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HUPO-PSI / usi

Universal Spectrum Identifier for Mass Spectrometry
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At least one USI example in the USI publication is not working #2

Open mwalzer opened 2 years ago

mwalzer commented 2 years ago

At least the proteomicsdb.org example in the Methods section of https://doi.org/10.1038/s41592-021-01184-6 is not working (both PDF and online version). See the screenshot below. image

mwalzer commented 2 years ago

Since the URL link is formed such: https://www.proteomicsdb.org/use/?usi=mzspec:PXD015890:18May18_Olson_WT2.raw%20(F001551).mzid_18May18_Olson_WT2.raw_(F001551).MGF:index:6913:AEAEAQAEELSFPR/2&usi_origin=pride my suspicion is that either the white-space character or the brackets in the filename break it - is there any mitigation strategies outlined in the USI docs for such scenarios? Might be worth highlighting.

edeutsch commented 2 years ago

This may be due to some troubles at the PRIDE USI server. Separate from the above problem, and perhaps related to the above problem, I notice that PRIDE behaves weirdly on this example that we published in the USI paper itself:

http://wwwdev.ebi.ac.uk/pride/proxi/archive/v0.1/spectra?resultType=full&usi=mzspec%3APXD000966%3ACPTAC_CompRef_00_iTRAQ_05_2Feb12_Cougar_11-10-09.mzML%3Ascan%3A12298%3A[iTRAQ4plex]-LHFFM[Oxidation]PGFAPLTSR%2F3

yields:

Whitelabel Error Page

This application has no explicit mapping for /error, so you are seeing this as a fallback.
Mon Mar 21 04:55:23 GMT 2022
There was an unexpected error (type=Internal Server Error, status=500).
Unable to execute HTTP request: Connect to s3.embassy.ebi.ac.uk:443 [s3.embassy.ebi.ac.uk/193.62.54.252] failed: Connection refused (Connection refused)

This is our example 2 here:

http://proteomecentral.proteomexchange.org/usi/

This did work when we published the paper. Maybe this is an issue for @ypriverol ?