Merge pull request #20 from genepattern/binder-fix

Updating requirements + Binder compatibility

Author: edjuaro

README.md

@@ -1,7 +1,7 @@
 # Single-cell RNA-seq Clustering Analysis Notebook
 
 [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.1326657.svg)](https://doi.org/10.5281/zenodo.1326656)
-[![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/genepattern/single_cell_clustering_notebook/master?urlpath=notebooks%2FSingle-Cell%20RNA-seq%20Clustering%20Analysis%20Notebook.ipynb)
+[![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/genepattern/single_cell_clustering_notebook/binder-fix?urlpath=notebooks%2FSingle-Cell%20RNA-seq%20Clustering%20Analysis%20Notebook.ipynb)
 
 Try out the notebook by launching the binder above. It may be slow to launch while it installs package dependencies.
 

Single-Cell RNA-seq Clustering Analysis Notebook.ipynb

@@ -137,6 +137,7 @@
     "\n",
     "import warnings\n",
     "warnings.filterwarnings(\"ignore\", category=FutureWarning)\n",
+    "warnings.filterwarnings(\"ignore\", category=RuntimeWarning)\n",
     "\n",
     "import sys\n",
     "sys.path.append('.')\n",

requirements.txt

@@ -1,13 +1,12 @@
 cmake==0.9.0
-matplotlib==2.0.2
-numpy==1.14.0
-pandas>=0.21.0
-seaborn==0.8.1
-plotly==2.2.1
+matplotlib==3.0.2
+numpy==1.15.0
+pandas==0.23.4
+seaborn==0.9.0
+plotly==2.4.1
 genepattern-notebook>=0.7.1
-ipywidgets==7.1.0
-notebook>=5.2.2
+ipywidgets==7.2.0
+notebook>=5.7.2
 scipy
 louvain==0.6.1
-beakerx==0.11.0
-scanpy==0.4.2
+scanpy==1.3.4