Pathway analysis issues

[LS]

Dear all,

I have weird outputs in the pathway analysis results. Specifically, after loading the .tsv file and getting the final results, the min and max concentrations in the compounds table are not the same as the ones in the .tsv file itself. 

I am attaching a picture to show the problem (here are shown just two lines of the table, but I have the same issue with all the compounds). 

I know that some concentrations are standard, so, for example, it makes sense that ATP has these results. On the other hand, considering formate you can see that the concentration on the left is not in the min-max range on the right. This is because the max concentration displayed in this table is not the one present in the .tsv file (as to formate, the min-max in the .tsv file is 0.001-10 mM).

I tried to reload also “old” files which gave me “correct” results, but the problem remains.

Do you have any such problems? Any ideas how to fix the matter?

[Elad Noor]

Hello,

Is the "Concentration" value in the range that is defined in the TSV file? It seems that there is a bug in the value presented in "Max" (it is always equal to the "Min") value,

but that this might only be a problem in the HTML-based report on the website. The solution itself should be within the bounds defined in the input TSV file.

If so, you can continue using the web interface, just ignore the "Max" column until I fix it.

[LS]

Yes, it is.

Perfect, thank you!

[Elad Noor]

Hi again,

I think I fixed the bug, now the correct upper bound is shown in the "Max" column:

In case you encounter more issues related to the HTML output, please report them using the gitlab issue:

https://gitlab.com/equilibrator/equilibrator/-/issues/77

Best,

Elad