From 03612e7192072082f6f8d7d825c8cfc0ff414058 Mon Sep 17 00:00:00 2001 From: Miguel Covarrubias Date: Fri, 23 Jun 2023 18:19:02 -0400 Subject: [PATCH] Move rather than delete GVS BigQuery classes --- .../utils/{ => gvs}/bigquery/BigQueryResultAndStatistics.java | 2 +- .../hellbender/utils/{ => gvs}/bigquery/BigQueryUtils.java | 2 +- .../hellbender/utils/{ => gvs}/bigquery/GATKAvroReader.java | 2 +- .../utils/{ => gvs}/bigquery/StorageAPIAvroReader.java | 2 +- .../bigquery/StorageAPIAvroReaderAndBigQueryStatistics.java | 2 +- .../hellbender/utils/{ => gvs}/bigquery/TableReference.java | 2 +- .../utils/{ => gvs}/bigquery/BigQueryUtilsUnitTest.java | 2 +- 7 files changed, 7 insertions(+), 7 deletions(-) rename src/main/java/org/broadinstitute/hellbender/utils/{ => gvs}/bigquery/BigQueryResultAndStatistics.java (88%) rename src/main/java/org/broadinstitute/hellbender/utils/{ => gvs}/bigquery/BigQueryUtils.java (99%) rename src/main/java/org/broadinstitute/hellbender/utils/{ => gvs}/bigquery/GATKAvroReader.java (80%) rename src/main/java/org/broadinstitute/hellbender/utils/{ => gvs}/bigquery/StorageAPIAvroReader.java (99%) rename src/main/java/org/broadinstitute/hellbender/utils/{ => gvs}/bigquery/StorageAPIAvroReaderAndBigQueryStatistics.java (89%) rename src/main/java/org/broadinstitute/hellbender/utils/{ => gvs}/bigquery/TableReference.java (96%) rename src/test/java/org/broadinstitute/hellbender/utils/{ => gvs}/bigquery/BigQueryUtilsUnitTest.java (99%) diff --git a/src/main/java/org/broadinstitute/hellbender/utils/bigquery/BigQueryResultAndStatistics.java b/src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/BigQueryResultAndStatistics.java similarity index 88% rename from src/main/java/org/broadinstitute/hellbender/utils/bigquery/BigQueryResultAndStatistics.java rename to src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/BigQueryResultAndStatistics.java index bb49d82011c..cc878e54b5a 100644 --- a/src/main/java/org/broadinstitute/hellbender/utils/bigquery/BigQueryResultAndStatistics.java +++ b/src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/BigQueryResultAndStatistics.java @@ -1,4 +1,4 @@ -package org.broadinstitute.hellbender.utils.bigquery; +package org.broadinstitute.hellbender.utils.gvs.bigquery; import com.google.cloud.bigquery.JobStatistics; import com.google.cloud.bigquery.TableResult; diff --git a/src/main/java/org/broadinstitute/hellbender/utils/bigquery/BigQueryUtils.java b/src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/BigQueryUtils.java similarity index 99% rename from src/main/java/org/broadinstitute/hellbender/utils/bigquery/BigQueryUtils.java rename to src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/BigQueryUtils.java index 4cfdb083bca..1ef67d9c929 100644 --- a/src/main/java/org/broadinstitute/hellbender/utils/bigquery/BigQueryUtils.java +++ b/src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/BigQueryUtils.java @@ -1,4 +1,4 @@ -package org.broadinstitute.hellbender.utils.bigquery; +package org.broadinstitute.hellbender.utils.gvs.bigquery; import com.google.cloud.bigquery.*; import io.grpc.StatusRuntimeException; diff --git a/src/main/java/org/broadinstitute/hellbender/utils/bigquery/GATKAvroReader.java b/src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/GATKAvroReader.java similarity index 80% rename from src/main/java/org/broadinstitute/hellbender/utils/bigquery/GATKAvroReader.java rename to src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/GATKAvroReader.java index 9080e12c48b..34b586a31fc 100644 --- a/src/main/java/org/broadinstitute/hellbender/utils/bigquery/GATKAvroReader.java +++ b/src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/GATKAvroReader.java @@ -1,4 +1,4 @@ -package org.broadinstitute.hellbender.utils.bigquery; +package org.broadinstitute.hellbender.utils.gvs.bigquery; import htsjdk.samtools.util.CloseableIterator; import org.apache.avro.generic.GenericRecord; diff --git a/src/main/java/org/broadinstitute/hellbender/utils/bigquery/StorageAPIAvroReader.java b/src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/StorageAPIAvroReader.java similarity index 99% rename from src/main/java/org/broadinstitute/hellbender/utils/bigquery/StorageAPIAvroReader.java rename to src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/StorageAPIAvroReader.java index 5a2daf63519..c276c26a478 100644 --- a/src/main/java/org/broadinstitute/hellbender/utils/bigquery/StorageAPIAvroReader.java +++ b/src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/StorageAPIAvroReader.java @@ -1,4 +1,4 @@ -package org.broadinstitute.hellbender.utils.bigquery; +package org.broadinstitute.hellbender.utils.gvs.bigquery; import com.google.cloud.bigquery.storage.v1.AvroRows; import com.google.cloud.bigquery.storage.v1.BigQueryReadClient; diff --git a/src/main/java/org/broadinstitute/hellbender/utils/bigquery/StorageAPIAvroReaderAndBigQueryStatistics.java b/src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/StorageAPIAvroReaderAndBigQueryStatistics.java similarity index 89% rename from src/main/java/org/broadinstitute/hellbender/utils/bigquery/StorageAPIAvroReaderAndBigQueryStatistics.java rename to src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/StorageAPIAvroReaderAndBigQueryStatistics.java index 68871a504b4..8499593f39a 100644 --- a/src/main/java/org/broadinstitute/hellbender/utils/bigquery/StorageAPIAvroReaderAndBigQueryStatistics.java +++ b/src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/StorageAPIAvroReaderAndBigQueryStatistics.java @@ -1,4 +1,4 @@ -package org.broadinstitute.hellbender.utils.bigquery; +package org.broadinstitute.hellbender.utils.gvs.bigquery; import com.google.cloud.bigquery.JobStatistics; diff --git a/src/main/java/org/broadinstitute/hellbender/utils/bigquery/TableReference.java b/src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/TableReference.java similarity index 96% rename from src/main/java/org/broadinstitute/hellbender/utils/bigquery/TableReference.java rename to src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/TableReference.java index 49db6c22e2d..66898d7cb32 100644 --- a/src/main/java/org/broadinstitute/hellbender/utils/bigquery/TableReference.java +++ b/src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/TableReference.java @@ -1,4 +1,4 @@ -package org.broadinstitute.hellbender.utils.bigquery; +package org.broadinstitute.hellbender.utils.gvs.bigquery; import com.google.common.collect.ImmutableList; diff --git a/src/test/java/org/broadinstitute/hellbender/utils/bigquery/BigQueryUtilsUnitTest.java b/src/test/java/org/broadinstitute/hellbender/utils/gvs/bigquery/BigQueryUtilsUnitTest.java similarity index 99% rename from src/test/java/org/broadinstitute/hellbender/utils/bigquery/BigQueryUtilsUnitTest.java rename to src/test/java/org/broadinstitute/hellbender/utils/gvs/bigquery/BigQueryUtilsUnitTest.java index 3a3aa808e9a..07b5d85e3f3 100644 --- a/src/test/java/org/broadinstitute/hellbender/utils/bigquery/BigQueryUtilsUnitTest.java +++ b/src/test/java/org/broadinstitute/hellbender/utils/gvs/bigquery/BigQueryUtilsUnitTest.java @@ -1,4 +1,4 @@ -package org.broadinstitute.hellbender.utils.bigquery; +package org.broadinstitute.hellbender.utils.gvs.bigquery; import com.google.cloud.bigquery.FieldValueList; import org.apache.avro.generic.GenericRecord;