<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=""><div><br class=""><blockquote type="cite" class=""><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;" class=""><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif; color:rgba(0, 0, 0, 1.0);" class=""><b class="">From: </b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class="">"Philipp Milkereit" <<a href="mailto:Philipp.Milkereit@vkl.uni-regensburg.de" class="">Philipp.Milkereit@vkl.uni-regensburg.de</a>><br class=""></span></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;" class=""><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif; color:rgba(0, 0, 0, 1.0);" class=""><b class="">Subject: </b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class=""><b class="">Antw: Re: [chimerax-users] Antw: [EXT] Re: selection modes</b><br class=""></span></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;" class=""><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif; color:rgba(0, 0, 0, 1.0);" class=""><b class="">Date: </b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class="">June 18, 2020 at 9:06:02 AM PDT<br class=""></span></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;" class=""><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif; color:rgba(0, 0, 0, 1.0);" class=""><b class="">To: </b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class=""><<a href="mailto:meng@cgl.ucsf.edu" class="">meng@cgl.ucsf.edu</a>><br class=""></span></div><br class=""><div class="">
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<div style="font: 10pt/normal Segoe UI; font-size-adjust: none; font-stretch: normal;" class=""><div class="GroupWiseMessageBody" id="GroupWiseSection_1592495672000_Philipp.Milkereit@vkl.uni-regensburg.de_DA56788005CB0000B1281300A700BE00_"><div class="">Hi Elaine</div><div class="">just a follow-up question on the Select Menu_Mode:Add, do you think it could make sense to apply this mode also to user-defined names listed in the Basic Actions window? That seems at the moment neither in ChimeraX 0.93 nor in 1.0 the case, but could be an easy way to add fast a bunch of named selections to the current selection. Also for the subtract/intersect modes that might be an interesting option? </div><div class=""><br class=""></div><div class="">best wishes,</div><div class=""><br class=""></div><div class="">Philipp<br class=""></div><div class="GroupWiseMessageBody" id="GroupWiseSection_1592494430000_meng@cgl.ucsf.edu"><span class="GroupwiseReplyHeader">>>> Elaine Meng <<a href="mailto:meng@cgl.ucsf.edu" class="">meng@cgl.ucsf.edu</a>> 18.06.2020 17:33 >>><br class=""></span><div class=""><div class="">Hi Philipp,</div><div class="">I don't think there is an ISOLDE for 1.0 yet. If I look at the toolshed it says ISOLDE 1.05b "works with 0.93"</div><div class=""><br class=""></div><<a href="https://cxtoolshed.rbvi.ucsf.edu/apps/chimeraxisolde" class="">https://cxtoolshed.rbvi.ucsf.edu/apps/chimeraxisolde</a>><div class=""><br class=""></div><div class="">Best,</div><div class="">Elaine</div><div class="">-----</div><div class="">Elaine C. Meng, Ph.D. </div><div class="">UCSF Chimera(X) team</div><div class="">Department of Pharmaceutical Chemistry</div><div class="">University of California, San Francisco</div><div class=""><br class=""></div><div class="">> On Jun 18, 2020, at 1:18 AM, Philipp Milkereit <<a href="mailto:Philipp.Milkereit@vkl.uni-regensburg.de" class="">Philipp.Milkereit@vkl.uni-regensburg.de</a>> wrote:</div><div class="">> </div><div class="">> Dear Elaine,</div><div class="">> </div><div class="">> thanks for your help!</div><div class="">> Your example does not work for me on ChimeraX 0.93 (2020-04-03) both on a Windows and a Linux sytem. But after installing the new production version 1.0 the selection mode works indeed there on user defined selectors as expected, which is great!</div><div class="">> Apparently there should be also now versions of the Isolde plugin (1.0b5 ?) which are compatible with ChimeraX 1.0, so no reason anymore to stay with 0.93.. </div><div class="">> </div><div class="">> Best,</div><div class="">> </div><div class="">> Philipp </div><div class="">> >>> Elaine Meng <<a href="mailto:meng@cgl.ucsf.edu" class="">meng@cgl.ucsf.edu</a>> 18.06.2020 01:15 >>></div><div class="">> Hi Philipp,</div><div class="">> This works fine for me using the menu. For example, start ChimeraX, then:</div><div class="">> </div><div class="">> open 2gbp</div><div class="">> menu: Select... Structure... Secondary Structure... Strand</div><div class="">> menu: Select... Define Selector... (I gave it the name "mystrands")</div><div class="">> menu: Select... Clear</div><div class="">> menu: Select... Structure... Ligand</div><div class="">> menu: Select... Menu Mode... Add</div><div class="">> menu: Select... User-Defined Selectors... mystrands</div><div class="">> </div><div class="">> Now both the ligand and strands are selected. Also works if I use commands for any of those steps. When you use the menu, the corresponding commands are echoed in the Log, and it actually works by running the commands, so it doesn't make sense that commands would work and the menu wouldn't.</div><div class="">> </div><div class="">> Tested in version 1.0.</div><div class="">> </div><div class="">> I hope this helps,</div><div class="">> Elaine</div><div class="">> -----</div><div class="">> Elaine C. Meng, Ph.D. </div><div class="">> UCSF Chimera(X) team</div><div class="">> Department of Pharmaceutical Chemistry</div><div class="">> University of California, San Francisco</div><div class="">> </div><div class="">> </div><div class="">> > On Jun 17, 2020, at 1:11 PM, Philipp Milkereit <<a href="mailto:philipp.milkereit@vkl.uni-regensburg.de" class="">philipp.milkereit@vkl.uni-regensburg.de</a>> wrote:</div><div class="">> ></div><div class="">> > Dear all,</div><div class="">> > </div><div class="">> > is there a way to add user-defined selectors or named selections (command: name) to the current selection by choosing them from the Menu:Select or in the Basic Actions window? Changing to Menu_Mode:Add in Menu:Select seems not to have any effect on that. I think in Chimera1 named selections still could be added to the current selection using the „append“ selection mode. At the moment adding named selections to the current selection works for me in ChimeraX just with the command line „select add“ command.</div><div class="">> > </div><div class="">> > Many thanks for your help,</div><div class="">> > </div><div class="">> > Philipp Milkereit</div></div></div></div></div></div></blockquote></div><br class=""></body></html>