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meowcat / MSNovelist

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"Error when try to connect to server" #9

Open GHulthe opened 1 year ago

GHulthe commented 1 year ago

image

We have tried to run the latest docker image for MSnovelist in Ubuntu22.04 and 20.04 and in Docker Desktop in Windows10. Unfortunately we get an error connecting to server, see above (when in Windows Docker Desktop) In Linux the error only says cannot connect to server.

Any suggestions?

meowcat commented 1 year ago

Hi, I can reproduce this. Must be an issue with the old 4.4.29 SIRIUS they keep alive for us. I will ask what is up with the server.

GHulthe commented 1 year ago

Many thanks, that is very appreciated! I have tried again now and then. It is still down.

Would it be an option to preprocess the data in 4.4.29 Sirius outside the MSNovelist docker and load those folders from Sirius into MSNovelist? Would I still need the Sirius server to work for that pre-processing?

Regards, Gustaf

From: meowcat @.> Sent: den 30 november 2022 15:14 To: meowcat/MSNovelist @.> Cc: Hulthe, Gustaf @.>; Author @.> Subject: Re: [meowcat/MSNovelist] "Error when try to connect to server" (Issue #9)

Hi, I can reproduce this. Must be an issue with the old 4.4.29 SIRIUS they keep alive for us. I will ask what is up with the server.

— Reply to this email directly, view it on GitHubhttps://github.com/meowcat/MSNovelist/issues/9#issuecomment-1332211387, or unsubscribehttps://github.com/notifications/unsubscribe-auth/A4PH5SHDCJTNHVJWQDE3VK3WK5OIZANCNFSM6AAAAAASOWJIKQ. You are receiving this because you authored the thread.Message ID: @.**@.>>

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meowcat commented 1 year ago

They fixed it, at least it works for me. Can you confirm?

wittetom commented 1 year ago

Hi meowcat,

I believe I'm having the same issue as Gustaf - There seems to be a problem accessing the sirius server. I'm running the latest docker, also in ubuntu. I get the following error when running the "377.mgf" example:

WARNING19:28:58 - Could not parse training structure InChI, skipping this entry WARNING19:29:00 - Error when try to connect to Server. Try again in 4.0s Cause: peer not authenticated

On another mgf file I created, I got the following error:

WARNING19:25:09 - Error when try to connect to Server. Try again in 4.0s Cause: Could not lookup formula: C26H44O4

(and this was the correct formula predicted, so that part of sirius is functioning as expected).

Thanks Tom

ZhuYan-SIPPE commented 1 year ago

Hi meowcat,

I have the similar problem as GHulthe，when I running the example data of 377.mgf:

"WARNING08:37:44 - /msnovelist-data/1677487053/spectra-edited.mgf: Set ion to [M + H]+ WARNING08:37:47 - Error when try to connect to Server. Try again in 4.0s Cause: Error when querying REST service. Bad Response Code: 404 | Message: Not Found| Content: "

I pulled the lastest docker image of msnovelist in Docker Desktop on Win10. I tried in Ubuntu 20.04 and Ubuntu22.04, the same error occured.

Could you give me some advice about this?

meowcat commented 1 year ago

Dear everyone,

at the moment the CSI:FingerID service backing MSNovelist is down. We will need to retrain the model for the new service version, which will unfortunately take a while.

Sorry for the inconvenience.

jackhu-bme commented 1 year ago

When will the server be back on line again, please?

GHulthe commented 1 year ago

Thanks for supporting MSNovelist , we need to have the Sirius server back on-line again. I try regularly to use MSNovelist without success.

Regards, Gustaf

From: Jack Hu @.> Sent: den 17 mars 2023 07:37 To: meowcat/MSNovelist @.> Cc: Hulthe, Gustaf @.>; Author @.> Subject: Re: [meowcat/MSNovelist] "Error when try to connect to server" (Issue #9)

When will the server be back on line again, please?

— Reply to this email directly, view it on GitHubhttps://github.com/meowcat/MSNovelist/issues/9#issuecomment-1473244427, or unsubscribehttps://github.com/notifications/unsubscribe-auth/A4PH5SB33O6N7PGC4ZUDR4TW4QBBBANCNFSM6AAAAAASOWJIKQ. You are receiving this because you authored the thread.Message ID: @.**@.>>

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jackhu-bme commented 1 year ago

Yeah, I've been trying to use MSNovelist every day to see if it's OK in the past 2 weeks. However, I never success in connecting the server.

meowcat commented 1 year ago

Hi, sorry, as noted in the repo we have to retrain MSNovelist for the new fingerprints which unfortunately I haven't had time for yet. I apologize for the issue.

zorzansi commented 1 year ago

Hi, I was wondering if you have any news concerning the CSI:FingerID service backing MSNovelist. Would it be possible to download the service code and run it locally, to then point MsNovelist to the local service?

GHulthe commented 1 year ago

Good suggestion! That would be a great option! Cheers, Gustaf

From: zorzansi @.> Sent: den 6 september 2023 15:02 To: meowcat/MSNovelist @.> Cc: Hulthe, Gustaf @.>; Author @.> Subject: Re: [meowcat/MSNovelist] "Error when try to connect to server" (Issue #9)

Hi, I was wondering if you have any news concerning the CSI:FingerID service backing MSNovelist. Would it be possible to download the service code and run it locally, to then point MsNovelist to the local service?

- Reply to this email directly, view it on GitHubhttps://github.com/meowcat/MSNovelist/issues/9#issuecomment-1708310602, or unsubscribehttps://github.com/notifications/unsubscribe-auth/A4PH5SGOSWPEXW5B55EBRWDXZBX5ZANCNFSM6AAAAAASOWJIKQ. You are receiving this because you authored the thread.Message ID: @.**@.>>

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meowcat commented 1 year ago

Hi, sorry this is not possible, as 1) the CSI:FingerID code is not public and 2) as far as I am informed, it requires a lot of resources. However I can inform you at least that we are making some progress in the migration to new Sirius.

zorzansi commented 1 year ago

Hi, thank you for the reply. Resources-wise, it could not be an issue as I work on a research institution and we can deal with code requiring high resources. So if point 1 can be tackled in any way (maybe an older open-source version, or some open source alternative which might be interfaced), that might work. Any possible estimate of the time needed to get the service up again? Days, weeks, months, or more?

GHulthe commented 1 year ago

Great to hear! Thanks, Gustaf

From: meowcat @.> Sent: den 18 september 2023 07:41 To: meowcat/MSNovelist @.> Cc: Hulthe, Gustaf @.>; Author @.> Subject: Re: [meowcat/MSNovelist] "Error when try to connect to server" (Issue #9)

Hi, sorry this is not possible, as 1) the CSI:FingerID code is not public and 2) as far as I am informed, it requires a lot of resources. However I can inform you at least that we are making some progress in the migration to new Sirius.

- Reply to this email directly, view it on GitHubhttps://github.com/meowcat/MSNovelist/issues/9#issuecomment-1722784246, or unsubscribehttps://github.com/notifications/unsubscribe-auth/A4PH5SGRJTYPXMISOMGLUEDX27NF3ANCNFSM6AAAAAASOWJIKQ. You are receiving this because you authored the thread.Message ID: @.**@.>>

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Mitchell-McInerney commented 5 months ago

Hi there

I am really excited to start using MSNovelist but I can see that the server connection issues persist, probably because you guys are still working on this. Can we have any idea of a time frame for bringing MSNovelist back online?

I can get SIRIUS/CSI:Finger ID to work fine on my desktop, is it possible to take pre-processed .mgf files from here and plug them straight into MSNovelist online? This could be a great workaround while you guys sort out the backend stuff.

Any news/updates would be greatly appreciated!

meowcat commented 5 months ago

Hi, right now we are waiting for the SIRIUS 6 release, which should be only weeks out; MSNovelist will be integrated in SIRIUS 6 directly!

GHulthe commented 5 months ago

Thanks, that is great news! Do you know if Sirius 6 will be freely open also to MS-researchers within companies?

Regards, Gustaf

From: meowcat @.> Sent: Tuesday, May 21, 2024 9:43 AM To: meowcat/MSNovelist @.> Cc: Hulthe, Gustaf @.>; Author @.> Subject: Re: [meowcat/MSNovelist] "Error when try to connect to server" (Issue #9)

Hi, right now we are waiting for the SIRIUS 6 release, which should be only weeks out; MSNovelist will be integrated in SIRIUS 6 directly!

— Reply to this email directly, view it on GitHubhttps://github.com/meowcat/MSNovelist/issues/9#issuecomment-2121968258, or unsubscribehttps://github.com/notifications/unsubscribe-auth/A4PH5SHGZPJ4KD24NW4CDO3ZDL3JBAVCNFSM6AAAAAASOWJIKSVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDCMRRHE3DQMRVHA. You are receiving this because you authored the thread.Message ID: @.**@.>>

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meowcat commented 5 months ago

I imagine that it will follow the same licensing as SIRIUS 5, but I have no say in this.