fix imports

broadinstitute · Jun 29, 2023 · b2ed14f · b2ed14f
1 parent fe375d2
commit b2ed14f
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Showing 5 changed files with 8 additions and 9 deletions.
diff --git a/src/main/java/org/broadinstitute/hellbender/tools/gvs/common/CostObservability.java b/src/main/java/org/broadinstitute/hellbender/tools/gvs/common/CostObservability.java
@@ -13,7 +13,7 @@
 import java.io.IOException;
 import java.util.Date;
 
-import static org.broadinstitute.hellbender.utils.bigquery.BigQueryUtils.extractCausalStatusRuntimeExceptionOrThrow;
+import static org.broadinstitute.hellbender.utils.gvs.bigquery.BigQueryUtils.extractCausalStatusRuntimeExceptionOrThrow;
 
 public class CostObservability {
     static final Logger logger = LogManager.getLogger(org.broadinstitute.hellbender.tools.gvs.common.CostObservability.class);

diff --git a/src/main/java/org/broadinstitute/hellbender/tools/gvs/common/FilterSensitivityTools.java b/src/main/java/org/broadinstitute/hellbender/tools/gvs/common/FilterSensitivityTools.java
@@ -6,8 +6,8 @@
 import org.apache.logging.log4j.LogManager;
 import org.apache.logging.log4j.Logger;
 import org.broadinstitute.hellbender.exceptions.UserException;
-import org.broadinstitute.hellbender.utils.bigquery.StorageAPIAvroReader;
-import org.broadinstitute.hellbender.utils.bigquery.TableReference;
+import org.broadinstitute.hellbender.utils.gvs.bigquery.StorageAPIAvroReader;
+import org.broadinstitute.hellbender.utils.gvs.bigquery.TableReference;
 import org.broadinstitute.hellbender.utils.variant.GATKVCFConstants;
 
 import java.util.HashMap;

diff --git a/src/main/java/org/broadinstitute/hellbender/tools/gvs/common/SampleList.java b/src/main/java/org/broadinstitute/hellbender/tools/gvs/common/SampleList.java
@@ -10,9 +10,9 @@
 import org.apache.logging.log4j.LogManager;
 import org.apache.logging.log4j.Logger;
 import org.broadinstitute.hellbender.exceptions.GATKException;
-import org.broadinstitute.hellbender.utils.bigquery.BigQueryUtils;
-import org.broadinstitute.hellbender.utils.bigquery.BigQueryResultAndStatistics;
-import org.broadinstitute.hellbender.utils.bigquery.TableReference;
+import org.broadinstitute.hellbender.utils.gvs.bigquery.BigQueryUtils;
+import org.broadinstitute.hellbender.utils.gvs.bigquery.BigQueryResultAndStatistics;
+import org.broadinstitute.hellbender.utils.gvs.bigquery.TableReference;
 
 public class SampleList {
     static final Logger logger = LogManager.getLogger(SampleList.class);

diff --git a/src/main/java/org/broadinstitute/hellbender/tools/gvs/extract/ExtractCohortEngine.java b/src/main/java/org/broadinstitute/hellbender/tools/gvs/extract/ExtractCohortEngine.java
@@ -18,8 +18,8 @@
 import org.broadinstitute.hellbender.tools.walkers.ReferenceConfidenceVariantContextMerger;
 import org.broadinstitute.hellbender.tools.walkers.annotator.VariantAnnotatorEngine;
 import org.broadinstitute.hellbender.utils.SimpleInterval;
-import org.broadinstitute.hellbender.utils.bigquery.StorageAPIAvroReader;
-import org.broadinstitute.hellbender.utils.bigquery.TableReference;
+import org.broadinstitute.hellbender.utils.gvs.bigquery.StorageAPIAvroReader;
+import org.broadinstitute.hellbender.utils.gvs.bigquery.TableReference;
 import org.broadinstitute.hellbender.utils.gvs.bigquery.AvroFileReader;
 import org.broadinstitute.hellbender.utils.gvs.localsort.AvroSortingCollectionCodec;
 import org.broadinstitute.hellbender.utils.gvs.localsort.SortingCollection;

diff --git a/src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/AvroFileReader.java b/src/main/java/org/broadinstitute/hellbender/utils/gvs/bigquery/AvroFileReader.java
@@ -7,7 +7,6 @@
 import org.apache.avro.io.DatumReader;
 import org.broadinstitute.hellbender.engine.GATKPath;
 import org.broadinstitute.hellbender.exceptions.GATKException;
-import org.broadinstitute.hellbender.utils.bigquery.GATKAvroReader;
 
 import java.io.IOException;
 import java.util.Iterator;