Read the Docs build information Build id: 526049 Project: ucl-eo-geog0133 Version: latest Commit: 8ce7e89c71ad7b01387ef916be846249794f772e Date: 2021-01-08T12:51:28.387475Z State: finished Success: True [rtd-command-info] start-time: 2021-01-08T12:51:29.927363Z, end-time: 2021-01-08T12:51:49.036749Z, duration: 19, exit-code: 0 git clone --no-single-branch --depth 50 https://github.com/UCL-EO/geog0133.git . Cloning into '.'... 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[rtd-command-info] start-time: 2021-01-08T12:51:49.524600Z, end-time: 2021-01-08T12:51:49.652575Z, duration: 0, exit-code: 0 git checkout --force origin/main Note: checking out 'origin/main'. You are in 'detached HEAD' state. You can look around, make experimental changes and commit them, and you can discard any commits you make in this state without impacting any branches by performing another checkout. If you want to create a new branch to retain commits you create, you may do so (now or later) by using -b with the checkout command again. Example: git checkout -b HEAD is now at 8ce7e89 readthedocs.yml [rtd-command-info] start-time: 2021-01-08T12:51:49.929637Z, end-time: 2021-01-08T12:51:49.984526Z, duration: 0, exit-code: 0 git clean -d -f -f [rtd-command-info] start-time: 2021-01-08T12:51:58.875762Z, end-time: 2021-01-08T12:52:03.353465Z, duration: 4, exit-code: 0 python3.6 -mvirtualenv Using base prefix '/home/docs/.pyenv/versions/3.6.12' New python executable in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/bin/python3.6 Also creating executable in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/bin/python Installing setuptools, pip, wheel... done. [rtd-command-info] start-time: 2021-01-08T12:52:03.612763Z, end-time: 2021-01-08T12:52:05.305729Z, duration: 1, exit-code: 0 python -m pip install --upgrade --no-cache-dir pip Requirement already satisfied: pip in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (20.3.3) [rtd-command-info] start-time: 2021-01-08T12:52:05.440180Z, end-time: 2021-01-08T12:52:15.061658Z, duration: 9, exit-code: 0 python -m pip install --upgrade --no-cache-dir setuptools==41.0.1 docutils==0.14 mock==1.0.1 pillow==5.4.1 alabaster>=0.7,<0.8,!=0.7.5 six commonmark==0.8.1 recommonmark==0.5.0 sphinx<2 sphinx-rtd-theme<0.5 readthedocs-sphinx-ext<2.2 Collecting commonmark==0.8.1 Downloading commonmark-0.8.1-py2.py3-none-any.whl (47 kB) Collecting docutils==0.14 Downloading docutils-0.14-py3-none-any.whl (543 kB) Collecting mock==1.0.1 Downloading mock-1.0.1.zip (861 kB) Collecting pillow==5.4.1 Downloading Pillow-5.4.1-cp36-cp36m-manylinux1_x86_64.whl (2.0 MB) Collecting recommonmark==0.5.0 Downloading recommonmark-0.5.0-py2.py3-none-any.whl (9.8 kB) Collecting alabaster!=0.7.5,<0.8,>=0.7 Downloading alabaster-0.7.12-py2.py3-none-any.whl (14 kB) Collecting readthedocs-sphinx-ext<2.2 Downloading readthedocs_sphinx_ext-2.1.2-py2.py3-none-any.whl (11 kB) Collecting sphinx<2 Downloading Sphinx-1.8.5-py2.py3-none-any.whl (3.1 MB) Collecting six Downloading six-1.15.0-py2.py3-none-any.whl (10 kB) Collecting sphinx-rtd-theme<0.5 Downloading sphinx_rtd_theme-0.4.3-py2.py3-none-any.whl (6.4 MB) Collecting babel!=2.0,>=1.3 Downloading Babel-2.9.0-py2.py3-none-any.whl (8.8 MB) Collecting Jinja2>=2.9 Downloading Jinja2-2.11.2-py2.py3-none-any.whl (125 kB) Collecting MarkupSafe>=0.23 Downloading MarkupSafe-1.1.1-cp36-cp36m-manylinux1_x86_64.whl (27 kB) Collecting Pygments>=2.0 Downloading Pygments-2.7.3-py3-none-any.whl (950 kB) Collecting pytz>=2015.7 Downloading pytz-2020.5-py2.py3-none-any.whl (510 kB) Collecting requests Downloading requests-2.25.1-py2.py3-none-any.whl (61 kB) Collecting certifi>=2017.4.17 Downloading certifi-2020.12.5-py2.py3-none-any.whl (147 kB) Collecting chardet<5,>=3.0.2 Downloading chardet-4.0.0-py2.py3-none-any.whl (178 kB) Collecting idna<3,>=2.5 Downloading idna-2.10-py2.py3-none-any.whl (58 kB) Collecting snowballstemmer>=1.1 Downloading snowballstemmer-2.0.0-py2.py3-none-any.whl (97 kB) Collecting urllib3<1.27,>=1.21.1 Downloading urllib3-1.26.2-py2.py3-none-any.whl (136 kB) Collecting future Downloading future-0.18.2.tar.gz (829 kB) Collecting imagesize Downloading imagesize-1.2.0-py2.py3-none-any.whl (4.8 kB) Collecting packaging Downloading packaging-20.8-py2.py3-none-any.whl (39 kB) Collecting pyparsing>=2.0.2 Downloading pyparsing-2.4.7-py2.py3-none-any.whl (67 kB) Collecting sphinxcontrib-websupport Downloading sphinxcontrib_websupport-1.2.4-py2.py3-none-any.whl (39 kB) Collecting sphinxcontrib-serializinghtml Downloading sphinxcontrib_serializinghtml-1.1.4-py2.py3-none-any.whl (89 kB) Collecting setuptools==41.0.1 Downloading setuptools-41.0.1-py2.py3-none-any.whl (575 kB) Building wheels for collected packages: mock, future Building wheel for mock (setup.py): started Building wheel for mock (setup.py): finished with status 'done' Created wheel for mock: filename=mock-1.0.1-py3-none-any.whl size=23755 sha256=86800e5d30ce039ea3ba179dcbb5d185a65a6dd32ac200ece801e4ba95cca3cd Stored in directory: /tmp/pip-ephem-wheel-cache-b418w3mi/wheels/98/4d/ec/1aa935d28cb63b7b16037fc990302a34244ac3b0601a4e0c00 Building wheel for future (setup.py): started Building wheel for future (setup.py): finished with status 'done' Created wheel for future: filename=future-0.18.2-py3-none-any.whl size=491059 sha256=91a65ac1c375fd75bcca75e781cf42dc6b06e1b2471e9f5e1be94e0b9d3218f9 Stored in directory: /tmp/pip-ephem-wheel-cache-b418w3mi/wheels/6e/9c/ed/4499c9865ac1002697793e0ae05ba6be33553d098f3347fb94 Successfully built mock future Installing collected packages: urllib3, sphinxcontrib-serializinghtml, pytz, pyparsing, MarkupSafe, idna, chardet, certifi, sphinxcontrib-websupport, snowballstemmer, six, setuptools, requests, Pygments, packaging, Jinja2, imagesize, future, docutils, babel, alabaster, sphinx, commonmark, sphinx-rtd-theme, recommonmark, readthedocs-sphinx-ext, pillow, mock Attempting uninstall: setuptools Found existing installation: setuptools 51.1.1 Uninstalling setuptools-51.1.1: Successfully uninstalled setuptools-51.1.1 Successfully installed Jinja2-2.11.2 MarkupSafe-1.1.1 Pygments-2.7.3 alabaster-0.7.12 babel-2.9.0 certifi-2020.12.5 chardet-4.0.0 commonmark-0.8.1 docutils-0.14 future-0.18.2 idna-2.10 imagesize-1.2.0 mock-1.0.1 packaging-20.8 pillow-5.4.1 pyparsing-2.4.7 pytz-2020.5 readthedocs-sphinx-ext-2.1.2 recommonmark-0.5.0 requests-2.25.1 setuptools-41.0.1 six-1.15.0 snowballstemmer-2.0.0 sphinx-1.8.5 sphinx-rtd-theme-0.4.3 sphinxcontrib-serializinghtml-1.1.4 sphinxcontrib-websupport-1.2.4 urllib3-1.26.2 [rtd-command-info] start-time: 2021-01-08T12:52:15.228461Z, end-time: 2021-01-08T12:52:38.275621Z, duration: 23, exit-code: 0 python -m pip install --exists-action=w --no-cache-dir -r requirements.txt Collecting astropy Downloading astropy-4.1-cp36-cp36m-manylinux1_x86_64.whl (10.3 MB) Collecting numpy>=1.16 Downloading numpy-1.19.5-cp36-cp36m-manylinux2010_x86_64.whl (14.8 MB) Collecting ipython Downloading ipython-7.16.1-py3-none-any.whl (785 kB) Requirement already satisfied: setuptools>=18.5 in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from ipython->-r requirements.txt (line 3)) (41.0.1) Requirement already satisfied: pygments in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from ipython->-r requirements.txt (line 3)) (2.7.3) Collecting jedi>=0.10 Downloading jedi-0.18.0-py2.py3-none-any.whl (1.4 MB) Collecting parso<0.9.0,>=0.8.0 Downloading parso-0.8.1-py2.py3-none-any.whl (93 kB) Collecting prompt-toolkit!=3.0.0,!=3.0.1,<3.1.0,>=2.0.0 Downloading prompt_toolkit-3.0.10-py3-none-any.whl (355 kB) Collecting traitlets>=4.2 Downloading traitlets-4.3.3-py2.py3-none-any.whl (75 kB) Requirement already satisfied: six in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from traitlets>=4.2->ipython->-r requirements.txt (line 3)) (1.15.0) Collecting matplotlib Downloading matplotlib-3.3.3-cp36-cp36m-manylinux1_x86_64.whl (11.6 MB) Requirement already satisfied: pyparsing!=2.0.4,!=2.1.2,!=2.1.6,>=2.0.3 in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from matplotlib->-r requirements.txt (line 2)) (2.4.7) Collecting cycler>=0.10 Downloading cycler-0.10.0-py2.py3-none-any.whl (6.5 kB) Collecting kiwisolver>=1.0.1 Downloading kiwisolver-1.3.1-cp36-cp36m-manylinux1_x86_64.whl (1.1 MB) Collecting pillow>=6.2.0 Downloading Pillow-8.1.0-cp36-cp36m-manylinux1_x86_64.whl (2.2 MB) Collecting python-dateutil>=2.1 Downloading python_dateutil-2.8.1-py2.py3-none-any.whl (227 kB) Collecting nbsphinx Downloading nbsphinx-0.8.0-py3-none-any.whl (24 kB) Requirement already satisfied: docutils in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from nbsphinx->-r requirements.txt (line 1)) (0.14) Requirement already satisfied: jinja2 in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from nbsphinx->-r requirements.txt (line 1)) (2.11.2) Requirement already satisfied: sphinx>=1.8 in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from nbsphinx->-r requirements.txt (line 1)) (1.8.5) Collecting nbconvert!=5.4 Downloading nbconvert-6.0.7-py3-none-any.whl (552 kB) Collecting entrypoints>=0.2.2 Downloading entrypoints-0.3-py2.py3-none-any.whl (11 kB) Requirement already satisfied: MarkupSafe>=0.23 in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from jinja2->nbsphinx->-r requirements.txt (line 1)) (1.1.1) Collecting mistune<2,>=0.8.1 Downloading mistune-0.8.4-py2.py3-none-any.whl (16 kB) Collecting nbclient<0.6.0,>=0.5.0 Downloading nbclient-0.5.1-py3-none-any.whl (65 kB) Collecting jupyter-client>=6.1.5 Downloading jupyter_client-6.1.10-py3-none-any.whl (108 kB) Collecting jedi>=0.10 Downloading jedi-0.17.2-py2.py3-none-any.whl (1.4 MB) Downloading jedi-0.17.1-py2.py3-none-any.whl (1.4 MB) Downloading jedi-0.17.0-py2.py3-none-any.whl (1.1 MB) Collecting jupyter-core Downloading jupyter_core-4.7.0-py3-none-any.whl (82 kB) Collecting nbformat Downloading nbformat-5.0.8-py3-none-any.whl (172 kB) Collecting jsonschema!=2.5.0,>=2.4 Downloading jsonschema-3.2.0-py2.py3-none-any.whl (56 kB) Collecting attrs>=17.4.0 Downloading attrs-20.3.0-py2.py3-none-any.whl (49 kB) Collecting pandocfilters>=1.4.1 Downloading pandocfilters-1.4.3.tar.gz (16 kB) Collecting pyrsistent>=0.14.0 Downloading pyrsistent-0.17.3.tar.gz (106 kB) Collecting pyzmq>=13 Downloading pyzmq-20.0.0-cp36-cp36m-manylinux1_x86_64.whl (1.1 MB) Requirement already satisfied: snowballstemmer>=1.1 in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from sphinx>=1.8->nbsphinx->-r requirements.txt (line 1)) (2.0.0) Requirement already satisfied: imagesize in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from sphinx>=1.8->nbsphinx->-r requirements.txt (line 1)) (1.2.0) Requirement already satisfied: requests>=2.0.0 in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from sphinx>=1.8->nbsphinx->-r requirements.txt (line 1)) (2.25.1) Requirement already satisfied: packaging in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from sphinx>=1.8->nbsphinx->-r requirements.txt (line 1)) (20.8) Requirement already satisfied: alabaster<0.8,>=0.7 in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from sphinx>=1.8->nbsphinx->-r requirements.txt (line 1)) (0.7.12) Requirement already satisfied: babel!=2.0,>=1.3 in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from sphinx>=1.8->nbsphinx->-r requirements.txt (line 1)) (2.9.0) Requirement already satisfied: sphinxcontrib-websupport in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from sphinx>=1.8->nbsphinx->-r requirements.txt (line 1)) (1.2.4) Requirement already satisfied: pytz>=2015.7 in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from babel!=2.0,>=1.3->sphinx>=1.8->nbsphinx->-r requirements.txt (line 1)) (2020.5) Requirement already satisfied: chardet<5,>=3.0.2 in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from requests>=2.0.0->sphinx>=1.8->nbsphinx->-r requirements.txt (line 1)) (4.0.0) Requirement already satisfied: idna<3,>=2.5 in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from requests>=2.0.0->sphinx>=1.8->nbsphinx->-r requirements.txt (line 1)) (2.10) Requirement already satisfied: urllib3<1.27,>=1.21.1 in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from requests>=2.0.0->sphinx>=1.8->nbsphinx->-r requirements.txt (line 1)) (1.26.2) Requirement already satisfied: certifi>=2017.4.17 in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from requests>=2.0.0->sphinx>=1.8->nbsphinx->-r requirements.txt (line 1)) (2020.12.5) Collecting tornado>=4.1 Downloading tornado-6.1-cp36-cp36m-manylinux2010_x86_64.whl (427 kB) Collecting numpydoC Downloading numpydoc-1.1.0-py3-none-any.whl (47 kB) Collecting xlrd Downloading xlrd-2.0.1-py2.py3-none-any.whl (96 kB) Collecting async-generator Downloading async_generator-1.10-py3-none-any.whl (18 kB) Collecting backcall Downloading backcall-0.2.0-py2.py3-none-any.whl (11 kB) Collecting bleach Downloading bleach-3.2.1-py2.py3-none-any.whl (145 kB) Collecting decorator Downloading decorator-4.4.2-py2.py3-none-any.whl (9.2 kB) Collecting defusedxml Downloading defusedxml-0.6.0-py2.py3-none-any.whl (23 kB) Collecting importlib-metadata Downloading importlib_metadata-3.3.0-py3-none-any.whl (10 kB) Collecting typing-extensions>=3.6.4 Downloading typing_extensions-3.7.4.3-py3-none-any.whl (22 kB) Collecting zipp>=0.5 Downloading zipp-3.4.0-py3-none-any.whl (5.2 kB) Collecting ipython-genutils Downloading ipython_genutils-0.2.0-py2.py3-none-any.whl (26 kB) Collecting jupyterlab-pygments Downloading jupyterlab_pygments-0.1.2-py2.py3-none-any.whl (4.6 kB) Collecting nest-asyncio Downloading nest_asyncio-1.4.3-py3-none-any.whl (5.3 kB) Collecting pexpect Downloading pexpect-4.8.0-py2.py3-none-any.whl (59 kB) Collecting ptyprocess>=0.5 Downloading ptyprocess-0.7.0-py2.py3-none-any.whl (13 kB) Collecting pickleshare Downloading pickleshare-0.7.5-py2.py3-none-any.whl (6.9 kB) Requirement already satisfied: sphinxcontrib-serializinghtml in /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages (from sphinxcontrib-websupport->sphinx>=1.8->nbsphinx->-r requirements.txt (line 1)) (1.1.4) Collecting testpath Downloading testpath-0.4.4-py2.py3-none-any.whl (163 kB) Collecting wcwidth Downloading wcwidth-0.2.5-py2.py3-none-any.whl (30 kB) Collecting webencodings Downloading webencodings-0.5.1-py2.py3-none-any.whl (11 kB) Building wheels for collected packages: pandocfilters, pyrsistent Building wheel for pandocfilters (setup.py): started Building wheel for pandocfilters (setup.py): finished with status 'done' Created wheel for pandocfilters: filename=pandocfilters-1.4.3-py3-none-any.whl size=7992 sha256=48e162f4c6eec940ac42db9fca99c988184e6ce80f9f090f8a26ac68c9ec3345 Stored in directory: /tmp/pip-ephem-wheel-cache-70apfe0h/wheels/12/12/89/fe63ac4d6ee6440daab4db77b78c63f7f192b700f844b6639f Building wheel for pyrsistent (setup.py): started Building wheel for pyrsistent (setup.py): finished with status 'done' Created wheel for pyrsistent: filename=pyrsistent-0.17.3-cp36-cp36m-linux_x86_64.whl size=114397 sha256=1acda8bc3f2b46925d32d64731ec2fe875f4477dab909c194cfc72215b3f0f0e Stored in directory: /tmp/pip-ephem-wheel-cache-70apfe0h/wheels/34/13/19/294da8e11bce7e563afee51251b9fa878185e14f4b5caf00cb Successfully built pandocfilters pyrsistent Installing collected packages: zipp, typing-extensions, ipython-genutils, decorator, traitlets, pyrsistent, parso, importlib-metadata, attrs, tornado, pyzmq, python-dateutil, jupyter-core, jsonschema, jedi, webencodings, nest-asyncio, nbformat, jupyter-client, async-generator, wcwidth, testpath, ptyprocess, pandocfilters, nbclient, mistune, jupyterlab-pygments, entrypoints, defusedxml, bleach, prompt-toolkit, pillow, pickleshare, pexpect, numpy, nbconvert, kiwisolver, cycler, backcall, xlrd, numpydoC, nbsphinx, matplotlib, ipython, astropy Attempting uninstall: pillow Found existing installation: Pillow 5.4.1 Uninstalling Pillow-5.4.1: Successfully uninstalled Pillow-5.4.1 Successfully installed astropy-4.1 async-generator-1.10 attrs-20.3.0 backcall-0.2.0 bleach-3.2.1 cycler-0.10.0 decorator-4.4.2 defusedxml-0.6.0 entrypoints-0.3 importlib-metadata-3.3.0 ipython-7.16.1 ipython-genutils-0.2.0 jedi-0.17.0 jsonschema-3.2.0 jupyter-client-6.1.10 jupyter-core-4.7.0 jupyterlab-pygments-0.1.2 kiwisolver-1.3.1 matplotlib-3.3.3 mistune-0.8.4 nbclient-0.5.1 nbconvert-6.0.7 nbformat-5.0.8 nbsphinx-0.8.0 nest-asyncio-1.4.3 numpy-1.19.5 numpydoC-1.1.0 pandocfilters-1.4.3 parso-0.8.1 pexpect-4.8.0 pickleshare-0.7.5 pillow-8.1.0 prompt-toolkit-3.0.10 ptyprocess-0.7.0 pyrsistent-0.17.3 python-dateutil-2.8.1 pyzmq-20.0.0 testpath-0.4.4 tornado-6.1 traitlets-4.3.3 typing-extensions-3.7.4.3 wcwidth-0.2.5 webencodings-0.5.1 xlrd-2.0.1 zipp-3.4.0 [rtd-command-info] start-time: 2021-01-08T12:52:39.465912Z, end-time: 2021-01-08T12:52:39.539265Z, duration: 0, exit-code: 0 cat docs/conf.py # -*- coding: utf-8 -*- # # Configuration file for the Sphinx documentation builder. # # This file does only contain a selection of the most common options. For a # full list see the documentation: # http://www.sphinx-doc.org/en/master/config # -- Path setup -------------------------------------------------------------- # 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. # import os import sys sys.path.insert(0, os.path.abspath('.')) sys.path.append(os.path.abspath('python')) # -- Project information ----------------------------------------------------- project = 'GEOG0133' copyright = '2019, P Lewis' author = 'P Lewis' # The short X.Y version version = '' # The full version, including alpha/beta/rc tags release = '1.0.2019' # -- 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 = ['nbsphinx', 'matplotlib.sphinxext.plot_directive', 'IPython.sphinxext.ipython_directive', 'IPython.sphinxext.ipython_console_highlighting', 'sphinx.ext.mathjax', 'sphinx.ext.autodoc', 'sphinx.ext.doctest', 'sphinx.ext.inheritance_diagram', 'numpydoc'] # Add any paths that contain templates here, relative to this directory. templates_path = ['_templates'] # The suffix(es) of source filenames. # You can specify multiple suffix as a list of string: # # source_suffix = ['.rst', '.md'] source_suffix = '.rst' # The master toctree document. master_doc = 'index' # The language for content autogenerated by Sphinx. Refer to documentation # for a list of supported languages. # # This is also used if you do content translation via gettext catalogs. # Usually you set "language" from the command line for these cases. language = None # List of patterns, relative to source directory, that match files and # directories to ignore when looking for source files. # This pattern also affects html_static_path and html_extra_path. exclude_patterns = ['_build', 'Thumbs.db', '.DS_Store'] # The name of the Pygments (syntax highlighting) style to use. pygments_style = None # -- 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 = 'sphinx_rtd_theme' # 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 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'] # Custom sidebar templates, must be a dictionary that maps document names # to template names. # # The default sidebars (for documents that don't match any pattern) are # defined by theme itself. Builtin themes are using these templates by # default: ``['localtoc.html', 'relations.html', 'sourcelink.html', # 'searchbox.html']``. # # html_sidebars = {} # -- Options for HTMLHelp output --------------------------------------------- # Output file base name for HTML help builder. htmlhelp_basename = 'GEOG0133doc' # -- 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': '', # Latex figure (float) alignment # # 'figure_align': 'htbp', } # Grouping the document tree into LaTeX files. List of tuples # (source start file, target name, title, # author, documentclass [howto, manual, or own class]). latex_documents = [ (master_doc, 'GEOG0133.tex', 'GEOG0133 Documentation', 'P Lewis', 'manual'), ] # -- Options for manual page output ------------------------------------------ # One entry per manual page. List of tuples # (source start file, name, description, authors, manual section). man_pages = [ (master_doc, 'geog0133', 'GEOG0133 Documentation', [author], 1) ] # -- 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 = [ (master_doc, 'GEOG0133', 'GEOG0133 Documentation', author, 'GEOG0133', 'One line description of project.', 'Miscellaneous'), ] # -- Options for Epub output ------------------------------------------------- # Bibliographic Dublin Core info. epub_title = project # The unique identifier of the text. This can be a ISBN number # or the project homepage. # # epub_identifier = '' # A unique identification for the text. # # epub_uid = '' # A list of files that should not be packed into the epub file. epub_exclude_files = ['search.html'] ########################################################################### # auto-created readthedocs.org specific configuration # ########################################################################### # # The following code was added during an automated build on readthedocs.org # It is auto created and injected for every build. The result is based on the # conf.py.tmpl file found in the readthedocs.org codebase: # https://github.com/rtfd/readthedocs.org/blob/master/readthedocs/doc_builder/templates/doc_builder/conf.py.tmpl # import importlib import sys import os.path from six import string_types from sphinx import version_info # Get suffix for proper linking to GitHub # This is deprecated in Sphinx 1.3+, # as each page can have its own suffix if globals().get('source_suffix', False): if isinstance(source_suffix, string_types): SUFFIX = source_suffix elif isinstance(source_suffix, (list, tuple)): # Sphinx >= 1.3 supports list/tuple to define multiple suffixes SUFFIX = source_suffix[0] elif isinstance(source_suffix, dict): # Sphinx >= 1.8 supports a mapping dictionary for multiple suffixes SUFFIX = list(source_suffix.keys())[0] # make a ``list()`` for py2/py3 compatibility else: # default to .rst SUFFIX = '.rst' else: SUFFIX = '.rst' # Add RTD Static Path. Add to the end because it overwrites previous files. if not 'html_static_path' in globals(): html_static_path = [] if os.path.exists('_static'): html_static_path.append('_static') # Add RTD Theme only if they aren't overriding it already using_rtd_theme = ( ( 'html_theme' in globals() and html_theme in ['default'] and # Allow people to bail with a hack of having an html_style 'html_style' not in globals() ) or 'html_theme' not in globals() ) if using_rtd_theme: theme = importlib.import_module('sphinx_rtd_theme') html_theme = 'sphinx_rtd_theme' html_style = None html_theme_options = {} if 'html_theme_path' in globals(): html_theme_path.append(theme.get_html_theme_path()) else: html_theme_path = [theme.get_html_theme_path()] if globals().get('websupport2_base_url', False): websupport2_base_url = 'https://readthedocs.com/websupport' websupport2_static_url = 'https://assets.readthedocs.com/' #Add project information to the template context. context = { 'using_theme': using_rtd_theme, 'html_theme': html_theme, 'current_version': "latest", 'version_slug': "latest", 'MEDIA_URL': "https://media.readthedocs.com/media/", 'STATIC_URL': "https://assets.readthedocs.com/", 'PRODUCTION_DOMAIN': "readthedocs.com", 'versions': [ ("latest", "/en/latest/"), ], 'downloads': [ ("html", "//ucl-eo-geog0133.readthedocs-hosted.com/_/downloads/en/latest/htmlzip/"), ], 'subprojects': [ ], 'slug': 'ucl-eo-geog0133', 'name': u'geog0133', 'rtd_language': u'en', 'programming_language': u'py', 'canonical_url': 'https://ucl-eo-geog0133.readthedocs-hosted.com/en/latest/', 'analytics_code': 'None', 'single_version': False, 'conf_py_path': '/docs/', 'api_host': 'https://readthedocs.com', 'github_user': 'UCL-EO', 'proxied_api_host': '/_', 'github_repo': 'geog0133', 'github_version': 'main', 'display_github': True, 'bitbucket_user': 'None', 'bitbucket_repo': 'None', 'bitbucket_version': 'main', 'display_bitbucket': False, 'gitlab_user': 'None', 'gitlab_repo': 'None', 'gitlab_version': 'main', 'display_gitlab': False, 'READTHEDOCS': True, 'using_theme': (html_theme == "default"), 'new_theme': (html_theme == "sphinx_rtd_theme"), 'source_suffix': SUFFIX, 'ad_free': False, 'docsearch_disabled': False, 'user_analytics_code': '', 'global_analytics_code': 'UA-17997319-2', 'commit': '8ce7e89c', } if 'html_context' in globals(): html_context.update(context) else: html_context = context # Add custom RTD extension if 'extensions' in globals(): # Insert at the beginning because it can interfere # with other extensions. # See https://github.com/rtfd/readthedocs.org/pull/4054 extensions.insert(0, "readthedocs_ext.readthedocs") else: extensions = ["readthedocs_ext.readthedocs"] # Add External version warning banner to the external version documentation if 'branch' == 'external': extensions.insert(1, "readthedocs_ext.external_version_warning") project_language = 'en' # User's Sphinx configurations language_user = globals().get('language', None) latex_engine_user = globals().get('latex_engine', None) latex_elements_user = globals().get('latex_elements', None) # Remove this once xindy gets installed in Docker image and XINDYOPS # env variable is supported # https://github.com/rtfd/readthedocs-docker-images/pull/98 latex_use_xindy = False chinese = any([ language_user in ('zh_CN', 'zh_TW'), project_language in ('zh_CN', 'zh_TW'), ]) japanese = any([ language_user == 'ja', project_language == 'ja', ]) if chinese: latex_engine = latex_engine_user or 'xelatex' latex_elements_rtd = { 'preamble': '\\usepackage[UTF8]{ctex}\n', } latex_elements = latex_elements_user or latex_elements_rtd elif japanese: latex_engine = latex_engine_user or 'platex' # Make sure our build directory is always excluded exclude_patterns = globals().get('exclude_patterns', []) exclude_patterns.extend(['_build']) [rtd-command-info] start-time: 2021-01-08T12:52:39.717528Z, end-time: 2021-01-08T12:53:37.255711Z, duration: 57, exit-code: 0 python sphinx-build -T -b readthedocs -d _build/doctrees-readthedocs -D language=en . _build/html Running Sphinx v1.8.5 loading translations [en]... done Matplotlib is building the font cache; this may take a moment. making output directory... building [mo]: targets for 0 po files that are out of date building [readthedocs]: targets for 26 source files that are out of date updating environment: 26 added, 0 changed, 0 removed reading sources... [ 3%] aside1 reading sources... [ 7%] aside2 reading sources... [ 11%] aside_PM reading sources... [ 15%] carbonClimate reading sources... [ 19%] carbonCycle reading sources... [ 23%] config/index_head reading sources... [ 26%] config/index_tail reading sources... [ 30%] da reading sources... [ 34%] daModel reading sources... [ 38%] da_basics reading sources... [ 42%] dgvms reading sources... [ 46%] glossary reading sources... [ 50%] index reading sources... [ 53%] intro reading sources... [ 57%] leafPhot reading sources... [ 61%] modelling reading sources... [ 65%] modellingPractical reading sources... [ 69%] modelling_photosynthesis reading sources... [ 73%] notebooks/005_Solar_Practical reading sources... [ 76%] notebooks/011_Photosynthesis_Modelling_Practical reading sources... [ 80%] pems reading sources... [ 84%] phenology reading sources... [ 88%] phenologyPractical reading sources... [ 92%] photosynthesis reading sources... [ 96%] remoteSensing reading sources... [100%] simples :21: RuntimeWarning: invalid value encountered in true_divide /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/carbonClimate.rst:2: WARNING: Duplicate explicit target name: "halocarbons". /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:13: WARNING: Exception occurred in plotting daModel-1 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/phenology.py", line 9, in from osgeo import gdal ModuleNotFoundError: No module named 'osgeo' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:71: WARNING: Exception occurred in plotting daModel-2 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/phenology.py", line 9, in from osgeo import gdal ModuleNotFoundError: No module named 'osgeo' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:150: WARNING: Exception occurred in plotting daModel-3 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/canopyModel.py", line 3, in import scipy.optimize ModuleNotFoundError: No module named 'scipy' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:169: WARNING: Exception occurred in plotting daModel-4 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/canopyModel.py", line 3, in import scipy.optimize ModuleNotFoundError: No module named 'scipy' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:187: WARNING: Exception occurred in plotting daModel-5 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/canopyModel.py", line 3, in import scipy.optimize ModuleNotFoundError: No module named 'scipy' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:207: WARNING: Exception occurred in plotting daModel-6 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/canopyModel.py", line 3, in import scipy.optimize ModuleNotFoundError: No module named 'scipy' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:227: WARNING: Exception occurred in plotting daModel-7 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/canopyModel.py", line 3, in import scipy.optimize ModuleNotFoundError: No module named 'scipy' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:247: WARNING: Exception occurred in plotting daModel-8 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 25 print retval[-3] # Print out the fit parameters ^ SyntaxError: Missing parentheses in call to 'print'. Did you mean print(retval[-3] # Print out the fit parameters)? /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:279: WARNING: Exception occurred in plotting daModel-9 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/phenology.py", line 9, in from osgeo import gdal ModuleNotFoundError: No module named 'osgeo' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:310: WARNING: Exception occurred in plotting daModel-10 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/phenology.py", line 9, in from osgeo import gdal ModuleNotFoundError: No module named 'osgeo' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:343: WARNING: Exception occurred in plotting daModel-11 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/phenology.py", line 9, in from osgeo import gdal ModuleNotFoundError: No module named 'osgeo' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:377: WARNING: Exception occurred in plotting daModel-12 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/phenology.py", line 9, in from osgeo import gdal ModuleNotFoundError: No module named 'osgeo' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/da_basics.rst:2: WARNING: Duplicate explicit target name: "wikipedia". /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/da_basics.rst:2: WARNING: Duplicate explicit target name: "wikipedia". /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/dgvms.rst:2: WARNING: Duplicate explicit target name: "ncar". /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/glossary.rst:15: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/glossary.rst:18: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/glossary.rst:21: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/glossary.rst:24: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/glossary.rst:27: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/glossary.rst:30: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/glossary.rst:33: WARNING: Bullet list ends without a blank line; 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Basic vegetation growth processes ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/modelling.rst:120: WARNING: Title underline too short. 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[100%] simples /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/carbonClimate.rst:2: WARNING: Duplicate explicit target name: "halocarbons". /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:13: WARNING: Exception occurred in plotting daModel-1 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/phenology.py", line 9, in from osgeo import gdal ModuleNotFoundError: No module named 'osgeo' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:71: WARNING: Exception occurred in plotting daModel-2 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/phenology.py", line 9, in from osgeo import gdal ModuleNotFoundError: No module named 'osgeo' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:150: WARNING: Exception occurred in plotting daModel-3 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/canopyModel.py", line 3, in import scipy.optimize ModuleNotFoundError: No module named 'scipy' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:169: WARNING: Exception occurred in plotting daModel-4 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/canopyModel.py", line 3, in import scipy.optimize ModuleNotFoundError: No module named 'scipy' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:187: WARNING: Exception occurred in plotting daModel-5 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/canopyModel.py", line 3, in import scipy.optimize ModuleNotFoundError: No module named 'scipy' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:207: WARNING: Exception occurred in plotting daModel-6 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/canopyModel.py", line 3, in import scipy.optimize ModuleNotFoundError: No module named 'scipy' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:227: WARNING: Exception occurred in plotting daModel-7 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/canopyModel.py", line 3, in import scipy.optimize ModuleNotFoundError: No module named 'scipy' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:247: WARNING: Exception occurred in plotting daModel-8 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 25 print retval[-3] # Print out the fit parameters ^ SyntaxError: Missing parentheses in call to 'print'. Did you mean print(retval[-3] # Print out the fit parameters)? /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:279: WARNING: Exception occurred in plotting daModel-9 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/phenology.py", line 9, in from osgeo import gdal ModuleNotFoundError: No module named 'osgeo' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:310: WARNING: Exception occurred in plotting daModel-10 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/phenology.py", line 9, in from osgeo import gdal ModuleNotFoundError: No module named 'osgeo' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:343: WARNING: Exception occurred in plotting daModel-11 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/phenology.py", line 9, in from osgeo import gdal ModuleNotFoundError: No module named 'osgeo' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst:377: WARNING: Exception occurred in plotting daModel-12 from /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/daModel.rst: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/envs/latest/lib/python3.6/site-packages/matplotlib/sphinxext/plot_directive.py", line 472, in run_code exec(code, ns) File "", line 1, in File "/home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/python/phenology.py", line 9, in from osgeo import gdal ModuleNotFoundError: No module named 'osgeo' /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/da_basics.rst:2: WARNING: Duplicate explicit target name: "wikipedia". /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/da_basics.rst:2: WARNING: Duplicate explicit target name: "wikipedia". /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/dgvms.rst:2: WARNING: Duplicate explicit target name: "ncar". /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/glossary.rst:15: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/glossary.rst:18: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/glossary.rst:21: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/glossary.rst:24: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/glossary.rst:27: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/glossary.rst:30: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/glossary.rst:33: WARNING: Bullet list ends without a blank line; 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Basic vegetation growth processes ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/docs/checkouts/readthedocs.org/user_builds/ucl-eo-geog0133/checkouts/latest/docs/modelling.rst:120: WARNING: Title underline too short. 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