diff --git a/Integration-Test.ps1 b/Integration-Test.ps1
index 8e1d2fe..a93cf33 100644
--- a/Integration-Test.ps1
+++ b/Integration-Test.ps1
@@ -35,12 +35,27 @@ $Lines_To_Find = @(
     "using dependency library github.com/golang/snappy version 0.0.1. upgrade to at least version 0.0.2"
 )
 
+Write-Host "Setting up sample-projects"
+# Copy all sample projects to temp directory and rename project manifests to correct format.
+# This is done to avoid security scanning them for deprecated/vulnerable library dependancies
+# These sample projects are not intended to be used in production, but are used for testing
+$sample_projects_dir = Get-Random
+Copy-Item -Path "./sample-projects" -Destination "./temp/$sample_projects_dir" -Recurse
+Rename-Item -Path "./temp/$sample_projects_dir/dotnet-samples/sample_csproj_PLACEHOLDER" -NewName "sample.csproj"
+Rename-Item -Path "./temp/$sample_projects_dir/go-samples/compatible/go_mod_PLACEHOLDER" -NewName "go.mod"
+Rename-Item -Path "./temp/$sample_projects_dir/go-samples/incompatible/go_mod_PLACEHOLDER" -NewName "go.mod"
+Rename-Item -Path "./temp/$sample_projects_dir/java-samples/pom_xml_PLACEHOLDER" -NewName "pom.xml"
+Rename-Item -Path "./temp/$sample_projects_dir/node-samples/package_json_PLACEHOLDER" -NewName "package.json"
+Rename-Item -Path "./temp/$sample_projects_dir/python-samples/compatible/requirements_txt_PLACEHOLDER" -NewName "requirements.txt"
+Rename-Item -Path "./temp/$sample_projects_dir/python-samples/incompatible/requirements_txt_PLACEHOLDER" -NewName "requirements.txt"
+Rename-Item -Path "./temp/$sample_projects_dir/ruby-samples/Gemfile_PLACEHOLDER" -NewName "Gemfile"
+
 Write-Host "Running samples to console"
-$ResultConsole = Invoke-Expression ".\dist\$Filename\$Filename.exe .\sample-projects"
+$ResultConsole = Invoke-Expression ".\dist\$Filename\$Filename.exe .\temp\$sample_projects_dir"
 Test-Report "Console" $ResultConsole $Lines_To_Find
 
 Write-Host "Running samples to HTML report"
-Invoke-Expression ".\dist\$Filename\$Filename.exe .\sample-projects --output test.html"
+Invoke-Expression ".\dist\$Filename\$Filename.exe .\temp\$sample_projects_dir --output test.html"
 $ResultHtml = Get-Content -Path test.html
 Test-Report "HTML" $ResultHtml $Lines_To_Find
 Remove-Item -Path test.html
@@ -86,7 +101,7 @@ $Dependencies = @(
     "<si><t>httpclient</t></si>"
     "<si><t>jruby-openssl</t></si>"
 )
-Invoke-Expression ".\dist\$Filename\$Filename.exe .\sample-projects --output test.xlsx --output-format dependencies"
+Invoke-Expression ".\dist\$Filename\$Filename.exe .\temp\$sample_projects_dir --output test.xlsx --output-format dependencies"
 # xlsx files are compressed files, so we need to unzip them and then compare them
 Expand-Archive test.xlsx -DestinationPath temp
 $ResultXlsx = Get-Content ".\temp\xl\sharedStrings.xml"
@@ -120,4 +135,6 @@ else
     Write-Host "**PASSED** directory not found test"
 }
 
+Remove-Item -Recurse -Force $sample_project_directory
+
 exit 0
\ No newline at end of file
diff --git a/container-test.sh b/container-test.sh
index 633b63c..8287f18 100755
--- a/container-test.sh
+++ b/container-test.sh
@@ -5,13 +5,16 @@ source ./test-helpers.sh
 # This script tests container image build and runs a couple of
 # tests against the generated image.
 
+echo "Setting up sample-projects"
+sample_project_directory=$(get_sample_projects_relative_path)
+
 docker build -t porting-advisor .
 if [ $? -ne 0 ]; then
     echo "**ERROR**: building container image" && exit 1
 fi
 
 echo "Running container on samples to console"
-docker run --rm -v $(pwd)/sample-projects:/source porting-advisor /source > console_test.txt
+docker run --rm -v $(pwd)/$sample_project_directory:/source porting-advisor /source > console_test.txt
 test_report 'console' 'console_test.txt' "${lines_to_find[@]}"
 if [ $? -ne 0 ]; then
     echo "**ERROR**: running container to console" && exit 1
@@ -19,7 +22,7 @@ fi
 rm console_test.txt
 
 echo "Running container on samples to HTML report"
-docker run --rm -v $(pwd):/source porting-advisor /source/sample-projects --output /source/test.html 
+docker run --rm -v $(pwd):/source porting-advisor /source/$sample_project_directory --output /source/test.html 
 test_report 'html' 'test.html' "${lines_to_find[@]}"
 if [ $? -ne 0 ]; then
     echo "**ERROR**: running container to html report" && exit 1
diff --git a/integration-test.sh b/integration-test.sh
index a7e9be5..4615b10 100755
--- a/integration-test.sh
+++ b/integration-test.sh
@@ -5,14 +5,17 @@ source ./test-helpers.sh
 FILE_NAME=`./getBinaryName.sh`
 chmod +x ./dist/$FILE_NAME
 
+echo "Setting up sample-projects"
+sample_project_directory=$(get_sample_projects_relative_path)
+
 echo "Running samples to console"
-./dist/$FILE_NAME ./sample-projects/ > console_test.txt
+./dist/$FILE_NAME $sample_project_directory > console_test.txt
 test_report 'console' 'console_test.txt' "${lines_to_find[@]}"
 rm console_test.txt
 
 
 echo "Running samples to HTML report"
-./dist/$FILE_NAME ./sample-projects/ --output test.html
+./dist/$FILE_NAME $sample_project_directory --output test.html
 test_report 'html' 'test.html' "${lines_to_find[@]}"
 rm test.html
 
@@ -57,7 +60,7 @@ declare -a dependencies=("<si><t>component</t></si><si><t>version</t></si><si><t
                         "<si><t>httpclient</t></si>"
                         "<si><t>jruby-openssl</t></si>"
                     )
-./dist/$FILE_NAME ./sample-projects/ --output test.xlsx --output-format dependencies
+./dist/$FILE_NAME $sample_project_directory --output test.xlsx --output-format dependencies
 # xlsx files are compressed files, so we need to unzip them and then compare them
 mkdir ./temp
 unzip -q ./test.xlsx -d ./temp
@@ -86,3 +89,5 @@ else
     echo "**FAILED**: directory not found test" && exit 1 
 fi
 rm directory_not_found_test.txt
+
+rm -r $sample_project_directory
diff --git a/sample-projects/dotnet-samples/sample.csproj b/sample-projects/dotnet-samples/sample_csproj_PLACEHOLDER
similarity index 100%
rename from sample-projects/dotnet-samples/sample.csproj
rename to sample-projects/dotnet-samples/sample_csproj_PLACEHOLDER
diff --git a/sample-projects/go-samples/compatible/go.mod b/sample-projects/go-samples/compatible/go_mod_PLACEHOLDER
similarity index 100%
rename from sample-projects/go-samples/compatible/go.mod
rename to sample-projects/go-samples/compatible/go_mod_PLACEHOLDER
diff --git a/sample-projects/go-samples/incompatible/go.mod b/sample-projects/go-samples/incompatible/go_mod_PLACEHOLDER
similarity index 100%
rename from sample-projects/go-samples/incompatible/go.mod
rename to sample-projects/go-samples/incompatible/go_mod_PLACEHOLDER
diff --git a/sample-projects/java-samples/pom.xml b/sample-projects/java-samples/pom_xml_PLACEHOLDER
similarity index 100%
rename from sample-projects/java-samples/pom.xml
rename to sample-projects/java-samples/pom_xml_PLACEHOLDER
diff --git a/sample-projects/node-samples/package.json b/sample-projects/node-samples/package_json_PLACEHOLDER
similarity index 100%
rename from sample-projects/node-samples/package.json
rename to sample-projects/node-samples/package_json_PLACEHOLDER
diff --git a/sample-projects/python-samples/compatible/requirements.txt b/sample-projects/python-samples/compatible/requirements_txt_PLACEHOLDER
similarity index 100%
rename from sample-projects/python-samples/compatible/requirements.txt
rename to sample-projects/python-samples/compatible/requirements_txt_PLACEHOLDER
diff --git a/sample-projects/python-samples/incompatible/requirements.txt b/sample-projects/python-samples/incompatible/requirements_txt_PLACEHOLDER
similarity index 100%
rename from sample-projects/python-samples/incompatible/requirements.txt
rename to sample-projects/python-samples/incompatible/requirements_txt_PLACEHOLDER
diff --git a/sample-projects/ruby-samples/Gemfile b/sample-projects/ruby-samples/Gemfile_PLACEHOLDER
similarity index 100%
rename from sample-projects/ruby-samples/Gemfile
rename to sample-projects/ruby-samples/Gemfile_PLACEHOLDER
diff --git a/sample-projects/ruby-samples/sample.rb b/sample-projects/ruby-samples/sample.rb
new file mode 100644
index 0000000..b85a042
--- /dev/null
+++ b/sample-projects/ruby-samples/sample.rb
@@ -0,0 +1 @@
+puts "Hello World"
diff --git a/test-helpers.sh b/test-helpers.sh
index ca386c6..5b1bdae 100755
--- a/test-helpers.sh
+++ b/test-helpers.sh
@@ -1,5 +1,23 @@
 #!/bin/bash
 
+function get_sample_projects_relative_path() {
+    # Copy all sample projects to temp directory and rename project manifests to correct format.
+    # This is done to avoid security scanning them for deprecated/vulnerable library dependancies
+    # These sample projects are not intended to be used in production, but are used for testing
+    sample_projects_dir=$RANDOM
+    mkdir -p ./temp/$sample_projects_dir && cp -r ./sample-projects/* ./temp/$sample_projects_dir
+    mv ./temp/$sample_projects_dir/dotnet-samples/sample_csproj_PLACEHOLDER ./temp/$sample_projects_dir/dotnet-samples/sample.csproj
+    mv ./temp/$sample_projects_dir/go-samples/compatible/go_mod_PLACEHOLDER ./temp/$sample_projects_dir/go-samples/compatible/go.mod
+    mv ./temp/$sample_projects_dir/go-samples/incompatible/go_mod_PLACEHOLDER ./temp/$sample_projects_dir/go-samples/incompatible/go.mod
+    mv ./temp/$sample_projects_dir/java-samples/pom_xml_PLACEHOLDER ./temp/$sample_projects_dir/java-samples/pom.xml
+    mv ./temp/$sample_projects_dir/node-samples/package_json_PLACEHOLDER ./temp/$sample_projects_dir/node-samples/package.json
+    mv ./temp/$sample_projects_dir/python-samples/compatible/requirements_txt_PLACEHOLDER ./temp/$sample_projects_dir/python-samples/compatible/requirements.txt
+    mv ./temp/$sample_projects_dir/python-samples/incompatible/requirements_txt_PLACEHOLDER ./temp/$sample_projects_dir/python-samples/incompatible/requirements.txt
+    mv ./temp/$sample_projects_dir/ruby-samples/Gemfile_PLACEHOLDER ./temp/$sample_projects_dir/ruby-samples/Gemfile
+
+    echo ./temp/$sample_projects_dir
+}
+
 function test_line() {
     reportType=$1
     result_filename=$2
diff --git a/unittest/test_manifester.py b/unittest/test_manifester.py
index 3471fec..b4ebb86 100644
--- a/unittest/test_manifester.py
+++ b/unittest/test_manifester.py
@@ -148,11 +148,4 @@ def test_get_dependencies_for_ruby_returns_array_of_dependencies(self):
         self.assertEqual('6.1.6.1', dependencies[0].version)
         self.assertEqual('Gemfile', dependencies[0].filename)
         self.assertEqual('ruby', dependencies[0].tool)
-    
-    def test_scan_folder_returns_array_of_all_dependencies(self):
-        manifester = Manifester()
-        sample_path = path.abspath(path.join(path.dirname(__file__), '..', 'sample-projects'))
-        dependencies = manifester.scan_folder(sample_path)
-        self.assertGreater(len(dependencies), 0)
-        self.assertIsInstance(dependencies, list)
-        self.assertIsInstance(dependencies[0], Dependency)
\ No newline at end of file
+    
\ No newline at end of file