Update README.md

README.md

@@ -10,16 +10,17 @@ This is the code repository for OctSurf: Efficient Hierarchical Voxel-based Mole
 ```angular2
 cd pdbbind
 bash data_download.sh
+cd ..
 ```
 
 #### Set-up enviroment
 ```angular2
 # compile java
 cd pdbbind/java
 javac -cp cdk-2.3-SNAPSHOT.jar Surface_for_single.java
+cd ../..
 
 # compile cpp
-cd ../../
 cd octree/external && git clone --recursive https://github.com/wang-ps/octree-ext.git
 cd .. && mkdir build && cd build
 cmake ..  && cmake --build . --config Release
@@ -30,27 +31,31 @@ conda create -n OctSurf_env tensorflow-gpu==1.14.0
 conda activate OctSurf_env
 conda install -c conda-forge yacs tqdm
 pip install -U openbabel
-
 cmake .. -DUSE_CUDA=ON && make
-
 cd ../../tensorflow/libs
 python build.py
+cd ../../
 ```
 
 #### Octree Generation Example
 ```angular2
 cd pdbbind/data_folder/refined-set/1a1e
 bash ../octree_for_single.sh
+cd ../../../..
 
 # visualization
 pip install vtk
-cd ../../../../visualize octree_parse.py
+cd visualize
+python octree_parse.py
+cd ../
 ```
 #### CNN modeling
 
 - prepare the data 
 ```angular2
+cd pdbbind
 bash data_prepare_model.sh
+cd ..
 ```
 - train model 
 ```angular2