cluster_viewer: upstream and downstream motifs?

[justinashworth]

I'm getting a new error with json results from tps. It might be because I am finding both upstream and downstream motifs? Or maybe something esel. I don't know how to debug or improve this code on my own yet.

play.core.ActionInvoker$$anonfun$receive$1$$anon$1: Execution exception [[NoSuchElementException: key not found: 2]] at play.core.ActionInvoker$$anonfun$receive$1.apply(Invoker.scala:82) [play_2.9.1.jar:2.0] at play.core.ActionInvoker$$anonfun$receive$1.apply(Invoker.scala:63) [play_2.9.1.jar:2.0] at akka.actor.Actor$class.apply(Actor.scala:290) [akka-actor.jar:2.0] at play.core.ActionInvoker.apply(Invoker.scala:61) [play_2.9.1.jar:2.0] at akka.actor.ActorCell.invoke(ActorCell.scala:617) [akka-actor.jar:2.0] at akka.dispatch.Mailbox.processMailbox(Mailbox.scala:179) [akka-actor.jar:2.0] Caused by: java.util.NoSuchElementException: key not found: 2 at scala.collection.MapLike$class.default(MapLike.scala:224) ~[scala-library.jar:na] at scala.collection.immutable.Map$Map1.default(Map.scala:106) ~[scala-library.jar:na] at scala.collection.MapLike$class.apply(MapLike.scala:135) ~[scala-library.jar:na] at scala.collection.immutable.Map$Map1.apply(Map.scala:106) ~[scala-library.jar:na] at controllers.Application$$anonfun$cluster$1.apply(Application.scala:283) ~[classes/:na] at controllers.Application$$anonfun$cluster$1.apply(Application.scala:276) ~[classes/:na]

The motif part of the json file begins like: "motifs ": {"1": {"downstream": [], "upstream": []}, "2": {"downstream": [{"motif_num": 1, "pssm": [[0.214286, 0.0, 0.714286, 0.071429],...

[weiju]

I had this problem last week, too. The cause was that there was only data for one motif. I fixed that last Friday, did you pull the latest changes ?

[justinashworth]

Ah I see, well yes I pulled, but I also had a long run going on osiris that was still producing older json files. I guess solutions could include 1) make cluster viewer ignore and work around keys that it can't find, 2) patch my json files, 3) try to reload or re-seed my long run from checkpoint files...

[justinashworth]

I suppose there is also the option of me finding the older revision of the cluster viewer that is compatible. I could try that too but I would like to take advantage of the new evolving cluster viewer features. I'm pretty sure my production run was up to date with the following revision

commit 2b630836fc07e28b89e67a014f30470c50e2ee60 Author: Wei-ju Wu Weiju.Wu@gmail.com Date: Thu Mar 22 14:39:07 2012 -0700

cluster viewer now displays mean residuals and mean nrows, ncols/iteration

[weiju]

I think I should also be able to update the ClusterViewer to just read in the data without the missing information. At the moment, that is still possible.

[justinashworth]

Ok sounds good, in the meantime I will try a slight refactor to take advantage of init_from_checkpoint

[weiju]

I updated the Application.scala file, if you do a pull, it will have the fix to ignore the missing information

[justinashworth]

Ok it works on the old json files. Thanks!