Simple option to download entire worksheet and/or figures

[veitveit]

Saving the jupyter notebook includes all the code (I added latex and pandoc to the protprotocols_template, so you might need to recompile the image).

Using the hide_code download option does not work (strange error "Ordinal not in range")

It will be easy to provide all figures in pdf/svg/png but the entire sheet not.

I suggest to do these:

• automatically create pdf of all figures and also create and add single figures in svg and png to subfolder (will be done by @veitveit)
• find out how to save the notebook without code

[veitveit]

Now all figures are also available in png and pdf.

The export of the entire notebook is tricky as the menu button throws an error. When running the conversion on command line, then it works but still looks very ugly as a) jupyter widgets do not show and b) some parts become extremely large such as the bar for reading an mgf file in R

I will drop the milestone and we can leave this points for later.

This is how I created the pdf of the notebook in the notebook: ` %%bash jupyter nbconvert --to hide_code_pdf Example.ipynb

`

[jgriss]

Scheduled for the next version since I believe that this feature will be important to add the actually used protocol to a paper as supplementary materials