FROM ubuntu:18.04

ENV SHELL=/bin/bash

RUN apt-get update && apt-get install -y git curl

RUN apt-get install -y python3-setuptools python3-dev build-essential python3-pip && apt-get clean

RUN apt-get install -y libsm6 libxext6 libxrender-dev openslide-tools && apt-get clean 

RUN pip3 install cython numpy pandas jupyter

#RUN pip3 install git+https://github.com/DSLituiev/slideslicer

ARG CACHEBUST=2

RUN git clone https://github.com/dslituiev/slideslicer

RUN cd slideslicer/ && pip3 install .

### DOWNLOAD FILES

RUN mkdir data

COPY 14112.* data/

#RUN fileid="1-s87PeyZY2C6ZejCyn4Cy0iYEkTeEFrP" &&\

#  filename=data/14112.svs &&\

#  curl -c ./cookie -s -L "https://drive.google.com/uc?export=download&id=${fileid}" > /dev/null &&\

#  curl -Lb ./cookie "https://drive.google.com/uc?export=download&confirm=`awk '/download/ {print $NF}' ./cookie`&id=${fileid}" -o ${filename} &&\

#  rm cookie

#

#RUN fileid="1JRBfyzeyMdg0WTc2McC_wOiYrXhi4iRx" &&\

#  filename=data/14112.xml &&\

#  curl -c ./cookie -s -L "https://drive.google.com/uc?export=download&id=${fileid}" > /dev/null && \

#  curl -Lb ./cookie "https://drive.google.com/uc?export=download&confirm=`awk '/download/ {print $NF}' ./cookie`&id=${fileid}" -o ${filename} &&\

#  rm cookie

COPY resnet50_mouse_gloms_scale4.h5 data/

RUN ln -s /data slideslicer

RUN pip3 install scikit-learn tensorflow keras

CMD mkdir -p slideslicer/notebooks

CMD cd slideslicer/notebooks && jupyter-notebook --port 8899 --ip=0.0.0.0 --allow-root