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<p class="MsoNormal">Thank you Tom! I was always using Chimera and new to ChimeraX. I didn’t know there is a separate user mailing list. I will keep that in mind next time.
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<p class="MsoNormal">Bixia<o:p></o:p></p>
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<p class="MsoNormal"><b>From:</b> Tom Goddard <goddard@sonic.net> <br>
<b>Sent:</b> Thursday, April 21, 2022 4:48 PM<br>
<b>To:</b> Zhang, Bixia <bixia.zhang@wsu.edu><br>
<b>Cc:</b> Chimera-users@cgl.ucsf.edu; ChimeraX Users Help <chimerax-users@cgl.ucsf.edu><br>
<b>Subject:</b> Re: [Chimera-users] Open Castp file in Chimera X<o:p></o:p></p>
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<p class="MsoNormal">Hi Bixia,<o:p></o:p></p>
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<p class="MsoNormal">You will need to download the read_castp.py file from that web page. Then if it is your downloads directory you would use<o:p></o:p></p>
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<p class="MsoNormal"> open ~/Downloads/read_castp.py<o:p></o:p></p>
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<p class="MsoNormal">In other words you have to tell it exactly where the file is unless it is in the directory where you downloaded the file. Also you can use the ChimeraX "cd" command to change to a new current directory in ChimeraX.<o:p></o:p></p>
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<p class="MsoNormal"> Best to email this question to the ChimeraX mailing list instead of the Chimera mailing list.<o:p></o:p></p>
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<p class="MsoNormal"><span class="apple-tab-span"> </span>Tom<o:p></o:p></p>
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<p class="MsoNormal">On Apr 21, 2022, at 4:42 PM, Zhang, Bixia via Chimera-users <<a href="mailto:chimera-users@cgl.ucsf.edu">chimera-users@cgl.ucsf.edu</a>> wrote:<o:p></o:p></p>
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<p class="MsoNormal"><span style="font-size:12.0pt">Good afternoon,<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:12.0pt">I am trying to open .poc file from CASTP server in Chimera X. And I found this chimeraX recipe<a href="https://urldefense.com/v3/__https:/rbvi.github.io/chimerax-recipes/castp/castp.html__;!!JmPEgBY0HMszNaDT!s8LfOHSQEc_nWpr4ho_FRyNSah1FZ9bSEqvGT687okU2j88l0GmtD8pL60cABtU8nxHoLsj948LIEYNlGWs$">https://rbvi.github.io/chimerax-recipes/castp/castp.html</a>.
However, when I used the command<span class="apple-converted-space"> </span><a href="help:user/commands/open.html"><b><span style="font-size:9.0pt;font-family:"DejaVu Serif",serif;background:#DDDDDD">open</span></b></a></span><b><span style="font-size:9.0pt;font-family:"DejaVu Serif",serif;color:black;background:#DDDDDD"> read_castp.py</span></b><span style="font-size:12.0pt">,
it said</span><b><span style="font-size:9.0pt;font-family:"DejaVu Serif",serif;color:crimson">No such file/path: read_castp.py</span></b><span style="font-size:12.0pt">. I am working on a Linux unbuntu box and I don't know if this is making any difference.
Could you please help with this issue?<span class="apple-converted-space"> </span><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:12.0pt">Thank you so much!<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:12.0pt">Best,<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:12.0pt">Bixia<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:12.0pt"><o:p> </o:p></span></p>
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<p class="MsoNormal"><span style="font-size:16.0pt;font-family:"Segoe UI Light",sans-serif"><a href="https://urldefense.com/v3/__https:/rbvi.github.io/chimerax-recipes/castp/castp.html__;!!JmPEgBY0HMszNaDT!s8LfOHSQEc_nWpr4ho_FRyNSah1FZ9bSEqvGT687okU2j88l0GmtD8pL60cABtU8nxHoLsj948LIEYNlGWs$" target="_blank"><span style="text-decoration:none">Read
CASTP pockets file - ChimeraX Recipes</span></a><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:10.5pt;font-family:"Segoe UI",sans-serif;color:#666666">We for the ChimeraX atom specifier from chain identifier, residue number and atom name. For example, the above lines are for atoms /A:45@NH2, /B:27@O, /B:27@CG1
in ChimeraX syntax belonging to pockets 2, 1 and 1.<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:10.5pt;font-family:"Segoe UI",sans-serif;color:#A6A6A6"><a href="https://urldefense.com/v3/__http:/rbvi.github.io/__;!!JmPEgBY0HMszNaDT!s8LfOHSQEc_nWpr4ho_FRyNSah1FZ9bSEqvGT687okU2j88l0GmtD8pL60cABtU8nxHoLsj948LIWvjiJOo$">rbvi.github.io</a><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica",sans-serif"><br>
_______________________________________________<br>
Chimera-users mailing list:<span class="apple-converted-space"> </span></span><a href="mailto:Chimera-users@cgl.ucsf.edu"><span style="font-size:9.0pt;font-family:"Helvetica",sans-serif">Chimera-users@cgl.ucsf.edu</span></a><span style="font-size:9.0pt;font-family:"Helvetica",sans-serif"><br>
Manage subscription:<span class="apple-converted-space"> </span></span><a href="https://urldefense.com/v3/__https:/www.rbvi.ucsf.edu/mailman/listinfo/chimera-users__;!!JmPEgBY0HMszNaDT!s8LfOHSQEc_nWpr4ho_FRyNSah1FZ9bSEqvGT687okU2j88l0GmtD8pL60cABtU8nxHoLsj948LIbu-CX5c$"><span style="font-size:9.0pt;font-family:"Helvetica",sans-serif">https://www.rbvi.ucsf.edu/mailman/listinfo/chimera-users</span></a><o:p></o:p></p>
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