Mud-examples

new linear example where we study the spectrum of the updated covariance as a function of the number of measurements used per QoI.

feature request from Troy to show convergence plots with distance to "best estimate" from initial samples since there is no "true" parameter in this problem.

this release introduces a lot of breaking changes (not backwards compatible at all) in the interest of cleaning up syntax and supporting the ability to specify a prior/initial independent of a sampling distribution used to evaluate samples. The concept of "sample_dist" is used to refer to the distribution which was used to evaluate the model. "dist" refers to the prior distribution. New args are "loc" and "scale" which are used for scipy's distributions to set the prior to one's choosing. "tolerance" used to refer to measurement tolerance (precision of sensor), and now has been replaced with "precision" or "-p" with "-t" and "tolerance" used exclusively to refer to the parameter which is used to define the standard deviation of the sampling distribution when it is set to be normal. Tolerance in this context refers to the support of the prior/initial. File format is pde_{dim}D/{1000*tol}_{dim}{dist}.pkl

convergence plots for ode were missing labels in previous release, not plotting comparison properly with MAP. the x-axis was also mis-labeled. figures now all saved to one directory.

now all the examples will be generated.

suppress plt.show