<div dir="ltr">Hi Tom and Greg, <div><br></div><div>Thank you very much for your help. </div><div>It works now. I tried out the lines you have shown. It did work. I can produce the image I need.</div><div><div style="font-size:small;text-decoration-style:initial;text-decoration-color:initial">To see what was the problem, I test line by line in this script (<a href="https://www.cgl.ucsf.edu/chimera/docs/ProgrammersGuide/basicPrimer.html">https://www.cgl.ucsf.edu/chimera/docs/ProgrammersGuide/basicPrimer.html</a>). The problem came from "<code style="color:rgb(0,0,0)">rc("<a href="https://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/preset.html">preset</a> apply publication 1")</code><span style="color:rgb(0,0,0)">".</span></div></div><div>Here I post the debugging backtrace information I got. It seems related to the swrast rendering lib.</div><div>Though my problem solved, it will be good to know the reason of this too.</div><div>Thank you again for your informative help.</div><div><br></div><div>Best, </div><div>Zhe</div><div><br></div><div>
<span></span>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">(gdb) bt</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#0<span class="gmail-Apple-converted-space"> </span>aa_general_rgba_line (ctx=0x9db160, v0=0x7fffeab809c8, v1=0x7fffeab80bb0) at swrast/s_aalinetemp.h:208</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#1<span class="gmail-Apple-converted-space"> </span>0x00007fffecafd9b9 in _swsetup_edge_render_line_tri (ctx=0x9db160, ef=0x14d4060 '\001' <repeats 50 times>, "@\001", e0=5, e1=6, e2=30, v0=0x7fffeab809c8, v1=0x7fffeab80bb0, v2=0x7fffeab83970) at swrast_setup/ss_triangle.c:80</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#2<span class="gmail-Apple-converted-space"> </span>0x00007fffecaffa7f in _swsetup_render_tri (render=0x7fffecafd8c0 <_swsetup_edge_render_line_tri>, facing=1, e2=30, e1=6, e0=5, ctx=0x9db160) at swrast_setup/ss_triangle.c:165</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#3<span class="gmail-Apple-converted-space"> </span>triangle_twoside_unfilled_rgba (ctx=0x9db160, e0=5, e1=6, e2=30) at swrast_setup/ss_tritmp.h:181</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#4<span class="gmail-Apple-converted-space"> </span>0x00007fffeca82feb in _tnl_render_triangles_elts (ctx=0x9db160, start=0, count=150, flags=<optimized out>) at tnl/t_vb_rendertmp.h:175</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#5<span class="gmail-Apple-converted-space"> </span>0x00007fffeca83f65 in run_render (ctx=0x9db160, stage=<optimized out>) at tnl/t_vb_render.c:320</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#6<span class="gmail-Apple-converted-space"> </span>0x00007fffeca78ccd in _tnl_run_pipeline (ctx=0x9db160) at tnl/t_pipeline.c:158</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#7<span class="gmail-Apple-converted-space"> </span>0x00007fffeca7ae0c in _tnl_draw_prims (ctx=ctx@entry=0x9db160, arrays=arrays@entry=0xa2ab20, prim=prim@entry=0x7fffffffb5d0, nr_prims=nr_prims@entry=1, ib=ib@entry=0x7fffffffb5e0, min_index=<optimized out>, max_index=49) at tnl/t_draw.c:445</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#8<span class="gmail-Apple-converted-space"> </span>0x00007fffeca7b125 in _tnl_vbo_draw_prims (ctx=0x9db160, arrays=0xa2ab20, prim=0x7fffffffb5d0, nr_prims=1, ib=0x7fffffffb5e0, index_bounds_valid=<optimized out>, min_index=0, max_index=49) at tnl/t_draw.c:375</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#9<span class="gmail-Apple-converted-space"> </span>0x00007fffeca6da4e in vbo_validated_drawrangeelements (indices=0x0, type=5125, count=150, end=4294967295, start=4294967295, index_bounds_valid=0 '\000', mode=4, ctx=0x9db160) at vbo/vbo_exec_array.c:661</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#10 vbo_exec_DrawElements (mode=4, count=150, type=5125, indices=0x0) at vbo/vbo_exec_array.c:755</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#11 0x00007fffeb8221d9 in molecule::ObjectInstances::drawPushMatrix(chimera::LensViewer const*, molecule::ObjectInstances::DrawType) () from /nfs/public/rw/pdbe/httpd-em/software/chimera_headless/lib/_molecule.so</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#12 0x00007fffeb822253 in molecule::ObjectInstances::drawOpaque(chimera::LensViewer const*) () from /nfs/public/rw/pdbe/httpd-em/software/chimera_headless/lib/_molecule.so</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#13 0x00007fffeb823f84 in molecule::Shapes::drawOpaque(chimera::LensViewer const*) () from /nfs/public/rw/pdbe/httpd-em/software/chimera_headless/lib/_molecule.so</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#14 0x00007fffeb84fb76 in molecule::MoleculeLensModel::draw(chimera::LensViewer const*, chimera::LensViewer::DrawPass) const () from /nfs/public/rw/pdbe/httpd-em/software/chimera_headless/lib/_molecule.so</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#15 0x00007fffee09e3f9 in chimera::LensModel::xformDraw(chimera::LensViewer const*, chimera::LensViewer::DrawPass) const () from /nfs/public/rw/pdbe/httpd-em/software/chimera_headless/lib/_chimera.so</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#16 0x00007fffee09a8f4 in chimera::Lens::draw(chimera::LensViewer const*, chimera::LensViewer::DrawPass, int const*) () from /nfs/public/rw/pdbe/httpd-em/software/chimera_headless/lib/_chimera.so</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#17 0x00007fffee0a6e09 in chimera::LensViewer::drawSilhouette(chimera::Array<int, 4ul> const&, chimera::LensViewer::DrawPass, __gnu_cxx::__normal_iterator<chimera::ScreenBox*, std::vector<chimera::ScreenBox, std::allocator<chimera::ScreenBox> > >, __gnu_cxx::__normal_iterator<chimera::ScreenBox*, std::vector<chimera::ScreenBox, std::allocator<chimera::ScreenBox> > >) const () from /nfs/public/rw/pdbe/httpd-em/software/chimera_headless/lib/_chimera.so</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#18 0x00007fffee0a8b69 in chimera::LensViewer::drawScreenBoxes(chimera::Array<int, 4ul> const&, __gnu_cxx::__normal_iterator<chimera::ScreenBox*, std::vector<chimera::ScreenBox, std::allocator<chimera::ScreenBox> > >, __gnu_cxx::__normal_iterator<chimera::ScreenBox*, std::vector<chimera::ScreenBox, std::allocator<chimera::ScreenBox> > >) const () from /nfs/public/rw/pdbe/httpd-em/software/chimera_headless/lib/_chimera.so</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#19 0x00007fffee0a8e9d in chimera::LensViewer::draw() const () from /nfs/public/rw/pdbe/httpd-em/software/chimera_headless/lib/_chimera.so</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#20 0x00007fffee0ab551 in chimera::LensViewer::pilImages(int, int, char const*, int, bool) const () from /nfs/public/rw/pdbe/httpd-em/software/chimera_headless/lib/_chimera.so</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#21 0x00007fffee0dc98c in LensViewer_pilImages () from /nfs/public/rw/pdbe/httpd-em/software/chimera_headless/lib/_chimera.so</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#22 0x00000000004ad05f in do_call (nk=<optimized out>, na=<optimized out>, pp_stack=0x7fffffffc150, func=<optimized out>) at Python/ceval.c:4571</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#23 call_function (oparg=<optimized out>, pp_stack=0x7fffffffc150) at Python/ceval.c:4379</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#24 PyEval_EvalFrameEx (f=f@entry=0x296b7d0, throwflag=throwflag@entry=0) at Python/ceval.c:2994</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#25 0x00000000004af3b0 in PyEval_EvalCodeEx (co=<optimized out>, globals=<optimized out>, locals=locals@entry=0x0, args=<optimized out>, argcount=argcount@entry=1, kws=kws@entry=0x1de02d8, kwcount=10, defs=0x7fffe69c57b8, defcount=19, closure=0x0) at Python/ceval.c:3589</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#26 0x00000000004ac4fc in fast_function (nk=<optimized out>, na=1, n=<optimized out>, pp_stack=0x7fffffffc390, func=<optimized out>) at Python/ceval.c:4452</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#27 call_function (oparg=<optimized out>, pp_stack=0x7fffffffc390) at Python/ceval.c:4377</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#28 PyEval_EvalFrameEx (f=f@entry=0x1de0090, throwflag=throwflag@entry=0) at Python/ceval.c:2994</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#29 0x00000000004af3b0 in PyEval_EvalCodeEx (co=<optimized out>, globals=<optimized out>, locals=locals@entry=0x0, args=args@entry=0x7ffff7f8a068, argcount=<optimized out>, kws=kws@entry=0x7fffe70e7968, kwcount=kwcount@entry=1, defs=defs@entry=0x7fff975f1458, defcount=defcount@entry=11, closure=0x0)</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="gmail-Apple-converted-space"> </span>at Python/ceval.c:3589</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#30 0x000000000051e205 in function_call (func=0x7fff96df7b90, arg=0x7ffff7f8a050, kw=0x7fffe6d94280) at Objects/funcobject.c:523</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#31 0x0000000000425bb3 in PyObject_Call (func=func@entry=0x7fff96df7b90, arg=arg@entry=0x7ffff7f8a050, kw=kw@entry=0x7fffe6d94280) at Objects/abstract.c:2547</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#32 0x00000000004a9158 in ext_do_call (nk=<optimized out>, na=<optimized out>, flags=<optimized out>, pp_stack=0x7fffffffc6a0, func=0x7fff96df7b90) at Python/ceval.c:4671</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#33 PyEval_EvalFrameEx (f=f@entry=0x1f9acc0, throwflag=throwflag@entry=0) at Python/ceval.c:3033</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#34 0x00000000004af3b0 in PyEval_EvalCodeEx (co=<optimized out>, globals=<optimized out>, locals=locals@entry=0x0, args=<optimized out>, argcount=argcount@entry=2, kws=kws@entry=0x16dad00, kwcount=0, defs=0x0, defcount=0, closure=0x0) at Python/ceval.c:3589</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#35 0x00000000004ac4fc in fast_function (nk=<optimized out>, na=2, n=<optimized out>, pp_stack=0x7fffffffc8d0, func=<optimized out>) at Python/ceval.c:4452</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#36 call_function (oparg=<optimized out>, pp_stack=0x7fffffffc8d0) at Python/ceval.c:4377</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#37 PyEval_EvalFrameEx (f=f@entry=0x16daae0, throwflag=throwflag@entry=0) at Python/ceval.c:2994</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#38 0x00000000004af3b0 in PyEval_EvalCodeEx (co=<optimized out>, globals=<optimized out>, locals=locals@entry=0x0, args=args@entry=0x7fffe715bf68, argcount=<optimized out>, kws=kws@entry=0x7ffff7f8a068, kwcount=kwcount@entry=0, defs=defs@entry=0x7fff96dcb2a8, defcount=defcount@entry=1, closure=0x0)</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="gmail-Apple-converted-space"> </span>at Python/ceval.c:3589</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#39 0x000000000051e205 in function_call (func=0x7fff96b5fed8, arg=0x7fffe715bf50, kw=0x7fffe710fb40) at Objects/funcobject.c:523</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#40 0x0000000000425bb3 in PyObject_Call (func=func@entry=0x7fff96b5fed8, arg=arg@entry=0x7fffe715bf50, kw=kw@entry=0x7fffe710fb40) at Objects/abstract.c:2547</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#41 0x00000000004a9158 in ext_do_call (nk=<optimized out>, na=<optimized out>, flags=<optimized out>, pp_stack=0x7fffffffcbe0, func=0x7fff96b5fed8) at Python/ceval.c:4671</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#42 PyEval_EvalFrameEx (f=f@entry=0x7fffe6d58960, throwflag=throwflag@entry=0) at Python/ceval.c:3033</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#43 0x00000000004af3b0 in PyEval_EvalCodeEx (co=<optimized out>, globals=<optimized out>, locals=locals@entry=0x0, args=<optimized out>, argcount=argcount@entry=1, kws=kws@entry=0x7fffe70a5560, kwcount=0, defs=0x0, defcount=0, closure=0x0) at Python/ceval.c:3589</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#44 0x00000000004ac4fc in fast_function (nk=<optimized out>, na=1, n=<optimized out>, pp_stack=0x7fffffffce10, func=<optimized out>) at Python/ceval.c:4452</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#45 call_function (oparg=<optimized out>, pp_stack=0x7fffffffce10) at Python/ceval.c:4377</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#46 PyEval_EvalFrameEx (f=f@entry=0x7fffe70a53d0, throwflag=throwflag@entry=0) at Python/ceval.c:2994</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#47 0x00000000004af3b0 in PyEval_EvalCodeEx (co=co@entry=0x7fffe714d7b0, globals=globals@entry=0x7fffe710f168, locals=locals@entry=0x7fffe710f168, args=args@entry=0x0, argcount=argcount@entry=0, kws=kws@entry=0x0, kwcount=kwcount@entry=0, defs=defs@entry=0x0, defcount=defcount@entry=0,<span class="gmail-Apple-converted-space"> </span></span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="gmail-Apple-converted-space"> </span>closure=closure@entry=0x0) at Python/ceval.c:3589</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#48 0x00000000004af4f2 in PyEval_EvalCode (co=co@entry=0x7fffe714d7b0, globals=globals@entry=0x7fffe710f168, locals=locals@entry=0x7fffe710f168) at Python/ceval.c:669</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#49 0x00000000004c41cc in PyImport_ExecCodeModuleEx (name=name@entry=0x7ffff04947fc "chimeraOpenSandbox", co=co@entry=0x7fffe714d7b0, pathname=pathname@entry=0x13a2a40 "test.pyc") at Python/import.c:731</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#50 0x00000000004c452e in load_source_module (name=0x7ffff04947fc "chimeraOpenSandbox", pathname=0x13a2a40 "test.pyc", fp=fp@entry=0x1292be0) at Python/import.c:1121</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#51 0x00000000004c48d7 in imp_load_source (self=<optimized out>, args=<optimized out>) at Python/import.c:3163</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#52 0x00000000004acb39 in call_function (oparg=<optimized out>, pp_stack=0x7fffffffd200) at Python/ceval.c:4357</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#53 PyEval_EvalFrameEx (f=f@entry=0x13b0860, throwflag=throwflag@entry=0) at Python/ceval.c:2994</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#54 0x00000000004af3b0 in PyEval_EvalCodeEx (co=<optimized out>, globals=<optimized out>, locals=locals@entry=0x0, args=args@entry=0x7fff97626668, argcount=<optimized out>, kws=kws@entry=0x7ffff7f8a068, kwcount=kwcount@entry=0, defs=defs@entry=0x7fffee43a1a8, defcount=defcount@entry=1, closure=0x0)</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="gmail-Apple-converted-space"> </span>at Python/ceval.c:3589</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#55 0x000000000051e205 in function_call (func=0x7fffee4469b0, arg=0x7fff97626650, kw=0x7fffe71495c8) at Objects/funcobject.c:523</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#56 0x0000000000425bb3 in PyObject_Call (func=func@entry=0x7fffee4469b0, arg=arg@entry=0x7fff97626650, kw=kw@entry=0x7fffe71495c8) at Objects/abstract.c:2547</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#57 0x00000000004a9158 in ext_do_call (nk=<optimized out>, na=<optimized out>, flags=<optimized out>, pp_stack=0x7fffffffd510, func=0x7fffee4469b0) at Python/ceval.c:4671</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#58 PyEval_EvalFrameEx (f=f@entry=0x139e490, throwflag=throwflag@entry=0) at Python/ceval.c:3033</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#59 0x00000000004af3b0 in PyEval_EvalCodeEx (co=<optimized out>, globals=<optimized out>, locals=locals@entry=0x0, args=<optimized out>, argcount=argcount@entry=2, kws=kws@entry=0x897058, kwcount=1, defs=0x7fffee436068, defcount=12, closure=0x0) at Python/ceval.c:3589</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#60 0x00000000004ac4fc in fast_function (nk=<optimized out>, na=2, n=<optimized out>, pp_stack=0x7fffffffd740, func=<optimized out>) at Python/ceval.c:4452</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#61 call_function (oparg=<optimized out>, pp_stack=0x7fffffffd740) at Python/ceval.c:4377</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#62 PyEval_EvalFrameEx (f=f@entry=0x896c20, throwflag=throwflag@entry=0) at Python/ceval.c:2994</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#63 0x00000000004af3b0 in PyEval_EvalCodeEx (co=<optimized out>, globals=<optimized out>, locals=locals@entry=0x0, args=<optimized out>, argcount=argcount@entry=1, kws=kws@entry=0x7ffff7f1fac0, kwcount=0, defs=0x7ffff7ef0f80, defcount=16, closure=0x0) at Python/ceval.c:3589</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#64 0x00000000004ac4fc in fast_function (nk=<optimized out>, na=1, n=<optimized out>, pp_stack=0x7fffffffd980, func=<optimized out>) at Python/ceval.c:4452</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#65 call_function (oparg=<optimized out>, pp_stack=0x7fffffffd980) at Python/ceval.c:4377</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#66 PyEval_EvalFrameEx (f=f@entry=0x7ffff7f1f938, throwflag=throwflag@entry=0) at Python/ceval.c:2994</span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">#67 0x00000000004af3b0 in PyEval_EvalCodeEx (co=co@entry=0x7ffff7f9d230, globals=globals@entry=0x7ffff7f5f168, locals=locals@entry=0x7ffff7f5f168, args=args@entry=0x0, argcount=argcount@entry=0, kws=kws@entry=0x0, kwcount=kwcount@entry=0, defs=defs@entry=0x0, defcount=defcount@entry=0,<span class="gmail-Apple-converted-space"> </span></span></p>
<p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">---Type <return> to continue, or q <return> to quit---</span></p>
<br></div><div><br></div><br><div class="gmail_quote"><div dir="ltr">On Wed, Aug 1, 2018 at 10:56 PM Greg Couch <<a href="mailto:gregc@cgl.ucsf.edu">gregc@cgl.ucsf.edu</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div text="#000000" bgcolor="#FFFFFF">
<p>Works for me :-)</p>
<p>I just tried the headless version of Chimera on CentOS 7.5. I
didn't use a script, but did the following commands:</p>
open 6c7m<br>
windowsize 512 512<br>
surf<br>
copy file test.png<br>
stop<br>
<br>
And it created the image file and exited without a problem.<br>
<br>
So it is unclear what the problem is. You'll need to run gdb to
find out where the segmentation fault occured. Create a debugging
version of the chimera program script, and change the 'exec $python'
at the end to 'gdb $python', run it, and then in gdb, 'run
$CHIMERA/share/__main__.py chimera_surface.py'. When chimera
segmentation faults, type 'bt' to get a backtrace and send it to me.<br>
<p>FYI, the headless version of Chimera comes with libOSMesa, so you
don't need to install it. But it shouldn't cause problems if you
did. The libOSMesa distributed with chimera is ancient, version
7.6.1. So, if the backtrace shows that the bug is in libOSMesa,
there's a good chance that if you replace chimera's libOSMesa.so
with the system version, it will work.</p>
<p> Good luck,</p>
<p> Greg<br>
</p>
<br>
<div class="m_8647441965752161163moz-cite-prefix">On 08/01/2018 03:57 AM, Zhe Wang wrote:<br>
</div>
<blockquote type="cite">
<div dir="ltr">Hi,
<div><br>
</div>
<div>I am trying to using headless Chimera on RedHat linux
server 7.3 to produce some images. </div>
<div>But I end up with a segmentation fault. Does anyone have an
idea how it comes to this?</div>
<div>The headless chimera is from <a href="https://www.cgl.ucsf.edu/chimera/download.html" target="_blank">https://www.cgl.ucsf.edu/chimera/download.html</a>
(64-bit daily build).</div>
<div>The test code was taken without changes from <a href="https://www.cgl.ucsf.edu/chimera/docs/ProgrammersGuide/basicPrimer.html" target="_blank">https://www.cgl.ucsf.edu/chimera/docs/ProgrammersGuide/basicPrimer.html</a>.</div>
<div>Any ideas will be appreciated.</div>
<div><br>
</div>
<div>Best, </div>
<div>Zhe</div>
<div><br>
</div>
<div>PS: OSMesa 11.2.2 has been installed. </div>
<div><br>
</div>
<div><br>
</div>
<div>
<span></span>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Executing
chimera_surface.py...</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Processing
6c7m.pdb</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Opening
6c7m.pdb...</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">#0,
chain A: kemp eliminase KE07</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9);min-height:17px"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br>
</p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">6c7m.pdb
opened</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Center
of rotation: 0.867528 -1.77985 11.157</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">/software/chimera_headless/bin/mscalc
1.400000 2.000000 1</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9);min-height:17px"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br>
</p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">MSMSLIB
1.3 started on <a href="http://ebi-cli-002.ebi.ac.uk" target="_blank">ebi-cli-002.ebi.ac.uk</a></span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Copyright
M.F. Sanner (March 2000)</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Compilation
flags <span class="m_8647441965752161163m_-6911996100271192826gmail-Apple-converted-space"> </span></span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9);min-height:17px"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br>
</p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9);min-height:17px"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br>
</p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Surface
6c7m.pdb, category main, probe radius 1.4, vertex density
2</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="m_8647441965752161163m_-6911996100271192826gmail-Apple-converted-space">
</span>12 connected surface components</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="m_8647441965752161163m_-6911996100271192826gmail-Apple-converted-space">
</span>Total solvent excluded surface area = 10612</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="m_8647441965752161163m_-6911996100271192826gmail-Apple-converted-space">
</span>component areas = 10035.4, 126.971, 97.9893,
90.9594, 38.157, 36.4953, 34.1487, 33.7557, 32.681,
30.3253, 29.9037, 25.222</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="m_8647441965752161163m_-6911996100271192826gmail-Apple-converted-space">
</span>Total solvent accessible surface area = 11324.6</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="m_8647441965752161163m_-6911996100271192826gmail-Apple-converted-space">
</span>component areas = 11265.5, 25.8506, 19.8737,
10.3135, 0.685134, 0.778238, 0.522429, 0.365982, 0.314644,
0.177358, 0.178001, 0.00214196</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9);min-height:17px"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br>
</p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Surface
6c7m.pdb, category main has 12 components</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">/software/chimera_headless/bin/mscalc
1.400000 10.000000 1</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9);min-height:17px"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br>
</p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">MSMSLIB
1.3 started on <a href="http://ebi-cli-002.ebi.ac.uk" target="_blank">ebi-cli-002.ebi.ac.uk</a></span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Copyright
M.F. Sanner (March 2000)</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Compilation
flags <span class="m_8647441965752161163m_-6911996100271192826gmail-Apple-converted-space"> </span></span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">RESTART
FROM TRI: 1</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">radius
of atom 5 goes from 1.880000 to 1.980000</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">radius
of atom 6 goes from 1.880000 to 1.980000</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">radius
of atom 1569 goes from 1.420000 to 1.520000</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Partial
mode</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9);min-height:17px"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br>
</p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">/software/chimera_headless/bin/mscalc
1.400000 10.000000 0</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9);min-height:17px"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br>
</p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">MSMSLIB
1.3 started on <a href="http://ebi-cli-002.ebi.ac.uk" target="_blank">ebi-cli-002.ebi.ac.uk</a></span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Copyright
M.F. Sanner (March 2000)</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Compilation
flags <span class="m_8647441965752161163m_-6911996100271192826gmail-Apple-converted-space"> </span></span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">RESTART
FROM TRI: 1</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">radius
of atom 5 goes from 1.880000 to 1.980000</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">radius
of atom 6 goes from 1.880000 to 1.980000</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">radius
of atom 1569 goes from 1.420000 to 1.520000</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Partial
mode</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9);min-height:17px"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br>
</p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Calculation
of some surface components failed.</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9);min-height:17px"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br>
</p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">A
single component of the surface was calculated correctly -
the failure occurred for disconnected<span class="m_8647441965752161163m_-6911996100271192826gmail-Apple-converted-space">
</span>additional components such as inside bubbles.<span class="m_8647441965752161163m_-6911996100271192826gmail-Apple-converted-space"> </span>If
the desired surface is already shown, there is no need for
concern.<span class="m_8647441965752161163m_-6911996100271192826gmail-Apple-converted-space">
</span>However, if it is not shown, see below for possible
fixes.</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9);min-height:17px"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br>
</p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Surface
calculation frequently fails for large, multi-chain
structures. The calculation may be successful if the
chains are treated individually, by using the "split"
command before generating a surface.<span class="m_8647441965752161163m_-6911996100271192826gmail-Apple-converted-space">
</span>If splitting is not desired or the structure is
already a single chain, changing molecular surface
parameters in the Selection Inspector or (before surface
creation) the New Surfaces category of Preferences may
allow the calculation to succeed. More details are given
at</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9);min-height:17px"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br>
</p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"><a href="http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/surfprobs.html" target="_blank">http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/surfprobs.html</a></span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9);min-height:17px"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br>
</p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Surface
6c7m.pdb, category main, probe radius 1.4, vertex density
10</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="m_8647441965752161163m_-6911996100271192826gmail-Apple-converted-space">
</span>1 connected surface components</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="m_8647441965752161163m_-6911996100271192826gmail-Apple-converted-space">
</span>Total solvent excluded surface area = 10036.7</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="m_8647441965752161163m_-6911996100271192826gmail-Apple-converted-space">
</span>Total solvent accessible surface area = 11266.5</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9);min-height:17px"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br>
</p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Surface
6c7m.pdb, category main has 1 components</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Rendering
high resolution image...</span></p>
<p class="m_8647441965752161163m_-6911996100271192826gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-weight:normal;font-stretch:normal;line-height:normal;font-family:Monaco;color:rgb(250,255,253);background-color:rgba(0,0,0,0.9)"><span class="m_8647441965752161163m_-6911996100271192826gmail-s1" style="font-variant-ligatures:no-common-ligatures">Segmentation
fault</span></p>
<br>
</div>
<div><br>
</div>
<div><br>
</div>
</div>
<br>
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<br>
<pre>_______________________________________________
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Manage subscription: <a class="m_8647441965752161163moz-txt-link-freetext" href="http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users" target="_blank">http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users</a>
</pre>
</blockquote>
<br>
</div>
</blockquote></div></div>