通过PyMOL命令行设置: 打开PyMOL后,在命令行中输入以下命令: pymol set opaque_background, off 这条命令将关闭不透明背景,使背景变为透明。使用配置文件设置(永久修改): 如果你希望每次启动PyMOL时背景都是透明的,可以在PyMOL的配置文件中进行设置。 在你的用户目录下创建一个名为.pymolrc的文件(如果文件...
保存图片: PyMOL>set ray_opaque_background, off Setting: ray_opaque_background set to 0. PyMOL>ray Ray: render time: 0.17 sec. = 20689.7 frames/hour (0.17 sec. accum.). PyMOL>png pocket_FABP5_LA.png,dpi=600 ScenePNG: wrote 1480x528 pixel image to file "pocket_FABP5_LA.png". ...
cmd.set('ray_trace_mode', 3) cmd.set('ray_opaque_background', 0) 在pymol界面操作类似set bg_rgb,[1, 1, 1],每个字段的意思可以在https://pymolwiki.org/中查到,比如: 设置之后的效果图,会虚化部分结构 Pymol ray 在pymol中直接保存的照片会有明显的齿痕,所有需要用ray或者draw保存清晰的照片 ...
1, File->Run Script->选择python脚本; 2, run python脚本 常用命令: load *.pdb remove solvent select str1, resn Cl- remove str1 align WT_ligs, WT_box_wat_eq3 #后面的是target alignto WT_ligs #把所有pdb都align到WT_ligs show sticks, resi 87 set label_size, -1.4 set label_color, ...
到这一步看上去差不多了。下一步需要把背景换成白色。菜单窗口-Display-Background-White,还可以根据需要,把Opaque勾掉,让背景透明。 三 最后一步做3D渲染,在菜单窗口,或者显示窗口的输入栏,输入 ray 1000,1000。其中ray是命令,1000,1000是表...
0.20setray_transparency_oblique,1.0setray_transparency_oblique_power,20show surface,polysetsurface_quality,2setlight_count,5setambient_occlusion_mode,1setambient_occlusion_scale,50setambient,0.40settransparency,0.50disable pRampsetspec_power,1200setspec_reflect,0.20setray_opaque_background,0setray_shadow,...
show sticks set ray_opaque_background, off set stick_radius, 0.1 show spheres set sphere_scale, 0.15, all set sphere_scale, 0.12, elem H color gray40, elem C set sphere_quality, 30 set stick_quality, 30 set sphere_transparency, 0.0 set stick_transparency, 0.0 set ray_shadow, off set...
Opensource molecular visualization system. Fork of http://sourceforge.net/projects/pymol/ We provide pymol windows installer for python2.7, for both pymol 1.5 and pymol 1.6 - pymol/pymol/ChangeLog at master · evonove/pymol
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\0.718028009, -0.686303139, 0.115350# 设置渲染器cmd.set('ray_opaque_background', 0)cm...