Merged in theme-integration (pull request #1)

Theme integration

Author: maierj

.buildkite/build.pipeline.yml

@@ -0,0 +1,18 @@
+steps:
+  - label: "Build & Push Staging Docker Image"
+    commands:
+      - echo $$REGISTRY_PASSWORD | docker login adabay.azurecr.io --username $$REGISTRY_USERNAME --password-stdin
+      - docker run --rm -v "$$PWD":/usr/src/app -w /usr/src/app ruby:3.2.2 bash -c "bundle config set --local path '/usr/src/app/vendor' && bundle install"
+      - docker run --rm -v "$$PWD":/usr/src/app -w /usr/src/app ruby:3.2.2 bash -c "bundle config set --local path '/usr/src/app/vendor' && bundle exec jekyll build"
+      - docker build --pull --progress plain -f Staging.Dockerfile -t adabay.azurecr.io/fz-juelich/website/parallel-in-time:latest .
+      - docker push adabay.azurecr.io/fz-juelich/website/parallel-in-time:latest
+      - docker logout adabay.azurecr.io
+    plugins:
+      - adabay/vault-key-value#v0.9.5:
+          secrets:
+            - secret_path: "static/ci/username-password-combinations/adabay.azurecr.io"
+              secret_key: "username"
+              exported_env_variable_name: "REGISTRY_USERNAME"
+            - secret_path: "static/ci/username-password-combinations/adabay.azurecr.io"
+              secret_key: "password"
+              exported_env_variable_name: "REGISTRY_PASSWORD"

.gitignore

@@ -79,3 +79,4 @@ Temporary Items
 
 ### IDEs ###
 .idea/
+.vscode/

Gemfile

@@ -17,6 +17,7 @@ gem 'jekyll-feed'
 gem 'jekyll-sitemap'
 gem 'jekyll-scholar'
 gem 'liquid-tag-parser'
+gem 'bulma-clean-theme'
 # gem 'jekyll-archives'
 
 gem 'jgd'

Gemfile.lock

@@ -1,12 +1,19 @@
 GEM
   remote: https://rubygems.org/
   specs:
-    addressable (2.8.4)
+    addressable (2.8.5)
       public_suffix (>= 2.0.2, < 6.0)
     autoprefixer-rails (10.4.13.0)
       execjs (~> 2)
     bibtex-ruby (6.0.0)
       latex-decode (~> 0.0)
+    bulma-clean-theme (0.13.3)
+      jekyll (>= 3.9, < 5.0)
+      jekyll-feed (~> 0.15)
+      jekyll-paginate (~> 1.1)
+      jekyll-seo-tag (~> 2.7)
+      jekyll-sitemap (~> 1.4)
+      kramdown-parser-gfm (~> 1.1)
     citeproc (1.0.10)
       namae (~> 1.0)
     citeproc-ruby (1.1.14)
@@ -32,7 +39,7 @@ GEM
       forwardable-extended (~> 2.5)
     ffi (1.15.5)
     forwardable-extended (2.6.0)
-    google-protobuf (3.23.4-aarch64-linux)
+    google-protobuf (3.24.0-aarch64-linux)
     http_parser.rb (0.8.0)
     i18n (1.14.1)
       concurrent-ruby (~> 1.0)
@@ -62,6 +69,8 @@ GEM
       citeproc-ruby (~> 1.0)
       csl-styles (~> 1.0)
       jekyll (~> 4.0)
+    jekyll-seo-tag (2.8.0)
+      jekyll (>= 3.8, < 5.0)
     jekyll-sitemap (1.4.0)
       jekyll (>= 3.7, < 5.0)
     jekyll-watch (2.2.1)
@@ -91,11 +100,11 @@ GEM
     rb-inotify (0.10.1)
       ffi (~> 1.0)
     rexml (3.2.6)
-    rouge (4.1.2)
+    rouge (4.1.3)
     safe_yaml (1.0.5)
     sass (3.7.4)
       sass-listen (~> 4.0.0)
-    sass-embedded (1.64.1-aarch64-linux-gnu)
+    sass-embedded (1.64.2-aarch64-linux-gnu)
       google-protobuf (~> 3.23)
     sass-listen (4.0.0)
       rb-fsevent (~> 0.9, >= 0.9.4)
@@ -113,6 +122,7 @@ PLATFORMS
 
 DEPENDENCIES
   autoprefixer-rails
+  bulma-clean-theme
   coffee-script
   jekyll (>= 4.2)
   jekyll-feed

README.md

@@ -15,7 +15,7 @@ We use **docker** to *prevent version* and *system differences*. So please, espe
 #### Run this in your console to update your dependencies
 
 ```bash
-docker run --rm -v "$PWD":/usr/src/app -w /usr/src/app ruby:3.2.2 bash -c "bundle config set --local path '/usr/src/app/vendor' && bundle install"
+docker-compose -f docker-compose-bundle.yml up
 ```
 
 ### Start the live preview of the page
@@ -25,7 +25,7 @@ docker run --rm -v "$PWD":/usr/src/app -w /usr/src/app ruby:3.2.2 bash -c "bundl
 #### Run this in your console to start the local preview
 
 ```bash
-docker run --rm -p 35729:35729 -p 4000:4000 -v "$PWD":/usr/src/app -w /usr/src/app ruby:3.2.2 bash -c "bundle config set --local path '/usr/src/app/vendor' && bundle exec jekyll serve --livereload --host=0.0.0.0"
+docker-compose up
 ```
 
 ## III. Troubleshooting
@@ -49,7 +49,7 @@ If the live preview fails and you don't know the cause, follow these steps:
     - either close the program(s) that need(s) the port(s)
     - or specify another port
 
-    If you want to specify another port, append one of the args to the bash script that the docker container will run:
+    If you want to specify another port go to the docker compose file, append one of the args to the bash script that the docker container will run:
 
     - `--port [YOUR PORT]` (the port where the page is accessible at)
     - `--livereload-port [YOUR PORT]` (the port where the live reload script is accessible at)

Staging.Dockerfile

@@ -0,0 +1,3 @@
+FROM httpd:2.4
+
+COPY --chown=www-data:www-data _site /usr/local/apache2/htdocs/

_codes/libridc.md

@@ -1,11 +1,12 @@
 ---
 layout: page_code
+hide_hero: true
 title: "libridc"
 date: 2015-06-10 16:45 +0200
 updated: 2016-06-10 11:45:00 +0100
 navbar: Codes
 subnavbar: libridc
-logo: 
+logo:
 code_url: http://mathgeek.us/software.html
 language: C++
 github_repo: "ongbw/ridc"
@@ -23,7 +24,7 @@ developers:
 short_desc: A C++ library for RIDC.
 ---
 
-A modern C++ library for the RIDC algorithm. 
+A modern C++ library for the RIDC algorithm.
 
 The libridc is a C++ library which implements the parallel-in-time [RIDC](/methods/ridc.html)
 methods for solving systems of ODEs.

_codes/pararealf90.md

@@ -1,10 +1,11 @@
 ---
 layout: page_code
+hide_hero: true
 title: "PararealF90"
 date: 2015-09-24 16:45 +0200
 navbar: Codes
 subnavbar: pararealf90
-logo: 
+logo:
 code_url: https://github.com/Parallel-in-Time/PararealF90
 language: F90
 github_repo: "Parallel-in-Time/PararealF90"

_codes/pfasst.md

@@ -1,11 +1,12 @@
 ---
 layout: page_code
+hide_hero: true
 title: "PFASST++"
 date: 2014-06-15 16:45 +0200
 updated: 2015-06-03 10:30:00 +0200
 navbar: Codes
 subnavbar: pfasst
-logo: 
+logo:
 code_url: https://github.com/Parallel-in-Time/PFASST
 language: C++
 github_repo: "Parallel-in-Time/PFASST"
@@ -48,12 +49,12 @@ developers:
 short_desc: A C++ library for SDC, MLSDC and PFASST.
 ---
 
-A modern C++ library for the PFASST algorithm. 
+A modern C++ library for the PFASST algorithm.
 
-The PFASST project is a C++ implementation of the parallel full approximation 
-scheme in space and time (PFASST {% cite EmmettMinion2012 %}) algorithm, which in turn is a time-parallel 
+The PFASST project is a C++ implementation of the parallel full approximation
+scheme in space and time (PFASST {% cite EmmettMinion2012 %}) algorithm, which in turn is a time-parallel
 algorithm for solving ODEs and PDEs.
-It also contains basic implementations of the spectral deferred correction (SDC) 
+It also contains basic implementations of the spectral deferred correction (SDC)
 and multi-level spectral deferred correction (MLSDC) algorithms.
 
 {% bibliography --cited %}

_codes/pinttf.md

@@ -1,29 +1,30 @@
 ---
 layout: page_code
+hide_hero: true
 title: "PinT-TF"
 date: 2018-03-09 13:02 +0900
-updated: 2018-03-09 13:02 +0900 
+updated: 2018-03-09 13:02 +0900
 navbar: Codes
-subnavbar: pinttf 
-logo: 
+subnavbar: pinttf
+logo:
 code_url: https://github.com/xjtju/PinT
-language: C++,F90  
-license: MIT 
+language: C++,F90
+license: MIT
 github_repo: "xjtju/PinT"
 developers:
-  - name: Jian Xiao 
-    email: [email protected] 
+  - name: Jian Xiao
+    email: [email protected]
     lead_developer: true
-  - name:  Mikio Iizuka 
-    email: [email protected] 
-  - name: Kenji Ono 
-    email: [email protected] 
-short_desc: A performance and convergency testing framework for Parallel-in-Time methods, currently only for Parareal. 
+  - name:  Mikio Iizuka
+    email: [email protected]
+  - name: Kenji Ono
+    email: [email protected]
+short_desc: A performance and convergency testing framework for Parallel-in-Time methods, currently only for Parareal.
 ---
-In order to quickly explore the applicability of the [Parareal](/methods/parareal.html) algorithm, we have built the very light-weighted framework. As a path finder of applying the parareal algorithm to real-world computing problems, it provides a basic space-time parallel and performance profiling functionalities. 
+In order to quickly explore the applicability of the [Parareal](/methods/parareal.html) algorithm, we have built the very light-weighted framework. As a path finder of applying the parareal algorithm to real-world computing problems, it provides a basic space-time parallel and performance profiling functionalities.
 
 The framework implemented the Parareal skeleton on an uniform mesh(1D/2D/3D), and some common linear solvers and time integrators, including SOR, BiCGStab, Newton-Raphson etc. For running a test, You only need to provide problem-specific stencil code, and then choose a proper combination of solvers. All the parameters controlling the space-time domain division, convergence check, coarsening factor etc. can be predefined through an .INI file, easily be changed and tuned. If some default function cannot be able to support some specific problem, it can be easily be extended by writting a new implementation in problem-specific sub classes.
 
-The framework is mainly written by C++ for good template and extension, most BLAS related calculations is performed by Fortran for performance reason and easy matrix manipulation. It is very light-weighted, the only necessary third library is [inih](https://github.com/benhoyt/inih), a small but excellent .INI file parser. HDF5 output and performance monitoring are also optionally supported by [HDF5](https://www.hdfgroup.org/HDF5) library and [PMLlib](https://github.com/avr-aics-riken/PMlib) respectively.      
+The framework is mainly written by C++ for good template and extension, most BLAS related calculations is performed by Fortran for performance reason and easy matrix manipulation. It is very light-weighted, the only necessary third library is [inih](https://github.com/benhoyt/inih), a small but excellent .INI file parser. HDF5 output and performance monitoring are also optionally supported by [HDF5](https://www.hdfgroup.org/HDF5) library and [PMLlib](https://github.com/avr-aics-riken/PMlib) respectively.
 
-At current release, the code has provided two examples for heat equation and Allen-Cahn equation. We will continue to improve the generality and adaptability of it.  
+At current release, the code has provided two examples for heat equation and Allen-Cahn equation. We will continue to improve the generality and adaptability of it.