Test all 2022 echoshader features

[leewujung]

The first step for getting back to the development is to revamp and test all 2022 echoshader features.

The tests should run both locally and on EC2.

@ldr426 : please list in comments below what you have tested and document what works and what doesn't (and what the problem or suspected problem is if it does not work).

Functions Tested List

Tesing data:
Ship (10 days, 2017-07-24 to 2017-08-02)
Range meter bin = 5m
Ping time bin = 1800s

Simple Hist

Echogram for single gram

Box Select

Echogram for multiple grams

Statistic Table in Echostats

Statistic histogram(single, overlay, layout) in Echostats

Map in Echomap

Curtain in Echomap

[ldr426]

Problem 1 (Solved)

Jupyter could not render holoviews/bokeh pictures correctly.

Possible Cause

Browser may not specify bokeh version, which causes some conflict.

Temporary soltution

Do not specify hv.extension('bokeh').
Make sure to install jupyter_bokeh after installing jupyter or ipykernel.
mamba install jupyter_bokeh
Suggestion: VS code has less corresponding time.

[ldr426]

Problem 2 (Not Solved)

When using invert_yaxis = True, echogram does not show immediately.
You can see the gram after scrolling down along the y-axis. But the value on the axis is not correct.

Possible Cause

From the package holoviews itself.
Some guys also encounter this problem.
holoviz/holoviews#5727
The old version does not have this problem.

Temporary Solution

Do not use the option invert_yaxis. There must be approach to invert y-axis correctly, which needs to be dived into later.

Also update code involving plotting or getting data from box

Need to change:

[ldr426]

Problem 3 (Solved)

There is no box select in tool bar.

Possible Cause

Unknown. In the old version, the tool icon appears in default.

Solution

Explicitly claim this tool in options

[ldr426]

Problem 4 (Not be solved)

Errors below appear when running echogram.

Possible Cause

May come from rasterize

Solution

No impact much on running. Not emergent. Need to be checked later.

[ldr426]

Problem 5 (Not be solved)

Errors below appear when tunning control widgets on panel.

Possible Caues

May come from conflict bewtwen different controlled grams.
One control panel is responsible for multiple grams.

Solution

No impact much on running. Not emergent. Need to be checked later.

[ldr426]

Problem 6 (solved on June 2)

No color map rendering when plotting 3D curtain.

Possible Caues

Unknown.

Solution

Need to update map and curtain at once before colormap renders

[ldr426]

Problem 7 (Solved)

No hover tool when plotting overlay gram+box.

Possible Caues

Unkown

Soultion

Explicitly declare hover tool in holoviews opt.

[ldr426]

Problem 8 (Solved)

No pyvista shown in EC2

Cause

ImportError: libGL
or
pyvista/pyvista#177

Solution

in Ubuntu
sudo apt install libgl1-mesa-glx
When running jupyter:

import pyvista
pyvista.start_xvfb()

or
https://docs.pyvista.org/version/stable/getting-started/installation.html#running-on-remote-servers

[ldr426]

Problem 9 (Solved on Jun 2)

Could not dynamically update 3D curtain

Cause

Unknown.

Possible Solution

Do below change in view_curtain method in Echomap class

[hoxbro]

Problem 1: is caused by an upstream change in Jupyter, ref: holoviz/holoviews#5699 (comment). We have tried to reduce this by setting inline=False in 1.16.1.

Problem 4: It seems like a bug in Holoviews. If possible, please report it with a MRE.

Problem 9: This was a bug in Panel and is fixed in the latest release (1.1).

[leewujung]

Great @ldr426 that you have a list of all the problems and causes and solutions for a subset of them in #92. I think we can close this issue now. I'm putting the "good future ref" label so that we can come back to them once the refactoring is done.