November 2002 - Chimera-dev - RBVI Mailing Lists

OSF/1 version is working again
by Greg Couch 14 Nov '02

14 Nov '02

So the web now has a 1.1602 release for Tru64!!! It was a linking problem with a hidden C++ system archive. Greg

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Chimera for OSX
by Michael Giffin 14 Nov '02

14 Nov '02

Is it possible to get a copy of Chimera for OSX? Thanks for your help. ------------------------------------------------------------------- "I was demoted from lead guitar to rhythm and finally to the bass. There was always a frightful fear I would land up as the drummer." -Roger Waters, 1965 Michael Giffin giffin(a)colorado.edu Department of Biochemistry http://ucsu.Colorado.EDU/~giffin/ University of Colorado-Boulder 303-492-4503 -------------------------------------------------------------------

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UI discussion summary
by Conrad Huang 07 Nov '02

07 Nov '02

I've put down what I remember of yesterday's discussions. Please go to https://wwwtest.cgl.ucsf.edu/intranet/chimeradevelopment/uiissues.html and see if I missed anything. Feel free to update the page. Just remember to change the date at the bottom and send out mail when you do. Conrad

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Re: [chimera-dev] Release note suggestions
by Elaine Meng 06 Nov '02

06 Nov '02

Tom G's suggestion on the tutorials part does change the meaning slightly but it probably doesn't matter. Would only matter if someone thought "hey, where did the Menu Functions tutorial go?" Elaine

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Release note suggestions
by Thomas Goddard 06 Nov '02

06 Nov '02

Hi Greg, I looked at the release notes again. Under performance optimizations it says "... is much faster ...". It would be helpful if this was more precise, like "... is approximately 2 times faster..." Some times "much faster" means 10% faster, and sometimes it means 10 times faster. I'm sure the speed up depends on the particular case but I like to give a number for a common case when I make optimization claims. Maybe move "Side View no longer drawn if containing dialog is closed" to be one of the perfomance optimization sub-points. Maybe put "splash screen shows up faster" under the performance optimizations item, and make "Chimera window pops up at splash screen position" a separate point. Benchmark extension description says "on chimera on chimera". To the Volume Viewer extension description you can add: "Subregion history and named subregions were added." I found the following hard to understand quickly. "Menu Functions tutorial expanded and changed to Getting Started -- Menu Version. Getting Started tutorial changed to Getting Started -- Command Version." Maybe something like "Getting Started tutorial now comes in a menu version and a command version." Tom

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release notes comments
by Elaine Meng 05 Nov '02

05 Nov '02

Hello, here's my 2 cents worth on the Release Notes: (1) I don't like "- -"...would make them all " - ", at least the ones embedded in the tutorial names. (2) I would change the wording describing the Select menu changes, since Chemistry contains other options besides the new one for residue type, and Structure contains sidechain/mainchain along with the automatic categories. The description is just a jumble as it is. I would just say: Select menu reorganization - new entries for sidechain/mainchain, residue type, automatic categories (ligand, main, solvent, ions) or if you prefer to mention the new headings under Select: Select menu reorganization - Chemistry section including new residue type item, Structure section including new entries for sidechain/mainchain and automatic categories (ligand, main solvent, ions) (3) "More flexible reading of MSF files" is kind of vague...what does that mean?? (4) New Extension: "Benchmark" should be in bold. I would change the description, because even though volumes are shown the performance indicates performance in molecular display tasks, and because speed (not "how well") is the quantity being assessed. Maybe something like: "measures hardware performance on graphical display tasks" Thanks, Elaine

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release notes for next release
by Greg Couch 05 Nov '02

05 Nov '02

Please review http://www.cgl.ucsf.edu/home/gregc/relnotes.html for inaccuracies and omissions and please let me know if you find any! Thanks, Greg

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Chimera-dev November 2002