Merge pull request #212 from openproblems-bio:revert-199-docs/v2/update

Revert #199

Author: scottgigante-immunai

CHANGELOG.md

@@ -1,41 +1,3 @@
-# openproblems.bio v2.2.0
-
-Documentation was added for future OpenProblems v2. This is still in development and the main focus was on how to contribute to already existing tasks in OpenProblems v2.
-
-## NEW FUNCTIONALITY
-
-### Documentation (#199)
-
-* Add intro text to documentation.
-
-* Add `contribute` intro and pages.
-
-* `contribute/Requirements`: Describes how to set up your system to start contributing.
-
-* `contribute/Getting started`: Describes how to get started with contributing.
-
-* `contribute/Add a dataset`: Describes how to create a new dataset loader.
-
-* `contribute/Add a method`: Describes how to create a new method for an existing task.
-
-* `contribute/Add a baseline`: Describes how to create a new control method for an existing task.
-
-* `contribute/Add a metric`: Describes how to create a new metric for an existing task.
-  
-* `contribute/Run tests`: Describes how to run tests for the newly created components.
-
-* `contribute/Create Pull Request`: Describes how to contribute your changes.
-
-* Add `More information` intro and pages
-
-* `More information/Project structure`: Describes the repository structure and technology stack
-
-* `More information/Code of conduct`: Describes the Code of conduct that OpenProblems uses.
-  
-* `More information/FAQ`: Frequently Asked Questions
-
-* `More information/Troubleshooting`: Describes the most common errors that can occur when contributing/developing.
-
 # openproblems.bio v2.1.2
 
 ## MINOR CHANGES

_include/_synchonize_tabs.qmd

@@ -38,7 +38,7 @@ website:
           - text: OpenProblems v1
             href: https://github.com/openproblems-bio/openproblems/blob/main/CONTRIBUTING.md
           - text: OpenProblems v2
-            href: documentation/index.qmd
+            href: https://github.com/openproblems-bio/openproblems-v2/blob/main/CONTRIBUTING.md
           - text: Bibliography
             href: bibliography/index.qmd
 

_quarto.yml

@@ -81,7 +81,7 @@ The evaluation results will be saved at a path like `output/evaluation/predict_m
 
 ### Use additional files
 
-For your component to be able to access additional files (such as a pre-trained model) from within your script, you need to specify these files under `functionality.resources` in the config script as follows:
+For your component to be able to access additional files (such as a pre-trained model) from within your script, you need to specify these files under `.functionality.resources` in the config script as follows:
 ```yaml
   # files your script needs
   resources:

competitions/neurips_2021_docs/submission/development_process.qmd

@@ -1,3 +1 @@
-/_openproblems-v2
-.nextflow*
-work
+/_openproblems-v2

documentation/.gitignore

@@ -9,11 +9,6 @@ if (!dir.exists(proj_dir)) {
     wd = dirname(proj_dir)
   )
 } else {
-  processx::run(
-    "git", 
-    "fetch",
-    wd = proj_dir
-  )
   processx::run(
     "git", 
     c("reset", "--hard", "origin/main"),