pdb.annotate error

[Djoka Graor]

Hi,

When attempting to use pdb.annotate, I get the following error:

pdb.annotate(ids = '3JAE')
Error in split.default(X, group) : first argument must be a vector

I am running bio3d v2.4-2.

Any help would be much appreciated.

Thank you and best wishes

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[Xinqiu Yao]

Hi,

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Please update your bio3d to the development version and try it again. Here is the instruction: https://bitbucket.org/Grantlab/bio3d/wiki/How to download and install the development version

[Djoka Graor]

Hi,

Thanks for your reply. I’ve done this and the error still persists with version 2.4-2.9000.

Best wishes

[Xinqiu Yao]

I tested and it works:

pdb.annotate("3JAE")
structureId chainId macromoleculeType chainLength
3JAE_A 3JAE A Protein 342
3JAE_B 3JAE B Protein 342
3JAE_C 3JAE C Protein 342
3JAE_D 3JAE D Protein 342
3JAE_E 3JAE E Protein 342
experimentalTechnique resolution scopDomain
3JAE_A EM 3.9 <NA>
3JAE_B EM 3.9 <NA>
3JAE_C EM 3.9 <NA>
3JAE_D EM 3.9 <NA>
3JAE_E EM 3.9 <NA>

…

Make sure you have loaded the new version properly in your session and the function is not overridden by any pre-loaded function in the workspace or the same function name from an older bio3d. For example, you may ls() to see if there is a function with the same name. Also, type sessionInfo() to make sure you are using the new version.