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Add Memray, Change to PyTorch base image #201

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Oct 24, 2024
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Add Memray, Change to PyTorch base image #201

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11 changes: 7 additions & 4 deletions Dockerfile
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Original file line number Diff line number Diff line change
@@ -1,13 +1,16 @@
FROM python:3.11
FROM pytorch/pytorch:latest

USER root

RUN --mount=type=cache,target=/.cache/pip pip install --upgrade pip
RUN --mount=type=cache,target=/.cache/pip pip install ipython memray

RUN --mount=type=cache,target=/root/.cache pip install --upgrade pip
RUN --mount=type=cache,target=/root/.cache pip install ipython

RUN mkdir /app
COPY src/ /app/src/
COPY tox.ini pyproject.toml setup.py setup.cfg LICENSE.txt README.md /app/

RUN --mount=type=cache,target=/root/.cache cd /app && pip install '.[dev,test]' --extra-index-url https://download.pytorch.org/whl/cpu
RUN --mount=type=cache,target=/.cache/pip cd /app && pip install '.[dev,test]'

ENV PYTHONUNBUFFERED=1

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2 changes: 1 addition & 1 deletion pyproject.toml
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Expand Up @@ -3,7 +3,7 @@ name = "bayestme"
version = "1.0.0"
description = "A reference-free Bayesian method that discovers spatial transcriptional programs in the tissue microenvironment"
readme = "README.md"
requires-python = ">=3.11"
requires-python = ">=3.10"
license = {file = "LICENSE.txt"}
keywords = ["spatial", "expression", "rna"]
authors = [
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