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Merged
merged 4 commits into from
Oct 18, 2018
Merged

update doc #384

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9439939
update doc
allieychen Oct 17, 2018
457f519
add annotation header
allieychen Oct 18, 2018
bf32692
Revert "add annotation header"
allieychen Oct 18, 2018
5c3fbdf
Merge branch 'master' into test
allieychen Oct 18, 2018
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1 change: 1 addition & 0 deletions cloudbuild_CI.yaml
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Expand Up @@ -50,6 +50,7 @@ steps:
- '--run_unit_tests'
- '--run_presubmit_tests'
- '--run_preprocessor_tests'
- '--run_bq_to_vcf_tests'
id: 'test-gcp-variant-transforms-docker'
# By default the script uses a GS bucket of gcp-variant-transforms-test
# project. For other projects we should either use the following option
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5 changes: 5 additions & 0 deletions docs/bigquery_to_vcf.md
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Expand Up @@ -89,6 +89,11 @@ In addition, the following optional flags are provided:
You may change this flag if you have a dataset that is very dense and variants
in each shard cannot be sorted in memory.

For large datasets, using
[Cloud Dataflow Shuffle](https://cloud.google.com/dataflow/service/dataflow-service-desc#cloud-dataflow-shuffle)
can speed up the pipeline, by specifying the parameter:
`--experiments shuffle_mode=service`.

### Running from github

In addition to using the docker image, you may run the pipeline directly from
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