Initial commit

.github/ISSUE_TEMPLATE/bug_report.md

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+---
+name: Bug report
+about: Create a report to help us improve
+title: ''
+labels: ''
+assignees: ''
+
+---
+
+**Describe the bug**
+A clear and concise description of what the bug is.
+
+**To Reproduce**
+Steps to reproduce the behavior:
+1. Go to '...'
+2. Click on '....'
+3. Scroll down to '....'
+4. See error
+
+**Expected behavior**
+A clear and concise description of what you expected to happen.
+
+**Screenshots**
+If applicable, add screenshots to help explain your problem.
+
+**Desktop (please complete the following information):**
+ - OS: [e.g. iOS]
+ - Browser [e.g. chrome, safari]
+ - Version [e.g. 22]
+
+**Smartphone (please complete the following information):**
+ - Device: [e.g. iPhone6]
+ - OS: [e.g. iOS8.1]
+ - Browser [e.g. stock browser, safari]
+ - Version [e.g. 22]
+
+**Additional context**
+Add any other context about the problem here.

.github/ISSUE_TEMPLATE/feature_request.md

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+---
+name: Feature request
+about: Suggest an idea for this project
+title: ''
+labels: ''
+assignees: ''
+
+---
+
+**Is your feature request related to a problem? Please describe.**
+A clear and concise description of what the problem is. Ex. I'm always frustrated when [...]
+
+**Describe the solution you'd like**
+A clear and concise description of what you want to happen.
+
+**Describe alternatives you've considered**
+A clear and concise description of any alternative solutions or features you've considered.
+
+**Additional context**
+Add any other context or screenshots about the feature request here.

.gitignore

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+# Ignore the contents of the _site directory and other cache directories
+_site/
+.sass-cache/
+
+# Ignore the directory for local files during development
+local/
+
+# Ignore the Gemfile that is generated
+Gemfile.lock
+
+# Ingore files created by npm
+node_modules
+package-lock.json

CONTRIBUTING.md

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+Contributions are welcome! 
+
+Please add issues and make pull requests. There are no stupid questions. All ideas are welcome. This is a volunteer project. Be excellent to each other.
+
+Bug reports and feature requests to the template  should be [submitted via GitHub](https://github.com/academicpages/academicpages.github.io/issues/new/choose). For questions concerning how to style the template, please feel free to start a [new discussion on GitHub](https://github.com/academicpages/academicpages.github.io/discussions).
+
+Fork from master and go from there. Remember that this repository is intended to remain a generic, ready-to-fork template that demonstrates the features of academicpages.
+

Dockerfile

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+# Base image: Ruby with necessary dependencies for Jekyll
+FROM ruby:3.2
+
+# Install dependencies
+RUN apt-get update && apt-get install -y \
+    build-essential \
+    nodejs \
+    && rm -rf /var/lib/apt/lists/*
+
+# Set the working directory inside the container
+WORKDIR /usr/src/app
+
+# Copy Gemfile into the container (necessary for `bundle install`)
+COPY Gemfile ./
+
+# Install bundler and dependencies
+RUN gem install bundler:2.3.26 && bundle install
+
+# Expose port 4000 for Jekyll server
+EXPOSE 4000
+
+# Command to serve the Jekyll site
+CMD ["bundle", "exec", "jekyll", "serve", "--host", "0.0.0.0", "--watch"]
+

Gemfile

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+source 'https://rubygems.org'
+
+group :jekyll_plugins do
+  gem 'jekyll'
+  gem 'jekyll-feed'
+  gem 'jekyll-sitemap'
+  gem 'jekyll-redirect-from'
+  gem 'jemoji'
+  gem 'webrick', '~> 1.8'
+end
+
+gem 'github-pages'

LICENSE

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+The MIT License (MIT)
+
+Copyright (c) 2016 Michael Rose
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.

README.md

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+# Academic Pages
+**Academic Pages is a Github Pages template for academic websites.**
+
+![Academic Pages template example](images/homepage.png "Academic Pages template example")
+
+# Getting Started
+
+1. Register a GitHub account if you don't have one and confirm your e-mail (required!)
+1. Click the "Use this template" button in the top right.
+1. On the "New repository" page, enter your repository name as "[your GitHub username].github.io", which will also be your website's URL.
+1. Set site-wide configuration and add your content.
+1. Upload any files (like PDFs, .zip files, etc.) to the `files/` directory. They will appear at https://[your GitHub username].github.io/files/example.pdf.
+1. Check status by going to the repository settings, in the "GitHub pages" section
+1. (Optional) Use the Jupyter notebooks or python scripts in the `markdown_generator` folder to generate markdown files for publications and talks from a TSV file.
+
+See more info at https://academicpages.github.io/
+
+## Running locally
+
+When you are initially working your website, it is very useful to be able to preview the changes locally before pushing them to GitHub. To work locally you will need to:
+
+1. Clone the repository and made updates as detailed above.
+1. Make sure you have ruby-dev, bundler, and nodejs installed
+
+    On most Linux distribution and [Windows Subsystem Linux](https://learn.microsoft.com/en-us/windows/wsl/about) the command is:
+    ```bash
+    sudo apt install ruby-dev ruby-bundler nodejs
+    ```
+    On MacOS the commands are:
+    ```bash
+    brew install ruby
+    brew install node
+    gem install bundler
+    ```
+1. Run `bundle install` to install ruby dependencies. If you get errors, delete Gemfile.lock and try again.
+1. Run `jekyll serve -l -H localhost` to generate the HTML and serve it from `localhost:4000` the local server will automatically rebuild and refresh the pages on change.
+
+If you are running on Linux it may be necessary to install some additional dependencies prior to being able to run locally: `sudo apt install build-essential gcc make`
+
+## Using Docker
+
+Working from a different OS, or just want to avoid installing dependencies? You can use the provided `Dockerfile` to build a container that will run the site for you if you have [Docker](https://www.docker.com/) installed.
+
+Start by build the container:
+
+```bash
+docker build -t jekyll-site .
+```
+
+Next, run the container:
+```bash
+docker run -p 4000:4000 --rm -v $(pwd):/usr/src/app jekyll-site
+```
+
+# Maintenance
+
+Bug reports and feature requests to the template should be [submitted via GitHub](https://github.com/academicpages/academicpages.github.io/issues/new/choose). For questions concerning how to style the template, please feel free to start a [new discussion on GitHub](https://github.com/academicpages/academicpages.github.io/discussions).
+
+This repository was forked (then detached) by [Stuart Geiger](https://github.com/staeiou) from the [Minimal Mistakes Jekyll Theme](https://mmistakes.github.io/minimal-mistakes/), which is © 2016 Michael Rose and released under the MIT License (see LICENSE.md). It is currently being maintained by [Robert Zupko](https://github.com/rjzupkoii) and additional maintainers would be welcomed.
+
+## Bugfixes and enhancements
+
+If you have bugfixes and enhancements that you would like to submit as a pull request, you will need to [fork](https://docs.github.com/en/pull-requests/collaborating-with-pull-requests/working-with-forks/fork-a-repo) this repository as opposed to using it as a template. This will also allow you to [synchronize your copy](https://docs.github.com/en/pull-requests/collaborating-with-pull-requests/working-with-forks/syncing-a-fork) of template to your fork as well.
+
+Unfortunately, one logistical issue with a template theme like Academic Pages that makes it a little tricky to get bug fixes and updates to the core theme. If you use this template and customize it, you will probably get merge conflicts if you attempt to synchronize. If you want to save your various .yml configuration files and markdown files, you can delete the repository and fork it again. Or you can manually patch.
+
+---
+<div align="center">
+
+![pages-build-deployment](https://github.com/academicpages/academicpages.github.io/actions/workflows/pages/pages-build-deployment/badge.svg)
+[![GitHub contributors](https://img.shields.io/github/contributors/academicpages/academicpages.github.io.svg)](https://github.com/academicpages/academicpages.github.io/graphs/contributors)
+[![GitHub release](https://img.shields.io/github/v/release/academicpages/academicpages.github.io)](https://github.com/academicpages/academicpages.github.io/releases/latest)
+[![GitHub license](https://img.shields.io/github/license/academicpages/academicpages.github.io?color=blue)](https://github.com/academicpages/academicpages.github.io/blob/master/LICENSE)
+
+[![GitHub stars](https://img.shields.io/github/stars/academicpages/academicpages.github.io)](https://github.com/academicpages/academicpages.github.io)
+[![GitHub forks](https://img.shields.io/github/forks/academicpages/academicpages.github.io)](https://github.com/academicpages/academicpages.github.io/fork)
+</div>