References are messed up on (d.ts)

[happysantoo]

While compiling typescript using gulp-tsc , I seem to encounter a strange issue. The file references on the d.ts seems to be messed up.

Source :

///<reference path='typings/lodash/lodash.d.ts'/>
///<reference path='typings/angularjs/angular.d.ts'/>

Gulp

    return gulp.src('src/gravy/gravy.ts')
        .pipe(tsc({sourcemap: true,declaration:true,logErrors: true, out:'gravy.js',outDir:'src/gravy'}))
        .pipe(gulp.dest('src/gravy'));

Generated d.ts file.

/// <reference path="typings/lodash/lodash.d.ts" />
/// <reference path="../src//gravy/typings/angularjs/angular.d.ts" />

See the generated file , the references are messed up. Its strange that the first line is good , the second line always seems to be messed. I reversed the order on the source to see same symptom.
The generated mapping file out of equivalent typescript CLI is good. Any ideas ?

Thanks
Santhosh