search

Proteomicslab57357 / UniprotR

Retrieving Information of Proteins from Uniprot
GNU General Public License v3.0
59 stars 18 forks source link

Error "Internet connection problem occurs and the function will return original error" #32

Closed acragin closed 1 year ago

acragin commented 1 year ago

I am trying to run multiple commands with this package but no matter which I run I keep getting the error: "Internet connection problem occurs and the function will return the original error length(url) == 1 is not TRUEInternet connection problem occurs"

when I then do: > length(url) == 1 [1] TRUE > length("https://www.uniprot.org/") [1] 1

How do I fix this?

MohmedSoudy commented 1 year ago

Hi @acragin Thank you for using our package. Could you share the commands that you are trying to run?

acragin commented 1 year ago

Hi!

I was trying to run ConvertID, GetAccessionList, and GetGeneral_Informtation, all of which returned the same error as listed before.

MohmedSoudy commented 1 year ago

Hi @acragin I managed to run the functions GetAccessionList and GetGeneral_Informtation using UniptotR_2.2.2 on Windows 10 using the following script 

library(UniprotR)
Accs <- GetAccessionList(file.choose())
potein_general_information <- GetGeneral_Information(Accs)

For the ConvertID function, please refer to #22 as the solution might be there for the current moment. We will solve this problem in the next release.

acragin commented 1 year ago

Hi,

I tried running that code however I am still receiving the same error message of an internet connection problem occurring. I am trying to run UniprotR_2.2.2 on a mac, could that ver the issue?

MohmedSoudy commented 1 year ago

Do you have a stable internet connection while running the codes?

acragin commented 1 year ago

Yes I have a stable internet connection

MohmedSoudy commented 1 year ago

Hi @acragin , What is the output when you put the following URL to the web browser?

 https://rest.uniprot.org/uniprotkb/search?query=accession:P05067&format=tsv&fields=date_created,date_modified,date_sequence_modified,version
acragin commented 1 year ago

length('https://rest.uniprot.org/uniprotkb/search?query=accession:P05067&format=tsv&fields=date_created,date_modified,date_sequence_modified,version') [1] 1

MohmedSoudy commented 1 year ago

The request seems to work properly. In that regard, I will ask about your availability to organize a meeting to see exactly what is going on.