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Re: [PyMOL] Pymol wrl output
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From: Grateful F. <gra...@gm...> - 2014-05-03 17:54:04
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Hi, I tried it in white WRL as you suggested and that loaded into Shapeways ok. Green would also load... The same file, then set to CMYK colors (menu DISPLAY / COLOR SPACE / CMYK ) would not load... Any help would be great! Thanks for all this! Ciao, Bob On Sat, May 3, 2014 at 6:44 PM, Sampson, Jared <Jar...@ny...>wrote: > Hi Bob - > > The reason you're getting these errors is because having negative values > in a color tuple is not meaningful (you can't have a negative amount of > color), and results in undefined behavior. RGB colors use a number in the > range 0.0-1.0 (inclusive) for each value in the tuple. What color are you > using for your model before exporting VRML? Try setting everything to > white (`color white` on the command line) and see what that does. > > Cheers, > Jared > > -- > Jared Sampson > Xiangpeng Kong Lab > NYU School of Medicine > kong.med.nyu.edu > ------------------------------ > *From:* Grateful Frog [gra...@gm...] > *Sent:* Friday, May 02, 2014 7:07 PM > *To:* Marcelo Marcet > *Cc:* pym...@li... > *Subject:* Re: [PyMOL] Pymol wrl output > > these are the errors that Shapeways sent back: > ---- > Unfortunately, the model you recently uploaded TMD11Ultra.wrl did not pass > our initial printability checks, so it's not yet ready for 3D printing. > Printability Error: > > - Model failed during repair. This is likely due to problems merging > shells. > > Please visit your 3D model page to update your file: > http://www.shapeways.com/model/upload-and-buy/1932482<http://www.shapeways.com/model/upload-and-buy/1932482?etId=14290783&utm_source=automated-contact&utm_medium=email&utm_campaign=model-processing-failed> > > Our tutorials and FAQ<http://www.shapeways.com/support?etId=14290783&utm_source=automated-contact&utm_medium=email&utm_campaign=model-processing-failed>can be super helpful for more detailed information, or you can always ask > the community a specific question on our forum<http://www.shapeways.com/forum?etId=14290783&utm_source=automated-contact&utm_medium=email&utm_campaign=model-processing-failed> > > If you're stuck or have any questions, don't hesitate to reach out at > se...@sh.... Please include the file as an attachment to the > email, as well as any notes on your design, so we can help you solve your > problem as quickly as possible. > > Additional non-critical errors: > > - Invalid field, unparsable value, name: Material.diffuseColor , > value: [-1.0, -1.0, 1.0]. Value ignored. > - Invalid field, unparsable value, name: Material.diffuseColor , > value: [-1.0, -1.0, 1.0]. Value ignored. > - Invalid field, unparsable value, name: Material.diffuseColor , > value: [-1.0, -1.0, 1.0]. Value ignored. > > -> this goes on for tons of lines... > > > > On Sat, May 3, 2014 at 12:39 AM, Grateful Frog <gra...@gm...>wrote: > >> Hi Marcelo, >> >> Thanks for your help and suggestion! >> >> I did that and the surface is much nicer. >> >> However, the Pymol rendering in VRML still won't load to Shapeways >> without error. >> >> I have to re-render in VRML in MeshLab. >> >> My goal is to do it all in Pymol. >> >> Any more ideas would be great! >> >> Ciao, >> Bob >> >> >> On Sat, May 3, 2014 at 12:17 AM, Marcelo Marcet <MM...@na...> wrote: >> >>> Hi Bob, >>> >>> Before you save your file from pymol try increasing the quality to max, >>> then save as VRML. This increases the number of polygons in the file and >>> after exporting from meshlab the final molecule will look a lot smoother. >>> >>> Cheers, >>> Marcelo >>> >>> On May 2, 2014, at 2:15 PM, Grateful Frog <gra...@gm...> >>> wrote: >>> >>> > Hi all, >>> > >>> > I'm new to this list and to this tool. I have encountered a problem >>> with exporting as wrl in pylolk 1.7 that I compiled on my Ubuntu 12.04 >>> platform. >>> > >>> > I load a PDB file and it displays fine. >>> > >>> > I then type the command "show surface" and this works fine, too. >>> > >>> > I then save image as VRML 2, and write the file to disk. >>> > >>> > This file can be visualized fine in MeshLab. >>> > >>> > However, it cannot be 3D printed at Shapeways. The error message does >>> not say what is wrong. >>> > >>> > The work-around that I have found is to open the wrl file, generated >>> by Pymol, in Meshlab and re-save another copy as wrl, but generated by >>> Meshlab. This new file can be 3D printed at Shapeways. >>> > >>> > However, the look of the surface is not as nice when it comes out of >>> Meshlab, as it is in Pymol... >>> > >>> > Any thoughts would be great! >>> > >>> > Thanks, >>> > Bob >>> > >>> ------------------------------------------------------------------------------ >>> > "Accelerate Dev Cycles with Automated Cross-Browser Testing - For FREE >>> > Instantly run your Selenium tests across 300+ browser/OS combos. Get >>> > unparalleled scalability from the best Selenium testing platform >>> available. >>> > Simple to use. Nothing to install. 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