Reproducibility example notebook

[JANHMS]

Hello @hzc363 ,

I wanted to try your package and hence I was running through the example notebook, as it is written in the README. However I am not able to reproduce the notebook.
It is not possible to access the data form the provided like:

##### Step 2: load data #####

#Download data
tutorial_files = ! ls Data
if "allData.obj" not in tutorial_files:
    print("Downloading Data:")
    ! wget https://ucsf.box.com/shared/static/tn8m9hco3f3gugn7z394yzimvtfdg129.obj -O ./Data/allData.obj

There is a allData.obj provided within the repository, but this is different then the allData.obj, which has been used in the notebook.

allData = pickle.load( open( "Data/allData.obj", "rb" ) )
allData.keys()

results in dict_keys(['cytof_files', 'expr_list', 'marker_names']).

Which looks like this:

First 5 rows of metaData: 
          name study_accession  CMV_Ab
0  sample1.fcs          study1    True
1  sample2.fcs          study2   False
2  sample3.fcs          study3    True 

Dimensions of cytoData:  (3, 10000, 24, 1) 

Names of the 27 makers: 
 ['CD57' 'CD19' 'CD45RA' 'CD4' 'CD8' 'CD20' 'CD16' 'CD127' 'CD123' 'CXCR5'
 'CD86' 'CD27' 'CD11C' 'CD14' 'CD56' 'CCR6' 'CD25' 'CCR7' 'CD3' 'CD38'
 'CD161' 'CXCR3' 'HLADR' 'CD11B']

Could you provide the correct data, so that the notebook is reproducible ? :-)