update docker file and Readme

Author: flomock

Dockerfile

@@ -1,16 +1,15 @@
 FROM continuumio/miniconda3
-ENV VERSION 0.2
+ENV VERSION 0.3
 ENV TOOL epidope
 
 RUN apt update && apt install -y make g++ procps wget gzip && apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/*
 
 RUN conda config --add channels conda-forge && \
     conda config --add channels flomock && \
-    conda config --add channels pytorch && \
     conda config --add channels default
 
-RUN conda install -y python=3.7 pip $TOOL=$VERSION h5py=2.10 jsonnet && conda clean -a
-RUN pip install allennlp==0.9.0
-RUN pip install docutils==0.15
+RUN conda install mamba
+RUN mamba install -y python=3.6 $TOOL=$VERSION
+RUN mamba clean -ay
 
 ENTRYPOINT ["epidope"]

README.md

@@ -16,7 +16,7 @@ Prediction of B-cell epitopes from amino acid sequences using deep neural networ
 3. Create new repository and install epidope via mamba 
 
     ```bash
-    mamba install -c flomock -c conda-forge epidope
+    mamba create -n epidope -c flomock -c conda-forge epidope
     ```
    Note: While installation the loading bar of EpiDope may not work. So depending on your internet connection, it can take from a few seconds too minutes until you see any progress.
 

conda.recipe/meta.yaml

@@ -9,7 +9,7 @@ source:
   path: ../
 
 build:
-  number: 1
+  number: 2
   noarch: python
 #  script: python setup.py install --single-version-externally-managed --record=record.txt
   script: python -m pip install --no-deps --ignore-installed .

setup.py

@@ -6,7 +6,7 @@
 
 setup(
     name='EpiDope',
-    version=0.2,
+    version=0.3,
     description="Prediction of B-cell epitopes from amino acid sequences using deep neural networks. ",
     license="MIT",
     author="Florian Mock, Maximilian Collatz",