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initial airr-js package #687

Merged
merged 55 commits into from
Oct 17, 2024
Merged

initial airr-js package #687

merged 55 commits into from
Oct 17, 2024

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schristley
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@schristley schristley commented Apr 15, 2023 •
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  • finish I/O routines
  • add tests
  • API documentation?
  • npm account, publish, update release procedures

@schristley schristley requested a review from javh April 15, 2023 19:28
@schristley schristley added this to the AIRR 1.4.2 milestone Apr 15, 2023
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javh commented Jul 10, 2023

@schristley , we're wrapping up for a release right now. Is this something that will be ready to go or should we push it to v2.0?

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@javh I think can merge in once I update the README page. The code is like 90% complete and working in the browser and in nodejs. I can finish up the rest with some patches.

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@javh Note that schema fixes like #697 are needed for validation to work.

@schristley schristley marked this pull request as ready for review July 10, 2023 18:26
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javh commented Jul 10, 2023

Ah, okay. So close, but maybe not quite there yet. Hrm. Maybe v2 then? Even though it is close.

@scharch scharch modified the milestones: AIRR 1.4.2, AIRR v2.0.0 Jul 10, 2023
jday1 and others added 14 commits July 25, 2023 11:08
@jday1 @schristley
Created default spec to reduce load time (#683)
de06af2
@williamdlees @schristley
Update nullable fields, add additional fields to AlleleDescription (#680
e544ef2 
)

* Update nullable fields, add CDR fields to AlleleDescription
* fix missing x-airr
* Fix miairr tags in germline objects (#663). De-nest genotype (#667)
* Add fwr3_end
* Fix object name
* Update v-sequence delineation fields and dropped aligned sequence from AlleleDescription. Updated germline test data for germline. AlleleDescription. Updated germline test data for.
* Fix combined test data
* Further updates to germline objects
@javh @bussec @schristley
Various schema updates (#674)
4c7cde1 
Various minor schema updates

---------

Co-authored-by: Christian Busse <christian.busse@dkfz-heidelberg.de>
Co-authored-by: Scott Christley <scott.christley@utsouthwestern.edu>
@javh @jday1 @schristley
Copy of PR #685 (#695)
bd93f36 
Introduced SubjectGenotype to allow testing of mhc_genotype_set and receptor_genotype_set

---------

Co-authored-by: jday1 <james@synteny.ai>
@javh @schristley
Remove RTD C compile dependency hack (#694)
1729129 
Remove RTD C compile dependency hack
@bussec @schristley
Update datarep_cmd_example.rst
ec5a9ab 
Switch link to https
@bcorrie @schristley
Update study_keywords documentation
9dd3727
@bcorrie @schristley
Replace adc-query_support with adc-query-support
ffb5b29
@bcorrie @schristley
Changed adc-api-optional to adc-query-support.
5efa9cc
@bcorrie @schristley
Added adc-api-optional to AIRR extensions docs.
1201971
@schristley
newer version of sphinx required
3ca4a8b
@bcorrie @schristley
Add paragraph linking to ADC
d6aca53
@bcorrie @schristley
Added links to ADC registry github
e8fe17e
@bcorrie @schristley
Added a clairification about server names
ff6c23f
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javh commented Aug 12, 2024

@schristley Is this close to complete?

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@schristley Is this close to complete?

It is. I'll work on the last bits this month and get it merged.

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  • npm account, publish, update release procedures

We will do this at release time.

@schristley schristley merged commit a87eac9 into master Oct 17, 2024
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@schristley @javh @scharch @jday1 @williamdlees @bussec @bcorrie