googlegenomics dataflow-java issues

googlegenomics / dataflow-java

Google Cloud Dataflow pipelines such as Identity-By-State as well as useful utility classes.

Apache License 2.0

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issues

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Bump com.github.samtools:htsjdk from 1.128 to 3.0.1

#227 dependabot[bot] opened 1 year ago
0
Bump junit:junit from 4.11 to 4.13.1

#226 dependabot[bot] opened 1 year ago
0
Security Policy violation Binary Artifacts

#225 google-allstar-prod[bot] opened 1 year ago
28
Deprecate this repo?

#224 tswast opened 4 years ago
0
Getting started instructions link in README 404s

#223 tswast opened 4 years ago
0
Store data in info field of Reads proto into BigQuery table.

#222 nmousavi opened 5 years ago
0
Validate the given BigQuery table in LoadReadsToBigQuery pipeline.

#221 nmousavi opened 5 years ago
0
Add a pipeline that loads BAM into BigQuery

#220 nmousavi closed 5 years ago
3
Update CalculateCoverage integration test.

#219 deflaux closed 6 years ago
1
Improve performance of CalculateCoverage.

#218 deflaux closed 6 years ago
2
Add file list support to CalculateCoverage.

#217 deflaux closed 6 years ago
2
Update to a newer version of htsjdk dependency.

#216 deflaux opened 6 years ago
0
Upgrade to Apache Beam (Dataflow 2.x).

#215 deflaux closed 6 years ago
1
Update ShardedBAMWriting to be compatible with parallel BAM reading.

#214 deflaux opened 6 years ago
0
Identity By State variant streamer fails with write error

#213 pbilling opened 7 years ago
1
Bump utils-java dependency.

#212 deflaux closed 7 years ago
2
Make test result download robust to eventual consistency.

#211 deflaux closed 7 years ago
3
VerifyBamId update

#210 sergipv closed 7 years ago
14
Bump gRPC and Dataflow dependencies.

#209 deflaux closed 7 years ago
3
Bump utils-java dependency.

#208 deflaux closed 7 years ago
3
Only set the project id in the request when applicable.

#207 deflaux closed 8 years ago
2
Bump utils-java dependency.

#206 deflaux closed 8 years ago
4
Dependent utils-java and grpc java bump in pom.xml

#205 pgrosu closed 6 years ago
2
Update to v1 version of quota exceeded error.

#204 deflaux closed 8 years ago
2
Bug fix for IdentifyPrivateVariants.

#203 deflaux closed 8 years ago
2
Push AnnotationUtils down into utils-java

#202 deflaux opened 8 years ago
0
add support for STRICT intra-shard boundary

#201 deflaux opened 8 years ago
0
Enforce window within merge logic.

#200 deflaux closed 8 years ago
6
Bump dataflow-sdk dependency.

#199 deflaux closed 8 years ago
2
Bump io.netty dependency.

#198 deflaux closed 8 years ago
2
Update io.netty dependency.

#197 deflaux closed 6 years ago
2
Pass call sets and use variant merge strategies.

#196 deflaux closed 8 years ago
1
Refactor variant merge strategy.

#195 deflaux closed 8 years ago
1
Update variant pipelines to take a subset of call sets.

#194 deflaux closed 8 years ago
1
Bump dataflow-sdk dependency.

#193 deflaux closed 8 years ago
1
Bump guava dependency.

#192 deflaux closed 8 years ago
1
Bug fix for range representation of Variants in AnnotateVariants.java.

#191 cmclean closed 8 years ago
3
Add integration test for DeleteVariants pipeline.

#190 deflaux opened 8 years ago
0
Bug fixes for pipelines using partial responses.

#189 deflaux closed 8 years ago
2
Add IdentifyPrivateVariants and DeleteVariants pipelines.

#188 deflaux closed 8 years ago
2
Update all pipelines to use partial responses

#187 deflaux closed 8 years ago
2
Add integration test for Calculate Coverage.

#186 deflaux closed 6 years ago
1
Update to v1 of genomics API.

#185 deflaux closed 8 years ago
6
Clean up imports and whitespace.

#184 deflaux closed 8 years ago
1
Handle empty sites and large sites.

#183 deflaux closed 8 years ago
2
Update PCA and IBS to operate over a set of sites.

#182 deflaux closed 8 years ago
2
Consider dividing integration tests into two groups.

#181 deflaux opened 8 years ago
0
Rearrange code.

#180 deflaux closed 8 years ago
7
Fix "Local variable declaration hides another field or variable" warn…

#179 deflaux closed 8 years ago
2
Update Proto2Coder -> ProtoCoder

#178 deflaux closed 8 years ago
1