<html><head><meta http-equiv="Content-Type" content="text/html; charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">Also the M1 version is of course faster than the Intel version running on M1 Macs, maybe 50% faster on average. Some ChimeraX M1 benchmarks are here<div class=""><br class=""></div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span><a href="https://www.rbvi.ucsf.edu/chimerax/data/czi-nov2021/apple_m1.html" class="">https://www.rbvi.ucsf.edu/chimerax/data/czi-nov2021/apple_m1.html</a></div><div class=""><br class=""></div><div class="">I have been running the native M1 Chimerax for all my work for the past month (missing HDF5, netcdf, tiff image stack support) and it is a pleasure. Zach is getting those final packages working on the M1.</div><div class=""><br class=""></div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span>Tom</div><div class=""><br class=""><div class=""><br class=""></div><div class=""><br class=""><div><blockquote type="cite" class=""><div class="">On Apr 28, 2022, at 10:38 AM, Alexis Rohou via ChimeraX-users <<a href="mailto:chimerax-users@cgl.ucsf.edu" class="">chimerax-users@cgl.ucsf.edu</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class="">Thanks Zach!</div><br class=""><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Thu, Apr 28, 2022 at 10:37 AM Zach Pearson <<a href="mailto:zjp@cgl.ucsf.edu" class="">zjp@cgl.ucsf.edu</a>> wrote:<br class=""></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex"><div style="overflow-wrap: break-word;" class="">Hi Alexis, <div class=""><br class=""></div><div class="">The Intel version of ChimeraX currently available on our website appears to work well on Apple Silicon, and we are very close to a full M1 build. We anticipate releasing an M1 version of ChimeraX 1.4. </div><div class=""><br class=""></div><div class="">— Zach <br class=""><div class=""><br class=""><blockquote type="cite" class=""><div class="">On Apr 28, 2022, at 10:34, Alexis Rohou via ChimeraX-users <<a href="mailto:chimerax-users@cgl.ucsf.edu" target="_blank" class="">chimerax-users@cgl.ucsf.edu</a>> wrote:</div><br class=""><div class=""><div dir="ltr" class="">Hi Tom, ChimeraX team,<div class=""><br class=""></div><div class="">What is the status of ChimeraX on Apple M1/Silicon machines? Does it work? Well? Natively?</div><div class=""><br class=""></div><div class="">Cheers,</div><div class="">Alexis</div></div><br class=""><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Mon, Mar 22, 2021 at 11:11 AM Jeffrey D. Hartgerink <<a href="mailto:jdh@rice.edu" target="_blank" class="">jdh@rice.edu</a>> wrote:<br class=""></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex"><div class="">Hi Tom,<div class=""><br class=""></div><div class="">Thank you for this detailed response! It illustrated the challenges well and was very useful. In particular, I was unaware of the all-or-nothing nature of Rosetta.</div><div class=""><br class=""></div><div class="">I’ve recently acquired an arm based Mac mini and would be happy to test any early builds if that would be useful.</div><div class=""><br class=""></div><div class="">-Jeff</div><div class=""><br class=""></div><div class=""><div class="">
<div dir="auto" style="letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none" class=""><div dir="auto" style="letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none" class=""><div dir="auto" style="letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none" class=""><div dir="auto" style="letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none" class=""><div dir="auto" class=""><div style="font-family:Helvetica;font-size:14px;font-style:normal;font-variant-caps:normal;font-weight:normal;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px" class="">--------------------------------------<br class="">Jeffrey D. Hartgerink, Ph.D.<br class="">Prof. of Chemistry and Bioengineering</div><div style="font-family:Helvetica;font-size:14px;font-style:normal;font-variant-caps:normal;font-weight:normal;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px" class="">Rice University, MS 602<br class="">6100 Main Street<br class="">Houston, TX 77005<br class=""><a href="mailto:jdh@rice.edu" target="_blank" class="">jdh@rice.edu</a> / 713-348-4142</div><div style="font-family:Helvetica;font-size:14px;font-style:normal;font-variant-caps:normal;font-weight:normal;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px" class=""><a href="http://hartgerink.rice.edu/" target="_blank" class="">hartgerink.rice.edu</a></div></div></div></div></div></div>
</div>
<div class=""><br class=""><blockquote type="cite" class=""><div class="">On Mar 22, 2021, at 12:58 PM, Tom Goddard <<a href="mailto:goddard@sonic.net" target="_blank" class="">goddard@sonic.net</a>> wrote:</div><br class=""><div class=""><div class="">One more detail. Our lab is getting an Apple Silicon machine so we can attempt to make a native ChimeraX version.<div class=""><br class=""></div><div class=""><span style="white-space:pre-wrap" class=""> </span>Tom</div><div class=""><br class=""><div class=""><br class=""><blockquote type="cite" class=""><div class="">On Mar 22, 2021, at 10:57 AM, Tom Goddard <<a href="mailto:goddard@sonic.net" target="_blank" class="">goddard@sonic.net</a>> wrote:</div><br class=""><div class=""><div class="">In the future we would like to provide a native Apple Silicon (ARM CPU) version of ChimeraX. We have not tried it yet. It would be easy to compile the C++ code we develop for the new CPU. But the trouble is that ChimeraX depends on over 50 third party Python modules, some of them including compiled code. I believe all of those compiled python modules will have to be available compiled for ARM in order for us to make a native ChimeraX app. According to Apple's developer documentation you cannot mix ARM compiled code with Intel compiled dynamically loaded modules in the same process:<div class=""><br class=""></div><div class="">From <a href="https://developer.apple.com/documentation/apple-silicon/about-the-rosetta-translation-environment" target="_blank" class="">https://developer.apple.com/documentation/apple-silicon/about-the-rosetta-translation-environment</a></div><div class=""><div style="margin:0px;padding:0px;line-height:1.52947;font-weight:600;letter-spacing:-0.021em" class="">Important</div><div style="margin:0.4em 0px 0px;padding:0px" class="">The system prevents you from mixing <code style="font-size:1em;font-family:"SF Mono",Meno,monospace;letter-spacing:0px" class="">arm64</code> code and <code style="font-size:1em;font-family:"SF Mono",Meno,monospace;letter-spacing:0px" class="">x86_64</code> code in the same process. Rosetta translation applies to an entire process, including all code modules that the process loads dynamically.</div><div class=""><br class=""></div><div class=""><br class=""></div><div class="">Major packages we use like the Qt window toolkit and numpy array module provide native ARM versions. But less well maintained modules like the PyOpenGL-accelerate module ChimeraX uses for OpenGL graphics has not been updated for more than a year (Jan 2020) and there is no telling when an ARM version will become available.</div><div class=""><br class=""></div><div class="">The following GitHub repository (focused on neuroimaging) describes some of the availability problems from scientific packages on ARM CPUs.</div><div class=""><br class=""></div><div class=""><span style="white-space:pre-wrap" class=""> </span><a href="https://github.com/neurolabusc/AppleSiliconForNeuroimaging" target="_blank" class="">https://github.com/neurolabusc/AppleSiliconForNeuroimaging</a></div><div class=""><br class=""></div><div class=""> Tom</div><div class=""><br class=""></div><div class=""><br class=""><blockquote type="cite" class=""><div class="">On Mar 21, 2021, at 7:40 PM, Jeffrey D. Hartgerink <<a href="mailto:jdh@rice.edu" target="_blank" class="">jdh@rice.edu</a>> wrote:</div><br class=""><div class=""><div class="">Are there any plans for an Apple Silicon (M1 chip) native version of ChimeraX? While things work ok via the Rosetta emulator, it would be great to have the performance from a native app.<div class=""><br class=""></div><div class="">
<div dir="auto" style="letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none" class=""><div dir="auto" style="letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none" class=""><div dir="auto" style="letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none" class=""><div dir="auto" style="letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none" class=""><div dir="auto" class=""><div style="font-family:Helvetica;font-size:14px;font-style:normal;font-variant-caps:normal;font-weight:normal;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px" class="">--------------------------------------<br class="">Jeffrey D. Hartgerink, Ph.D.<br class="">Prof. of Chemistry and Bioengineering</div><div style="font-family:Helvetica;font-size:14px;font-style:normal;font-variant-caps:normal;font-weight:normal;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px" class="">Rice University, MS 602<br class="">6100 Main Street<br class="">Houston, TX 77005<br class=""><a href="mailto:jdh@rice.edu" target="_blank" class="">jdh@rice.edu</a> / 713-348-4142</div><div style="font-family:Helvetica;font-size:14px;font-style:normal;font-variant-caps:normal;font-weight:normal;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px" class=""><a href="http://hartgerink.rice.edu/" target="_blank" class="">hartgerink.rice.edu</a></div></div></div></div></div></div>
</div>
<br class=""></div>_______________________________________________<br class="">ChimeraX-users mailing list<br class=""><a href="mailto:ChimeraX-users@cgl.ucsf.edu" target="_blank" class="">ChimeraX-users@cgl.ucsf.edu</a><br class="">Manage subscription:<br class=""><a href="https://plato.cgl.ucsf.edu/mailman/listinfo/chimerax-users" target="_blank" class="">https://plato.cgl.ucsf.edu/mailman/listinfo/chimerax-users</a><br class=""></div></blockquote></div><br class=""></div></div></div></blockquote></div><br class=""></div></div></div></blockquote></div><br class=""></div></div>_______________________________________________<br class="">
ChimeraX-users mailing list<br class="">
<a href="mailto:ChimeraX-users@cgl.ucsf.edu" target="_blank" class="">ChimeraX-users@cgl.ucsf.edu</a><br class="">
Manage subscription:<br class="">
<a href="https://plato.cgl.ucsf.edu/mailman/listinfo/chimerax-users" rel="noreferrer" target="_blank" class="">https://plato.cgl.ucsf.edu/mailman/listinfo/chimerax-users</a><br class="">
</blockquote></div>
_______________________________________________<br class="">ChimeraX-users mailing list<br class=""><a href="mailto:ChimeraX-users@cgl.ucsf.edu" target="_blank" class="">ChimeraX-users@cgl.ucsf.edu</a><br class="">Manage subscription:<br class=""><a href="https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users" target="_blank" class="">https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users</a><br class=""></div></blockquote></div><br class=""></div></div></blockquote></div>
_______________________________________________<br class="">ChimeraX-users mailing list<br class=""><a href="mailto:ChimeraX-users@cgl.ucsf.edu" class="">ChimeraX-users@cgl.ucsf.edu</a><br class="">Manage subscription:<br class="">https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users<br class=""></div></blockquote></div><br class=""></div></div></body></html>