From: Walls, R. <rw...@ny...> - 2012-04-05 22:01:41
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Yep, works for me too. Thanks! Ramona From: Melissa Haendel <ha...@oh...<mailto:ha...@oh...>> Date: Thu, 5 Apr 2012 14:27:50 -0700 To: Nomi Harris <nlh...@lb...<mailto:nlh...@lb...>> Cc: Ramona Walls <rw...@ny...<mailto:rw...@ny...>>, OBO-Edit Working Group <Gen...@li...<mailto:Gen...@li...>> Subject: Re: [OBO-Edit Working Group] replaced_by issue It works! Thank you so much Nomi!! I tried with dragging and dropping new term, adding a replaced_by, saving and reopening, all looks perfect. Cheers! Melissa On Apr 5, 2012, at 11:46 AM, Nomi Harris wrote: I think I've fixed it. Can you try it out? Download from http://oboedit.org/test_release/2.1.1-b8/ Thanks, Nomi On Apr 5, 2012, at 11:21 AM, Nomi Harris wrote: It seems like the issue (for both Melissa and Ramona, in her Feature Request) is that you can't drag onto an obsolete term--is that correct? Ramona's tracker item didn't mention the dragging; it just said that OE "won't let you add a consider or replaced_by relation between the terms with the same name", and it was not explained at the time that the way she was trying to add these was by dragging the non-obsolete term onto the obsolete term, but now I'm guessing that's what Ramona meant. Do I have that right? If so, Ramona was right to add this as a Feature Request rather than a Bug Report, because I'm sure it was a deliberate decision NOT to let you drag onto an obsolete term. I will look into how difficult it would be to enable this. Nomi On Apr 3, 2012, at 6:42 AM, Melissa Haendel wrote: Thanks so much Ramona, I was wondering if it was something like that. I can add the replaced_by in a text editor. I was just thinking that as we move towards modularity this sort of thing might happen a lot. For example, I am obsoleting a given term because it is now imported from another ontology. Nomi- the actions are: 1. remove all parents of a term of "name a", ID:1 2. obsolete "name a", ID:1 3. try to drag "name a",ID:2 onto the obsoleted "name a",ID:1 4. get no replaced_by menu. If you rename the term as Ramona suggests it works fine, but this is less desirable. I can reopen and post this info to the tracker item if you think it is still something to address. Thanks much, Melissa On Apr 2, 2012, at 2:43 PM, Walls, Ramona wrote: Looks like I was actually the one who created the feature tracker (no wonder it seemed familiar!). However, it was closed with "works for me", because I was satisfied with renaming the terms. You could ask to have it re-opening, if it is important to you. It actually says in the tracker that it is possible to do it (replace term with the same name), but I'm not sure if that was correct. I can't do it now, and I don't remember being able to do it. http://sourceforge.net/tracker/index.php?func=detail&aid=3181194&group_id=36855&atid=418260 Ramona From: Melissa Haendel <ha...@oh...<mailto:ha...@oh...>> Date: Mon, 2 Apr 2012 13:20:14 -0700 To: OBO-Edit Working Group <Gen...@li...<mailto:Gen...@li...>> Cc: Ceri Van Slyke <van...@zf...<mailto:van...@zf...>> Subject: [OBO-Edit Working Group] replaced_by issue Hi all, Its been a long while since I have been on the obo-edit working group! I am editing some obo files and need to add some replaced_by tags. The drag and drop seems to work fine, except when they are duplicate terms with the same name (different IDs/namespaces). In this case, I get no menu, no action. Is this something any of you have encountered? I am on mac version, but ceri sees same thing on PC. If you add a space to the name, it works. But that is less desirable. I can report as a bug, but I thought I'd ask in case it was a feature ;-). Thanks much, Melissa Dr. Melissa Haendel Assistant Professor Ontology Development Group, OHSU Library http://www.ohsu.edu/library/ Department of Medical Informatics and Epidemiology Oregon Health & Science University ha...@oh...<mailto:ha...@oh...> skype: melissa.haendel 503-407-5970 |