nice. It's not even necessary to decompress, PyMOL loads the gz file directly.
unset normalize_ccp4_maps load \ http://3vee.molmovdb.org/output/12jan07/d14/2xwu-12jan07.d14.mrc.gz, \ vvv_map, format=ccp4 isomesh vvv_mesh, vvv_map, 0.01 I first tried one of the "Recent runs" examples but it didn't work, until I found that there is a "PyMOL compatible" checkbox on the Volume Calculation page. It says PyMOL requires floats, would it be difficult to support integer values with PyMOL as well? Cheers, Thomas Jason Vertrees wrote, On 01/06/12 22:21: > Hi Maximillian, > >> I am using the webtool http://3vee.molmovdb.org/index.php. The density map >> is in a file format called MRC (I guess it is re-formated by the webtool in >> a MRC file compatible to pymol at least this is what it says), which if I >> understand it correctly is a similar file format as CCP4. However, I can't >> isomesh the map. Does anybody knows how to compute MRC files from voss > > > I just tried this and the volumes look great. This looks like a really > useful web-based tool. Here's how to do it. > > Download their file and decompress it: gunzip yourFile.mrc.gz. Then > load it into PyMOL as: > > load yourFile.mrc, format=ccp4 > > The map data are most likely not a normal distribution, so I suggest > unsetting normalize_ccp4_maps, before loading: > > unset normalize_ccp4_maps > > At this point, the idea of a map "level" is no longer valid (since the > maps are not normalized). But, that's the only way to change the > representation, so use the 'isolevel' command > (http://www.pymolwiki.org/index.php/Isolevel). > > This should be documented on the PyMOLWiki somewhere under 3rd Party > Tools (or web servers). > > Cheers, > > -- Jason -- Thomas Holder MPI for Developmental Biology Spemannstr. 35 D-72076 Tübingen ------------------------------------------------------------------------------ Ridiculously easy VDI. With Citrix VDI-in-a-Box, you don't need a complex infrastructure or vast IT resources to deliver seamless, secure access to virtual desktops. With this all-in-one solution, easily deploy virtual desktops for less than the cost of PCs and save 60% on VDI infrastructure costs. Try it free! http://p.sf.net/sfu/Citrix-VDIinabox _______________________________________________ PyMOL-users mailing list ([email protected]) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/[email protected]
