<div dir="ltr">Sorry if this is a duplicate, but I'm not sure if my response got sent to the bulletin board correctly.<div><br><div><div><div><div dir="ltr" class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div><div>--</div><div><span style="font-size:12.8000001907349px">Billy K. Poon</span><br></div></div><div>Research Scientist, Molecular Biophysics and Integrated Bioimaging</div><div>Lawrence Berkeley National Laboratory</div><div>1 Cyclotron Road, M/S 33R0345</div><div>Berkeley, CA 94720</div><div>Fax: (510) 486-5909</div><div>Web: <a href="https://phenix-online.org" target="_blank">https://phenix-online.org</a></div></div></div></div></div></div></div></div></div></div><br><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">---------- Forwarded message ---------<br>From: <strong class="gmail_sendername" dir="auto">Billy Poon</strong> <span dir="auto"><<a href="mailto:BKPoon@lbl.gov">BKPoon@lbl.gov</a>></span><br>Date: Sun, Dec 31, 2023 at 6:29 PM<br>Subject: Re: [phenixbb] Phenix installation on macOS 14 Sonoma<br>To: Klureza, Maggie <<a href="mailto:mklureza@g.harvard.edu">mklureza@g.harvard.edu</a>><br>Cc: <<a href="mailto:phenixbb@phenix-online.org">phenixbb@phenix-online.org</a>><br></div><br><br><div dir="ltr">Hi Maggie,<div><br></div><div>Can you run the script from inside the sonoma_fix directory? That is, </div><div><br></div><div>1) Extract sonoma_fix.tar.gz</div><div>2) cd sonoma_fix</div><div>3) sudo ./fix_wxpython.sh /Applications/phenix-1.19.2-4158</div><div><br></div><div>Inside the sonoma_fix directory, there should be a "bin" directory with conda.exe. The installed versions of Phenix do not come with conda. The fix comes with a standalone version of conda that can modify the Phenix environment with the dependencies.</div><div><br></div><div>Let us know if it's still not working. Thanks!</div><div><br></div><div><div><div dir="ltr" class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div><div>--</div><div><span style="font-size:12.8000001907349px">Billy K. Poon</span><br></div></div><div>Research Scientist, Molecular Biophysics and Integrated Bioimaging</div><div>Lawrence Berkeley National Laboratory</div><div>1 Cyclotron Road, M/S 33R0345</div><div>Berkeley, CA 94720</div><div>Fax: (510) 486-5909</div><div>Web: <a href="https://phenix-online.org" target="_blank">https://phenix-online.org</a></div></div></div></div></div></div></div></div></div></div><br></div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Sun, Dec 31, 2023 at 5:49 PM Klureza, Maggie <<a href="mailto:mklureza@g.harvard.edu" target="_blank">mklureza@g.harvard.edu</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-style:solid;border-left-color:rgb(204,204,204);padding-left:1ex"><div dir="ltr">Hi all,<div><br></div><div>Reviving this thread (or trying to, anyway - TBD if I can successfully reply to a thread begun before I'd joined the phenixbb list!), I recently updated my Mac OS to 14/Sonoma, and am now also having issues getting Phenix to work.</div><div><br></div><div>As directed on the <a href="https://phenix-online.org/download/phenix/release/" target="_blank">installers page</a>, I downloaded the supplied <a href="https://phenix-online.org/download/sonoma_fix.tar.gz" target="_blank">fix</a>, extracted the tarball, and ran that code as `sudo Downloads/sonoma_fix/fix_wxpython.sh /Applications/phenix-1.19.2-4158`. This was the resulting output/error I got:</div><div><div><blockquote style="margin:0px 0px 0px 40px;border:medium;padding:0px"><div>Password:<br>Removing old version of wxPython<br>================================<br>Downloads/sonoma_fix/fix_wxpython.sh: line 36: ./bin/conda.exe: No such file or directory<br><br>Installing new version of wxPython<br>==================================<br>Downloads/sonoma_fix/fix_wxpython.sh: line 42: ./bin/conda.exe: No such file or directory<br><br>The wxPython package has been updated in /Applications/phenix-1.20.1-4487.<br></div></blockquote><br></div><div>Sure enough, when I went to my phenix installation and looked in conda_base/bin, there was no file named `conda.exe` present. This was true for both my prior installation (phenix-1.19.2-4158) and when I tried a newly downloaded version (phenix-1.20.1-4487).</div><div><br></div><div>Can anyone tell me how I get that conda.exe file included with the Phenix download/how else I might be able to run Phenix with this OS?</div></div><div><br></div><div>(I sent an email about this to <a href="mailto:help@phenix-online.org" target="_blank">help@phenix-online.org</a> before thinking to hunt through the phenixbb archive, so apologies to whoever checks that email and is getting this message twice!)</div><div><br></div><div>Many thanks,</div><div>Maggie</div></div>
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