Simbiology "Project Save Error"

I'm sorry that you are running into issues while saving your project. The behavior you describe sounds like what we see when trying to save a project to a write-protected directory (SimBiology will force save over a write-protected file). We can confirm this if you try typing

[lastmsg, lastid] = lasterr;

at the MATLAB command line. If lastmsg is 'Error using movefile Operation not permitted' and lastid is 'MATLAB:MOVEFILE:OSError', then it is probably a permissions issue with the destination directory of the project. If you get a different lasterr output, please send us that information and we can investigate what else might cause such an error.

Best,

Priya

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Priya Moorthy 2022-11-16

编辑：Priya Moorthy 2022-11-16

Hi, Jim,

Thanks for the lasterr information; that helps identify the root cause of the issue.

There is a known issue with accessing the temp directory during save operations on certain Linux distributions in MATLAB versions R2022a and R2022b. The issue is being actively investigated.

There are three workarounds you could try:

Change the temp directory before starting MATLAB or SimBiology (SimBiology caches the tempdir location when SimBiology is first used in a MATLAB session, so changing the tempdir afterwards will not have an effect in SimBiology). You can either change tempdir from the MATLAB command line before running your first SimBiology command, or you can just redefine the environment variable before launching MATLAB from the bash shell: "TMPDIR='~/tmp/' matlab".
Switch to R2022b Update 1 to resolve the issue for SimBiology (but not MATLAB in general). A separate bug fix in this update release moved SimBiology away from using the temp directory to store app data, which will effectively resolve your issue as well.
Switch to using a lower kernel version; this bug seems to occur in version 5.15.48-generic or higher.

I hope that one of these workarounds enables you to resume your work in SimBiology.

Best,

Priya

Florian Augustin 2022-11-18

编辑：Florian Augustin 2022-11-18

在 MATLAB Online 中打开

Hi Jim,

MATLAB version R2022a is not supported on Ubuntu 22.04 LTS. Even though most functionality works, there can be subtle (and severe) breaking incompatibilities.

We can reproduce the save issue with SimBiology in R2022a on Ubuntu 22.04. And I was able to work around the problem as follows:

Start MATLAB
Execute the following command in the MATLAB Command Window:

% This will cause MATLAB to use a tmp/ directory your home folder:
setenv('TMPDIR', '~/tmp');

It is important that this command is executed before you call anything related to SimBiology. SimBiology will cache the temp. directory otherwise and this change would not have any effect. This command has to be executed every time you start MATLAB; but you could change your tmp directory in the shell you are starting MATLAB from. Please let us know if this does not solve the save issue.

Even though this hopefully unblocks you from using SimBiology in MATLAB R2022a on Ubuntu 22.04, I strongly recommend upgrading to R2022b, the first MATLAB version supported on Ubuntu 22.04. I confirmed that SimBiology projects can be saved in R2022b. As Priya mentioned, when upgrading MATLAB please install the latest update release available for R2022b.

Let us know if you continue to see the issue.

Thanks,

Florian

Priya Moorthy 2022-11-29

编辑：Priya Moorthy 2022-11-29

Hi, Jim,

SimBiology tries to save a backup of your project file in *.sbproj.bak in the same directory as your original sbproj file. This backup may have your original model with diagram. However, given your current Linux version, you should continue to use R2022b Update 1 or later to avoid this bug altogether.

Best,

Priya

Priya Moorthy 2022-12-5

编辑：Walter Roberson 2023-1-31

Jim,

I just wanted to inform you about the recently published bug report which consolidates all the different workarounds for this issue outside of SimBiology: https://www.mathworks.com/support/bugreports/2856360

Best,

Priya

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Answer 2

Walter Roberson 2022-11-15

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https://ww2.mathworks.cn/matlabcentral/answers/1851968-simbiology-project-save-error#answer_1101008

编辑：Walter Roberson 2022-11-15

you are potentially seeing the relatively recent issues due to Linux kernel changes in how files are copied, changes that mostly affect tempfs.

The workaround is to create a temporary directory on an ordinary file system and create an environment variable TMPDIR or TEMP (if I recall correctly) pointing there, and start matlab with that in effect. If you are starting from an icon you might need additional steps to have the environment variable in effect at the time of program launch as icons do not go through the full login sequence that interactive shells go through.

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Jim Bosley 2022-11-18

So if I'm opening matlab using an icon, in ubuntu, with a .desktop file. How do I get the tempdir set permanently?

Also, I'm using zshell, and I suppose the same Bourne shell command would work in a .zshrc file.

Jim Bosley 2022-11-18

Sorry to be so dense...

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