Phosphopath issue

Elena Navarro Carrasco

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Jul 5, 2022, 12:42:37 PM7/5/22

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Hi,

I have been using PhosphoPath for two months without any issues. However, since yesterday, I cannot create any networks, not even using the dataset.phos that is uploaded as an example in the user guide. When I import the dataset using “import network from file” it pops up an error message regarding a failed connection with Uniprot (my internet connection is good). I have repeated this process numerous times, installing and updating Cytoscape and PhosphoPath again and using different computers and the issue is always the same. I would really appreciate it if you could help me with this issue.

Thank you

Elena

Scooter Morris

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Jul 7, 2022, 9:43:43 AM7/7/22

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Copying Matthias' comment from app-dev:

This is most likely due to changes in the Uniprot endpoints.
- The tool should update to the latest uniprot-japi-1.1.1 library which was released end of May. This will most likely support the latest service endpoints (I have/had similar issues with uniprot with outdated uniprot-japi versions, so one should update the tools as soon as a new data and software release is provided by uniprot)
- If PhosphoPath is using the REST webservice directly most likely the service was updated and now some queries are failing.

I can confirm that Uniprot queries are failing via the uniprot-japi at the moment (via another tool cy3sbml). If you are lucky it is only a temporary issue/bug with the services, otherwise you have to open an issue with the PhosphoPath tool to update the uniprot-japi or webservices.

Best Matthias

-- scooter

Elena Navarro Carrasco

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Jul 7, 2022, 12:06:35 PM7/7/22

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Hi,

I have been using PhosphoPath for two months without any issues. However, since yesterday, I cannot create any networks, not even using the dataset.phos that is uploaded as an example in the user guide. When I import the dataset using “import network from file” an error message pops up indicating a failed connection with Uniprot (my internet connection is good). I have repeated this process numerous times, installing and updating Cytoscape and PhosphoPath again and using different computers and the issue is always the same. I would really appreciate it if you could help me with this issue.

Thank you.

yufan liu

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Jul 14, 2022, 10:01:14 AM7/14/22

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Hi Elena,

I am facing the same issue as you. May I ask if you have fixed this issue? Thank you!

Best,

Yufan

Scooter Morris

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Jul 14, 2022, 10:07:18 AM7/14/22

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I would suggest reaching out to the PhosphoPath authors to see if they might know what's going on...

-- scooter

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