making movies with MorphMap, exporting povray scenes, FitMapInMap
Dear Chimera users and developers, recently I used the new morph map tool and it worked very nice in my case. I encountered a problem while exporting the animation in any movie-format within Morphmap, I just get empty or very small files, which cannot be displayed in any media-player. I decided then to use the chimera-movie recorder utility to record the morphing animation and this worked fine (I´ve tested this with mpeg-2 format). At the moment I´m using the chimera-version 1.2309 in a SUSE LINUX 9.2 environment. Is this a version problem or a bug? Furthermore, I´ve exported some scenes in the povray format and I´ve noticed that the final images are of lower quality in comparison with images made some months ago with older chimera versions. I haven´t changed the povray-version, the rendering settings and the settings for the visualisation of my data in chimera (brightness etc...). The colors are too pale, I could send you some example-images if needed. I´ve tried also the Fit Map in Map tool recently and it worked perfectly (you sent this tool to a group-colleague some months ago). I´m wondering why you didn´t put this tool on the experimental site yet....and one more last question...after using Fit Map in Map, is there any possibility to save the "fitted" map with it´s new orientation? Thanks, Christos Christos Gatsogiannis Institute of Zoology Johannes Gutenberg University 55099 Mainz, Germany Tel: +49(0)6131-39-23091 email: gatsogia@uni-mainz.de
Hi Christos, The problem using the Record button on the Morph Map tool was that it was always writing the movie in Quicktime format no matter what format you actually chose. Thanks for identifying the problem. I've fixed it and the updated version is on the experimental features web page: http://www.cgl.ucsf.edu/chimera/experimental/experimental.html Greg Couch works on the Chimera povray code and will answer that part of your email. I didn't put the fit map in map tool on the experimental features page because it is part of the standard Chimera distribution available in version 1.2318 (snapshots for linux and ppc mac only). We will soon (within a week?) have a new Chimera snapshot on all platforms that includes fit map in map. It is not yet possible to save a map fit into another map in a new map file. The trouble is that none of the map file formats can include a rotation so it would be necessary to resample the data on a new grid. That can reduce the resolution. Still we plan on offering that in the future. You can currently save a Chimera session and the rotated map position is recorded. But of course that is not useful for importing the rotated map into other software. Tom
On Wed, 14 Feb 2007, Tom Goddard wrote:
Greg Couch works on the Chimera povray code and will answer that part of your email.
The POV-Ray output changed to get the colors closer to what you see in the chimera window. There is one additional line at the top of the povray file: global_settings { assumed_gamma 1 } Remove that line and you'll see the previous darker colors. If that doesn't fix the problem you're seeing, please let me know. I have also in the last month fixed some bugs in the POV-Ray and VRML output. The revised converters will be in the next snapshot release (we're hoping it will be out by next week), and you'll be able to use the Image Save dialog to call povray directly. So I am very interested in whether or not the assumed_gamma change was the problem. - Greg
participants (3)
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Gatsogiannis, Christos -
Greg Couch -
Tom Goddard