Datasets:
Catherine Stones
cathy-stones/
BIRL
0
Downloads: 1
[853718]: / bm_ANHIR / Dockerfile

Download this file

69 lines (57 with data), 2.4 kB 

 1
 2
 3
 4
 5
 6
 7
 8
 9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
#FROM ubuntu:16.04

FROM python:3.7-slim-stretch

#FROM borda/docker_python-opencv-ffmpeg:py3



LABEL maintainer="jiri.borovec@fel.cvut.cz"



# Install packages

RUN apt-get update -qq && apt-get install -y --no-install-recommends \

        git>=2.0 \

        gcc>=5.1 \

        tk-dev>=8.5 \

#        python-dev \

#        python-tk \

#        pkg-config \

# not needed as no images are loade/saved

#        openslide-tools \

    && \

    apt-get clean && \

    rm -rf /var/lib/apt/lists/* && \



# Setting according Grand-Challenges

    groupadd -r evaluator && \

    useradd -m --no-log-init -r -g evaluator evaluator && \

    mkdir -p /opt/evaluation /input /output && \

    chown evaluator:evaluator /opt/evaluation /input /output \

    && \



# for Ubuntu instalation

#    wget https://bootstrap.pypa.io/get-pip.py --progress=bar:force:noscroll && python get-pip.py && \



# neeeded for openslide installing failer

    pip install "setuptools<46.0" && \

# Install BIRL package

    pip install --upgrade --force-reinstall --no-cache-dir git+https://github.com/Borda/BIRL.git>=0.2.4 && \

#    pip install --upgrade --force-reinstall --no-cache-dir git+https://github.com/Borda/BIRL.git@devel && \



# Clean image from not needed packages

    apt-get -y remove \

        gcc \

        git \

    && \

    apt-get autoremove -y && \

    apt-get clean \

    && \



    python -c "import birl; print(birl.__version__)"



USER evaluator

WORKDIR /opt/evaluation



ENV PATH="/home/evaluator/.local/bin:${PATH}"



# Coppy required files

COPY --chown=evaluator:evaluator ./evaluate_submission.py /opt/evaluation/

COPY --chown=evaluator:evaluator ./dataset_ANHIR/dataset_medium.csv /opt/evaluation/dataset.csv

COPY --chown=evaluator:evaluator ./dataset_ANHIR/computer-performances_cmpgrid-71.json /opt/evaluation/computer-performances.json

COPY --chown=evaluator:evaluator ./dataset_ANHIR/landmarks_user_phase2 /opt/evaluation/lnds_provided

COPY --chown=evaluator:evaluator ./dataset_ANHIR/landmarks_all /opt/evaluation/lnds_reference



# Define execution

ENTRYPOINT "python" "evaluate_submission.py" \

    "--path_experiment" "/input" \

    "--path_table" "/opt/evaluation/dataset.csv" \

    "--path_dataset" "/opt/evaluation/lnds_provided" \

    "--path_reference" "/opt/evaluation/lnds_reference" \

    "--path_comp_bm" "/opt/evaluation/computer-performances.json" \

    "--path_output" "/output" \

    "--min_landmarks" 1.0