psidev-pi-dev

[Psidev-pi-dev] [HUPO-PSI/mzIdentML] MS:1002404 (count of identified proteins) ought to be a child of MS:1001184 (search statistics)? (#8)

[Harald B. <not...@gi...>]

MS:1002404 (count of identified proteins) is _not_ a child of MS:1001184 (search statistics)? Should it not be? Will remove warning messages when running the validator.

---
You are receiving this because you are subscribed to this thread.
Reply to this email directly or view it on GitHub:
https://github.com/HUPO-PSI/mzIdentML/issues/8

Re: [Psidev-pi-dev] [HUPO-PSI/mzIdentML] MS:1002404 (count of identified proteins) ought to be a child of MS:1001184 (search statistics)? (#8)

[Gerhard M. <not...@gi...>]

Closed #8.

---
You are receiving this because you are subscribed to this thread.
Reply to this email directly or view it on GitHub:
https://github.com/HUPO-PSI/mzIdentML/issues/8#event-641477495

Re: [Psidev-pi-dev] [HUPO-PSI/mzIdentML] MS:1002404 (count of identified proteins) ought to be a child of MS:1001184 (search statistics)? (#8)

[Gerhard M. <not...@gi...>]

Done in version 3.86.0 of psi-ms.obo

---
You are receiving this because you are subscribed to this thread.
Reply to this email directly or view it on GitHub:
https://github.com/HUPO-PSI/mzIdentML/issues/8#issuecomment-214744360

Re: [Psidev-pi-dev] [HUPO-PSI/mzIdentML] MS:1002404 (count of identified proteins) ought to be a child of MS:1001184 (search statistics)? (#8)

[Harald B. <not...@gi...>]

Reopened #8.

---
You are receiving this because you are subscribed to this thread.
Reply to this email directly or view it on GitHub:
https://github.com/HUPO-PSI/mzIdentML/issues/8#event-646126620

Re: [Psidev-pi-dev] [HUPO-PSI/mzIdentML] MS:1002404 (count of identified proteins) ought to be a child of MS:1001184 (search statistics)? (#8)

[Harald B. <not...@gi...>]

Seems like the ProteinDetectionList_rule does not allow children of MS:1001184 (search statistics) only children of MS:1002406 (count of identified clusters)? Shouldn't children of MS:1001184 (search statistics) also be allowed?

Complete validator message:

```
Rule ID: ProteinDetectionList_rule
    Level: INFO
    Context(/cvParam/@accession ) in 2 locations
    --> Not all of the 1 values ProteinDetectionList's CV terms ['MS:1002404'] found using the Xpath '/cvParam/@accession' matched any of the 2 CvTerm(s):
  - Any children term of MS:1001184 (search statistics). The term can be repeated. The matching value has to be the identifier of the term, not its name.
  - The sole term MS:1002406 (count of identified clusters) or any of its children. A single instance of this term can be specified. The matching value has to be the identifier of the term, not its name.
```

---
You are receiving this because you are subscribed to this thread.
Reply to this email directly or view it on GitHub:
https://github.com/HUPO-PSI/mzIdentML/issues/8#issuecomment-215857440

Re: [Psidev-pi-dev] [HUPO-PSI/mzIdentML] MS:1002404 (count of identified proteins) ought to be a child of MS:1001184 (search statistics)? (#8)

[andrewrobertjones <not...@gi...>]

Seems to be solved, closing. Can be re-opened if issue still exists

---
You are receiving this because you are subscribed to this thread.
Reply to this email directly or view it on GitHub:
https://github.com/HUPO-PSI/mzIdentML/issues/8#issuecomment-218491241

Re: [Psidev-pi-dev] [HUPO-PSI/mzIdentML] MS:1002404 (count of identified proteins) ought to be a child of MS:1001184 (search statistics)? (#8)

[andrewrobertjones <not...@gi...>]

Closed #8.

---
You are receiving this because you are subscribed to this thread.
Reply to this email directly or view it on GitHub:
https://github.com/HUPO-PSI/mzIdentML/issues/8#event-657325688

Re: [Psidev-pi-dev] [HUPO-PSI/mzIdentML] MS:1002404 (count of identified proteins) ought to be a child of MS:1001184 (search statistics)? (#8)

[Harald B. <not...@gi...>]

Reopened #8.

---
You are receiving this because you are subscribed to this thread.
Reply to this email directly or view it on GitHub:
https://github.com/HUPO-PSI/mzIdentML/issues/8#event-658430226

Re: [Psidev-pi-dev] [HUPO-PSI/mzIdentML] MS:1002404 (count of identified proteins) ought to be a child of MS:1001184 (search statistics)? (#8)

[Harald B. <not...@gi...>]

I still get the same info message when running the current validator on the PeptideShaker mzid 1.2 example file: https://github.com/HUPO-PSI/mzIdentML/blob/master/examples/1_2examples/PeptideShaker_mzid_1_2_example/PeptideShaker_mzid_1_2_example.mzid.gz.

---
You are receiving this because you are subscribed to this thread.
Reply to this email directly or view it on GitHub:
https://github.com/HUPO-PSI/mzIdentML/issues/8#issuecomment-218726052

Re: [Psidev-pi-dev] [HUPO-PSI/mzIdentML] MS:1002404 (count of identified proteins) ought to be a child of MS:1001184 (search statistics)? (#8)

[Gerhard M. <not...@gi...>]

Solved now.

---
You are receiving this because you are subscribed to this thread.
Reply to this email directly or view it on GitHub:
https://github.com/HUPO-PSI/mzIdentML/issues/8#issuecomment-222715139

Re: [Psidev-pi-dev] [HUPO-PSI/mzIdentML] MS:1002404 (count of identified proteins) ought to be a child of MS:1001184 (search statistics)? (#8)

[Gerhard M. <not...@gi...>]

Closed #8.

---
You are receiving this because you are subscribed to this thread.
Reply to this email directly or view it on GitHub:
https://github.com/HUPO-PSI/mzIdentML/issues/8#event-677129821