diff --git a/.gitattributes b/.gitattributes index 8e68af62..675e3049 100644 --- a/.gitattributes +++ b/.gitattributes @@ -1 +1,3 @@ *.model filter=lfs diff=lfs merge=lfs -text +# GitHub syntax highlighting +pixi.lock linguist-language=YAML linguist-generated=true diff --git a/.gitignore b/.gitignore index 581b63f3..89445e42 100644 --- a/.gitignore +++ b/.gitignore @@ -33,3 +33,7 @@ analyses/cms-open-data-ttbar/metrics # dask dask-worker-space/ + +# pixi environments +.pixi +*.egg-info diff --git a/analyses/cms-open-data-ttbar/README.md b/analyses/cms-open-data-ttbar/README.md index 214d98d7..d1c92fb2 100644 --- a/analyses/cms-open-data-ttbar/README.md +++ b/analyses/cms-open-data-ttbar/README.md @@ -20,11 +20,41 @@ This directory is focused on running the CMS Open Data $t\bar{t}$ analysis throu | utils/config.py | This is a general config file to handle different options for running the analysis. | | utils/hepdata.py | Function to create tables for submission to the [HEP_DATA website](https://www.hepdata.net) (use `HEP_DATA = True`) | +#### Setting up the environment + +##### On Coffea-casa + +1. Install [`pixi`](https://pixi.sh/latest/#installation). +2. From the top level of the entire repository run + +``` +pixi run --environment cms-open-data-ttbar install-ipykernel +``` + +This will install all of the software and create an `ipykernel` that the Coffea-casa Jupyter Lab instance will be able to see. + +3. In the Coffea-casa Jupyter Lab browser, navigate and open up the `analyses/cms-open-data-ttbar/ttbar_analysis_pipeline.ipynb`. +4. Change the kernel of the notebook to be `cms-open-data-ttbar`. + +##### On a local machine + +To get a local Python environment that has all the software required for the analysis: + +1. Install [`pixi`](https://pixi.sh/latest/#installation) on your machine. +2. From the top level of the entire repository run + +``` +pixi run start +``` + +This will install all of the software and launch a Jupyter lab session. +You can then use the file navigator and terminal in Jupyter lab to navigate to this directory to run the analysis. + #### Instructions for paired notebook If you only care about running the `ttbar_analysis_pipeline.ipynb` notebook, you can completely ignore the `ttbar_analysis_pipeline.py` file. -This notebook (`ttbar_analysis_pipeline.ipynb`) is paired to the file `ttbar_analysis_pipeline.py` via Jupytext (https://jupytext.readthedocs.io/en/latest/). Using `git diff` with this file instead of the `.ipynb` file is much simpler, as you don't have to deal with notebook metadata or output images. However, in order for the notebook output to be preserved, the notebook still needs to be version controlled. It is ideal to run `git diff` with the option `-- . ':(exclude)*.ipynb'`, so that `.ipynb` files are ignored. +This notebook (`ttbar_analysis_pipeline.ipynb`) is paired to the file `ttbar_analysis_pipeline.py` via Jupytext (https://jupytext.readthedocs.io/en/latest/). Using `git diff` with this file instead of the `.ipynb` file is much simpler, as you don't have to deal with notebook metadata or output images. However, in order for the notebook output to be preserved, the notebook still needs to be version controlled. It is ideal to run `git diff` with the option `-- . ':(exclude)*.ipynb'`, so that `.ipynb` files are ignored. The `.py` file can also be run as a Python script. diff --git a/pixi.lock b/pixi.lock new file mode 100644 index 00000000..b82322f6 --- /dev/null +++ b/pixi.lock @@ -0,0 +1,23007 @@ +version: 5 +environments: + cms-open-data-ttbar: + channels: + - url: https://conda.anaconda.org/conda-forge/ + indexes: + - https://pypi.org/simple + packages: + linux-64: + - conda: https://conda.anaconda.org/conda-forge/linux-64/_libgcc_mutex-0.1-conda_forge.tar.bz2 + - conda: https://conda.anaconda.org/conda-forge/linux-64/_openmp_mutex-4.5-2_gnu.tar.bz2 + - conda: https://conda.anaconda.org/conda-forge/linux-64/_py-xgboost-mutex-2.0-cpu_0.tar.bz2 + - conda: https://conda.anaconda.org/conda-forge/noarch/annotated-types-0.7.0-pyhd8ed1ab_0.conda + - conda: https://conda.anaconda.org/conda-forge/noarch/asttokens-2.4.1-pyhd8ed1ab_0.conda + - conda: https://conda.anaconda.org/conda-forge/noarch/attrs-24.2.0-pyh71513ae_0.conda + - conda: https://conda.anaconda.org/conda-forge/linux-64/awkward-1.10.3-py39h227be39_0.conda + - 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