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Commit e358d4ab authored by florez_j's avatar florez_j
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Synch with remote repo

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    .gitignore
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    *.pyc
    __pycache__/
    *.h5
    tmp_files/
    *.ipynb
    logs/
    envs/
    hidden.py
    *.pyc
    __pycache__/
    *.h5
    tmp_files/
    *.ipynb
    logs/
    envs/
    hidden.py
    output_files/
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    .gitlab-ci.yml
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    pages:
    stage: deploy
    script:
    - echo "Deploying pre-built HTML..."
    - cp -r docs/build/html public # Copy the pre-built HTML to the public directory
    artifacts:
    paths:
    - public
    only:
    changes:
    - docs/source/** # Run only if files in docs/source/ change
    pages:
    stage: deploy
    script:
    - echo "Deploying pre-built HTML..."
    - cp -r docs/build/html public # Copy the pre-built HTML to the public directory
    artifacts:
    paths:
    - public
    only:
    changes:
    - docs/source/** # Run only if files in docs/source/ change
    - docs/Makefile
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    README.md
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    TODO.md
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    ## TODO
    * Improve file reader for rga txt files (Talk to Thorsten). Example folder contains incosistent rga txt files, there is no unique column separator (, or ).
    * Improve documentation of file reader extensions. Specify PY file reader template with expect input and output and file naming convention.
    ## TODO
    * Improve file reader for rga txt files (Talk to Thorsten). Example folder contains incosistent rga txt files, there is no unique column separator (, or ).
    * Improve documentation of file reader extensions. Specify PY file reader template with expect input and output and file naming convention.
    docs/Makefile
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    # Minimal makefile for Sphinx documentation
    #
    # You can set these variables from the command line, and also
    # from the environment for the first two.
    SPHINXOPTS ?=
    SPHINXBUILD ?= sphinx-build
    SOURCEDIR = source
    BUILDDIR = build
    # Put it first so that "make" without argument is like "make help".
    help:
    @$(SPHINXBUILD) -M help "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O)
    .PHONY: help Makefile
    # Catch-all target: route all unknown targets to Sphinx using the new
    # "make mode" option. $(O) is meant as a shortcut for $(SPHINXOPTS).
    %: Makefile
    @$(SPHINXBUILD) -M $@ "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O)
    # Minimal makefile for Sphinx documentation
    #
    # You can set these variables from the command line, and also
    # from the environment for the first two.
    SPHINXOPTS ?=
    SPHINXBUILD ?= sphinx-build
    SOURCEDIR = source
    BUILDDIR = build
    # Put it first so that "make" without argument is like "make help".
    help:
    @$(SPHINXBUILD) -M help "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O)
    .PHONY: help Makefile
    # Catch-all target: route all unknown targets to Sphinx using the new
    # "make mode" option. $(O) is meant as a shortcut for $(SPHINXOPTS).
    %: Makefile
    @$(SPHINXBUILD) -M $@ "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O)
    docs/build/html/.buildinfo
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    # Sphinx build info version 1
    # This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
    config: 19124d911d3357bfa2d9f6131966b4c9
    tags: 645f666f9bcd5a90fca523b33c5a78b7
    # Sphinx build info version 1
    # This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
    config: 19124d911d3357bfa2d9f6131966b4c9
    tags: 645f666f9bcd5a90fca523b33c5a78b7
    docs/build/html/_modules/index.html
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    <!DOCTYPE html>
    <html class="writer-html5" lang="en" data-content_root="../">
    <head>
    <meta charset="utf-8" />
    <meta name="viewport" content="width=device-width, initial-scale=1.0" />
    <title>Overview: module code &mdash; DIMA 1.0.0 documentation</title>
    <link rel="stylesheet" type="text/css" href="../_static/pygments.css?v=80d5e7a1" />
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    <script src="../_static/js/theme.js"></script>
    <link rel="index" title="Index" href="../genindex.html" />
    <link rel="search" title="Search" href="../search.html" />
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    <p class="caption" role="heading"><span class="caption-text">Contents:</span></p>
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    <li class="toctree-l1"><a class="reference internal" href="../modules/src.html#module-src.hdf5_writer">HDF5 Writer</a></li>
    <li class="toctree-l1"><a class="reference internal" href="../modules/pipelines.html">Pipelines and workflows</a></li>
    <li class="toctree-l1"><a class="reference internal" href="../modules/vis.html">Data Visualization</a></li>
    <li class="toctree-l1"><a class="reference internal" href="../modules/utils.html">Data Structure Conversion</a></li>
    <li class="toctree-l1"><a class="reference internal" href="../modules/notebooks.html">Notebooks</a></li>
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    <div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
    <div itemprop="articleBody">
    <h1>All modules for which code is available</h1>
    <ul><li><a href="pipelines/data_integration.html">pipelines.data_integration</a></li>
    <li><a href="pipelines/metadata_revision.html">pipelines.metadata_revision</a></li>
    <li><a href="src/hdf5_ops.html">src.hdf5_ops</a></li>
    <li><a href="src/hdf5_writer.html">src.hdf5_writer</a></li>
    <li><a href="utils/g5505_utils.html">utils.g5505_utils</a></li>
    <li><a href="visualization/hdf5_vis.html">visualization.hdf5_vis</a></li>
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    <title>Overview: module code &mdash; DIMA 1.0.0 documentation</title>
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    <script src="../_static/js/theme.js"></script>
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    <li class="toctree-l1"><a class="reference internal" href="../modules/vis.html">Data Visualization</a></li>
    <li class="toctree-l1"><a class="reference internal" href="../modules/utils.html">Data Structure Conversion</a></li>
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    <h1>All modules for which code is available</h1>
    <ul><li><a href="pipelines/data_integration.html">pipelines.data_integration</a></li>
    <li><a href="pipelines/metadata_revision.html">pipelines.metadata_revision</a></li>
    <li><a href="src/hdf5_ops.html">src.hdf5_ops</a></li>
    <li><a href="src/hdf5_writer.html">src.hdf5_writer</a></li>
    <li><a href="utils/g5505_utils.html">utils.g5505_utils</a></li>
    <li><a href="visualization/hdf5_vis.html">visualization.hdf5_vis</a></li>
    </ul>
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    \ No newline at end of file
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    .. DIMA documentation master file, created by
    sphinx-quickstart on Wed Jul 10 15:50:06 2024.
    You can adapt this file completely to your liking, but it should at least
    contain the root `toctree` directive.
    Welcome to DIMA's documentation!
    ================================
    .. toctree::
    :maxdepth: 2
    :caption: Contents:
    modules/src
    modules/pipelines
    modules/vis
    modules/utils
    modules/notebooks
    Indices and tables
    ==================
    * :ref:`genindex`
    * :ref:`modindex`
    * :ref:`search`
    .. DIMA documentation master file, created by
    sphinx-quickstart on Wed Jul 10 15:50:06 2024.
    You can adapt this file completely to your liking, but it should at least
    contain the root `toctree` directive.
    Welcome to DIMA's documentation!
    ================================
    .. toctree::
    :maxdepth: 2
    :caption: Contents:
    modules/src
    modules/pipelines
    modules/vis
    modules/utils
    modules/notebooks
    Indices and tables
    ==================
    * :ref:`genindex`
    * :ref:`modindex`
    * :ref:`search`
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