<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="">Hi Luis,<div class=""><br class=""></div><div class=""> MRC files define an origin in the binary file header. Sometimes that origin is the center of the box, sometimes the lower left corner, sometimes in different position. ChimeraX uses the center defined within the MRC file. If you open the file in ChimeraX then you can see the origin used with menu Tools / Volume Data / Map Coordinates. The "Origin index" indicates the grid index where x,y,z = 0,0,0 (Angstrom units usually). In the example below it lists the index as 0 (which is shorthand for 0,0,0 since it is the index in 3 dimensions), meaning for this MRC file the origin was the lower left corner of the file. The origin index could be changed with a ChimeraX command, e.g. "volume #1 originIndex 191.5,191.5,191.5" to move x,y,z = 0,0,0 to the center of the box where this map has 384 by 384 by 384 grid points. All ChimeraX commands like moving a model with the move command use physical coordinates (Angstroms), not grid indices.</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><div class=""><br class=""><div><img apple-inline="yes" id="7DB87826-13A4-4B9C-B4ED-E05A24101892" width="573" height="181" src="cid:0C919B63-B085-429B-9303-EB682DB00DF3" class=""><br class=""><blockquote type="cite" class=""><div class="">On Aug 20, 2020, at 10:41 AM, Luis José Castillo Valverde <<a href="mailto:luis.castillo.valverde.98@gmail.com" class="">luis.castillo.valverde.98@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class="">Hello, <div class=""><br class=""></div><div class="">I want to move a mrc near another mrc from terminal controlled, the problem is that I don't know how ChimeraX defines the center point of movement when loading a mrc file. So I wanted to know if you can explain to me that ChimeraX defines the X, Y, Z coordinates in which it will load the center of the cube?<br class=""></div><div class=""> <br clear="all" class=""><div class=""><div class="">Best regards,</div><div class=""><br class=""></div><div class=""><br class=""></div><div class="">Luis</div></div>-- <br class=""><div dir="ltr" class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr" class=""><div class=""><br class=""></div><div class="">Luis José Castillo Valverde</div><div class="">Ingeniero en Computación, TEC Costa Rica</div><div class="">Estudiante de maestría (MSc) académica en Computación, TEC Costa Rica</div><div class="">Telegram: @LCastillo98</div><div class="">LinkedIn: luisjosecastillo98</div></div></div></div></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></body></html>