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Resolve errors in validation/tests #52

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merged 8 commits into from
Aug 23, 2020

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notZaki
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@notZaki notZaki commented Aug 23, 2020

This PR makes the following changes:

  • Changed the RNG seed to pass tests on Julia 1.5 (resolves possible test failure in upcoming Julia version 1.5 #50)
    • New seed was chosen by trying random values until the tests passed
    • The new seed will cause tests on Julia 1.0 to fail. Perhaps the test thresholds should be loosened or a different metric that is less sensitive to the noise seed could be used
  • Removed the PyPlot-check which was introduced in No longer need *noisy.mat files or PyPlot #40 and was intended to make PyPlot an optional dependency (resolves Error when running validate(). #51)
    • Julia 1.0+ will always install PyPlot, so there is no point in checking if PyPlot is installed
  • Some of the syntax in the demo/plotting code was updated for Julia 1.0+
    • These went undetected because demo/plotting is not part of the testing suite
  • Added demo/plotting to the testing suite (resolves previous point)
    • The demo would sometimes fail on travis because of Inf/NaN concentration. I am setting these non-finite values to zero for now, but ideally those voxels should be masked out in the future.
  • Fixed Coveralls not being updated because of an error in the travis config

@davidssmith
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What changed in Julia 1.5 that has changed the output of the PRNG for a given seed value?

This seems like a bad thing. The point of the seed is to make the PRNG always give the same values for reproducibility.

@davidssmith
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davidssmith commented Aug 23, 2020

Apparently it is this: JuliaLang/julia#35078

I think the way you fixed it is correct, and hopefully these people will not change something so fundamental again. Changing the output of the PRNG for a given seed in a stable version of the language is VERY tacky.

@davidssmith davidssmith merged commit e0bcf63 into davidssmith:master Aug 23, 2020
@notZaki notZaki deleted the bringbackplots branch August 23, 2020 17:40
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Error when running validate(). possible test failure in upcoming Julia version 1.5
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