mgPipe PART2 issue

[PejmanS]

Hello dear Community,

I've faced this error using MgPipe:

Error using createPersonalizedModel Unable to perform assignment because the indices on the left side are not compatible with the size of the right side. Error in mgPipe (line 223) parfor i=j:j+endPnt

It's considerable, error occurs after constructing 2 models. I'm using AGORA 2 and its pan models.

My actions:

• [X] I have checked dimensions compatibility of microbeNames and abundances.

• [X] Since it is a parfor loop, I tried to run it without parallel pool but it's not doable to run sequentially.

• [X] Tried to solve the issue on my own by MATLAB 2019b, 2023a - IBM CPLEX V12, V22

• [X] Retried to run my code with the latest version of The COBRA Toolbox

• [X] Checked that a similar issue has not already been opened

[almut-heinken]

Hello, it is hard to tell where the issue is without seeing your data. Would it be possible to share your abundance file with me privately? Best regards

[PejmanS]

@almut-heinken Thanks for the response. I sent it to your Gmail.

[almut-heinken]

Dear all, the issue has been solved. The cause was that the input file with abundances contained taxa both on species and genus level. This should be avoided as it causes namespace issues with the pan-models needed to build the community models. I will add a note to the mgPipe tutorial.