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geneontology
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pipeline
Declarative pipeline for the Gene Ontology.
https://build.geneontology.org/job/geneontology/job/pipeline/
BSD 3-Clause "New" or "Revised" License
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Update ODK to latest, v1.3.1
#292
balhoff
closed
2 years ago
0
Revert changes for pinned CL version once CL is fixed
#291
kltm
opened
2 years ago
2
Revert changes for pinned uberon version once uberon is fixed
#290
kltm
closed
2 years ago
2
Look into systematizing the noctua-models migration SOP into a pipeline
#289
kltm
opened
2 years ago
6
Experimental go-cam site JSON builder fails after addition of imported data
#288
kltm
closed
2 years ago
1
Explore adding "continuous" ontology building
#287
kltm
closed
2 years ago
12
Pipeline currently fails due to python lib certifi changing requirements (floating requirement for requests-toolbelt)
#286
kltm
closed
2 years ago
5
Look into unblocking GO jenkins for public viewing to help communicate status
#285
kltm
closed
2 years ago
2
Remove remaining ROBOT from non-dockerized portions of the pipeline
#284
kltm
opened
2 years ago
5
When converting emitting GAF (from Noctua model sources), some ECO codes do not seem to map up correctly
#283
kltm
closed
2 years ago
18
Severe annotation drop reported in release pipeline
#282
kltm
closed
2 years ago
4
Suppress or remove owltools *-summary.txt files from pipeline reports
#281
kltm
closed
2 years ago
6
GORULE:0000028 fails for GPAD; ensure that GPAD files can make it through QC without failing GAF-specific rules
#280
kltm
closed
2 years ago
5
Pipeline currently fails due to antlr4 changing requirements
#279
kltm
closed
2 years ago
2
Storing noctua model in github has reached its first limit
#278
kltm
closed
2 years ago
2
Xenbase upstream data file not available
#277
kltm
closed
2 years ago
6
Typo in the mgi-prediction file?
#276
ukemi
closed
2 years ago
4
Task list and timing to complete MGI import
#275
ukemi
closed
2 years ago
18
GO Rules checks in biolink crash when reading certain types of data
#274
kltm
closed
2 years ago
1
Pipeline data failure on goa_human_complex file size reduction (GORULE:0000016 violations)
#273
kltm
closed
2 years ago
18
Realign various python versions and libraries (and any other free-floating software requirements)
#272
kltm
opened
2 years ago
1
Pipeline currently fails due to s3transfer changing requirements
#271
kltm
closed
2 years ago
3
Update pipeline to accept new ontojournal arguments required from minerva
#270
kltm
closed
2 years ago
4
Look into ceasing production of Zenodo reference releases
#269
kltm
closed
1 year ago
11
Remove software from pipeline products and all releases
#268
kltm
closed
1 year ago
2
Update odkfull image to align with ontology repo
#267
balhoff
closed
2 years ago
2
Xenbase upstream data file not available
#266
kltm
closed
2 years ago
16
Add JSON product production for GO-CAM API to pipeline
#265
kltm
opened
2 years ago
19
TAIR upstream data file not available
#264
kltm
closed
2 years ago
7
Switch aspgd to GO-supported static file as upstream data file no longer available
#263
kltm
closed
2 years ago
14
Pipeline currently fails due to pystache changing requirements
#262
kltm
closed
2 years ago
5
Update odkfull image
#261
balhoff
closed
2 years ago
1
dictyBase (others?) upstream data file not available
#260
kltm
closed
2 years ago
7
Downloader script sometimes does not exit properly (hangs) after a download fails, causing pipeline to spin
#259
kltm
opened
2 years ago
0
Pipeline fails with new odk image 1.2.30
#258
kltm
closed
2 years ago
2
Update odkfull image.
#257
balhoff
closed
2 years ago
3
Revert "Update blazegraph-runner version"
#256
balhoff
closed
2 years ago
0
Pipeline now fails due to update to blazegraph-runner
#255
kltm
closed
2 years ago
0
Update blazegraph-runner version
#254
balhoff
closed
2 years ago
3
Pipeline currently fails due to pyparse / rdflib changing requirements bug
#253
kltm
closed
2 years ago
4
Ensure that new JaponicusDB resource functions properly in the pipeline
#252
kltm
closed
2 years ago
13
Pipeline currently mis-maps IEAs around GOlr, likely related to owltools or its environment
#251
kltm
closed
2 years ago
13
Pipeline currently fails due to boto3 / botocore changing requirements
#250
kltm
closed
2 years ago
8
Set new --ontojournal option in Make Noctua GPAD stage
#249
dustine32
closed
2 years ago
3
Checkout of go-ontology is too large / slow to allow "neo" (issue-35-neo-test) run
#248
kltm
closed
2 years ago
10
Pipeline currently fails due to BDBags changing requirements
#247
kltm
closed
3 years ago
1
Collate all species-specific annotations into the same file
#246
ukemi
opened
3 years ago
1
Update Jenkinsfile
#245
dustine32
closed
3 years ago
1
go-site 1727 gaferencer upgrade from 0.4.1 to 0.5
#244
dustine32
closed
3 years ago
1
add sierra to pipeline email notifications
#243
sierra-moxon
closed
3 years ago
1
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