OE IRC 14Dec06: Difference between revisions
Jump to navigation
Jump to search
(New page: <pre> midori: hi again! Alex_MGI has joined the channel 5:30 PM hjd has joined the channel hjd is now called hjd_mgi tberardi has joined the channel tberardi: Whew! Made it! jrichte...) |
No edit summary |
||
Line 1: | Line 1: | ||
[[Category:OBO-Edit working group]] | |||
<pre> | <pre> | ||
midori: hi again! | midori: hi again! |
Latest revision as of 18:03, 30 June 2014
midori: hi again! Alex_MGI has joined the channel 5:30 PM hjd has joined the channel hjd is now called hjd_mgi tberardi has joined the channel tberardi: Whew! Made it! jrichter has joined the channel jrichter: Hello, all. Alex_MGI: Hi melissaH has joined the channel melissaH: Hiya, long time no chat. kchris has joined the channel jrichter: The whole family's here. It's a Christmas miracle! melissaH: ho ho ho. jrichter: <|8-{)> jrichter: That's my Santa emoticon I just made up. 5:35 PM jrichter: --{> tberardi: V. cool. jrichter: That's his failing renal system! jrichter: Anyway. jrichter: Is everyone here? Alex_MGI: Jane is not. hjd_mgi: yup midori: I'm not ... (just kidding) jrichter: While we wait a few minutes for Jane, all you multitaskers out there should download and try out the Question Plugin I posted last night. jrichter: I'm interested to know if people think it's worth additional energy. tberardi: Yessir. j-lo has joined the channel midori: I"m waiting for my glacial download ... jrichter: Now that Jane's here, let's go. Alex_MGI: What do you do with the plugin? jrichter: Drop the jar file into your extensions/ directory, and restart OBO-Edit. jrichter: "Question Plugin" will now appear at the end of your plugins menu. Alex_MGI: It didn't. jrichter: Huh. jrichter: Don't unzip the jar file. That's a common mistake. Alex_MGI: Restarting again. 5:40 PM Alex_MGI: Stlll not there. I think the file came unzipped. At least it appeared on my desktop with a .jar extension. jclark: do we maybe need to add .jar on windows? j-lo: (sorry I was late - what's the question plugin? midori: exactly the same symptoms as Alex here ... Alex_MGI: We're not there yet, Jane. melissaH: (sorry, my home computer is acting up today, I'll have to try later) jrichter: Alex & Midori - Can you send me the end of your stderr files? There may be a stack track that can help me figure out what's going wrong. jclark: I have noe question plugin listed either. jrichter: I'll try to figure this out while we chat about something else. jrichter: Does anyone have any outstanding bug reports I haven't addressed? Alex_MGI: Where do I find the sterr file? midori: stderr on the way by email jrichter: (Midori - I never received an email from you with your stderr file re: a NullPointerException bug) jrichter: (don't worry about it Alex, Midori's file should be enough) hjd_mgi: I'm still installing 13; I don't seem to be getting notices when a new beta is out kchris: I didn't get a notice either and the formatting of the SF site is really messed up and annoying tberardi: I'm not getting those either. hjd_mgi: I missed the transition ffrom 11 to 12 and 12 to tberardi: I'm trying to install 13 but it's taking FOREVER to uninstall the old version. hjd_mgi: I just trash the old version directly on the mac midori: #(*&%^% ... I'll try again. j-lo: Happily, all my bugs are now fixed Alex_MGI: DId you sign up for monitoring on SourceForge, Harold? jrichter: I'll start sending email announcements again. I think we resolved 2 weeks ago that I would stop sending those if everyone signed up for the automatic sourceforge update messages. kchris: Did Mike Cherry give the all OK on the obo2obo stuff? 5:45 PM tberardi: Missed that resolution, John. Sorry. j-lo: yep hjd_mgi: I get a "java.lang.NullPointerException" error window poping up, but the program still runs melissaH: I have a few outstandinding bugs but have been too swamped to test on b13. midori: John -- I just re-sent the NullPointerException stderr. Alex_MGI: Harold, restart and see if you get the message again. jclark: do we need to do the thing where we replace the oboedit jar file that we did for obomerge? hjd_mgi: After putting the plugin in the extensions directory and restarting, I do not see a question plugin; I see an explantion plugin jrichter: I figured out the question plugin problem. I'll issue a re-released fix in 5 minutes. midori: Also re obomerge: will it be included in the platform-independent version? jrichter: Is it not there now? hjd_mgi: yes the message comes up again; cllicking "OK" allows the program to comtinue midori: John - nope. it's in the mac installer version, but not platform-indy tberardi: easy question: How does one sign up for the automatic SF update messages? Alex_MGI: I stopped getting it after several restarts, but then it stopped appearing. jrichter: Well that's a bug. Could you put it on sourceforge? tberardi: Is it that Monitor button? midori: John - who're you replying to?? midori: Tanya - yep, that's the beast. jrichter: Midori - I was replying to you. The missing obomerge script is a bug. 5:50 PM midori: OK; bug report coming up. tberardi: Midori - Thanks. jrichter: Midori - I still haven't gotten your stderr email. I think someone along the way is silently dropping the message because of size. jrichter: Can you place it on an ftp server? jrichter: Or, just send me the stack trace for the latest null pointer exception. hjd_mgi: Is there a way to enlarge the term filter window when compound filtering is selected? I can't see what I"m doing;. It has a scroll bar, but it doesn't do anything.. stays collapsed so there is really no room to move it up or down midori: It's under 500K! but yes, I"ll put 'em up. jrichter: Harold - that depends on your screen layout. The easiest way to make things bigger is to make your OBO-Edit window as large and possible, and shrink the main ontology panel. jrichter: (as large AS possible) hjd_mgi: That just makes it longer; but it doesn't get wider so I can see my ANDs, etc. 5:55 PM jclark: you could use my layout jclark: its in the help guide Alex_MGI: John, I just sent my stderr file to you (I zipped it first). hjd_mgi: The scroll bar only works in one direction; when I use it to scroll down to see my filters, I can't scroll back up. hjd_mgi: : the bottom arrow on the scroll bar is not there, only the top arrow jrichter: Use Jen's layout. You need to have your search control in a splitpane. jrichter: You only have the top arrow because the available space is so small. jrichter: BTW: a variation of Jen's layout will be the default in the next release. jclark: yippee! tberardi: Goody. hjd_mgi: I'd rather still use my layout; but I'd just like the scroll bar to work Alex_MGI: Will Jen get royalties? tberardi: No, but we may address her as Queen Jen. jclark: I'll get an absurd sense of personal pride jrichter: Jen will get 100% of all the nothing we get paid from this program. jclark: jrichter: Harold - send Jen your layout. She'll be able to fix it up with a splitpane so quick it'll make your head spin. jclark: true 6:00 PM jclark: fun fun fun midori: John - stderr files now available from the ebi file exchange site: go to http://www.ebi.ac.uk/systems-srv/mp/file-exchange/ ; right now they're the first two files up there. tberardi ducking out for other meeting, am leaving chat window open to read discussion that follows kchris: So with all these layout files available, will there be multiple layout options coming with the next version of obo-edit? jclark: I think that would be awfully handy melissaH: me too jrichter: Karen - no, because it won't be necessary once we move to the new system. jrichter: Remember the thing with the dockable panels we tested? kchris: why will it not be necessary? jclark: I remember jclark: it looked good jrichter: That's how OBO-Edit 2.0 will work. If you get a "layout" you like, you can save it, but those layouts are called "Perspectives" in the dockable panel vernacular. melissaH: yeah, that was great, but still for advanced users. kchris: how far away are we from that? jrichter: It's the first thing I'm going to put into 2.0-beta1 jrichter: But it's probably a few months away. kchris: then perhaps since these layout files are small, you could include the current one, as well as Jen's one, so that if I happen to prefer my old layout, I can go back to it without learning XML, which seems unlikely with current priorities for my time melissaH: seems like something we should have on the wiki. jrichter: In the next beta release the documentation contains an "examplelayouts" folder with everyone's favorite layouts. jrichter: Just like the examplescripts folder we talked about last time. melissaH: ok. same thing. 6:05 PM jrichter: I've replaced the questionplugin.jar on sourceforge with a repaired version. jrichter: This new one should work for you. j-lo: it's not showing up in the plugins menu still jclark: funky layout harold. midori: same here - no new plugin jrichter: <groan> jrichter: Forget it. I'll try to do a new release later today. hjd_mgi: no see new plugin either midori: (of course, I'm not sure how fast the European mirrors update ...) jrichter: So there are no outstanding bugs from any working group members besides the NullPointerException jrichter: Midori - I'm actually sure that's the problem, but I've just discovered that beta14 is required for this plugin anyway. melissaH: I'll work on checking mine in b13 later today. sorry. melissaH: b14. midori: I'd like to confirm fixes, but John says everything I reported from beta12 is fixed. melissaH: I get a grey screen once in a while, anybody else get this? 6:10 PM Alex_MGI: no melissaH: e.g. oboedit window with nothing in it. jrichter: Does it eventually resolve itself, Melissa? melissaH: If I restart oboedit melissaH: it can happen during a session, too. jrichter: Hmm.... Melissa, send me your stderr file (zipped!). This sounds like a lockup. melissaH: ok, later from my work computer. jrichter: Java windows will sometimes go gray if Java is locked up, or working and working so hard that there's no time to update the screen. hjd_mgi: BTW, from a couple betas back, the program always starts up with the ontology browser window collapsed; when I open it, it's automatically two screens, with the bottom screen active. Is this how it is working for everyone else? jrichter: What do you mean "collapsed"? hjd_mgi: Fully closed; I have to pull the bar it to the right to open it. It's not a big deal, but it didn't used to start up that way. jrichter: Huh. Harold, send me a copy of your layout too, and I'll see what I can do. 6:15 PM jrichter: Does anyone have any other business? Otherwise, I'll get to work on releasing beta14 with new docs by tonight. kchris: Did Mike Cherry give you an OK on obo2obo? midori: Did you or Chris send a response to the paper reviews? jrichter: According to an email from 12/4, Mike was able to get obo2obo running without a problem, and Jane okayed the result. jrichter: As far as I know, neither Chris nor I have responded to the paper reviews. I'll send him an email right now. jrichter: Email sent. jrichter: Here are my action items for the WG members then: jrichter: 1) Make sure you're signed up to monitor OBO-Edit betas on sourceforge, so I don't send redundant emails jrichter: 2) Keep an eye out for beta14 and the Question Plugin tonight. I'm very interested to get feedback on the plugin. jrichter: That's it for me. 6:20 PM j-lo: what's the SF mailing list called? midori: no mailing list ... click 'monitor' on the downloads page Alex_MGI: It's not exactly a mailing list. j-lo: i can't see a monitor button on that page - where is it? j-lo: oh, got it now midori: sorry, I wasn't very specific .... https://sourceforge.net/project/showfiles.php?group_id=36855 kchris: The formatting of the SF site is completely messed up for me, instead of the dropdown menus, all the contents are in big huge lists that take up a ton of space, can't find anything there jrichter: What browser are you using? You should probably send SF itself a bug report. kchris: OmniWeb, the same browser I always use for SF jrichter: Yeah, they probably need a bug report. They're probably only testing with IE and Mozilla. Alex_MGI: Sounds like a CSS problem. jrichter: (and maybe Safari) Alex_MGI: It works fine on Safari. kchris: where would I find where to send them a bug report? jrichter: Hold on... midori: It's OK in Safari and FIrefox 6:25 PM jrichter: http://sourceforge.net/tracker/?func=add&group_id=1&atid=200001 jrichter: You can't submit bug reports, only "support requests" jrichter: But that should be good enough. jrichter: Are we done, then? midori: I don't have anything else. hjd_mgi: Next meeting next thursday? midori: There's going to be a content webconf sometime next week, most likely Thursday. jrichter: What do people think? Two weeks from now would be right after Christmas. Alex_MGI: Okay for me in two weeks, but probably not for others. midori: I'll be in North Yorkshire then. j-lo: are we going to try and get this released before xmas? jrichter: Please god... Alex_MGI: All I want for Christmas ... melissaH: sounds like a week from now then. jrichter: Okay. Same time next week? kchris: Stanford will be on winter closure that week, so I won't be working the week after Xmas Alex_MGI: Okay melissaH: ok here. j-lo: yeah - lets do it next week hjd_mgi: Stanford has "winter"??? kchris: The have winter closure regardless of the weather midori: I'll try to sign off (barring new bugs) before Thurs; anyone who's not on the is_a-complete party can chat. jrichter: Anyone who wants to can leave, I had a thing for Midori. midori: I"ll also try to remember to send the reminder email ... j-lo: so are we all aiming to sign off before thurs then? jrichter: Midori - Did you get my email about how to specify which file wins in the case of an obomerge conflict? midori: yes, and replied (did that get lost too???) jrichter: Hell yes! Sign off as soon as possible. Before Thursday. 6:30 PM Alex_MGI: Will do, Thanks, Bye. j-lo: okay. Good night! j-lo has left the channel hjd_mgi: ttfn jrichter: Midori - I haven't gotten an email from you since the reminder for this chat. midori: aaaaaaaaaaarrrrrrgghhhh. melissaH: ok, see ya. jrichter: Try sending email directly to jrichter@fruitfly.org, and see if that helps melissaH has quit the server saying: Quit: melissaH hjd_mgi has left the channel midori: ok Alex_MGI has quit the server saying: Quit: Quitting! kchris: Before I go, John, what is the best email address for you. Mike C mentioned that you were not responding to his messages when I was talking to him about obo2obo a few weeks ago. 6:35 PM jrichter: Karen - try jrichter@berkeleybop.org or jrichter@fruitfly.org. It seems my yale alumnus address is screwing up. kchris: OK, thanks John.