Issue 6 use npm

[skymandr]

In this PR the external dependencies are moved to npm (first part of #6). This includes

• js files
• css files
• fonts

The build has been moved to js/somlib for both the new som.js and the old ccc.js as well as their associated build files, in order to get a simpler Docker build (and .gitignore). System tests have been updated accordingly.

The javascript code has also been updated thoroughly to conform with modern code standards, but functionally there are very few changes. Unfortunately it is not all the way to #62 being feasible. In addition a few dependencies have been updated, but the brunt of that work remains (second part of #6).

[local-minimum]

Errors on Compile view:

• CSS

• Console has a lot of errors

• Noting happens on submit

[local-minimum]

Errors on on Scan view:

• focus to Description field cause console error
• Age change causes console errors
• Time from pinning to experiment causes console errors
• Doesn't show CCC calibration, analysis page does so should not be an issue

[local-minimum]

Analysis Page:

• No message on submit analysis (not chained)

[local-minimum]

Feature Extraction

• Erasing /root text in analysis folder causes console error

[local-minimum]

QC (Can't check much since):

• Uncaught TypeError: som.Spinner is not a constructor

[local-minimum]

Fixtures:

• General CSS issues
• Uncaught TypeError: som.setsharedvalue is not a functio
• Uncaught TypeError: _jquery2.default(...)[0] is undefined attempting to detect markers on fixture

[skymandr]

• QC: Uncaught TypeError: som.Spinner is not a constructor

Fixed

• Fixtures: Uncaught TypeError: som.setsharedvalue is not a function

Fixed

• Fixtures: Uncaught TypeError: _jquery2.default(...)[0] is undefined attempting to detect markers on fixture

Not sure how to reproduce.

• Feature extract: Erasing /root text in analysis folder causes console error

Cannot reproduce.

• Analysis: No message on submit analysis (not chained)

Cannot reproduce (or I don't understand the problem – I get a popup and am redirected to status)

• Experiment/Scan: Doesn't show CCC calibration, analysis page does so should not be an issue

Cannot reproduce (or I don't understand the problem – it is shown for me, it seems)

• Compile: Not[h]ing happens on submit

Cannot reproduce (or I don't understand the problem – I get a popup)

• Compile/General: Console has a lot of errors

I have fixed a lot of those.

• General: CSS

Not sure it is the right solution, but I have tweaked the css. The problem is with a conflict between bootstrap etc. and our own css. Previously, not all pages imported any external css, now they do if you include the som.js or ccc.js.

• [x] Experiment/Scan: Age change causes console errors
• [x] Experiment/Scan: Time from pinning to experiment causes console errors

These have been fixed.

• [x] Experiment/Scan: focus to Description field cause console error

The problem was this. Changing from arrow functions to named functions resolved the problem.

[local-minimum]

I've found what I've managed to spot, any issues remaining we'll have to deal with as separate bugs.