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Content Feed
Question
Any progress on relaxing the constraints on species units?
In SimBiology, there is a limited set of units one case use. Amount, or concentration. This is often inconvenient, as (for ex...
4 maanden ago | 1 answer | 0
1
answerMatlab unable to install R2021b: "unable to write to selected folder" in Ubuntu 20.04
A bit more detail - thanks to Philip (see above) for the answer. Apparently in a terminal window you must run xhost +SI:localu...
5 maanden ago | 6
| accepted
Question
Matlab unable to install R2021b: "unable to write to selected folder" in Ubuntu 20.04
Trying to install R2021b on the system drive. Using Ubuntu 20.04. 384 Gb available. I download matlab_R2020b_glnxa64.zip an...
5 maanden ago | 1 answer | 1
1
answerQuestion
Is there any way to export a simbiology model diagram in high resolution?
I have a fairly large and complex simbiology model. I'd like to export the graphical model diagram in a presentation quality ti...
5 maanden ago | 1 answer | 0
1
answerQuestion
When will sbmlimport support sbml level 3?
Would be useful to know. I believe 2020b only supports level 2, correct? Has anyone else run into having to use an sblm level ...
meer dan een jaar ago | 1 answer | 0
1
answerQuestion
Semicolons in SimBiology species names: just characters, or functionally active?
I was looking at Sven Mesecke's implementation of the Renin Angiotensin Aldosterone System model of Lo et al. 2011. (For those ...
bijna 2 jaar ago | 1 answer | 0
1
answerQuestion
Any simulation speed differences between models loaded with SimBiology() vs sbioloadproject?
The question is in the title. I haven't seen much difference in numerical efficiency between the same model opened in sbioloadpr...
ongeveer 2 jaar ago | 1 answer | 0
1
answerQuestion
Namespace and other html / xml information in SimBiology Notes
Simbiology notes allows (requires?) one to use html for nicely formatted notes. For normal documentation use, where there will b...
meer dan 2 jaar ago | 1 answer | 0
1
answerQuestion
Constant parameter setting throws error, or... if I don't set a parameter to constant, but don't change it, does it stay constant?
In another thread, I asked about using subject- (group- in SimBiology) dependent parameter values to allow fitting of one part o...
meer dan 2 jaar ago | 1 answer | 0
1
answerIcons for pinned SimBiology(R) graphics
Repeating as a partial answer: As to the last point, found this: Simbiology / Preferences / Indicators Show indicator when a ...
meer dan 2 jaar ago | 0
| accepted
Question
Icons for pinned SimBiology(R) graphics
When building models graphically usign the dashboard, one can pin graphical elements. This prevents inadvertently messing up a c...
meer dan 2 jaar ago | 1 answer | 0
1
answerQuestion
deleting or removing variant using variant array handle gives unexpected results.
If I have a variable that contains a SimBiology parameter object, and I change it, the object reflects that change: par1 = addp...
meer dan 2 jaar ago | 1 answer | 0
1
answerQuestion
Can I force Matlab to wait 'til it finishes one command to run another?
I have a script that loads a SimBiology model using the simbiology() command. Then I try to get a handle for the model simbiol...
meer dan 2 jaar ago | 1 answer | 0
1
answerIs it possible to get the group (that is the subject) number in sbiofit to do a lookup?
One last thing. I tested using the group to set parameters. Works fine. So a repeat assignment rule is just pv = setparvalu(...
meer dan 2 jaar ago | 0
Question
sbiofitmixed/ nlmefit and weighting two dependent variables
I am fitting a trial with two output measurements (for now). These are CONC1 and CONC2. Supposing that they have very differen...
meer dan 2 jaar ago | 0 answers | 0
0
answersIs it possible to get the group (that is the subject) number in sbiofit to do a lookup?
Jérémy Glad if the ideas help. I enjoy the interactions with you, Arthur, Pax, and others on your team. I just want to clarif...
meer dan 2 jaar ago | 0
Question
How can I plot only one fitted variable after using sbiofit?
I'm fitting a model to a dataset. I have two variables I'm fitting simultaneously: the therapy, and the quantity of an endogeno...
meer dan 2 jaar ago | 2 answers | 0
2
answersQuestion
Is it possible to get the group (that is the subject) number in sbiofit to do a lookup?
If I'm fitting using lsqnonlin, is there a matlab script function that returns the group number? The idea is to allow use of co...
bijna 3 jaar ago | 3 answers | 0
3
answersQuestion
Fitting multiple dependent variables with time less than zero
Suppose I have a therapeutic d that modulates an endogenous substance e. I've a pd model of e (for the sake of argument, a cons...
bijna 3 jaar ago | 1 answer | 0
1
answerQuestion
The order of plotted things vs the order of the legend
I'm using patch to show a confidence interval in a matlab plot as a colored region. Assume vectors of time values, tv, and mean...
bijna 3 jaar ago | 1 answer | 0
1
answerQuestion
Is there an object associated with simulate task in the simbiology desktop that contains the name of the task?
I use State_Subplots in "Plots to Generate" in simbiology simulation tasks a lot. "Plots to Generate" allows scripts to be used...
ongeveer 3 jaar ago | 1 answer | 0
1
answerHow To Clear Java Heap Space Memory????
jonathan wrote: "years are passing on this one folks. hello? Mathworks please address this." I'm thinking that maybe eight year...
ongeveer 3 jaar ago | 0
Question
nlme fitting error for covariate in popPK model
I select a column (WT) in my dataset as a covariate. When I set up the covariate in the nlme fitting page (interactively, not ...
meer dan 3 jaar ago | 1 answer | 0
1
answerQuestion
Can I create a variant that captures all current parameter, species and compartment values?
So I'd like to be able to do something like this: sbr = sbioroot; % Get the root object lastn = length(sbr.m...
meer dan 3 jaar ago | 1 answer | 0
1
answerQuestion
Not finding info on arrays of variant objects
The help page on <https://www.mathworks.com/help/simbio/ref/variantobject.html?searchHighlight=variant%2520array&s_tid=doc_srcht...
meer dan 3 jaar ago | 1 answer | 0
1
answerQuestion
Better understanding of variants sought (also project files)
If I create a model using the dashboard, including variants(suppose 2, 'var1', and 'var2'), and save the model, the variants are...
meer dan 3 jaar ago | 1 answer | 0
1
answerQuestion
Could Simbiology simulations have a preload function?
In Simulink, one can write preload scripts that run upon opening a model or upon any number of other actions. In Simbiology...
bijna 4 jaar ago | 1 answer | 0
1
answerHow To Clear Java Heap Space Memory????
This error kept me from publishing completed work. That is, Matlab did the analysis, but publish could not complete for the scri...
bijna 4 jaar ago | 1
Question
Dimensional analysis with math functions flags a warning
I'm getting a warning when I run with dimensional analysis. _ *Cannot perform dimensional analysis for rule 'rule_13' becau...
ongeveer 4 jaar ago | 1 answer | 0
1
answerShorthand for sbioselect/set
So I decided to write the code and am embarrassed with how simple it is. But a question arose. Here's the code: function ...
ongeveer 4 jaar ago | 0