From cc03daf46882cf6a5100fd861e477898a8c4db99 Mon Sep 17 00:00:00 2001 From: Asha Rostamianfar Date: Fri, 30 Nov 2018 11:58:09 -0500 Subject: [PATCH] Update BigQuery schema doc to only point to the cloud docs. --- README.md | 3 ++- docs/bigquery_schema.md | 21 --------------------- 2 files changed, 2 insertions(+), 22 deletions(-) delete mode 100644 docs/bigquery_schema.md diff --git a/README.md b/README.md index e72b4c114..534415e56 100644 --- a/README.md +++ b/README.md @@ -177,7 +177,8 @@ region in support of your project’s security and compliance needs. See ## Additional topics -* [Understanding the BigQuery Variants Table Schema](docs/bigquery_schema.md) +* [Understanding the BigQuery Variants Table + Schema](https://cloud.google.com/genomics/v1/bigquery-variants-schema) * [Loading multiple files](docs/multiple_files.md) * [Variant merging](docs/variant_merging.md) * [Handling large inputs](docs/large_inputs.md) diff --git a/docs/bigquery_schema.md b/docs/bigquery_schema.md deleted file mode 100644 index 4c4638543..000000000 --- a/docs/bigquery_schema.md +++ /dev/null @@ -1,21 +0,0 @@ -## Understanding the BigQuery Variants Table Schema - -See [this page](https://cloud.google.com/genomics/v1/bigquery-variants-schema) -for a general explanation of the schema. - -In addition, the schema from Variant Transforms has the following properties: -* If a record has a large number of calls such that the resulting BigQuery - row is more than 100MB, then that record will be automatically split into - multiple rows such that each row is less than 100MB. This is needed to - accommodate BigQuery's - [10MB per row limit](https://cloud.google.com/bigquery/quotas#import). -* _Only for float/integer repeated fields containing a null value:_ BigQuery - does not allow null values in repeated fields (the entire record can be null, - but values within the record must each have a value). For instance, if a - VCF INFO field is `1,.,2`, we cannot load `1,null,2` to BigQuery and need to - use a numeric replacement for the null value. By default, the replacement - value is set to `-2^31` (equal to `-2147483648`). You can also use - `--null_numeric_value_replacement` to customize this value. The alternative is - to convert such values to a string and use `.` to represent the null value. - To do this, please change the header to specify the type as `String`. -