OE Webex 13May08

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05/13/2008    09:26:31 AM    from Nomi Harris:	Hi 
05/13/2008    09:28:44 AM    from Jen Deegan:	Hi
05/13/2008    09:28:58 AM    from midori:	hi 
05/13/2008    09:29:08 AM    from Nomi Harris:	Good morning. 
05/13/2008    09:29:13 AM    from Nomi Harris:	I thought you were away, midori. 
05/13/2008    09:30:01 AM    from midori:	I'm here  for about another half hour
05/13/2008    09:30:27 AM    from midori:	(still in town after that, but off work for a couple weeks) 
05/13/2008    09:30:51 AM    from Nomi Harris:	Well, we're lucky to have you here in your last half hour! 
05/13/2008    09:31:02 AM    from Nomi Harris:	Amina is having trouble getting WebEx to work on linux. 
05/13/2008    09:31:24 AM    from midori:	I don't really have much on OE, but thought it wouldn't hurt to turn up anyway. 
05/13/2008    09:31:29 AM    from Jen Deegan:	webex only works on certain flavours of linux, their listed on the website
05/13/2008    09:31:36 AM    from Jen Deegan:	they're
05/13/2008    09:31:44 AM    from midori:	I saw Amina briefly right when I got connected, but then she vanished. 
05/13/2008    09:31:45 AM    from Nomi Harris:	She got it to work last time. 
05/13/2008    09:32:24 AM    from Nomi Harris:	We'll wait another two minutes for people to join and then we can start. 
05/13/2008    09:34:17 AM    from Jen Deegan:	http://support.webex.com/support/system-requirements.html
05/13/2008    09:35:02 AM    from Nomi Harris:	It's still not working right for her, she only sees the boring Info window, not the chat window. 
05/13/2008    09:35:10 AM    from Nomi Harris:	Let's just start, since midori has to leave soon. 
05/13/2008    09:35:15 AM    from Jen Deegan:	ok
05/13/2008    09:35:21 AM    from Nomi Harris:	The main thing I want to discuss is turning off the Graph Editor. 
05/13/2008    09:35:33 AM    from Nomi Harris:	I found out how to make it stop running in the background when it's not in the current layout. 
05/13/2008    09:35:44 AM    from Nomi Harris:	This is good news. 
05/13/2008    09:35:45 AM    from midori:	I've followed the email on that 
05/13/2008    09:35:47 AM    from midori:	yes 
05/13/2008    09:35:57 AM    from Nomi Harris:	It doesn't fix the problems with the Graph Editor, but it at least means the user could choose to turn it off. 
05/13/2008    09:36:05 AM    from Nomi Harris:	There is a small downside, of course. 
05/13/2008    09:36:10 AM    from Nomi Harris:	I think it's small.  Tell me what you think: 
05/13/2008    09:36:25 AM    from midori:	Hi Amina! 
05/13/2008    09:36:34 AM    from Jen Deegan:	Hi Amina
05/13/2008    09:36:53 AM    from Nomi Harris:	With this change, if you switch between layouts (e.g. Verify and Edit), and you do have the Graph Editor up, it will forget what it was showing when you switch layouts. 
05/13/2008    09:37:07 AM    from Nomi Harris:	Now, I wouldn't expect users to flip-flop between those layouts often, but I don't know. 
05/13/2008    09:37:13 AM    from midori:	Just in the graph editor, or in other components too? 
05/13/2008    09:37:13 AM    from Jen Deegan:	I wouldn't
05/13/2008    09:37:24 AM    from Nomi Harris:	Just the graph editor. 
05/13/2008    09:37:32 AM    from Jen Deegan:	I think that for me that's fine
05/13/2008    09:37:37 AM    from Nomi Harris:	The OTE won't lose its state.  It has a different way of remembering its state. 
05/13/2008    09:37:47 AM    from midori:	I don't change between layouts much, but who knows what I'll do oin the future? 
05/13/2008    09:37:52 AM    from Nomi Harris:	Basically, the Graph Editor was remembering its state by running in the background. 
05/13/2008    09:38:07 AM    from Nomi Harris:	This isn't really a permanent solution, anyway--in the longer term, we want to fix the Graph Editor 
05/13/2008    09:38:10 AM    from Nomi Harris:	so it doesn't suck memory and CPU. 
05/13/2008    09:38:18 AM    from midori:	But I think it's OK if only the graph editor is affected, and we document its behavior three ways from sunday. 
05/13/2008    09:38:18 AM    from Nomi Harris:	But for the first release, this is ok, right? 
05/13/2008    09:38:41 AM    from midori:	Yes indeedy; small price to pay to get the rest of OE running more smoothly. 
05/13/2008    09:38:47 AM    from Nomi Harris:	There are actually several other components that do the same background thing, such as the Verification Manager 
05/13/2008    09:38:49 AM    from Jen Deegan:	For preference I would still rather have the graph editor only in the beta until it is actually working
05/13/2008    09:39:02 AM    from Nomi Harris:	and a few others.  But I don't think they are big time-sucks like the Graph Editor. 
05/13/2008    09:39:22 AM    from Nomi Harris:	Jen, we can leave the Graph Editor out of the default layouts but leave it on the menu for people to add if they want. 
05/13/2008    09:39:33 AM    from Jen Deegan:	Yes I guess so
05/13/2008    09:39:35 AM    from midori:	Even OE1 slows down a bit if it's been runnig a while (on the order of hours). 
05/13/2008    09:39:41 AM    from Nomi Harris:	Before I found this fix, though, the Graph Editor would start up and run silently in the background even if you didn't add it to your layout. 
05/13/2008    09:39:54 AM    from Jen Deegan:	Yes it's good that it doesn't do that now
05/13/2008    09:40:07 AM    from Nomi Harris:	I can also make the Graph Editor pop up a warning when you add it to your layout. 
05/13/2008    09:40:13 AM    from midori:	Won't hurt. 
05/13/2008    09:40:23 AM    from Jen Deegan:	to say that it's in development?
05/13/2008    09:40:33 AM    from Nomi Harris:	Right.  And that it may cause OE2 to run slowly. 
05/13/2008    09:40:49 AM    from Jen Deegan:	that would be good
05/13/2008    09:41:14 AM    from Nomi Harris:	Should we do the View menu reorganization before the public release? 
05/13/2008    09:41:30 AM    from Jen Deegan:	to get it more organized?
05/13/2008    09:41:34 AM    from Nomi Harris:	Right. 
05/13/2008    09:41:39 AM    from Jen Deegan:	yes that would be good
05/13/2008    09:41:48 AM    from Nomi Harris:	There's a wiki page proposing the new organization (I think Melissa suggested it). 
05/13/2008    09:41:51 AM    from midori:	I think so -- the reorg makes more sense, and it'll be nice not to change it so much after a release is out. 
05/13/2008    09:42:01 AM    from Nomi Harris:	Midori is the only person who's commented on it.  Maybe you can take a look, Jen. 
05/13/2008    09:42:17 AM    from Jen Deegan:	It would be good if we could have it quite polished before release as OBO-Edit has only recently acquired a reputation for being bug-free and useable and I'd really like to keep it that way
05/13/2008    09:42:31 AM    from midori:	agreed 
05/13/2008    09:42:34 AM    from Jen Deegan:	where is the reorganisation plan?
05/13/2008    09:42:42 AM    from Jen Deegan:	is it on the wiki?
05/13/2008    09:42:55 AM    from Nomi Harris:	Yes, I'm trying to find the URL now 
05/13/2008    09:43:01 AM    from Jen Deegan:	thanks
05/13/2008    09:43:18 AM    from Nomi Harris:	http://wiki.geneontology.org/index.php/Menu_reorganization 
05/13/2008    09:43:31 AM    from Nomi Harris:	I find the wiki hard to navigate.  I often can't find things I'm looking for. 
05/13/2008    09:43:34 AM    from midori:	getting OE2 polished is gonna take a lot of testing <sigh> 
05/13/2008    09:43:43 AM    from Nomi Harris:	Yes. 
05/13/2008    09:43:58 AM    from Jen Deegan:	yes it really is
05/13/2008    09:44:14 AM    from Nomi Harris:	At the moment, I think we have enough bugs in the pipeline to keep us busy for a while 
05/13/2008    09:44:16 AM    from Jen Deegan:	once it become editing rather than testing it will be easier though
05/13/2008    09:44:19 AM    from Nomi Harris:	so you don't need to go all-out on testing yet. 
05/13/2008    09:44:35 AM    from Jen Deegan:	I remember that we edited full time on 1.101 for ages before we released it
05/13/2008    09:44:54 AM    from midori:	that's a relief ... lots of content work going on, which covers some of the testing, but not everything 
05/13/2008    09:45:13 AM    from Nomi Harris:	Just keep logging bugs when you find them. 
05/13/2008    09:45:22 AM    from midori:	will do 
05/13/2008    09:45:29 AM    from Nomi Harris:	So, I was going to introduce Jen's new OBOMerge GUI today, but you probably already know about it, midori, right? 
05/13/2008    09:45:34 AM    from Jen Deegan:	I can't fine that reorganization page either
05/13/2008    09:45:42 AM    from Jen Deegan:	Midori hasn't seen it yet
05/13/2008    09:46:03 AM    from Nomi Harris:	Jen, I just posted the URL for it:  http://wiki.geneontology.org/index.php/Menu_reorganization  
05/13/2008    09:46:06 AM    from Jen Deegan:	though it doesn't necessarily follow that she wants to
05/13/2008    09:46:08 AM    from Jen Deegan:	ta
05/13/2008    09:46:23 AM    from Nomi Harris:	There's a link to it from http://wiki.geneontology.org/index.php/Category:OBO-Edit_working_group 
05/13/2008    09:46:28 AM    from Nomi Harris:	but not from other OE wiki pages. 
05/13/2008    09:46:31 AM    from Jen Deegan:	excellent, thanks
05/13/2008    09:46:52 AM    from midori:	I haven't seen the OBOmerge GUI since the first or second incarnation, so nothing up to date 
05/13/2008    09:47:20 AM    from Nomi Harris:	Well, it's pretty cool, give it a whirl.  It's an OE component.  You can add it from the View menu. 
05/13/2008    09:47:33 AM    from Nomi Harris:	I have given Jen some suggestions for robustifying it. 
05/13/2008    09:47:49 AM    from midori:	consider it on my (long) list of things to check out ... 
05/13/2008    09:48:14 AM    from Nomi Harris:	That's pretty much all I have to discuss today. 
05/13/2008    09:48:14 AM    from Jen Deegan:	if obomerge gets the wrong number of arguments it quits the whole application so that is a bit tricky to fix
05/13/2008    09:48:26 AM    from Jen Deegan:	I'll fix it as instances of theproblem come in though.
05/13/2008    09:48:38 AM    from Nomi Harris:	You may need to make it catch the errors and report them rather than exiting. 
05/13/2008    09:48:47 AM    from Jen Deegan:	that was my plan. :-)
05/13/2008    09:49:00 AM    from Nomi Harris:	So, you guys both are away next week, right? 
05/13/2008    09:49:09 AM    from Jen Deegan:	making the whole of obo-edit crash doesn't seem that helpful
05/13/2008    09:49:13 AM    from Jen Deegan:	yes that's right
05/13/2008    09:49:22 AM    from Nomi Harris:	I'm thinking there's not much point having this meeting, then. 
05/13/2008    09:49:28 AM    from Jen Deegan:	good point
05/13/2008    09:49:36 AM    from midori:	yes, I'm away starting tomorrow (or in 10 minutes ...) 
05/13/2008    09:49:42 AM    from Nomi Harris:	Have a great trip! 
05/13/2008    09:49:49 AM    from Nomi Harris:	You too, Jen. 
05/13/2008    09:49:49 AM    from Jen Deegan:	I'm away from monday
05/13/2008    09:49:51 AM    from midori:	judging by today's attendance ... 
05/13/2008    09:49:52 AM    from Jen Deegan:	thanks
05/13/2008    09:49:59 AM    from Nomi Harris:	Bye! 
05/13/2008    09:50:01 AM    from midori:	see you in two weeks, then? 
05/13/2008    09:50:03 AM    from Nomi Harris:	Yes 
05/13/2008    09:50:10 AM    from midori:	OK 
05/13/2008    09:50:12 AM    from midori:	bye 
05/13/2008    09:50:12 AM    from Jen Deegan:	Erika sent her apologies, she had to teach.
05/13/2008    09:50:16 AM    from Jen Deegan:	see you then