From 58e1d64d7ecad745ea4e1321010c80918e9d4acc Mon Sep 17 00:00:00 2001
From: paulzierep <paul.zierep@googlemail.com>
Date: Fri, 1 Mar 2024 11:13:08 +0100
Subject: [PATCH] add Galaxy-Tool-Metadata-Extractor-Test-Wrapper for the test
 (#63)

---
 README.md                   | 13 +++++++++----
 bin/extract_galaxy_tools.py |  4 ++--
 2 files changed, 11 insertions(+), 6 deletions(-)

diff --git a/README.md b/README.md
index cc8e9bdc..7a8f7e6f 100644
--- a/README.md
+++ b/README.md
@@ -22,8 +22,6 @@ The tools performs the following steps:
 - Creates an interactive table for all tools: [All tools](https://galaxyproject.github.io/galaxy_tool_metadata_extractor/)
 - Creates an interactive table for all registered communities, e.g. [microGalaxy](https://galaxyproject.github.io/galaxy_tool_metadata_extractor/microgalaxy/)
 
-
-
 # Usage
 
 ## Prepare environment
@@ -103,8 +101,6 @@ The script will generate a TSV file with each tool found in the list of GitHub r
         [--keep <Path to to-keep tool file category file>]
     ```
 
-
-
 ## Add your community
 
 In order to add your community you need to:
@@ -115,3 +111,12 @@ In order to add your community you need to:
 - Make a pull request to add your community.
 - The workflow will run every sunday, so on the next monday, your community table should be added to `results/<your community name>`
 
+## Development
+
+To make a test run of the tool to check its functionalities follow [Usage](#Usage) to set-up the environnement and the API key, then run
+
+```bash
+bash ./bin/extract_all_tools_test.sh test.list
+```
+
+This runs the tool, but only parses the test repository [Galaxy-Tool-Metadata-Extractor-Test-Wrapper](https://github.com/paulzierep/Galaxy-Tool-Metadata-Extractor-Test-Wrapper)
\ No newline at end of file
diff --git a/bin/extract_galaxy_tools.py b/bin/extract_galaxy_tools.py
index 9c913e56..f76fcfad 100644
--- a/bin/extract_galaxy_tools.py
+++ b/bin/extract_galaxy_tools.py
@@ -122,11 +122,11 @@ def get_tool_github_repositories(g: Github, RepoSelection: Optional[str], run_te
 
     :param g: GitHub instance
     :param RepoSelection: The selection to use from the repository (needed to split the process for CI jobs)
-    :run_test: for CI testing only use one repository
+    :run_test: for testing only parse the repository
     """
 
     if run_test:
-        return ["https://github.com/TGAC/earlham-galaxytools"]
+        return ["https://github.com/paulzierep/Galaxy-Tool-Metadata-Extractor-Test-Wrapper"]
 
     repo = g.get_user("galaxyproject").get_repo("planemo-monitor")
     repo_list: List[str] = []