Hi Brandon,
I don't understand your question in enough detail. Your attached cmm file has lines like:
<marker_set name="track_1"> <marker id_string="1.4.2" id="1" frame="4" x="334.43" y="460.59" z="132" r="1" g="1" b="0" radius="0.5"/> <marker id_string="1.5.2" id="1" frame="5" x="335.47" y="461.79" z="123.72" r="1" g="1" b="0" radius="0.5"/> <marker id_string="1.6.2" id="1" frame="6" x="337.07" y="464.2" z="122.84" r="1" g="1" b="0" radius="0.5"/> ... <marker_set name="track_2"> <marker id_string="1.5.3" id="2" frame="5" x="45.584" y="338.65" z="94.399" r="1" g="1" b="0" radius="0.5"/> <marker id_string="1.6.3" id="2" frame="6" x="47.014" y="330.92" z="92.311" r="1" g="1" b="0" radius="0.5"/> <marker id_string="1.7.3" id="2" frame="7" x="41.197" y="318.39" z="93.004" r="1" g="1" b="0" radius="0.5"/> ...
Every marker has a different id_string. What do you intend the id_string to mean? Do you really mean that id_string is the model id? That would put each single marker in its own model. I see that the second digit (e.g. 4 in 1.4.2) corresponds to your frame number. I'm guessing that each of the marker sets in your file is tracking a single object in 3D light microscopy and the third digit (e.g 2 in 1.4.2) is an id number of that object.
You also have id="1" for all markers in the first marker set named track_1. Every marker must have a different id, this id is the residue number and atom name for the marker. I guess you wrote this file using a script since ChimeraX would not write a file where two markers have the same id.
Your two perframe commands seem to be changing the model id numbers for 259 marker sets, maybe you are putting each as a submodel of the light microscopy time series images?
Tom
On Oct 14, 2020, at 7:51 PM, Scott, Brandon L. Brandon.Scott@sdsmt.edu wrote:
Hello all,
When loading markers from a cmm file (example attached), is there a way to specify which submodel the marker goes to rather than it creating a new id? I've added the id_string to the cmm file when I created a new one which is the desired model.
I hacked the following, which works, but there are hundreds of tracks so I would like to come up with an automated (and proper) way to do this. perframe "rename #2.$1 track_1 id #1.$2.2;" ranges 1,113 ranges 4,116 perframe "rename #2.$1 track_2 id #1.$2.3;" ranges 114,259 ranges 5,150
Brandon Scott, PhD CZI Imaging Scientist, Research Assistant Professor Nanoscience & Nanoengineering South Dakota Mines 501 E. Saint Joseph St., Rapid City, SD 57701 724.510.1253 | Brandon.Scott@sdsmt.edu mailto:Brandon.Scott@sdsmt.edu https://www.sdsmt.edu/ https://www.facebook.com/SouthDakotaMines/ https://www.instagram.com/southdakotamines/ https://twitter.com/sdsmt https://www.snapchat.com/add/sdsmt <Cells_trackedV2.cmm>_______________________________________________ ChimeraX-users mailing list ChimeraX-users@cgl.ucsf.edu mailto:ChimeraX-users@cgl.ucsf.edu Manage subscription: https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users