diff --git a/test_repositories/golang_package/.shed.yml b/test_repositories/golang_package/.shed.yml
deleted file mode 100644
index 7118bb892d1..00000000000
--- a/test_repositories/golang_package/.shed.yml
+++ /dev/null
@@ -1,9 +0,0 @@
-categories:
-- Tool Dependency Packages
-description: Testing package for golang compilation
-long_description: |
- Tests golang compilation recipe
-name: package_golang_test
-owner: iuc
-remote_repository_url: https://github.com/galaxyproject/tools-iuc/tree/master/test_repositories/golang_package
-type: tool_dependency_definition
diff --git a/test_repositories/golang_package/tool_dependencies.xml b/test_repositories/golang_package/tool_dependencies.xml
deleted file mode 100644
index 4a5d854eec8..00000000000
--- a/test_repositories/golang_package/tool_dependencies.xml
+++ /dev/null
@@ -1,57 +0,0 @@
-
-
-
-
-
-
-
-
- https://github.com/erasche/bin-fasta/archive/415756dcd3573f330a39b073c9a314b840c189e0/master.zip
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- $INSTALL_DIR/bin
-
-
-
- Testing go compilation
-
-
diff --git a/test_repositories/setup_perl_environment/tool_dependencies.xml b/test_repositories/setup_perl_environment/tool_dependencies.xml
deleted file mode 100644
index c59803c9d06..00000000000
--- a/test_repositories/setup_perl_environment/tool_dependencies.xml
+++ /dev/null
@@ -1,22 +0,0 @@
-
-
-
-
-
-
-
-
-
-
-
-
- XML::Parser
- http://search.cpan.org/CPAN/authors/id/C/CJ/CJFIELDS/BioPerl-1.6.922.tar.gz
-
-
-
-
- Bundle::BioPerl
-
-
-
diff --git a/test_repositories/setup_python_environment/tool_dependencies.xml b/test_repositories/setup_python_environment/tool_dependencies.xml
deleted file mode 100644
index e86fec89a39..00000000000
--- a/test_repositories/setup_python_environment/tool_dependencies.xml
+++ /dev/null
@@ -1,31 +0,0 @@
-
-
-
-
-
-
-
-
-
-
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-
-
- https://pypi.python.org/packages/source/d/deepTools/deepTools-1.5.8.tar.gz
- kMer-0.2.0.tar.gz
- https://pypi.python.org/packages/source/k/khmer/khmer-1.0.tar.gz
-
-
-
-
-
- $INSTALL_DIR
-
-
-
-
-
- Test repository for easy installation of R packages.
-
-
-
diff --git a/test_repositories/setup_python_environment_with_python3/tool_dependencies.xml b/test_repositories/setup_python_environment_with_python3/tool_dependencies.xml
deleted file mode 100644
index 96876de8856..00000000000
--- a/test_repositories/setup_python_environment_with_python3/tool_dependencies.xml
+++ /dev/null
@@ -1,27 +0,0 @@
-
-
-
-
-
-
-
-
-
-
-
-
-
- https://pypi.python.org/packages/source/n/numpy/numpy-1.8.1.tar.gz
-
-
-
- $INSTALL_DIR
-
-
-
-
-
- Test repository for easy installation of R packages.
-
-
-
diff --git a/test_repositories/setup_r_environment/tool_dependencies.xml b/test_repositories/setup_r_environment/tool_dependencies.xml
deleted file mode 100644
index ac8f432d8f7..00000000000
--- a/test_repositories/setup_r_environment/tool_dependencies.xml
+++ /dev/null
@@ -1,29 +0,0 @@
-
-
-
-
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-
- https://github.com/bgruening/download_store/raw/master/DESeq2-1_0_18/rjson_0.2.13.tar.gz
-
-
-
-
- $INSTALL_DIR
-
-
-
-
-
- Test repository for easy installation of R packages.
-
-
-
diff --git a/test_repositories/setup_ruby_environment/tool_dependencies.xml b/test_repositories/setup_ruby_environment/tool_dependencies.xml
deleted file mode 100644
index a0bcb8d39fc..00000000000
--- a/test_repositories/setup_ruby_environment/tool_dependencies.xml
+++ /dev/null
@@ -1,27 +0,0 @@
-
-
-
-
-
-
-
-
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-
-
-
- bio=1.4.3.0001
-
-
-
- $INSTALL_DIR
-
-
-
-
-
- Test repository for easy installation of R packages.
-
-
-