On Jan 16, 2015, at 8:46 AM, Thomas Evangelidis <tevang3@gmail.com> wrote:
Hi Elaine, I don't know why, but none of the 3 approached works, even with the latest Chimera version. […]
Hi Thomas, Your pseudobonds are in stick style. You would have to change the stick to wire before doing those other things; in Chimera there are no “dotted or dashed” sticks, only wires (lines). E.g. in Selection Inspector, inspect: Pseudobond, change bond style to wire. That only changes the specific pseudobond(s) you have selected; if you first select one distance pseudobond, you can press keyboard up arrow to expand the selection to all the distance pseudobonds. Can also be done with setattr command, e.g.: setattr p drawMode 0 Hard to see on white background. Can change color with setattr too: setattr p color black When you first create distances they are normally already in wire style, which is why I didn’t mention the stick/wire issue before. I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco
Thank you Elaine. One last thing, when I save an image using Chimera rendering it says that the effective maximum line width is 3.3333. Is there any way to increase it? Thomas On 16 January 2015 at 20:01, Elaine Meng <meng@cgl.ucsf.edu> wrote:
On Jan 16, 2015, at 8:46 AM, Thomas Evangelidis <tevang3@gmail.com> wrote:
Hi Elaine, I don't know why, but none of the 3 approached works, even with the latest Chimera version. […]
Hi Thomas, Your pseudobonds are in stick style. You would have to change the stick to wire before doing those other things; in Chimera there are no “dotted or dashed” sticks, only wires (lines). E.g. in Selection Inspector, inspect: Pseudobond, change bond style to wire. That only changes the specific pseudobond(s) you have selected; if you first select one distance pseudobond, you can press keyboard up arrow to expand the selection to all the distance pseudobonds.
Can also be done with setattr command, e.g.: setattr p drawMode 0
Hard to see on white background. Can change color with setattr too: setattr p color black
When you first create distances they are normally already in wire style, which is why I didn’t mention the stick/wire issue before. I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco
-- ====================================================================== Thomas Evangelidis PhD student University of Athens Faculty of Pharmacy Department of Pharmaceutical Chemistry Panepistimioupoli-Zografou 157 71 Athens GREECE email: tevang@pharm.uoa.gr tevang3@gmail.com website: https://sites.google.com/site/thomasevangelidishomepage/ =============================================================== *Physics is the only real science. The rest are just stamp collecting.* *- Ernest Rutherford*
Hi Thomas, You’re welcome! For getting a fatter line in a saved image, I usually recommend decreasing supersampling (see image save dialog) to 2x2. If you are saving a large number of pixels, even 1x1 may be good enough. For a little more explanation of this issue, see <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/print.html#supersampling> <http://plato.cgl.ucsf.edu/pipermail/chimera-users/2014-December/010555.html> Best, Elaine On Jan 16, 2015, at 1:23 PM, Thomas Evangelidis <tevang3@gmail.com> wrote:
Thank you Elaine. One last thing, when I save an image using Chimera rendering it says that the effective maximum line width is 3.3333. Is there any way to increase it?
Thomas
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Elaine Meng -
Thomas Evangelidis