add cellpsoe v4 container (#610)

* add cellpsoe v4, with gui and gpu support

* remove nvidia cuda

---------

Co-authored-by: Yi Sun <[email protected]>

Author: sunyi000

cellpose/4.0.7/Dockerfile

@@ -0,0 +1,83 @@
+FROM ubuntu:22.04
+
+LABEL base_image="ubuntu:22.04"
+LABEL version="1"
+LABEL software="cellpose"
+LABEL software.version="4.0.7"
+LABEL about.summary="A generalist algorithm for cell and nucleus segmentation."
+LABEL about.home="https://github.com/MouseLand/cellpose"
+LABEL about.license="BSD-3-Clause"
+LABEL about.license_file="https://github.com/MouseLand/cellpose/blob/main/LICENSE"
+LABEL about.documentation="https://cellpose.readthedocs.io/en/latest/"
+LABEL extra.identifiers.biotools=cellpose
+
+MAINTAINER Yi Sun <[email protected]>
+MAINTAINER Florian Wuennemann <[email protected]>
+
+ARG DEBIAN_FRONTEND="noninteractive"
+ARG CELLPOSE_VERSION="4.0.7"
+
+ENV LANG en_US.UTF-8 \
+    LC_ALL en_US.UTF-8 \
+    LANGUAGE en_US:en
+
+ENV MPLCONFIGDIR=/tmp/mpl_cache
+ENV NUMBA_CACHE_DIR=/tmp/numba_cache
+ENV CELLPOSE_LOCAL_MODELS_PATH=/tmp/cellpose_models
+ENV QT_PLUGIN_PATH=/usr/local/lib/python3.10/dist-packages/PyQt6/Qt6/plugins/platforms/
+
+RUN apt-get update -qq && \
+    apt-get install -y -q --no-install-recommends \
+            gcc \
+            python3-dev \
+            python3-pip \
+            python3-wheel \
+            libblas-dev \
+            liblapack-dev \
+            libatlas-base-dev \
+            libgl1 \
+            mesa-utils \
+            libxcb-cursor0 \
+            libxext6 \
+            libxrender1 \
+            libxcb1 \
+            libgl1-mesa-glx \
+            libxcb-xinerama0 \
+            gfortran \
+            apt-utils \
+            bzip2 \
+            ca-certificates \
+            curl \
+            locales \
+            gnupg \
+            libfontconfig1 \
+            libxkbcommon0 \
+            libxkbcommon-x11-0 \
+            libxcb-icccm4 \
+            libxcb-keysyms1 \
+            libxcb-shape0 \
+            software-properties-common \
+            unzip && \
+    apt-get clean && \
+    rm -rf /var/lib/apt/lists/* 
+
+RUN sed -i '/en_US.UTF-8/s/^# //g' /etc/locale.gen && \
+    locale-gen
+
+RUN pip install --no-cache-dir -U pip \
+    numpy \
+    numba>=0.43.1 \
+    wheel \
+    scipy \
+    pyqt6 \
+    pyqt6-qt6 \
+    torch>=1.6 \
+    opencv-python-headless \
+    pyqtgraph>=0.11.0rc0 \
+    natsort \
+    scikit-image matplotlib \
+    scikit-learn \
+    tqdm \
+    tifffile \
+    fastremap \
+    'cellpose[gui]'==$CELLPOSE_VERSION