Hi,

Some tutorial notebooks have this LaTeX rendering issue:

These are the notebooks that I see the problem:

• http://www.emma-project.org/v2.5.5/generated/05-pcca-tpt.html
• http://www.emma-project.org/v2.5.5/generated/07-hidden-markov-state-models.html

Apparently, the absolute path of the Travis build is used (/home/travis/...) instead of the relative path to the current page.

For example, Fs Peptide (in RAM) links (in the bottom) to [this page](http://msmbuilder.org/home/travis/build/msmbuilder/msmbuilder/docs/_build/html/examples/Fs-Peptide-in-RAM/Fs-Peptide-in-RAM.ipynb

With the latest version of tensorflow (2.0), the function tf.to_float() is no longer implemented.
This results in an error when compiling the model in the 1D_double_well.ipynb tutorial:

AttributeError: module 'tensorflow' has no attribute 'to_float'

In the previous version 1.15

When we call markovchainFit with the laplace or bootstrap method, it should warn us that the method is not available for a list. For example:

c1<-c("a","b","c","c","e") 
c2<-c("a","b","d","e") 
c3<-c("a","c","b","c","d") 
c4<-c("a","b","b","d","b","c","d","e") 
c5<-c("a","c","c","d","d") 
c6<-c("a","c","d","d","b","b","e") 

mylist<-list(c1,c2,c3,c4,c5,c6) 
mylistMc<-markovch

In vignette c_homogeneous, the output to

summary(res_mod,
        threshold = c(1000, 5000, 6000, 1e4))

has a Differences: panel.

It's not be clear that values are in units of 1 x 1000.

Suggest editing summary() printout to reflect units.

The simple test in the README doesn't work:

run a simple test

cd adaptive/tests/
python test_simple.py

1. The directory name is wrong. It should be 'adaptivemd/tests/'
2. The MongoDB database has to be running, which is not mentioned.
3. It generates an assertion error:

(python2) macbook>python ./test_simple.py
changed state to booting
changed state to running
task succeeded
re

Add a section to showcase papers that use this software.

The docs build on readthedocs is failing.

This is due to the projects dependencies being built along with the docs. More info here: https://docs.readthedocs.io/en/latest/guides/build-using-too-many-resources.html