2013.05.29 Dev Chat
( Link back to Dev Chat archive )
On Lab Interface Improvements
jeehyung : Hi all ; ]
lroppy : hi
jandersonlee : any news first Jee?
lroppy : on for 15
Matt-Indykiewicz : Hello L
Zanna : hi jee
hoglahoo : Hi jee! summer's almost here!
jeehyung : @janderson ok news first : ]
jeehyung : the late scoring results are on their way, we just have to fix a final error. Hopefully by the end of the week.
jandersonlee : nice. tanks
jeehyung : There will be also small updates to the cloud labs, adding searching feature, etc.
Eli-Fisker : Sounds nice
jandersonlee : a delete button?
Eli-Fisker : Great, saved me some questions
JR : can we propose a switch by putting "Switch" in the title and state 2 in the comments?
Matt-Indykiewicz : Nice
jeehyung : Also a powerful addition to scripting interface is coming - it's now equipped with 2 versions of ViennaRNA which will allow you very deep analysis of RNA....and there also will be an RNA rendering tool + on-site sequence scoring / puzzle solving button as well
jeehyung : @janderson - yes the delete button will be there
jandersonlee : wow!
jandersonlee : @jee: thanks
TomoeUzumaki : a delete button for what?
Eli-Fisker : Jee, so we will be able to search for a particular lab?
jeehyung : @JR unfortunately switches won't yet be supportd for this version
JR : np
jeehyung : @Eli yes- you'll be able to run a script by specifying a puzzle id
TomoeUzumaki : ok
jeehyung : it'll try to score all designs submitted to the lab and return them
TomoeUzumaki : gotta go
TomoeUzumaki : byee
jeehyung : So you'll be able to run any scoring script you like before you vote, etc
jeehyung : @Tomoe bye : ]
Eli-Fisker : bye Tomoe
Eli-Fisker : That is real cool, Jee
Eli-Fisker : Then I got a question anyway.
jandersonlee : @Jee: so what is the scoring script API?
jeehyung : @Eli sure what is it?
Eli-Fisker : I will like to have a search field on the past lab page. I will love to be able to search for a particular lab, so I don’t have to look through lots of pages to find it.
jeehyung : @janderson it can be any script that takes in sequence/structure and output scores in 0~100 range
jandersonlee : seqeunce + strucrre as two parameters?
jeehyung : @Eli - that search is coming. For past labs, active labs and proposed labs page
Eli-Fisker : Great
Eli-Fisker : :)
jeehyung : @janderson yes two separate parameters
jandersonlee : OK thanks for the clarification
jeehyung : Also, we are almost ready to launch the web version of voting interface, which will allow much faster browsing/voting process
jandersonlee : nice!
Zanna : yea!
Eli-Fisker : Yay. Looking forward to that
lroppy : can we please separate design phase from voting phase
jeehyung : it now renders the rna / experimental results on the fly, so you don't have to go into the game every time to inspect the design
lroppy : first
Matt-Indykiewicz : Yay....Delayed Recation
Eli-Fisker : @Jee, I have another big wish for the lab interface
jeehyung : @lroppy that is on the way too. The web version was started before the phase idea came out so we'll probably releast the web voting browser first, then move onto phase idea
jeehyung : @Eli what is it?
Eli-Fisker : Could we get to view the labs like this so we can see the structures. That will help us pick out the shapes we are searching for. We will be able to see much more labs at once and locate the right one fast.
lroppy : thx
Eli-Fisker : https://d37wxxhohlp07s.cloudfront.net/s3_images/791094/c59447d6-fa89-43b6-97d5-386b984b15de.jpg?1347544196
Eli-Fisker : Here is an example by Mat
jeehyung : @Eli - I'll add that to the task list. Probably we can just add an "alternate view" mode
Eli-Fisker : Which reminds me, that I miss very much seing the structure of the design on the entrance page of the player projects
Eli-Fisker : The picture tells me if I want to look at the design, when I'm in a search for a structure
Eli-Fisker : Big thx
Eli-Fisker : I will like an all work dedicated interface free of hall of fame, for when solely doing lab work
lroppy : Jee - do we have a central location to report bugs? or keep sending them to you?
hoglahoo : huh, I've been using the "Report a problem" tab on the eterna forum
jeehyung : @lroppy if you report bugs to the forum they are periodically collected to our internal issue tracker.
jandersonlee : @Jee: is there an AjaxManager query that returns all lab ids? it would help to mine the lab data
lroppy : k thx
hoglahoo : glad to know it's being watched :)
jeehyung : @janderson there isn't yet. You can query Justin for that - he can add the function easily for you.
jandersonlee : @Jee: also there are still scoring problems with bad secstruct data. the script can solve it but does not get credit
jeehyung : @janderson by bad struct do you mean those with characters other than "(.)"?
jandersonlee : yes
jeehyung : I see - I'll query Justin about that. Sorry about the trouble.
Eli-Fisker : @Jee, did you find out about what caused the script interface fail on that puzzle Mat found and yet the sequence the test server put out, were a perfect solve for that puzzle it just failed?
Eli-Fisker : sent a mail about it
jandersonlee : is that the one wth the blank at the end?
jeehyung : @Eli unfortunately, not yet. I haven't had a time to look into it yet (it's the msg you sent me today right?)
Eli-Fisker : Yes, sorry, message
lroppy : low priority - but is there a reason why some names in chat lead back to userIDs that are different? can be a bit confiusing.
Eli-Fisker : It is happening regularly.
Eli-Fisker : Mat says that player names linked to the wrong profile is an old issue
hoglahoo : Is this thing still on?
jandersonlee : @Jee: Nando pointed out that proposed labs can be viewer in the lab tool by changing the url.
jandersonlee : it would be nice to have that link on the review page
jandersonlee : so we can see locked bases etc
Eli-Fisker : Agree with JL
jandersonlee : give them a test drive before signing the lease :)
Eli-Fisker : hehe
jeehyung : @lroppy, Eli - noted the bug. Will work on it!
Eli-Fisker : thx
lroppy : k thx
jeehyung : @janderson - you mean we need a way to preview the proposed lab - correct?
jeehyung : preview the lab in the game
jandersonlee : yes. it already works - just need the link
jeehyung : yes definitely. We'll allow previewing/replaying the proposed/past labs in this update
jandersonlee : viewed as game/puzzle i believe
jandersonlee : (in a forum thread)
jandersonlee : thanks!
Eli-Fisker : @Jee, in the update, are we getting a sort option in the labs?
Eli-Fisker : I wish to get the labs sorted after Static labs and Switch labs and Player projects.
lroppy : gtg thx Jee and all bye
Eli-Fisker : Just like the tags for lab that says current lab and past lab.
Eli-Fisker : bye Iroppy
starryjess : the last group of labs that just closed don't have a review botton to get into them
jeehyung : @lroppy bye!
jeehyung : @Eli no sort optins in this update - but I'll add that task
Eli-Fisker : Big thx. It will make it a lot easier
jeehyung : @starry that came up - we'll put those buttons back in our next update. Sorry about the trouble
Eli-Fisker : Jee, one more thing. When looking through the past labs pages, I have to go to the bottom of each page to get to the next
Eli-Fisker : Can't we have that option on the top too?
jandersonlee : more feedback on the labs summary page would be good: eg.g how many slots/votes left
jeehyung : @Eli putting the pager on the top?
jeehyung : @janderson noted!
Eli-Fisker : Yes, or make the pages with labs shorter, a la mat's idea with pictures of the labs
jandersonlee : also how many candidate seqeunces submitted
Eli-Fisker : instead of long hall of fame for each lab. As an option
Eli-Fisker : for faster navigation
jeehyung : @Eli ok noted. All the noted feedbacks will be added to the task tracker.
Eli-Fisker : Jee, thx :)
jandersonlee : Jee: Is there/will there be documentation on teh coming script interface library updates?
jeehyung : @janderson - Justin is preparing that. You should let him know if you have any functions/codes you want to be deployed/documented in the official interface
jandersonlee : I haven't got the local interface to work so nothing to add yet :P
jeehyung : @janderson if you are having trouble setting that up, please let me and justin know. We should fix that : ]
jandersonlee : ok tx.
Eli-Fisker : Jee, on the votes for the lab player projects, I have a comment. Can we at least have something like 60 slots pr lab as a default? Some may choose to not participate in a lab, if they don't think they have a chance to get synthesized. I mean if the lab only claims 40 slots or less.
jandersonlee : Yes a larger default please say 1/20th of the estimated run (80?)
jandersonlee : Baucause more that 20 labs is bonkers!
Eli-Fisker : Fine point JL
Eli-Fisker : Also it will make it more merry afterwards when getting the data
jeehyung : @Eli,janderson - noted. That'll be included in the next update
jandersonlee : Because more than 20 labs (at once) is bonkers!
Eli-Fisker : it is better having 80 results in the same lab than 20 results in 4 labs
jandersonlee : tqvm
Eli-Fisker : Much better for finding what is good and why
Brourd : Seems like a waste of slots to spend 80 on a single design, especially one repeated 5 times
Brourd : I had to push that out there :)
jandersonlee : You can lower the default if you like
Brourd : Of course, but then, that brings back the "More than 20 labs is bonkers idea"
jandersonlee : Like only 10 will be chosen...
Brourd : Oh by the way, hi Jee, hope you day has been going well so far
jandersonlee : and I wil likely pass on the low slot number labs if I don't have time to do them all
jandersonlee : which is fine too
Eli-Fisker : @Jee, I have a suggestion from Mat
Brourd : Yes, it is rather difficult to determine, for one, we could just make the default for every lab 60 or 80, but then it pushes smaller labs out of the loop, and I for one do not see 80 slots for a lab like RNA strength being a good idea
jeehyung : hi Brourd : ]
jeehyung : @Eli oh what is it?
Eli-Fisker : Have the sort option for the “See results of player puzzles” list. We will like to be able to sort The “Result” columns after Pass/Fail.
Brourd : Hey Jee :)
Eli-Fisker : We will also like to be able to sort after “Time(sec)”, so it sort by length of time longest and shortest.
Eli-Fisker : In here:
Eli-Fisker : http://eterna.cmu.edu/web/script/test/2896089/
jeehyung : @Eli noted
Eli-Fisker : Thx :)
Brourd : I do hope I didn't throw too many ideas out into the cloud lab feedback Jee :)
jandersonlee : Some realy good ones though :)
jeehyung : @Brourd, janderson agreeed: Very good ones.
jeehyung : Thanks everyone for the feedbacks : ]
Brourd : Yes, I saw all the stars, I personally like the idea of the multiple targets per project idea
Eli-Fisker : :)
jandersonlee : And fully automated labs for testing combinatorial issues?
Brourd : Since all the targets like the recent Zigzag lab proposals would fall under one umbrella project
jandersonlee : E.g. exhaustive testing of loop closures
jeehyung : Everyone I'll have to leave in 5 minutes now : ] Please throw in final questions/suggestions!
Brourd : well, the thing is, I am not looking for a "one time" result with my projects, but more of an average
jandersonlee : then you need more than 12 result :)
Eli-Fisker : @Jee, Mat also had an idea for the script server: Dev could have different categories of run time based on the puzzle size. A few seconds for a larger puzzle is like trying to have an instant answer.
Brourd : Oh, Jee, the "latest played puzzle" in the player profiles seems a bit buggy
jeehyung : @Eli noted!
jeehyung : @Brourd can you tell me how it's buggy?
Eli-Fisker : thx :)
Brourd : @ janderson - actually, with that lab, you will be surprised. It is mostly to confirm my observations in Quasispecies labs
starryjess : it doesn't seem to be working
starryjess : there is nothing in it
starryjess : the "latest played puzzle"
Brourd : Yes, and on new profiles I believe it just shows {titl}
Brourd : *{title}
starryjess : once I saw one that said {title}
Zanna : I've never seen one say anything at all
hoglahoo : talking profiles, what will they think of next?
Eli-Fisker : Talking puzzles
Eli-Fisker : ;)
Zanna : haha
hoglahoo : that would be Brourd
starryjess : lol
Brourd : and, on the new filters for switch and single only
Brourd : I do not believe anything shows up, unless I am doing it wrong
Brourd : http://eterna.cmu.edu/web/playerpuzzles/?switch=fail&sort=date
starryjess : yep didn't work for me either
jeehyung : @Brourd, starrry I confirmed the problem. The bug will be added to the tracker. Thanks!
Zanna : doesn't work for me either, Brourd
Brourd : http://eterna.cmu.edu/web/playerpuzzles/?single=fail&sort=date
jeehyung : Also the switch/single problem has been noted as well
Eli-Fisker : @Jee, I was having a problem in the WIKI while trying to edit. The tool icon boxes are so small I have trouble seeing the icons.
Brourd : And I am not entirely sure it should say switch/single=fail
Eli-Fisker : I can off cause hover over them with my mouse or enlarge page in my browser setting. But everything else has a fine size.
jandersonlee : off cause == of course
Eli-Fisker : hehe, chat has spell check
jeehyung : @Eli noted!
Zanna : lol
Eli-Fisker : Great, thx, Jee
jeehyung : ok I have to run everybody. Thanks for all the feedbacks today.
starryjess : hahaha, jl, you always wanted spell check. Now you are it :P
Zanna : bye jee
jandersonlee : thanks again
starryjess : bye jee
jeehyung : Please PM me if you have any other concern
