anu-rses-education/emsc-4033

Course materials for EMSC4033: Computational Geosciences.

EMSC 4033

Using Jupyterbook

This repository also contains the information for building a jupyterbook using the notebooks that are in the Notebooks directory.

There is some additional configuration to make this work smoothly and you can read what needs to be done in Jupyterbook/README.md

For this example, you can see the online version which is automatically built by github using this repository.

Try out the Nbgitpuller

To make a "binder-like" link to a repository on a droplet that you have set up, you can read the nbgitpuller documentation or fill out a form here:

You can launch this example particular example to try it out by clicking on this link. Your work is persistent.

Administration tasks

Admin users also have access to the hub control panel to shut down wayward servers and add / remove users.

emsc-4033's Issues

Navigation between notebooks on remote

We launch into jupyter (classic) because it keeps things neat but it can be hard to find where to go next.

Exercise 14 (Pandas) requires `xlrd` package

ImportError: Missing optional dependency 'xlrd'. Install xlrd >= 1.0.0 for Excel support Use pip or conda to install xlrd.

Enhancement: Make slides to introduce blocks of notebooks

To have a slide deck that introduces concepts that the students can practice in the notebook exercises or in the tutorials.

Exercise 8 - it is very easy to over-write the sample.dat file

Why don't you make it read only ?

Madhava of Sangamagrama needs an !

The Madhava of Sangamagrama equation requires a factorial on the denominator

deploy-book fails

https://github.com/ANU-RSES-Education/EMSC-4033/runs/2868696182?check_suite_focus=true

@lmoresi any ideas?

Intro text for each section

Currently missing all meaningful content

lavavu and xvfb crashes

There seems to be some race condition between setting up the virtual frame buffer and running the visualisations and it causes a kernel crash.

I am not sure, but it may be sufficient to set up the xvfb calls at the start of the notebook ... this applies to many of the stripy examples.

Add a paragraph on programmable automatic transmissions

https://go4trans.com/technical-transmission-general-articles/valve-body-in-automatic-transmissions.-principles-of-operation.-problems-and-repair-procedures.-valve-body-testing-equipment./

Bug in `Notebooks/Themes/Mapping/8-GlobalPlateMotionsEtc.md `

@fzhang0 claimed that there is a but here:
EMSC-4033/Notebooks/Themes/Mapping/8-GlobalPlateMotionsEtc.md

@fzhang0, could you elaborate a bit on this and mention what you did to fix it?

Exercise 14 - Pandas - Already completed

Hi Louis and Navid,

It appears as though Exercise 14 - Pandas has already been completed- all the outputs are there.

Are you able to reset?

Thanks

Faye

lavavu crashes kernel on jupyterhub

Not sure why ...

Version control discussion is out of date

... and it is broken for use in the cloud.

Need to fix paths and make the examples generic. None of the examples will work well in the nbgitpuller environment

gdal problem (of course) on jupyterhub

ImportError                               Traceback (most recent call last)
<ipython-input-4-a96b51b5655f> in <module>
      1 get_ipython().run_line_magic('matplotlib', 'inline')
      2 
----> 3 import gdal
      4 import cartopy
      5 import cartopy.crs as ccrs

/opt/tljh/user/lib/python3.7/site-packages/gdal.py in <module>
      1 # import osgeo.gdal as a convenience
----> 2 from osgeo.gdal import deprecation_warn
      3 deprecation_warn('gdal')
      4 
      5 from osgeo.gdal import *

/opt/tljh/user/lib/python3.7/site-packages/osgeo/__init__.py in <module>
     19                 fp.close()
     20             return _mod
---> 21     _gdal = swig_import_helper()
     22     del swig_import_helper
     23 else:

/opt/tljh/user/lib/python3.7/site-packages/osgeo/__init__.py in swig_import_helper()
     15         if fp is not None:
     16             try:
---> 17                 _mod = imp.load_module('_gdal', fp, pathname, description)
     18             finally:
     19                 fp.close()

/opt/tljh/user/lib/python3.7/imp.py in load_module(name, file, filename, details)
    240                 return load_dynamic(name, filename, opened_file)
    241         else:
--> 242             return load_dynamic(name, filename, file)
    243     elif type_ == PKG_DIRECTORY:
    244         return load_package(name, filename)

/opt/tljh/user/lib/python3.7/imp.py in load_dynamic(name, path, file)
    340         spec = importlib.machinery.ModuleSpec(
    341             name=name, loader=loader, origin=path)
--> 342         return _load(spec)
    343 
    344 else:

ImportError: libwebp.so.7: cannot open shared object file: No such file or directory

Images not appearing in notebooks of jupyterbook - broken links to originals.

Markdown numbering in `An intro to version control` is buggy

In the section ** Reference links for our class** we see that numbering goes: 1., 2., 1. although the code has 1., 2., 3.

EMSC-4033/Notebooks/FirstSteps/Introduction2VersionControl/1-GettingStartedWithGit.md

Lines 70 to 75 in 1ad03f1

	1. authenticates you (or uses saved credentials)
	2. synchronises the changes you have made with any changes that have been made in the original repository
	- If we add an exercise or some new material, it will be copied into your account
	- If we find a bug and change an existing notebook, the changes will be merged
	- If our changes clash with yours, yours are kept
	3. The page is then displayed and the code is available for you to try.

Python step-by-step Lecture 19 formatting issue

The markdown is a bit badly formatted in the section "The simple pendulum".