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</o:shapelayout></xml><![endif]--></head><body lang=ZH-TW link="#0563C1" vlink="#954F72"><div class=WordSection1><p class=MsoNormal><span lang=EN-US style='font-family:"Calibri",sans-serif;color:#1F497D'>Hi Tristan,</span><span lang=EN-US style='font-family:"Calibri",sans-serif;color:black'><o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US style='font-family:"Calibri",sans-serif;color:#1F497D'><o:p> </o:p></span></p><p class=MsoNormal><span lang=EN-US style='font-family:"Calibri",sans-serif;color:#1F497D'>Thanks a lot for your help!<o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US style='font-family:"Calibri",sans-serif;color:#1F497D'>I have installed your ISOLDE in ChimeraX, and was able to load the mtz file using the “</span><span lang=EN-US style='font-family:"Calibri",sans-serif;color:black'>Load crystallographic dataset" button on ISOLDE's GUI.<o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US style='font-family:"Calibri",sans-serif;color:#2F5597;mso-style-textfill-fill-color:#2F5597;mso-style-textfill-fill-alpha:100.0%'><o:p> </o:p></span></p><p class=MsoNormal><span lang=EN-US style='font-family:"Calibri",sans-serif;color:#2F5597;mso-style-textfill-fill-color:#2F5597;mso-style-textfill-fill-alpha:100.0%'>I will try </span><span lang=EN-US style='font-family:"Calibri",sans-serif;color:#2F5597;mso-style-textfill-fill-color:#2F5597;mso-style-textfill-fill-alpha:100.0%'>"open filename.mtz structureModel #{model id}" after I am more familiar with the file path syntax in ChimeraX. <o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US style='font-family:"Calibri",sans-serif;color:#1F497D'><o:p> </o:p></span></p><p class=MsoNormal><span lang=EN-US style='font-family:"Calibri",sans-serif;color:#1F497D'>Best wishes,</span><span lang=EN-US style='font-family:"Calibri",sans-serif;color:#1F497D'><br><br>Winston<br><br></span><span lang=EN-US style='font-family:"Calibri",sans-serif;color:#1F497D'><o:p></o:p></span></p><div><div style='border:none;border-top:solid #E1E1E1 1.0pt;padding:3.0pt 0cm 0cm 0cm'><p class=MsoNormal><b><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif'>From:</span></b><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif'> Tristan Croll [mailto:tic20@cam.ac.uk] <br><b>Sent:</b> Wednesday, June 23, 2021 12:27 AM<br><b>To:</b> chimerax-users@cgl.ucsf.edu; Wen-Jin Winston Wu <winston@gate.sinica.edu.tw><br><b>Subject:</b> Re: [chimerax-users] Open a PDB-formatted file and a MTZ file<o:p></o:p></span></p></div></div><p class=MsoNormal><span lang=EN-US><o:p> </o:p></span></p><div><p class=MsoNormal><span lang=EN-US style='font-family:"Calibri",sans-serif;color:black'>Hi Winston, <o:p></o:p></span></p><div><p class=MsoNormal><span lang=EN-US style='font-family:"Calibri",sans-serif;color:black'><o:p> </o:p></span></p></div><div><p class=MsoNormal><span lang=EN-US style='font-family:"Calibri",sans-serif;color:black'>The failure to open a MTZ file properly via the File/Open GUI is my fault, and something I'll be remedying with the next release of ISOLDE/Clipper. For now, you can do it at the command line using "open filename.mtz structureModel #{model id}", or via the "Load crystallographic dataset" button on ISOLDE's GUI.<o:p></o:p></span></p></div><div><p class=MsoNormal><span lang=EN-US style='font-family:"Calibri",sans-serif;color:black'><o:p> </o:p></span></p></div><div><p class=MsoNormal><span lang=EN-US style='font-family:"Calibri",sans-serif;color:black'>Best regards,<o:p></o:p></span></p></div><p class=MsoNormal><span lang=EN-US style='font-family:"Calibri",sans-serif;color:black'>Tristan<o:p></o:p></span></p></div><div class=MsoNormal align=center style='text-align:center'><span lang=EN-US><hr size=2 width="98%" align=center></span></div><div id=divRplyFwdMsg><p class=MsoNormal><b><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>From:</span></b><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'> ChimeraX-users <<a href="mailto:chimerax-users-bounces@cgl.ucsf.edu">chimerax-users-bounces@cgl.ucsf.edu</a>> on behalf of Wen-Jin Winston Wu via ChimeraX-users <<a href="mailto:chimerax-users@cgl.ucsf.edu">chimerax-users@cgl.ucsf.edu</a>><br><b>Sent:</b> 22 June 2021 17:14<br><b>To:</b> <a href="mailto:chimerax-users@cgl.ucsf.edu">chimerax-users@cgl.ucsf.edu</a> <<a href="mailto:chimerax-users@cgl.ucsf.edu">chimerax-users@cgl.ucsf.edu</a>><br><b>Subject:</b> [chimerax-users] Open a PDB-formatted file and a MTZ file</span><span lang=EN-US> <o:p></o:p></span></p><div><p class=MsoNormal><span lang=EN-US> <o:p></o:p></span></p></div></div><div><div><p class=xmsonormal><span lang=EN-US>Hi,<o:p></o:p></span></p><p class=xmsonormal><span lang=EN-US> <o:p></o:p></span></p><p class=xmsonormal><span lang=EN-US>I am trying to inspect electron density of X-ray data.<o:p></o:p></span></p><p class=xmsonormal><span lang=EN-US>I have the PDB-formatted coordinate file a.pdb (not been submitted to PDB yet) and a mtz file (a.mtz).<o:p></o:p></span></p><p class=xmsonormal><span lang=EN-US>I have downloaded Clipper to Chimera X (1.2.5) running on Window 10. <o:p></o:p></span></p><p class=xmsonormal><span lang=EN-US> <o:p></o:p></span></p><p class=xmsonormal><span lang=EN-US>I have opened my a.pdb, and I then tried to open my a.mtz file from the File-Open and I specified the file type with “*.mtz”, and opened the a.mtz file, but I then got the error message: “Must specify a structure model to associate with crystallographic data”.<o:p></o:p></span></p><p class=xmsonormal><span lang=EN-US> <o:p></o:p></span></p><p class=xmsonormal><span lang=EN-US>I know that I was not doing it correctly (e.g. not typing proper commands with correct syntax.). I looked into the description in the URL below. However, I just could not get it work. Any help will be appreciated. Thanks!<o:p></o:p></span></p><p class=xmsonormal><span lang=EN-US> <o:p></o:p></span></p><p class=xmsonormal><span lang=EN-US><a href="http://rbvi.ucsf.edu/chimerax/docs/user/commands/open.html#clipper">http://rbvi.ucsf.edu/chimerax/docs/user/commands/open.html#clipper</a><o:p></o:p></span></p><p class=xmsonormal><span lang=EN-US> <o:p></o:p></span></p><p class=xmsonormal style='margin-bottom:12.0pt'><span lang=EN-US>Best wishes,<br><br>Winston<o:p></o:p></span></p></div></div></div></body></html>