Thanks for your kind words! We try :-) Elaine
On Apr 26, 2021, at 3:50 AM, Stapleton kevin2017/4/3 <kevin.aug@protein.osaka-u.ac.jp> wrote:
This is awesome and both methods worked out great! Just what I was looking to do.
On a personal note, I would like to take this opportunity to say a direct thank you to both you and Dr. Meng. I always learned so much from both of your responses. Such a great program and community support. Thank you.
Hope everyone is having a great day, Kako
----- Original Message -----
From: Tom Goddard <goddard@sonic.net> To: Stapleton kevin2017/4/3 <kevin.aug@protein.osaka-u.ac.jp> Cc: chimerax-users@cgl.ucsf.edu Date: 2021-04-24 03:48:20 Subject: Re: [chimerax-users] z-slice movie making
Hi Kako,
It is nice if the movie shows a text label giving the plane number as it flips through. So here is a script that does that.
# Setup scene. # For movie recording I would normally setup by hand and # save a session instead of using commands. windowsize 500 500 open 22910 from emdb volume #1 style image level -0.4458,0 level 2.326,1 plane z,200 view orient zoom 2 camera ortho 2dlabel text "plane number" xpos 0.8 ypos 0.1
# Record movie movie record size 500,500 perframe "volume #1 plane z,$1 ; 2dlabel #2.1 text $1" range 80,343 wait 264 perframe "volume #1 plane z,$1 ; 2dlabel #2.1 text $1" range 343,80 wait 264 movie encode ~/Desktop/planes.mp4 quality high
Tom
On Apr 23, 2021, at 11:29 AM, Tom Goddard <goddard@sonic.net> wrote:
Hi Kako,
Here is an example script to record a movie flipping through planes.
# Setup scene. # For movie recording I would normally setup by hand and # save a session instead of using commands. windowsize 500 500 open 22910 from emdb volume #1 style image level -0.4458,0 level 2.326,1 plane z,200 view orient zoom 2 camera ortho
# Record movie movie record volume #1 plane z,80,343 wait 264 volume #1 plane z,343,80 wait 264 movie encode ~/Desktop/planes.mp4 quality high
Tom
On Apr 23, 2021, at 3:54 AM, Stapleton kevin2017/4/3 <kevin.aug@protein.osaka-u.ac.jp<mailto:kevin.aug@protein.osaka-u.ac.jp>> wrote:
Hello Vadim my new cross-forums friend!
I completely forgot about the view name options! Yes this worked just fine but with some tweeks to get the video to 10sec. I couldn't get the 'framerate' command to work properly. So I just improvised :-)
For anyone else curious or learning here is how I achieved this:
## download thetest EM density open 22296 from emdb
## Selected "clip" button from the "right mouse" tab and slid the clipper view all the way out so it looked as if normal. This will be my start ## frame. Then save this snapshot/scene view name 1
## then use the clip to slide all the way through the volume until a desired point. In my case all the way through. Saved this ## snapshot/scene view name 2
## go back to original snapshot view 1
##Test the transition works view 1 1; wait 1; view 2 250; wait 250
## record the movie movie record supersample 3; view 1 1; wait 1; view 2 250; wait 250; movie stop; movie encode ~/Desktop/9.mp4
I tried the above method and it worked great! However, now I want to look even cooloer by making the same movie, but with the volume styled in "Plane" or "tilted slab".
Anyone have a workaround for this?
Thanks again Vadim and next time I'm in the EU I will buy you a beer/coffee!
Kako
----- Original Message -----
> From: Vadim Kotov <vadim.r.kotov@gmail.com <mailto:vadim.r.kotov@gmail.com>> > To: Stapleton kevin2017/4/3 <kevin.aug@protein.osaka-u.ac.jp <mailto:kevin.aug@protein.osaka-u.ac.jp>>,chimerax-users@cgl.ucsf.edu <mailto:chimerax-users@cgl.ucsf.edu> > Date: 2021-04-23 17:18:14 > Subject: Re: [chimerax-users] z-slice movie making > > Hi, Kako! > > I think all you have to do is to save respective views with clipping > enabled and then make a movie that would interpolate between these > views. To be more specific: > > 1) Save the starting view: > view orient > view name initial_view > > 2) adjust the clipping planes and orientation of the map as you wish and > save another view: > view name clip_view > > 3) go back to the initial view and interpolate to the clipped view over > 100 frames: > view initial_view > view clip_view 100; wait 100 > > Of note, I used these commands ~1 year ago to make a movie for our > lab's webpage > <https://www.cssb-hamburg.de/research/research_groups/loew_group/index_eng.ht... <https://www.cssb-hamburg.de/research/research_groups/loew_group/index_eng.html>>, > so the syntax might have changed in the meantime. > > Alternatively, you could set up the clipping planes outside the map > and then move it through the clipping planes with move > <http://www.rbvi.ucsf.edu/chimerax/docs/user/commands/move.html<http://www.rbvi.ucsf.edu/chimerax/docs/user/commands/move.html>> command > that uses several frames. > > Good luck! > > Best wishes, > Vadim > > > On 23.04.21 09:41, Stapleton kevin2017/4/3 wrote: >> Greeting everyone in the ChiX community. Long time listener first time caller :-) >> >> I was wondering if anyone could help me with making a movie that is essentially slicing (clipping) through a given volume. >> >> I am pretty comfortable with the movie making movie parameters and I have read through the sections >> >> 1) help:user/movies.html >> 2) help:user/commands/clip.html >> >> However the command parameters explanation is juuuuust a smidgen beyond my limits (almost there...damn!) and cant seems to get this into a working movie (if possible at all). >> >> So, using the emdb entry: 22910 for example case, how can I make a movie that is 10 seconds long and extends through the clipping plane of a given volume, moving front to back (from the "view orient" perspective; the clipping plane will extend forward through the volume, and back again) >> >> Thanks for all your help in this specific case, and for all of the efforts put into to this mailing list. It has been a well spring of fun learning for me over the years. SO many cool tips and tricks to make macro-molecular structures look top notch and cool. THANKS CHIMERA TEAM!! >> >> All the best and well wishes from Japan, >> Kako >> >> PS. apologies if this was covered in a previous thread. I must have missed it. >> _______________________________________________ >> ChimeraX-users mailing list >> ChimeraX-users@cgl.ucsf.edu <mailto:ChimeraX-users@cgl.ucsf.edu> >> Manage subscription: >> https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users > > > >
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