Hi Jean-Paul, Your last script works fine for me with Mac X11 Chimera 1.2540 running on Mac OS 10.4.11 where I tried a few different test volumes and "wait 2" instead of "wait 4" since you said only "wait 4" works. Either the problem depends on your computer (possibly graphics card) or more likely it depends on your exact data sets. For me to get anywhere I have to be able to make the problem happen on my machine. Since I don't have your data sets please make a demonstration script that exhibits the problem using public data. I"ve attached a script that opens an electron density server (EDS) map and does your transparency change. It works fine on my Mac OS 10.4.11 system with Radeon X1600 graphics which Chimera X11 1.2540. Perhaps you can try it and modify it as needed so it fails on your machine. Give me the exact Chimera version and graphics card and Mac OS version and a self-contained script that fails and I will see if it fails for me. If it does then I can fix it. Tom Jean-Paul Armache wrote:
Dear Sir,
Your answer has been helpful. Thank you. However....
I edited the file and did something like that
movie record
volume #8 transparency 0.95 wait 4 volume #8 transparency 0.9 wait 4 volume #8 transparency 0.85 wait 4 volume #8 transparency 0.8 wait 4 volume #8 transparency 0.75 wait 4 volume #8 transparency 0.7 wait 4 volume #8 transparency 0.65 wait 4 volume #8 transparency 0.6 wait 4 volume #8 transparency 0.55 wait 4 volume #8 transparency 0.5 wait 4 volume #8 transparency 0.45 wait 4 volume #8 transparency 0.4 wait 4 volume #8 transparency 0.35 wait 4 volume #8 transparency 0.3 wait 4 volume #8 transparency 0.25 wait 4 volume #8 transparency 0.2 wait 4 volume #8 transparency 0.15 wait 4 volume #8 transparency 0.1 wait 4 volume #8 transparency 0.05 wait 4 volume #8 transparency 0.0 wait 4
movie stop
movie encode bitrate 1200 mformat avi output /Users/jean-paularmache/Desktop/pdbs_final2.avi
with any lower or higher wait it did not function. Ok, having that I thought about doing the thing to two volumes at the same time, so I did
volume #8, 9 transparency 0.95 wait 4
it did not function, therefore I changed the wait for a larger number. It did not work at all. The same problem as before. So, I did two blocks (copied the block for 8 and changed into 9) and applied the 4,5,6 etc waiting command. Nothing worked as before.
However, I might have found one thing that might indicate to why it is like that. I noticed that while restoring the session, the histogram is not generated (and I work with BRIX files). To generate it and get the range, one just has to click on that file in the Volume viewer.
If I don't restore the histograms, then nothing happens. If I restore the histogram for 8 and make it as a selected volume (that is selected in the Volume viewer), then the transparency steps work. However, if I restore the histogram for 8 and 9 and leave 9 as a selected volume, then nothing works.
I am quite confused... :)
Thank you for all the help
Best regards,
Jean-Paul Armache _______________________________________________ Chimera-users mailing list Chimera-users@cgl.ucsf.edu http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users
open edsID:1a0m movie record volume #0 transparency 0.95 wait 2 volume #0 transparency 0.9 wait 2 volume #0 transparency 0.85 wait 2 volume #0 transparency 0.8 wait 2 volume #0 transparency 0.75 wait 2 volume #0 transparency 0.7 wait 2 volume #0 transparency 0.65 wait 2 volume #0 transparency 0.6 wait 2 volume #0 transparency 0.55 wait 2 volume #0 transparency 0.5 wait 2 volume #0 transparency 0.45 wait 2 volume #0 transparency 0.4 wait 2 volume #0 transparency 0.35 wait 2 volume #0 transparency 0.3 wait 2 volume #0 transparency 0.25 wait 2 volume #0 transparency 0.2 wait 2 volume #0 transparency 0.15 wait 2 volume #0 transparency 0.1 wait 2 volume #0 transparency 0.05 wait 2 volume #0 transparency 0.0 wait 2 movie stop movie encode bitrate 1200 mformat avi output /tmp/test.avi