WBM reconstructions, Harvey and Harvetta

18 views
Skip to first unread message

Subasree S

unread,
Mar 26, 2022, 2:58:54 PM3/26/22
to cobra pie
Hi all,
I am working on CBM of Recon3D. I used Harvetta model (Ines Thiele et al., 2020) today to simulate it on cobrapy for the very first time. I tried converting the .mat file but I could not do so due to the error which says that the LB should not be greater than UB for a reaction. It is not the case, LB is less than UB, 62168.8 < 93253.2. I have attached the screenshot.

Any suggestion to resolve this will be helpful.

Thanks
Screenshot 2022-03-27 at 12.26.49 AM.png

Moritz Beber

unread,
Mar 27, 2022, 5:59:19 AM3/27/22
to cobr...@googlegroups.com
Hello Subasree,

It looks like cobrapy is using the default upper bound of 1000 for the comparison. That's a mistake. Can you please open on issue on GitHub? https://github.com/opencobra/cobrapy/issues

Thank you in advance.

Best,
Moritz
--
You received this message because you are subscribed to the Google Groups "cobra pie" group.
To unsubscribe from this group and stop receiving emails from it, send an email to cobra-pie+...@googlegroups.com.
To view this discussion on the web visit https://groups.google.com/d/msgid/cobra-pie/752de3d3-f4b9-498a-9399-305740e366can%40googlegroups.com.

Subasree S

unread,
Mar 27, 2022, 10:51:23 AM3/27/22
to Moritz Beber, cobr...@googlegroups.com
Hi,
Yes, it is very much possible.  Thank you. I will open an issue on this.

Thank you

Reply all
Reply to author
Forward
0 new messages