mp.transform gives "Explicit valence for atom xxx is greater than permitted" for almost every entry

[nonononanana]

For instance,
[04:20:24] Explicit valence for atom # 10 C, 6, is greater than permitted
error when calculating C@@H(NC(=O)CCC-=O)P(=O)(=O)Oc1ccccc1

Am I taking wrong input?

[shenwanxiang]

For instance, [04:20:24] Explicit valence for atom # 10 C, 6, is greater than permitted error when calculating C@@H(NC(=O)CCC-=O)P(=O)(=O)Oc1ccccc1

Am I taking wrong input?
Hi @nonononanana , It seems that your SMILES string is not in correct format.

[nonononanana]

For instance, [04:20:24] Explicit valence for atom # 10 C, 6, is greater than permitted error when calculating C@@H(NC(=O)CCC-=O)P(=O)(=O)Oc1ccccc1
Am I taking wrong input?
Hi @nonononanana , It seems that your SMILES string is not in correct format.

Thanks so much for your reply!

I suspect there might be some problem in the tool I used to convert SDF files to SMILES strings (which is Open Babel). Would you please inform me which tool do you use?

Also I found all fingerprint map empty. Hope changing the tool could solve this too.