diff --git a/Source/cmLocalNinjaGenerator.cxx b/Source/cmLocalNinjaGenerator.cxx
index 28e8d47e5..32f3833cc 100644
--- a/Source/cmLocalNinjaGenerator.cxx
+++ b/Source/cmLocalNinjaGenerator.cxx
@@ -325,12 +325,12 @@ void cmLocalNinjaGenerator::AppendCustomCommandLines(const cmCustomCommand *cc,
 {
   cmCustomCommandGenerator ccg(*cc, this->GetConfigName(), this->Makefile);
   if (ccg.GetNumberOfCommands() > 0) {
+    const char* wd = cc->GetWorkingDirectory();
+    if (!wd)
+      wd = this->GetMakefile()->GetStartOutputDirectory();
+
     std::ostringstream cdCmd;
-    cdCmd << "cd ";
-    if (const char* wd = cc->GetWorkingDirectory())
-      cdCmd << wd;
-    else
-      cdCmd << this->GetMakefile()->GetStartOutputDirectory();
+    cdCmd << "cd " << this->ConvertToOutputFormat(wd, SHELL);
     cmdLines.push_back(cdCmd.str());
   }
   for (unsigned i = 0; i != ccg.GetNumberOfCommands(); ++i) {
diff --git a/Source/cmNinjaNormalTargetGenerator.cxx b/Source/cmNinjaNormalTargetGenerator.cxx
index 7cce45b1d..4434aef76 100644
--- a/Source/cmNinjaNormalTargetGenerator.cxx
+++ b/Source/cmNinjaNormalTargetGenerator.cxx
@@ -377,9 +377,12 @@ void cmNinjaNormalTargetGenerator::WriteLinkStatement()
 
   // If we have any PRE_LINK commands, we need to go back to HOME_OUTPUT for
   // the link commands.
-  if (!preLinkCmdLines.empty())
-    preLinkCmdLines.push_back(std::string("cd ") +
-                              this->GetMakefile()->GetHomeOutputDirectory());
+  if (!preLinkCmdLines.empty()) {
+    std::string path = this->GetLocalGenerator()->ConvertToOutputFormat(
+      this->GetMakefile()->GetHomeOutputDirectory(),
+      cmLocalGenerator::SHELL);
+    preLinkCmdLines.push_back("cd " + path);
+  }
 
   vars["PRE_LINK"] =
     this->GetLocalGenerator()->BuildCommandLine(preLinkCmdLines);