Mandrake v1.2.3: GPU compile

Fixes a flag exporting the GPU code, used on conda

What's Changed

• Update the citation and logo by @johnlees in #32
• Vendor boost lib by @richfitz in #33
• Allow one to set CUDAARCHS. by @ccoulombe in #36
• Simplify and fix CI by @johnlees in #38
• Add readthedocs config file by @johnlees in #42
• Add GPU_AVAILABLE macro to makefile for conda by @absternator in #45

New Contributors

• @richfitz made their first contribution in #33
• @ccoulombe made their first contribution in #36
• @absternator made their first contribution in #45

Full Changelog: v1.2.2...v1.2.3

v1.2.2: Update to sketchlib v2

This version supports pp-sketchlib v1.7.x and v2.0.0, and enables GPU support if these dists are used.

What's Changed

• Change pp-sketchlib calls to kwargs by @johnlees in #31

Full Changelog: v1.2.1...v1.2.2

v1.2.1: Package fixes

These are currently a patch in the draft recipe (conda-forge/staged-recipes#16376), but this will pull the fixes into the package.

There are two further changes:

• The SGD was broken on the GPU as eta was not being decreased due to a stupid pointer error
• Sound for the animation no longer uses the squaring transform (so is higher pitched)

v1.2.0: Animation version

This version primarily tweaks the animation output for better videos. There are also some package changes to work better with conda-forge. Changes are as in #27:

• More robust when labels provided are wrong
• Add Makefile for conda-forge issues
• seed also sets label colours
• Scale plot before running HDBSCAN for more consistent results across datasets
• Start embedding on a unit circle rather than square
• Remove template on sce_results (always use doubles, cast in the destride if fp32 used with CUDA)
• Add ability to add sound to the animation
• Reduce the number of H<->D memcpy and remove host callback from CUDA graph. As this is only called occasionally it speeds inter-kernel time up a lot.
• Make the animation screen shaped, change the colour scheme, add a legend.

v1.1.0: Paper version

This is the version we used for the analysis in the accompanying manuscript.

Changes from v1:

• Fix a memory error in the seeding. Doesn't affect function, but can cause a crash #24
• Fix to discrete draws. May cause some issues with SCE, but was evened out by stochastic nature as most draws correct #24
• Fix use of accessory matrix in python code #24
• Various changes to plots #24 #25
• Small bug fixes in pairsnp (returning a few too many distances) #25
• Fix pairsnp progress meter #25
• Allow Ctrl-C during pairsnp run #25
• Deterministic label colours in plot with --labels #25

v1.0.0: Initial release

First version of mandrake, used for the analysis in the manuscript