diff --git a/leiningen-core/src/leiningen/core/classpath.clj b/leiningen-core/src/leiningen/core/classpath.clj
index ef5229b3..ce966604 100644
--- a/leiningen-core/src/leiningen/core/classpath.clj
+++ b/leiningen-core/src/leiningen/core/classpath.clj
@@ -23,7 +23,7 @@
                   (for [d (:checkout-deps-shares project [:source-path
                                                           :compile-path
                                                           :resources-path])]
-                    (str (io/file "checkouts" (.getName dep) (d proj)))))))
+                    (str (io/file (:root project) "checkouts" (.getName dep) (d proj)))))))
 
 (defn resolve-dependencies
   "Simply delegate regular dependencies to pomegranate. This will
diff --git a/test/leiningen/test/compile.clj b/test/leiningen/test/compile.clj
index 134f7cad..ae8b9645 100644
--- a/test/leiningen/test/compile.clj
+++ b/test/leiningen/test/compile.clj
@@ -3,8 +3,8 @@
   (:use [clojure.test]
         [clojure.java.io :only [file]]
         [clojure.java.shell :only [with-sh-dir]]
+        [leiningen.core.eval :only [eval-in-project]]
         [leiningen.compile]
-        [leiningen.core :only [read-project]]
         [leiningen.test.helper :only [sample-project sample-failing-project
                                       tricky-name-project dev-deps-project]]
         [leiningen.util.file :only [delete-file-recursively]]))
@@ -15,7 +15,7 @@
                       (delete-file-recursively
                        (file "test_projects" "sample_failing" "classes") true)
                       (f)))
-
+ 
 (deftest test-compile
   (is (zero? (compile sample-project)))
   (is (.exists (file "test_projects" "sample"
@@ -23,8 +23,8 @@
   (is (pos? (compile sample-failing-project))))
 
 (deftest test-plugin
-  (is (zero? (eval-in-project (assoc sample-project
-                                :eval-in-leiningen true
+  (is (= :compiled (eval-in-project (assoc sample-project
+                                :eval-in :leiningen
                                 :skip-shutdown-agents true
                                 :main nil)
                               '(do (require 'leiningen.compile)
@@ -66,7 +66,7 @@
 
 (deftest test-injection
   (is (zero? (eval-in-project sample-project
-                              '#'leiningen.util.injected/add-hook))))
+                              '#'leiningen.core.injected/add-hook))))
 
 (deftest test-compile-java-main
   (is (zero? (compile dev-deps-project))))
diff --git a/test/leiningen/test/helper.clj b/test/leiningen/test/helper.clj
index cf2ee0f6..b2bc2b66 100644
--- a/test/leiningen/test/helper.clj
+++ b/test/leiningen/test/helper.clj
@@ -8,9 +8,20 @@
 (defn m2-dir [n v]
   (io/file local-repo
            (if (string? n) n (or (namespace n) (name n))) (name n) v))
+(defn- prepend-root [project key root]
+  (assoc project key (str root java.io.File/separator (key project))))
 
 (defn- read-test-project [name]
-  (project/read (format "test_projects/%s/project.clj" name)))
+  (let [project (project/read (format "test_projects/%s/project.clj" name))
+        root (:root project)]
+    (-> project
+        (prepend-root :source-path root)
+        (prepend-root :compile-path root)
+        (prepend-root :test-path root)
+        (prepend-root :resources-path root)
+        (prepend-root :dev-resources-path root)
+        (prepend-root :target-path root)
+        (prepend-root :native-path root))))
 
 (def sample-project (read-test-project "sample"))