Comments (3)
Fetching a spectrum from PRIDE via PROXI such as:
http://wwwdev.ebi.ac.uk/pride/proxi/archive/v0.1/spectra?resultType=full&usi=mzspec:PXD000966:CPTAC_CompRef_00_iTRAQ_12_5Feb12_Cougar_11-10-11.mzML:scan:11850:[UNIMOD:214]YYWGGLYSWDMSK[UNIMOD:214]/2returns the mzs in random order. This is not against the current spec, which does not specify. But it is breaking the Lorikeet viewer at ProteomeCentral. Seems like many applications may assume mzs in order.
What should be the resolution?
sorting is fine!!!
- Should we update the documentation to allow mzs in any order? Write some code to compensate for out of order mzs in ProteomeCentral and all other applications?
- Should we update the documentation to require mzs in ascending order? And update the PRIDE implementation?
If we decided the do it in that way we can change our implementation.
Does the random order of mzs at PRIDE match the same order of intensities? One risk of separate arrays is that they become unaligned.
@edeutsch as far as I know they match the intensities.
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@ypriverol, what do you mean by "sorting is fine!!!"?
Will PRIDE start returning sorted mzs?
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@edeutsch it means that what ever we decided we can implemented.
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Related Issues (20)
- do we really stipulate a max pageSize? HOT 1
- Massive data files do not exist
- /peptidoforms still labeled getPeptides
- inconsistent count* in Peptidoform
- What should the compact form of /peptidoforms return? HOT 2
- Add 500 to the list?
- msrun and filename HOT 8
- species as query parameter? HOT 2
- Error status should contain only error code HOT 1
- In the PSM object the score should be plural HOT 7
- Develop JSON Schema validator HOT 3
- Error status for multiple providers HOT 1
- PRIDE USI without interpretation not working? HOT 1
- No attributes for spectra at PRIDE? HOT 2
- How should a spectrum status be used? HOT 2
- update specification and schemas
- Validator of the PROXI APIs implementations
- Improve documentation of the entry points in the swagger.yaml file
- Precursor m/z
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