Deploying default app error cyclic dependency detected

[amaatouq]

Deploying the default Empirica App gives the following error:

2018-06-18 14:01:39-04:00/app/bundle/programs/server/node_modules/fibers/future.js:313
7mtnd
2018-06-18 14:01:39-04:00	throw(ex);
7mtnd
2018-06-18 14:01:39-04:00	^
7mtnd
2018-06-18 14:01:39-04:00
7mtnd
2018-06-18 14:01:39-04:00Error: cyclic dependency detected
7mtnd
2018-06-18 14:01:39-04:00 at serializeObject (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:331:34)
7mtnd
2018-06-18 14:01:39-04:00 at serializeInto (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:934:17)
7mtnd
2018-06-18 14:01:39-04:00 at serializeObject (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:345:18)
7mtnd
2018-06-18 14:01:39-04:00 at serializeInto (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:934:17)
7mtnd
2018-06-18 14:01:39-04:00 at serializeObject (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:345:18)
7mtnd
2018-06-18 14:01:39-04:00 at serializeInto (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:934:17)
7mtnd
2018-06-18 14:01:39-04:00 at serializeObject (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:345:18)
7mtnd
2018-06-18 14:01:39-04:00 at serializeInto (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:934:17)
7mtnd
2018-06-18 14:01:39-04:00 at serializeObject (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:345:18)
7mtnd
2018-06-18 14:01:39-04:00 at serializeInto (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:934:17)
7mtnd
2018-06-18 14:01:39-04:00 at serializeObject (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:345:18)
7mtnd
2018-06-18 14:01:39-04:00 at serializeInto (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:934:17)
7mtnd
2018-06-18 14:01:39-04:00 at serializeObject (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:345:18)
7mtnd
2018-06-18 14:01:39-04:00 at serializeInto (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:934:17)
7mtnd
2018-06-18 14:01:39-04:00 at serializeObject (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:345:18)
7mtnd
2018-06-18 14:01:39-04:00 at serializeInto (/app/bundle/programs/server/npm/node_modules/meteor/npm-mongo/node_modules/bson/lib/bson/parser/serializer.js:934:17)

Details can be found on the Galaxy container.

[amaatouq]

Two thoughts from Automattic/mongoose#6109:

• removing &retryWrites=true from the atlas URI fixes the problem
  • this is the solution I am following now.
• they claim that the fundamental problem has to do with trying to create an index on _id

This fixes #32 too!

[amaatouq]

At least we need to document this.

[npaton]

Yeah. I read the thread. I want to check where there might be an index on _id set. We do not do it in the code, but maybe in a third party library. It is unnecessary, _id always has an index automatically, not sure why anyone would do that. Otherwise if removing retryWrites works, that's fine with me. It's a relatively new feature in Mongo, and we've managed without reasonably well, I am not worried about not using it.