# HG changeset patch
# User climate
# Date 1556230333 14400
# Node ID 5708a3a46f2e4ce69b9205a57c8be703c8403107

planemo upload for repository https://github.com/NordicESMhub/galaxy-tools/tree/master/tools/shift-longitudes commit c1362af034361b6fb869411f1ea928388f230d72

diff -r 000000000000 -r 5708a3a46f2e README.md
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/README.md	Thu Apr 25 18:12:13 2019 -0400
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+
+# shift longitudes from netCDF file
+
+The wrapper aims at providing a simple utility to shift longitudes ranging from
+0. and 360 degrees to -180. and 180. degrees.
+The input file must be in netCDF format with geographical coordinates
+(latitudes, longitudes) given in degrees.
diff -r 000000000000 -r 5708a3a46f2e shift-longitudes.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/shift-longitudes.xml	Thu Apr 25 18:12:13 2019 -0400
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+<tool id="shyft_longitudes" name="shift longitudes" version="0.1.0">
+    <description>from netCDF data</description>
+    <requirements>
+        <requirement type="package" version="3.6.7">python</requirement>
+        <requirement type="package" version="1.4.1">netcdf4</requirement>
+        <requirement type="package" version="0.10.9">xarray</requirement>
+    </requirements>
+    <command detect_errors="exit_code"><![CDATA[
+       python3 '$__tool_directory__/shift_lon.py'
+          '$ifilename'
+          '$longitude'
+          '$ofilename'
+    ]]></command>
+    <inputs>
+       <param name="ifilename" type="data" format="netcdf" label="input with geographical coordinates (netCDF format)"></param>
+       <param name="longitude" type="text" value="lon" label="variable name for longitude as given in the netCDF file" />
+    </inputs>
+    <outputs>
+        <data name="ofilename" format="netcdf"></data>
+    </outputs>
+    <tests>
+        <test>
+           <param name="ifilename" value="TS.f2000.T31T31.control.cam.h0.0014-12.nc" />
+           <output name="ofilename" ftype="netcdf" file="TS.f2000.T31T31.control.cam.h0.0014-12.180.nc" compare="sim_size" delta="500"/>
+        </test>
+        <test>
+           <param name="ifilename" value="TS.f2000.T31T31.control.cam.h0.0014-12.180.nc" />
+           <output name="ofilename" ftype="netcdf" file="TS.f2000.T31T31.control.cam.h0.0014-12.180.nc" compare="sim_size" delta="500"/>
+        </test>
+    </tests>
+    <help><![CDATA[
+
+**Shift longitudes**
+================================================
+
+This tool wraps the functionality of ``shift-lon.py``.
+
+
+.. class:: infomark
+
+        The wrapper aims at providing a simple utility to shift longitudes ranging from
+        0. and 360 degrees to -180. and 180. degrees.
+        The input file must be in netCDF format with geographical coordinates
+        (latitudes, longitudes) given in degrees.
+
+**What it does**
+----------------
+
+This tools creates a netCDF file with the same variables as the original file but
+where longitudes range from -180. to 180.
+
+**Usage**
+
+::
+
+  usage: shift-lon.py [-h] [-v] input output
+
+
+Positional arguments:
+~~~~~~~~~~~~~~~~~~~~~
+
+- **input**:            input filename with geographical coordinates (netCDF format)
+- **longitude**:        variable name for longitudes as stored in netCDF file
+- **output**:           output filename for data with shifted longitudes
+
+Optional arguments:
+~~~~~~~~~~~~~~~~~~~~~
+
+  -h, --help       show this help message and exit
+  -v, --verbose    switch on verbose mode
+
+It uses ``xarray`` python package to generate plots. More information about
+``xarray`` can be found at http://xarray.pydata.org/en/stable/
+
+    ]]></help>
+    <citations>
+    </citations>
+</tool>
diff -r 000000000000 -r 5708a3a46f2e shift_lon.py
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/shift_lon.py	Thu Apr 25 18:12:13 2019 -0400
@@ -0,0 +1,38 @@
+#!/usr/bin/env python3
+#
+import argparse
+import warnings
+
+import xarray as xr
+
+if __name__ == '__main__':
+    warnings.filterwarnings("ignore")
+    parser = argparse.ArgumentParser()
+    parser.add_argument(
+        'input',
+        help='input filename with geographical coordinates (netCDF format)'
+    )
+
+    parser.add_argument(
+        'lon',
+        help='name of the variable for longitudes'
+    )
+
+    parser.add_argument(
+        'output',
+        help='output filename to store resulting image (png format)'
+    )
+    parser.add_argument("-v", "--verbose", help="switch on verbose mode",
+                        action="store_true")
+    args = parser.parse_args()
+
+    dset = xr.open_dataset(args.input, decode_cf=False)
+
+    if dset[args.lon].max() > 180.:
+        for i in range(dset[args.lon].size):
+            if dset[args.lon].values[i] > 180.:
+                dset[args.lon].values[i] = dset[args.lon].values[i] - 360.
+
+    dset.sortby(args.lon).to_netcdf(args.output)
+    if args.verbose:
+        print("Longitudes shifted to -180. and 180.")
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diff -r 000000000000 -r 5708a3a46f2e test-data/TS.f2000.T31T31.control.cam.h0.0014-12.nc
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