<html><head><meta http-equiv="Content-Type" content="text/html; charset=us-ascii"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">Hi Junha,<div class=""><br class=""></div><div class=""> I think the only way to save a Chimera marker file (.cmm) is through the Volume tracer gui File menu. There is no command as far as I know. But there is a Python script that adds a savemarkers command on the Chimera Python scripts web page.</div><div class=""><br class=""></div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span><a href="http://plato.cgl.ucsf.edu/trac/chimera/wiki/Scripts" class="">http://plato.cgl.ucsf.edu/trac/chimera/wiki/Scripts</a></div><div class=""><br class=""></div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span><a href="http://plato.cgl.ucsf.edu/trac/chimera/attachment/wiki/Scripts/savemarkers.py" class="">http://plato.cgl.ucsf.edu/trac/chimera/attachment/wiki/Scripts/savemarkers.py</a></div><div class=""><br class=""></div><div class="">It look like it would be pretty trivial to add a "for" loop in that code so it saves each markerset in a separate file with a numeric suffix. Or you could just use the "perframe" command to save each markerset to a separate file.</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><br class=""><blockquote type="cite" class=""><div class="">On Aug 28, 2019, at 9:59 AM, Jun Ha Song <<a href="mailto:junhasong@berkeley.edu" class="">junhasong@berkeley.edu</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class=""><div class="gmail_default" style="font-size:small">Dear RBVI,</div><div class="gmail_default" style="font-size:small"><br class=""></div><div class="gmail_default" style="font-size:small">I need to save around 340 market sets into individual .cmm files, 1 .cmm for each marker set I have in my Chimera session. I have been looking at UCSF Chimera documentation for some time (<a href="https://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/volumepathtracer/volumepathtracer.html#activeset" class="">https://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/volumepathtracer/volumepathtracer.html#activeset</a>), and I wanted to ask if multiple marker sets (each with its own unique model ID) can be saved in single batch command line.</div><div class="gmail_default" style="font-size:small"><br class=""></div><div class="gmail_default" style="font-size:small">Is there a possibility of specifying commands like <b class=""><i class="">save</i></b> or <b class=""><i class="">write</i></b> or <b class=""><i class="">export</i></b> with atom specification of all the model that I want to save to make Chimera save all my 340 marker sets as their individual .cmm files? I was hoping that I could simply use something like</div><div class="gmail_default" style="font-size:small"><br class=""></div><div class="gmail_default" style="font-size:small"><b class=""><i class="">save #1-340 individual UseModelIDasFilename format .cmm directory E:\LBNL\Individual_Models</i></b></div><div class="gmail_default" style="font-size:small"><br class=""></div><div class="gmail_default" style="font-size:small">to make it happen, but all the commands that I thought of as potential candidate for batch-save command doesn't mention whether it can work with volume tracer's "Save current marker set as...".</div><div class="gmail_default" style="font-size:small"><br class=""></div><div class="gmail_default" style="font-size:small">or, if I can use Volume Tracer's "Save current marker set as..." using a script, I could handle this by making myself very simple macro, but I don't know whether volume tracer's codes would allow some quick script to substitute its "Save current marker set as..." function.</div><div class="gmail_default" style="font-size:small"><br class=""></div><div class="gmail_default" style="font-size:small">So, in summary, I wanted to know if...</div><div class="gmail_default" style="font-size:small"><br class=""></div><div class="gmail_default" style="font-size:small">Q1 : Is there a command in UCSF Chimera that allows batch saving multiple market sets as individual .cmm files?</div><div class="gmail_default" style="font-size:small">Q2 : Can Volume Tracer's "Save current marker set as..." function be used by using some kind of script?</div><div class="gmail_default" style="font-size:small"><br class=""></div><div class="gmail_default" style="font-size:small">Sincerely,</div><div class="gmail_default" style="font-size:small">Junha Song.</div></div>
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