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bzhanglab / WebGestaltR

R package for WebGestalt
https://bzhanglab.github.io/WebGestaltR/
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idMappingGene error #21

Closed shengqh closed 1 year ago

shengqh commented 1 year ago

The code we ran successfully a few days ago now didn't work. We used hsapiens as organism name. Also, we are still using the 0.4.4 version. I am wondering if that is caused by the change from http to https url.

Loading the ID list... Organism is missing. Error in idMappingGene(organism = organism, dataType = dataType, inputGeneFile = inputGeneFile, : Organism is missing. Calls: WebGestaltR ... .uploadGeneExistingOrganism -> idMapping -> idMappingGene

iblacksand commented 1 year ago

You are correct that it is dealing with the change from http to https. To fix this in version 0.4.4 you can manually specify hostName in function calls with the updated url.

For example

idMapping(organism=organism, ..., hostName="https://www.webgestalt.org/"))

This is fixed in 0.4.5 which should be available soon. Let me know if you have questions, or this is not working.

shengqh commented 1 year ago

I upgraded to v0.4.5 and it worked. However, if you can update the server side to provide more accurate error message for those who is still using old version, that would be very helpful.

iblacksand commented 1 year ago

For the time being, the HTTP api was restored, so manually setting hostName on older versions isn't required.