Update README.md

README.md

@@ -18,6 +18,8 @@ Before running Effector-GAN, users should make sure all the following packages a
    **Add iFeature into environment variables (~/.bashrc)** 
    
    ` export PATH=$PATH:/xxxx/xxxx/xxxxx/iFeature`
+   
+   `source ~/.bashrc`
  
 ## **Installation**
 
@@ -30,18 +32,24 @@ Before running Effector-GAN, users should make sure all the following packages a
   `source activate Effector-GAN`
   
  ** For python3.7 **
+ 
+   **pytorch: https://pytorch.org/get-started/previous-versions/**
+   
+    **# CUDA 10.0**
+    
+    conda install pytorch==1.2.0 torchvision==0.4.0 cudatoolkit=10.0 -c pytorch
+    
+    **# CPU Only**
+    
+    conda install pytorch==1.2.0 torchvision==0.4.0 cpuonly -c pytorch
   
-  **If you have GPU  # CUDA 9.2**
+    **If you have GPU  # CUDA 10.0**
   
-  `pip install torch==1.2.0 torchvision==0.4.0 `
+    `pip install torch==1.2.0 torchvision==0.4.0 `
   
-  **If you have GPU CUDA 10.0  **
-    
-  `pip install torch==1.2.0+cu92 torchvision==0.4.0+cu92 -f https://download.pytorch.org/whl/torch_stable.html`
-   
-  **CPU Only python3.7**
+    **CPU Only python3.7**
     
-  `pip install torch==1.2.0+cpu torchvision==0.4.0+cpu -f https://download.pytorch.org/whl/torch_stable.html`
+    `pip install torch==1.2.0+cpu torchvision==0.4.0+cpu -f https://download.pytorch.org/whl/torch_stable.html`
   
  ** other packages** 
    
@@ -49,23 +57,27 @@ Before running Effector-GAN, users should make sure all the following packages a
     pip3 install tape_proteins==0.4 
     pip3 install numpy==1.19.2 
     pip3 install pandas==1.2.0 
-    pip3 install Bio==0.4.1 
+    pip3 install Bio==1.0.2
     pip3 install sklearn
 
 
 ## **Effector-GAN**
 
-  `git@47.109.24.44:wangys_biolab/effector-gan.git`
+    `git clone http://47.109.24.44:4747/wangys_biolab/effector-gan.git`
+  
+    cd effector-gan
 
 ## Input parameters
 
-    Effector-GAN.py -h  
+    python Effector_GAN.py -h  
     $ -i  inputfile in FASTA format  
-    $ -o  output folder
+    $ -o  output csv file
  
 ### usage
 
-  `Effector-GAN.py -i test.fasta -o test_result.csv ` 
+    conda activate Effector-GAN
+    
+  `python Effector_GAN.py -i independent_test_pos.fasta -o test_result.csv ` 
      `
 
 ## WGAN.py