea_ice" selected="true">Sea-ice</option>
+        </param>
+        <param name="product_type" type="select" label="Select type of data">
+            <option value="climatology" selected="true">Climatology</option>
+            <option value="anomaly">Anomaly</option>
+        </param>
+        <conditional name="time_aggregation">
+            <param name="selector" type="select" label="Time aggregation">
+                <option value="12_month" selected="true">yearly</option>
+                <option value="1_month">monthly</option>
+            </param>
+            <when value="1_month">
+                <param name="month" type="select" multiple="true" label="Select month(s)">
+                    <option value="01" selected="true">January</option>
+                    <option value="02" selected="true">February</option>
+                    <option value="03" selected="true">March</option>
+                    <option value="04" selected="true">April</option>
+                    <option value="05" selected="true">May</option>
+                    <option value="06" selected="true">June</option>
+                    <option value="07" selected="true">July</option>
+                    <option value="08" selected="true">August</option>
+                    <option value="09" selected="true">September</option>
+                    <option value="10" selected="true">October</option>
+                    <option value="11" selected="true">November</option>
+                    <option value="12" selected="true">December</option>
+                </param>
+            </when>
+        </conditional>
+
+        <param name="year" type="select" multiple="true"  label="Select year(s)">
+            <option value="1979">1979</option>
+            <option value="1980">1980</option>
+            <option value="1981">1981</option>
+            <option value="1982">1982</option>
+            <option value="1983">1983</option>
+            <option value="1984">1984</option>
+            <option value="1985">1985</option>
+            <option value="1986">1986</option>
+            <option value="1987">1987</option>
+            <option value="1988">1988</option>
+            <option value="1989">1989</option>
+            <option value="1990">1990</option>
+            <option value="1991">1991</option>
+            <option value="1992">1992</option>
+            <option value="1993">1993</option>
+            <option value="1994">1994</option>
+            <option value="1995">1995</option>
+            <option value="1996">1996</option>
+            <option value="1997">1997</option>
+            <option value="1998">1998</option>
+            <option value="1999">1999</option>
+            <option value="2000">2000</option>
+            <option value="2001">2001</option>
+            <option value="2002">2002</option>
+            <option value="2003">2003</option>
+            <option value="2004">2004</option>
+            <option value="2005">2005</option>
+            <option value="2006">2006</option>
+            <option value="2007">2007</option>
+            <option value="2008">2008</option>
+            <option value="2009">2009</option>
+            <option value="2010">2010</option>
+            <option value="2011">2011</option>
+            <option value="2012">2012</option>
+            <option value="2013">2013</option>
+            <option value="2014">2014</option>
+            <option value="2015">2015</option>
+            <option value="2016">2016</option>
+            <option value="2017">2017</option>
+            <option value="2018">2018</option>
+            <option value="2019" selected="true">2019</option>
+        </param>
+    </inputs>
+    <outputs>
+        <data name="ofilename" format="netcdf" from_work_dir="tmp.nc"/>
+    </outputs>
+    <tests>
+        <test>
+            <param name="variable" value="0_7cm_volumetric_soil_moisture"/>
+            <param name="product_type" value="climatology"/>
+            <param name="time_aggregation" value="1_month"/>
+            <param name="month" value="12"/>
+            <param name="year" value="2018"/>
+            <output name="ofilename" ftype="netcdf" file="soil_moisture.nc" compare="sim_size" delta="100"/>
+        </test>
+        <test>
+            <param name="variable" value="precipitation,sea_ice"/>
+            <param name="product_type" value="anomaly"/>
+            <param name="time_aggregation" value="12_month"/>
+            <param name="year" value="2017"/>
+            <output name="ofilename" ftype="netcdf" file="prep_seaice.nc" compare="sim_size" delta="100"/>
+        </test>
+    </tests>
+    <help><![CDATA[
+
+**Copernicus Essential climate variables for assessment of climate variability from 1979 to present**
+=======================================================================================================
+
+This tool is a wrapper to retrieve Copernicus Essential Climate Variables.
+It corresponds to the European Contribution to the Monitoring of Essential Climate Variables from Space.
+An Essential Climate Variable is a physical, chemical or biological variable or a group of linked variables
+that critically contributes to the characterization of Earth’ s climate.
+
+The Essential Climate Variables for assessment of climate variability from 1979 to present dataset contains
+a selection of climatologies and monthly anomalies of Essential Climate Variables (ECVs) suitable for
+monitoring and assessment of climate variability and change. Selection criteria are based on accuracy
+and temporal consistency on monthly to decadal time scales. The ECV data products in this set have been
+estimated from multiple sources and, depending on the source, may have been adjusted to account for biases
+and other known deficiencies. Data sources and adjustment methods used are described in the Product User
+Guide, as are various particulars such as the baseline periods used to calculate monthly climatologies and
+the corresponding anomalies.
+
+
+- ECV Factsheets: https://gcos.wmo.int/en/essential-climate-variables/ecv-factsheets
+- Copernicus Climate Data Store documentation on Essential Climate Variables:
+  https://cds.climate.copernicus.eu/cdsapp#!/dataset/ecv-for-climate-change?tab=overview
+
+  See climatedata.wmo.int/ for more information on Essential Climate Variables.
+
+.. class:: infomark
+
+   It allows to retrieve estimates of Essential Climate Variables (ECVs)
+   derived from Earth observations.
+
+License:
+~~~~~~~~
+   Copernicus License V1.1
+
+   Generated using Copernicus Climate Change Service information [2019].
+   Neither the European Commission nor ECMWF is responsible for any use 
+   that may be made of the Copernicus information or data it contains.
+
+    ]]></help>
+    <citations>
+    </citations>
+</tool>