NodeJS regularly losing bindings

I'm using NodeJS + Typescript + Gulp + PouchDB for backend, and Typescript + Webpack + React + Sass for the client (note that the webpack is served by express and webpackDevMiddleware) and yarn. Regularly I get this kind of error:

Error: Could not locate the bindings file. Tried:
 → /home/vinz243/compactd/node_modules/leveldown/build/leveldown.node
...

or the same for node-sass. I can easily fix this by running:

npm rebuild node-sass leveldown

it works, but it takes some time and really annoying. I'd like to know how can I make it permanent. I'm not sure what to provide, here is my gulpfile:

const gulp = require('gulp');
const ts = require('gulp-typescript');
const nodemon = require('gulp-nodemon');
const merge = require('merge2');

const tsProject = ts.createProject('server/tsconfig.json');

gulp.task('scripts', function() {
  const tsResult = gulp.src('server/src/*.ts')
    .pipe(tsProject());

  return merge([ // Merge the two output streams, so this task is finished when the IO of both operations is done.
    tsResult.dts.pipe(gulp.dest('server/defs')),
    tsResult.js.pipe(gulp.dest('server/dist'))
  ]);
});


gulp.task('watch', ['scripts'], function() {
  gulp.watch('server/src/*.ts', ['scripts']);
  nodemon({
    script: 'server/index.js',
    ext: 'js html',
    env: { 'NODE_ENV': 'development' }
  });
});

and here is the output of the rebuild:

...
 CXX(target) Release/obj.target/leveldown/src/leveldown.o
  CXX(target) Release/obj.target/leveldown/src/leveldown_async.o
  SOLINK_MODULE(target) Release/obj.target/leveldown.node
  COPY Release/leveldown.node
make: Leaving directory '/home/vinz243/compactd/node_modules/leveldown/build'

> node-sass@4.5.2 install /home/vinz243/compactd/node_modules/node-sass
> node scripts/install.js

Cached binary found at /home/vinz243/.npm/node-sass/4.5.2/linux-x64-48_binding.node

> node-sass@4.5.2 postinstall /home/vinz243/compactd/node_modules/node-sass
> node scripts/build.js

Binary found at /home/vinz243/compactd/node_modules/node-sass/vendor/linux-x64-48/binding.node
Testing binary
Binary is fine
leveldown@1.5.0 /home/vinz243/compactd/node_modules/leveldown
node-sass@4.5.2 /home/vinz243/compactd/node_modules/node-sass

via Vinz243