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--- other:uvcdat:extra [2015/06/08 16:38]
jypeter Started updating the page when preparing for 2.2.0
+++ other:uvcdat:extra [2016/04/14 12:26]
jypeter Added saeborn
@@ Line 3: / Line 3: @@
 This page lists the packages (usually) installed in the LSCE-IPSL CDAT versions that are not available in the standard UV-CDAT (i.e. there are no //ccmake// configuration switches to get them installed).
+===== Requests =====
+  * Web site: http://docs.python-requests.org/en/latest/
+  * Required by: [[#find_agg]]
+==== Versions installed ====
+^  UV-CDAT\\ version  ^  JYP\\ installation  ^  Package\\ version  ^  Date  ^
+|  2.1.0  |  LSCE_13  |  2.8.1  |  Oct 20 2015  |
+|  2.1.0  |  ciclad_13  |  2.8.1  |  Oct 20 2015  |
+==== Installing ====
+  * HOWTO: http://docs.python-requests.org/en/latest/user/install/
+  * ''pip install requests''
+==== Testing ====
+Check the installed version with: ''python -c 'import requests; print requests.%%__version__%%' ''
+===== find_agg =====
+  * Web site: http://cmip5-find-agg.readthedocs.org/en/latest/
+==== Versions installed ====
+^  UV-CDAT\\ version  ^  JYP\\ installation  ^  Package\\ version  ^  Date  ^
+|  2.1.0  |  LSCE_13  |  0.5.1 - v0.5 2015-07-06 |  Oct 20 2015  |
+|  2.1.0  |  ciclad_13  |  0.5.1 - v0.5 2015-07-06  |  Oct 20 2015  |
+==== Installing ====
+  * HOWTO: http://cmip5-find-agg.readthedocs.org/en/latest/installation.html
+  * ''pip install findagg''
+==== Testing ====
+Check the installed version with: ''find_agg -V''
+===== PIL and pillow =====
+FIXME **Clean this section!** FIXME
+PIL does not seem to be maintained any longer and should be replaced by pillow
+  * Web site: https://pillow.readthedocs.org/
+  * Required by: basemap
+    * implicitely used by basemap to [[http://matplotlib.org/basemap/users/geography.html|plot etopo, bluemarble, etc]]
+=== Replacing PIL with pillow ===
+[[http://stackoverflow.com/questions/8915296/python-image-library-fails-with-message-decoder-jpeg-not-available-pil|More information]]
+<code>pip uninstall PIL
+pip install pillow
+</code>
+=== Testing ===
+Check the installed version with
+<code>python -c 'import PIL; print dir(PIL)'
+['PILLOW_VERSION', 'VERSION', '__builtins__', '__doc__', '__file__', '__name__', '__package__', '__path__', '_plugins']
+</code>
+Use one of the [[http://matplotlib.org/basemap/users/geography.html|basemap examples]] to check if everything is working
+<code>from mpl_toolkits.basemap import Basemap
+import matplotlib.pyplot as plt
+# setup Lambert Conformal basemap.
+# set resolution=None to skip processing of boundary datasets.
+m = Basemap(width=12000000,height=9000000,projection='lcc',
+            resolution=None,lat_1=45.,lat_2=55,lat_0=50,lon_0=-107.)
+m.bluemarble()
+plt.show()
+</code>
+===== python-dateutil =====
+  * Web site: http://labix.org/python-dateutil
+  * Required by: [[#pandas]]
+==== Versions installed ====
+^  UV-CDAT\\ version  ^  JYP\\ installation  ^  Package\\ version  ^  Date  ^
+|  1.5.1  |  LSCE_10  |  <del>1.5-mpl</del>\\ 2.4.2  |  ? (//bundled?//)\\ Sep 11 2015 (with pandas)  |
+|  1.5.1  |  VB_10  |  <del>1.5-mpl</del>\\ 2.4.2  |  <del>? (//bundled?//)</del>\\ Sep 11 2015 (with pandas)  |
+|  2.1.0  |  LSCE_13  |  2.2  |  ? (//bundled?//)  |
+|  2.1.0  |  VB_13  |  2.2  |  ? (//bundled?//)  |
+==== Installing ====
+  * //Bundled with another package?//
+  * A newer version of python-dateutil was installed during [[#pandas]] installation in the //old// CDAT 1.5.1...
+==== Testing ====
+Check the installed version with: ''python -c 'import dateutil; print dateutil.%%__version__%%' ''
+===== pytz =====
+  * Web site: http://pytz.sourceforge.net/
+  * Required by: [[#pandas]]
+==== Versions installed ====
+^  UV-CDAT\\ version  ^  JYP\\ installation  ^  Package\\ version  ^  Date  ^
+|  1.5.1  |  LSCE_10  |  2014.10  |  ? (//bundled?//)  |
+|  1.5.1  |  VB_10  |  2015.4  |  ? (//bundled?//)  |
+|  2.1.0  |  LSCE_13  |  2014.10  |  ? (//bundled?//)  |
+|  2.1.0  |  VB_13  |  2014.10  |  ? (//bundled?//)  |
+==== Installing ====
+//Bundled?//
+==== Testing ====
+Check the installed version with: ''python -c 'import pytz; print pytz.%%__version__%%' ''
+===== pandas =====
+  * Web site: http://pandas.pydata.org/
+==== Versions installed ====
+^  UV-CDAT\\ version  ^  JYP\\ installation  ^  Package\\ version  ^  Date  ^
+|  1.5.1  |  LSCE_10  |  0.16.2  |  Sep 11 2015  |
+|  1.5.1  |  VB_10  |  0.16.2  |  Sep 11 2015  |
+|  2.1.0  |  LSCE_13  |  0.16.2  |  Sep 11 2015  |
+|  2.1.0  |  VB_13  |  0.16.2  |  Sep 11 2015  |
+=== Installing ===
+  * Dependencies:
+    * [[#numpy]] >= 1.7.0
+    * [[#python_dateutil]] >= 1.5
+    * [[#pytz]]
+  * Optional dependencies (http://pandas.pydata.org/pandas-docs/version/0.16.2/install.html#dependencies): not checked!
+  * ''pip install pandas''
+    * JYP install: ''setenv mydate `date +"%Y%m%d_%H%M"` ; setenv mylogf $ALL_LOGS_DIR/pandas_install_${CDAT_ID}_${mydate}.log ; ( /usr/bin/nohup /usr/bin/time pip install pandas > & $mylogf & ) ; sleep 10 ; tail -n +1 -f $mylogf''
+=== Testing ===
+Check the installed version with: ''python -c 'import pandas; print pandas.%%__version__%%' ''
 ===== rpy2 =====
@@ Line 32: / Line 181: @@
   * Optional dependencies (http://scitools.org.uk/cartopy/docs/latest/installing.html#optional-dependencies): not checked!
   * ''pip install cartopy''
-    * Check [[#proj4]] is there is a *proj* related error
+    * Check [[#proj4]] if there is a *proj* related error
     * The installation may bump shapely to a newer version: e.g. 1.3.2 to 1.5.8
       * Shapely seems to have non-blocking Cython speedup compilation errors
@@ Line 56: / Line 205: @@
 ==== Testing ====
-Check the installed version with: ''which geos-config'' and ''geos-config --version''
+Check the installed version with: ''which geos-config'' and ''geos-config %%--version%%''
 ===== pyshp =====
@@ Line 106: / Line 255: @@
 Check the installed version with: ''rpm -qa | grep '^proj' ''
+===== spectrum =====
+  * Web site:
+    * http://pythonhosted.org/spectrum/
+    * https://github.com/cokelaer/spectrum
+==== Versions installed ====
+^  UV-CDAT\\ version  ^  JYP\\ installation  ^  Package\\ version  ^  Date  ^
+|  2.1.0  |  LSCE_13  |  0.6.1  |  Apr 14 2016  |
+==== Installing ====
+  * ''pip install spectrum''
+==== Testing ====
+Check the installed version with: ''python -c 'import spectrum' ''
+===== statsmodels =====
+  * Web site: http://statsmodels.sourceforge.net/stable/index.html
+==== Versions installed ====
+^  UV-CDAT\\ version  ^  JYP\\ installation  ^  Package\\ version  ^  Date  ^
+|  2.1.0  |  LSCE_13  |  0.6.1  |  Apr 14 2016  |
+==== Installing ====
+  * ''pip install statsmodels''
+==== Testing ====
+Check the installed version with: ''python -c 'import statsmodels; print statsmodels.version.version' ''
+===== seaborn =====
+  * Web site: https://stanford.edu/~mwaskom/software/seaborn/index.html
+==== Versions installed ====
+^  UV-CDAT\\ version  ^  JYP\\ installation  ^  Package\\ version  ^  Date  ^
+|  2.1.0  |  LSCE_13  |  0.7.0  |  Apr 14 2016  |
+==== Installing ====
+  * ''pip install seaborn''
+==== Testing ====
+Check the installed version with: ''python -c 'import seaborn; print seaborn.%%__version__%%' ''

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