Thomas Cokelaer

Using paftools from minimap, we can check the output more carefully. Need to install k8 javascript shell first

First of all thanks for using Bioservices/UniProt. From UniProt, via BioServices or directly from uniprot website there is only one ensemble id https://www.uniprot.org/uniprot/?format=tab&columns=id%2Centry+name%2Cprotein+names%2Cdatabase%28Ensembl%29&sort=score&query=Q91UZ8 that is : ENSMUST00000053073 Where to do...

I tried again this example. Indeed, only one entry for ensembl is returned. This is is the output of the request, I believe this is another bug on the server...

@GianArauz thanks again for the PR. Concerning the warnings, they will be removed in the next release of bioservices.

Dear @areyesromero opentargets is not included in BioServices. I will not have much time to add it in BioServices for now but I am willing to help if you wish.

@JoshLoecker in principle, sqlite3 should be installed. The cache=True option is used by all services including BioDBNet. I see that you are using python3.10, which is not tested in bioservices....

@widdowquinn Uniprot has changed its API recently. I have updated bioservices but not the documentation. It is now updated on bioservices.readthedocs.io Unfortunately, the uniprot API has changed a lot for...

@widdowquinn I have now fixed the documentation that should be updated

Short answer: this is not possible unfortunately. Long answer: The configuration framework used in bioservices, comes from easydev package where I used the appdirs package itself. This package takes care...

That is strange indeed. I see you are using conda. Have you installed bioservices using conda or pip ? Which version of bioservices are you using ? bioservices --version from...