move mill modules into subdirectory

hail-is · Dec 17, 2024 · 51abd7d · 51abd7d
1 parent c61d0a8
commit 51abd7d
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diff --git a/hail/build.mill b/hail/build.mill
@@ -11,6 +11,7 @@ import mill.scalalib.Assembly._
 import mill.scalalib.TestModule.TestNg
 import mill.scalalib.scalafmt.ScalafmtModule
 import mill.util.Jvm
+import os.Path
 
 object Settings {
   val hailMajorMinorVersion = "0.2"
@@ -126,6 +127,8 @@ trait HailScalaModule extends SbtModule with ScalafmtModule with ScalafixModule
 
 object `package` extends RootModule with HailScalaModule { outer =>
 
+  override def millSourcePath: Path = super.millSourcePath / "modules"
+
   object env extends Module {
     def scalaVersion: T[String] = Task.Input {
       val v = T.ctx().env.getOrElse("SCALA_VERSION", "2.12.20")

diff --git a/...ebug/java/is/hail/annotations/Memory.java → ...ebug/java/is/hail/annotations/Memory.java b/...ebug/java/is/hail/annotations/Memory.java → ...ebug/java/is/hail/annotations/Memory.java
diff --git a/hail/src/dist/scripts/Plot_gq20bydp.R → .../modules/src/dist/scripts/Plot_gq20bydp.R b/hail/src/dist/scripts/Plot_gq20bydp.R → .../modules/src/dist/scripts/Plot_gq20bydp.R
diff --git a/.../src/main/c/ApproximateQuantiles_test.cpp → .../src/main/c/ApproximateQuantiles_test.cpp b/.../src/main/c/ApproximateQuantiles_test.cpp → .../src/main/c/ApproximateQuantiles_test.cpp
diff --git a/hail/src/main/c/Decoder.cpp → hail/modules/src/main/c/Decoder.cpp b/hail/src/main/c/Decoder.cpp → hail/modules/src/main/c/Decoder.cpp
diff --git a/hail/src/main/c/Encoder.cpp → hail/modules/src/main/c/Encoder.cpp b/hail/src/main/c/Encoder.cpp → hail/modules/src/main/c/Encoder.cpp
diff --git a/hail/src/main/c/FS.cpp → hail/modules/src/main/c/FS.cpp b/hail/src/main/c/FS.cpp → hail/modules/src/main/c/FS.cpp
diff --git a/hail/src/main/c/Logging.cpp → hail/modules/src/main/c/Logging.cpp b/hail/src/main/c/Logging.cpp → hail/modules/src/main/c/Logging.cpp
diff --git a/hail/src/main/c/Makefile → hail/modules/src/main/c/Makefile b/hail/src/main/c/Makefile → hail/modules/src/main/c/Makefile
diff --git a/hail/src/main/c/NativeBoot.cpp → hail/modules/src/main/c/NativeBoot.cpp b/hail/src/main/c/NativeBoot.cpp → hail/modules/src/main/c/NativeBoot.cpp
diff --git a/hail/src/main/c/NativeCodeSuite.cpp → hail/modules/src/main/c/NativeCodeSuite.cpp b/hail/src/main/c/NativeCodeSuite.cpp → hail/modules/src/main/c/NativeCodeSuite.cpp
diff --git a/hail/src/main/c/NativeLongFunc.cpp → hail/modules/src/main/c/NativeLongFunc.cpp b/hail/src/main/c/NativeLongFunc.cpp → hail/modules/src/main/c/NativeLongFunc.cpp
diff --git a/hail/src/main/c/NativeModule.cpp → hail/modules/src/main/c/NativeModule.cpp b/hail/src/main/c/NativeModule.cpp → hail/modules/src/main/c/NativeModule.cpp
diff --git a/hail/src/main/c/NativePtr.cpp → hail/modules/src/main/c/NativePtr.cpp b/hail/src/main/c/NativePtr.cpp → hail/modules/src/main/c/NativePtr.cpp
diff --git a/hail/src/main/c/NativeStatus.cpp → hail/modules/src/main/c/NativeStatus.cpp b/hail/src/main/c/NativeStatus.cpp → hail/modules/src/main/c/NativeStatus.cpp
diff --git a/hail/src/main/c/ObjectArray.cpp → hail/modules/src/main/c/ObjectArray.cpp b/hail/src/main/c/ObjectArray.cpp → hail/modules/src/main/c/ObjectArray.cpp
diff --git a/hail/src/main/c/PartitionIterators.cpp → ...modules/src/main/c/PartitionIterators.cpp b/hail/src/main/c/PartitionIterators.cpp → ...modules/src/main/c/PartitionIterators.cpp
diff --git a/hail/src/main/c/README.md → hail/modules/src/main/c/README.md b/hail/src/main/c/README.md → hail/modules/src/main/c/README.md
diff --git a/hail/src/main/c/Region.cpp → hail/modules/src/main/c/Region.cpp b/hail/src/main/c/Region.cpp → hail/modules/src/main/c/Region.cpp
diff --git a/hail/src/main/c/Region_test.cpp → hail/modules/src/main/c/Region_test.cpp b/hail/src/main/c/Region_test.cpp → hail/modules/src/main/c/Region_test.cpp
diff --git a/hail/src/main/c/Upcalls.cpp → hail/modules/src/main/c/Upcalls.cpp b/hail/src/main/c/Upcalls.cpp → hail/modules/src/main/c/Upcalls.cpp
diff --git a/hail/src/main/c/cache-tests.cpp → hail/modules/src/main/c/cache-tests.cpp b/hail/src/main/c/cache-tests.cpp → hail/modules/src/main/c/cache-tests.cpp
diff --git a/hail/src/main/c/ibs.cpp → hail/modules/src/main/c/ibs.cpp b/hail/src/main/c/ibs.cpp → hail/modules/src/main/c/ibs.cpp
diff --git a/hail/src/main/c/ibs.h → hail/modules/src/main/c/ibs.h b/hail/src/main/c/ibs.h → hail/modules/src/main/c/ibs.h
diff --git a/hail/src/main/c/test.cpp → hail/modules/src/main/c/test.cpp b/hail/src/main/c/test.cpp → hail/modules/src/main/c/test.cpp
diff --git a/hail/src/main/c/testutils/style.css → hail/modules/src/main/c/testutils/style.css b/hail/src/main/c/testutils/style.css → hail/modules/src/main/c/testutils/style.css
diff --git a/hail/src/main/c/testutils/test-reporter.xslt → ...s/src/main/c/testutils/test-reporter.xslt b/hail/src/main/c/testutils/test-reporter.xslt → ...s/src/main/c/testutils/test-reporter.xslt
diff --git a/hail/src/main/c/testutils/unit-tests.cpp → ...dules/src/main/c/testutils/unit-tests.cpp b/hail/src/main/c/testutils/unit-tests.cpp → ...dules/src/main/c/testutils/unit-tests.cpp
diff --git a/...s/hail/expr/ir/MatrixWriterConstants.java → ...s/hail/expr/ir/MatrixWriterConstants.java b/...s/hail/expr/ir/MatrixWriterConstants.java → ...s/hail/expr/ir/MatrixWriterConstants.java
diff --git a/.../java/is/hail/io/compress/BGzipCodec.java → .../java/is/hail/io/compress/BGzipCodec.java b/.../java/is/hail/io/compress/BGzipCodec.java → .../java/is/hail/io/compress/BGzipCodec.java
diff --git a/...ava/is/hail/io/compress/BGzipCodecGZ.java → ...ava/is/hail/io/compress/BGzipCodecGZ.java b/...ava/is/hail/io/compress/BGzipCodecGZ.java → ...ava/is/hail/io/compress/BGzipCodecGZ.java
diff --git a/...va/is/hail/io/compress/BGzipCodecTbi.java → ...va/is/hail/io/compress/BGzipCodecTbi.java b/...va/is/hail/io/compress/BGzipCodecTbi.java → ...va/is/hail/io/compress/BGzipCodecTbi.java
diff --git a/...a/is/hail/io/compress/BGzipConstants.java → ...a/is/hail/io/compress/BGzipConstants.java b/...a/is/hail/io/compress/BGzipConstants.java → ...a/is/hail/io/compress/BGzipConstants.java
diff --git a/...is/hail/io/compress/BGzipInputStream.java → ...is/hail/io/compress/BGzipInputStream.java b/...is/hail/io/compress/BGzipInputStream.java → ...is/hail/io/compress/BGzipInputStream.java
diff --git a/...s/hail/io/compress/BGzipOutputStream.java → ...s/hail/io/compress/BGzipOutputStream.java b/...s/hail/io/compress/BGzipOutputStream.java → ...s/hail/io/compress/BGzipOutputStream.java
diff --git a/...ail/io/compress/ComposableBGzipCodec.java → ...ail/io/compress/ComposableBGzipCodec.java b/...ail/io/compress/ComposableBGzipCodec.java → ...ail/io/compress/ComposableBGzipCodec.java
diff --git a/...compress/ComposableBGzipOutputStream.java → ...compress/ComposableBGzipOutputStream.java b/...compress/ComposableBGzipOutputStream.java → ...compress/ComposableBGzipOutputStream.java
diff --git a/...c/main/java/is/hail/io/fs/Positioned.java → ...c/main/java/is/hail/io/fs/Positioned.java b/...c/main/java/is/hail/io/fs/Positioned.java → ...c/main/java/is/hail/io/fs/Positioned.java
diff --git a/...src/main/java/is/hail/io/fs/Seekable.java → ...src/main/java/is/hail/io/fs/Seekable.java b/...src/main/java/is/hail/io/fs/Seekable.java → ...src/main/java/is/hail/io/fs/Seekable.java
diff --git a/...es/com.azure.core.http.HttpClientProvider → ...es/com.azure.core.http.HttpClientProvider b/...es/com.azure.core.http.HttpClientProvider → ...es/com.azure.core.http.HttpClientProvider
diff --git a/...v.relaxng_datatype.DatatypeLibraryFactory → ...v.relaxng_datatype.DatatypeLibraryFactory b/...v.relaxng_datatype.DatatypeLibraryFactory → ...v.relaxng_datatype.DatatypeLibraryFactory
diff --git a/...rvices/com.ctc.wstx.stax.WstxInputFactory → ...rvices/com.ctc.wstx.stax.WstxInputFactory b/...rvices/com.ctc.wstx.stax.WstxInputFactory → ...rvices/com.ctc.wstx.stax.WstxInputFactory
diff --git a/...es/com.fasterxml.jackson.core.JsonFactory → ...es/com.fasterxml.jackson.core.JsonFactory b/...es/com.fasterxml.jackson.core.JsonFactory → ...es/com.fasterxml.jackson.core.JsonFactory
diff --git a/...es/com.fasterxml.jackson.core.ObjectCodec → ...es/com.fasterxml.jackson.core.ObjectCodec b/...es/com.fasterxml.jackson.core.ObjectCodec → ...es/com.fasterxml.jackson.core.ObjectCodec
diff --git a/...ces/com.fasterxml.jackson.databind.Module → ...ces/com.fasterxml.jackson.databind.Module b/...ces/com.fasterxml.jackson.databind.Module → ...ces/com.fasterxml.jackson.databind.Module
diff --git a/...ces/io.micrometer.context.ContextAccessor → ...ces/io.micrometer.context.ContextAccessor b/...ces/io.micrometer.context.ContextAccessor → ...ces/io.micrometer.context.ContextAccessor
diff --git a/...re.com.azure.core.http.HttpClientProvider → ...re.com.azure.core.http.HttpClientProvider b/...re.com.azure.core.http.HttpClientProvider → ...re.com.azure.core.http.HttpClientProvider
diff --git a/...services/javax.xml.stream.XMLEventFactory → ...services/javax.xml.stream.XMLEventFactory b/...services/javax.xml.stream.XMLEventFactory → ...services/javax.xml.stream.XMLEventFactory
diff --git a/...services/javax.xml.stream.XMLInputFactory → ...services/javax.xml.stream.XMLInputFactory b/...services/javax.xml.stream.XMLInputFactory → ...services/javax.xml.stream.XMLInputFactory
diff --git a/...ervices/javax.xml.stream.XMLOutputFactory → ...ervices/javax.xml.stream.XMLOutputFactory b/...ervices/javax.xml.stream.XMLOutputFactory → ...ervices/javax.xml.stream.XMLOutputFactory
diff --git a/...ax2.validation.XMLValidationSchemaFactory → ...ax2.validation.XMLValidationSchemaFactory b/...ax2.validation.XMLValidationSchemaFactory → ...ax2.validation.XMLValidationSchemaFactory
diff --git a/...validation.XMLValidationSchemaFactory.dtd → ...validation.XMLValidationSchemaFactory.dtd b/...validation.XMLValidationSchemaFactory.dtd → ...validation.XMLValidationSchemaFactory.dtd
diff --git a/...dation.XMLValidationSchemaFactory.relaxng → ...dation.XMLValidationSchemaFactory.relaxng b/...dation.XMLValidationSchemaFactory.relaxng → ...dation.XMLValidationSchemaFactory.relaxng
diff --git a/...validation.XMLValidationSchemaFactory.w3c → ...validation.XMLValidationSchemaFactory.w3c b/...validation.XMLValidationSchemaFactory.w3c → ...validation.XMLValidationSchemaFactory.w3c
diff --git a/...ckhound.integration.BlockHoundIntegration → ...ckhound.integration.BlockHoundIntegration b/...ckhound.integration.BlockHoundIntegration → ...ckhound.integration.BlockHoundIntegration
diff --git a/hail/src/main/resources/include/README → ...modules/src/main/resources/include/README b/hail/src/main/resources/include/README → ...modules/src/main/resources/include/README
diff --git a/...urces/include/hail/ApproximateQuantiles.h → ...urces/include/hail/ApproximateQuantiles.h b/...urces/include/hail/ApproximateQuantiles.h → ...urces/include/hail/ApproximateQuantiles.h
diff --git a/...ain/resources/include/hail/ArrayBuilder.h → ...ain/resources/include/hail/ArrayBuilder.h b/...ain/resources/include/hail/ArrayBuilder.h → ...ain/resources/include/hail/ArrayBuilder.h
diff --git a/...main/resources/include/hail/ArraySorter.h → ...main/resources/include/hail/ArraySorter.h b/...main/resources/include/hail/ArraySorter.h → ...main/resources/include/hail/ArraySorter.h
diff --git a/...src/main/resources/include/hail/Decoder.h → ...src/main/resources/include/hail/Decoder.h b/...src/main/resources/include/hail/Decoder.h → ...src/main/resources/include/hail/Decoder.h
diff --git a/...src/main/resources/include/hail/Encoder.h → ...src/main/resources/include/hail/Encoder.h b/...src/main/resources/include/hail/Encoder.h → ...src/main/resources/include/hail/Encoder.h
diff --git a/hail/src/main/resources/include/hail/FS.h → ...ules/src/main/resources/include/hail/FS.h b/hail/src/main/resources/include/hail/FS.h → ...ules/src/main/resources/include/hail/FS.h
diff --git a/...src/main/resources/include/hail/Logging.h → ...src/main/resources/include/hail/Logging.h b/...src/main/resources/include/hail/Logging.h → ...src/main/resources/include/hail/Logging.h
diff --git a/...src/main/resources/include/hail/NDArray.h → ...src/main/resources/include/hail/NDArray.h b/...src/main/resources/include/hail/NDArray.h → ...src/main/resources/include/hail/NDArray.h
diff --git a/...ain/resources/include/hail/NativeMethod.h → ...ain/resources/include/hail/NativeMethod.h b/...ain/resources/include/hail/NativeMethod.h → ...ain/resources/include/hail/NativeMethod.h
diff --git a/...ain/resources/include/hail/NativeModule.h → ...ain/resources/include/hail/NativeModule.h b/...ain/resources/include/hail/NativeModule.h → ...ain/resources/include/hail/NativeModule.h
diff --git a/...c/main/resources/include/hail/NativeObj.h → ...c/main/resources/include/hail/NativeObj.h b/...c/main/resources/include/hail/NativeObj.h → ...c/main/resources/include/hail/NativeObj.h
diff --git a/...c/main/resources/include/hail/NativePtr.h → ...c/main/resources/include/hail/NativePtr.h b/...c/main/resources/include/hail/NativePtr.h → ...c/main/resources/include/hail/NativePtr.h
diff --git a/...ain/resources/include/hail/NativeStatus.h → ...ain/resources/include/hail/NativeStatus.h b/...ain/resources/include/hail/NativeStatus.h → ...ain/resources/include/hail/NativeStatus.h
diff --git a/...main/resources/include/hail/ObjectArray.h → ...main/resources/include/hail/ObjectArray.h b/...main/resources/include/hail/ObjectArray.h → ...main/resources/include/hail/ObjectArray.h
diff --git a/...rc/main/resources/include/hail/Ordering.h → ...rc/main/resources/include/hail/Ordering.h b/...rc/main/resources/include/hail/Ordering.h → ...rc/main/resources/include/hail/Ordering.h
diff --git a/...sources/include/hail/PartitionIterators.h → ...sources/include/hail/PartitionIterators.h b/...sources/include/hail/PartitionIterators.h → ...sources/include/hail/PartitionIterators.h
diff --git a/.../src/main/resources/include/hail/Region.h → .../src/main/resources/include/hail/Region.h b/.../src/main/resources/include/hail/Region.h → .../src/main/resources/include/hail/Region.h
diff --git a/.../main/resources/include/hail/RegionPool.h → .../main/resources/include/hail/RegionPool.h b/.../main/resources/include/hail/RegionPool.h → .../main/resources/include/hail/RegionPool.h
diff --git a/.../main/resources/include/hail/SparkUtils.h → .../main/resources/include/hail/SparkUtils.h b/.../main/resources/include/hail/SparkUtils.h → .../main/resources/include/hail/SparkUtils.h
diff --git a/...src/main/resources/include/hail/Upcalls.h → ...src/main/resources/include/hail/Upcalls.h b/...src/main/resources/include/hail/Upcalls.h → ...src/main/resources/include/hail/Upcalls.h
diff --git a/hail/src/main/resources/include/hail/Utils.h → ...s/src/main/resources/include/hail/Utils.h b/hail/src/main/resources/include/hail/Utils.h → ...s/src/main/resources/include/hail/Utils.h
diff --git a/hail/src/main/resources/include/hail/hail.h → ...es/src/main/resources/include/hail/hail.h b/hail/src/main/resources/include/hail/hail.h → ...es/src/main/resources/include/hail/hail.h
diff --git a/hail/src/main/resources/log4j.properties → ...dules/src/main/resources/log4j.properties b/hail/src/main/resources/log4j.properties → ...dules/src/main/resources/log4j.properties
diff --git a/...src/main/resources/reference/canfam3.json → ...src/main/resources/reference/canfam3.json b/...src/main/resources/reference/canfam3.json → ...src/main/resources/reference/canfam3.json
diff --git a/.../src/main/resources/reference/grch37.json → .../src/main/resources/reference/grch37.json b/.../src/main/resources/reference/grch37.json → .../src/main/resources/reference/grch37.json
diff --git a/.../src/main/resources/reference/grch38.json → .../src/main/resources/reference/grch38.json b/.../src/main/resources/reference/grch38.json → .../src/main/resources/reference/grch38.json
diff --git a/.../src/main/resources/reference/grcm38.json → .../src/main/resources/reference/grcm38.json b/.../src/main/resources/reference/grcm38.json → .../src/main/resources/reference/grcm38.json
diff --git a/.../src/main/scala/is/hail/HailContext.scala → .../src/main/scala/is/hail/HailContext.scala b/.../src/main/scala/is/hail/HailContext.scala → .../src/main/scala/is/hail/HailContext.scala
diff --git a/...main/scala/is/hail/HailFeatureFlags.scala → ...main/scala/is/hail/HailFeatureFlags.scala b/...main/scala/is/hail/HailFeatureFlags.scala → ...main/scala/is/hail/HailFeatureFlags.scala
diff --git a/...cala/is/hail/annotations/Annotation.scala → ...cala/is/hail/annotations/Annotation.scala b/...cala/is/hail/annotations/Annotation.scala → ...cala/is/hail/annotations/Annotation.scala
diff --git a/.../is/hail/annotations/BroadcastValue.scala → .../is/hail/annotations/BroadcastValue.scala b/.../is/hail/annotations/BroadcastValue.scala → .../is/hail/annotations/BroadcastValue.scala
diff --git a/...cala/is/hail/annotations/ChunkCache.scala → ...cala/is/hail/annotations/ChunkCache.scala b/...cala/is/hail/annotations/ChunkCache.scala → ...cala/is/hail/annotations/ChunkCache.scala
diff --git a/...s/hail/annotations/ExtendedOrdering.scala → ...s/hail/annotations/ExtendedOrdering.scala b/...s/hail/annotations/ExtendedOrdering.scala → ...s/hail/annotations/ExtendedOrdering.scala
diff --git a/.../hail/annotations/JoinedRegionValue.scala → .../hail/annotations/JoinedRegionValue.scala b/.../hail/annotations/JoinedRegionValue.scala → .../hail/annotations/JoinedRegionValue.scala
diff --git a/.../hail/annotations/OrderedRVIterator.scala → .../hail/annotations/OrderedRVIterator.scala b/.../hail/annotations/OrderedRVIterator.scala → .../hail/annotations/OrderedRVIterator.scala
diff --git a/...in/scala/is/hail/annotations/Region.scala → ...in/scala/is/hail/annotations/Region.scala b/...in/scala/is/hail/annotations/Region.scala → ...in/scala/is/hail/annotations/Region.scala
diff --git a/...la/is/hail/annotations/RegionMemory.scala → ...la/is/hail/annotations/RegionMemory.scala b/...la/is/hail/annotations/RegionMemory.scala → ...la/is/hail/annotations/RegionMemory.scala
diff --git a/...cala/is/hail/annotations/RegionPool.scala → ...cala/is/hail/annotations/RegionPool.scala b/...cala/is/hail/annotations/RegionPool.scala → ...cala/is/hail/annotations/RegionPool.scala
diff --git a/...ala/is/hail/annotations/RegionValue.scala → ...ala/is/hail/annotations/RegionValue.scala b/...ala/is/hail/annotations/RegionValue.scala → ...ala/is/hail/annotations/RegionValue.scala
diff --git a/...hail/annotations/RegionValueBuilder.scala → ...hail/annotations/RegionValueBuilder.scala b/...hail/annotations/RegionValueBuilder.scala → ...hail/annotations/RegionValueBuilder.scala
diff --git a/.../is/hail/annotations/UnsafeOrdering.scala → .../is/hail/annotations/UnsafeOrdering.scala b/.../is/hail/annotations/UnsafeOrdering.scala → .../is/hail/annotations/UnsafeOrdering.scala
diff --git a/...scala/is/hail/annotations/UnsafeRow.scala → ...scala/is/hail/annotations/UnsafeRow.scala b/...scala/is/hail/annotations/UnsafeRow.scala → ...scala/is/hail/annotations/UnsafeRow.scala
diff --git a/...ala/is/hail/annotations/UnsafeUtils.scala → ...ala/is/hail/annotations/UnsafeUtils.scala b/...ala/is/hail/annotations/UnsafeUtils.scala → ...ala/is/hail/annotations/UnsafeUtils.scala
diff --git a/...la/is/hail/annotations/ValueVisitor.scala → ...la/is/hail/annotations/ValueVisitor.scala b/...la/is/hail/annotations/ValueVisitor.scala → ...la/is/hail/annotations/ValueVisitor.scala
diff --git a/...ail/annotations/WritableRegionValue.scala → ...ail/annotations/WritableRegionValue.scala b/...ail/annotations/WritableRegionValue.scala → ...ail/annotations/WritableRegionValue.scala
diff --git a/...n/scala/is/hail/annotations/package.scala → ...n/scala/is/hail/annotations/package.scala b/...n/scala/is/hail/annotations/package.scala → ...n/scala/is/hail/annotations/package.scala
diff --git a/...ain/scala/is/hail/asm4s/AsmFunction.scala → ...ain/scala/is/hail/asm4s/AsmFunction.scala b/...ain/scala/is/hail/asm4s/AsmFunction.scala → ...ain/scala/is/hail/asm4s/AsmFunction.scala
diff --git a/...in/scala/is/hail/asm4s/ClassBuilder.scala → ...in/scala/is/hail/asm4s/ClassBuilder.scala b/...in/scala/is/hail/asm4s/ClassBuilder.scala → ...in/scala/is/hail/asm4s/ClassBuilder.scala
diff --git a/hail/src/main/scala/is/hail/asm4s/Code.scala → ...s/src/main/scala/is/hail/asm4s/Code.scala b/hail/src/main/scala/is/hail/asm4s/Code.scala → ...s/src/main/scala/is/hail/asm4s/Code.scala
diff --git a/...ain/scala/is/hail/asm4s/CodeBuilder.scala → ...ain/scala/is/hail/asm4s/CodeBuilder.scala b/...ain/scala/is/hail/asm4s/CodeBuilder.scala → ...ain/scala/is/hail/asm4s/CodeBuilder.scala
diff --git a/...scala/is/hail/asm4s/GenericTypeInfo.scala → ...scala/is/hail/asm4s/GenericTypeInfo.scala b/...scala/is/hail/asm4s/GenericTypeInfo.scala → ...scala/is/hail/asm4s/GenericTypeInfo.scala
diff --git a/...scala/is/hail/asm4s/HailClassLoader.scala → ...scala/is/hail/asm4s/HailClassLoader.scala b/...scala/is/hail/asm4s/HailClassLoader.scala → ...scala/is/hail/asm4s/HailClassLoader.scala
diff --git a/...rc/main/scala/is/hail/asm4s/package.scala → ...rc/main/scala/is/hail/asm4s/package.scala b/...rc/main/scala/is/hail/asm4s/package.scala → ...rc/main/scala/is/hail/asm4s/package.scala
diff --git a/.../main/scala/is/hail/backend/Backend.scala → .../main/scala/is/hail/backend/Backend.scala b/.../main/scala/is/hail/backend/Backend.scala → .../main/scala/is/hail/backend/Backend.scala
diff --git a/...scala/is/hail/backend/BackendServer.scala → ...scala/is/hail/backend/BackendServer.scala b/...scala/is/hail/backend/BackendServer.scala → ...scala/is/hail/backend/BackendServer.scala
diff --git a/.../scala/is/hail/backend/BackendUtils.scala → .../scala/is/hail/backend/BackendUtils.scala b/.../scala/is/hail/backend/BackendUtils.scala → .../scala/is/hail/backend/BackendUtils.scala
diff --git a/...cala/is/hail/backend/ExecuteContext.scala → ...cala/is/hail/backend/ExecuteContext.scala b/...cala/is/hail/backend/ExecuteContext.scala → ...cala/is/hail/backend/ExecuteContext.scala
diff --git a/...cala/is/hail/backend/ExecutionCache.scala → ...cala/is/hail/backend/ExecutionCache.scala b/...cala/is/hail/backend/ExecutionCache.scala → ...cala/is/hail/backend/ExecutionCache.scala
diff --git a/...la/is/hail/backend/HailStateManager.scala → ...la/is/hail/backend/HailStateManager.scala b/...la/is/hail/backend/HailStateManager.scala → ...la/is/hail/backend/HailStateManager.scala
diff --git a/...ala/is/hail/backend/HailTaskContext.scala → ...ala/is/hail/backend/HailTaskContext.scala b/...ala/is/hail/backend/HailTaskContext.scala → ...ala/is/hail/backend/HailTaskContext.scala
diff --git a/.../is/hail/backend/local/LocalBackend.scala → .../is/hail/backend/local/LocalBackend.scala b/.../is/hail/backend/local/LocalBackend.scala → .../is/hail/backend/local/LocalBackend.scala
diff --git a/.../scala/is/hail/backend/service/Main.scala → .../scala/is/hail/backend/service/Main.scala b/.../scala/is/hail/backend/service/Main.scala → .../scala/is/hail/backend/service/Main.scala
diff --git a/...hail/backend/service/ServiceBackend.scala → ...hail/backend/service/ServiceBackend.scala b/...hail/backend/service/ServiceBackend.scala → ...hail/backend/service/ServiceBackend.scala
diff --git a/...cala/is/hail/backend/service/Worker.scala → ...cala/is/hail/backend/service/Worker.scala b/...cala/is/hail/backend/service/Worker.scala → ...cala/is/hail/backend/service/Worker.scala
diff --git a/.../is/hail/backend/spark/SparkBackend.scala → .../is/hail/backend/spark/SparkBackend.scala b/.../is/hail/backend/spark/SparkBackend.scala → .../is/hail/backend/spark/SparkBackend.scala
diff --git a/...backend/spark/SparkBlockMatrixCache.scala → ...backend/spark/SparkBlockMatrixCache.scala b/...backend/spark/SparkBlockMatrixCache.scala → ...backend/spark/SparkBlockMatrixCache.scala
diff --git a/.../main/scala/is/hail/check/Arbitrary.scala → .../main/scala/is/hail/check/Arbitrary.scala b/.../main/scala/is/hail/check/Arbitrary.scala → .../main/scala/is/hail/check/Arbitrary.scala
diff --git a/hail/src/main/scala/is/hail/check/Gen.scala → ...es/src/main/scala/is/hail/check/Gen.scala b/hail/src/main/scala/is/hail/check/Gen.scala → ...es/src/main/scala/is/hail/check/Gen.scala
diff --git a/hail/src/main/scala/is/hail/check/Prop.scala → ...s/src/main/scala/is/hail/check/Prop.scala b/hail/src/main/scala/is/hail/check/Prop.scala → ...s/src/main/scala/is/hail/check/Prop.scala
diff --git a/...ail/compatibility/LegacyBufferSpecs.scala → ...ail/compatibility/LegacyBufferSpecs.scala b/...ail/compatibility/LegacyBufferSpecs.scala → ...ail/compatibility/LegacyBufferSpecs.scala
diff --git a/...mpatibility/LegacyEncodedTypeParser.scala → ...mpatibility/LegacyEncodedTypeParser.scala b/...mpatibility/LegacyEncodedTypeParser.scala → ...mpatibility/LegacyEncodedTypeParser.scala
diff --git a/...s/hail/compatibility/LegacyRVDSpecs.scala → ...s/hail/compatibility/LegacyRVDSpecs.scala b/...s/hail/compatibility/LegacyRVDSpecs.scala → ...s/hail/compatibility/LegacyRVDSpecs.scala
diff --git a/...ala/is/hail/cxx/RegionValueIterator.scala → ...ala/is/hail/cxx/RegionValueIterator.scala b/...ala/is/hail/cxx/RegionValueIterator.scala → ...ala/is/hail/cxx/RegionValueIterator.scala
diff --git a/.../experimental/ExperimentalFunctions.scala → .../experimental/ExperimentalFunctions.scala b/.../experimental/ExperimentalFunctions.scala → .../experimental/ExperimentalFunctions.scala
diff --git a/.../scala/is/hail/experimental/package.scala → .../scala/is/hail/experimental/package.scala b/.../scala/is/hail/experimental/package.scala → .../scala/is/hail/experimental/package.scala
diff --git a/.../scala/is/hail/expr/AnnotationImpex.scala → .../scala/is/hail/expr/AnnotationImpex.scala b/.../scala/is/hail/expr/AnnotationImpex.scala → .../scala/is/hail/expr/AnnotationImpex.scala
diff --git a/...src/main/scala/is/hail/expr/NatBase.scala → ...src/main/scala/is/hail/expr/NatBase.scala b/...src/main/scala/is/hail/expr/NatBase.scala → ...src/main/scala/is/hail/expr/NatBase.scala
diff --git a/.../src/main/scala/is/hail/expr/Parser.scala → .../src/main/scala/is/hail/expr/Parser.scala b/.../src/main/scala/is/hail/expr/Parser.scala → .../src/main/scala/is/hail/expr/Parser.scala
diff --git a/...rc/main/scala/is/hail/expr/Validate.scala → ...rc/main/scala/is/hail/expr/Validate.scala b/...rc/main/scala/is/hail/expr/Validate.scala → ...rc/main/scala/is/hail/expr/Validate.scala
diff --git a/...ail/expr/ir/AbstractMatrixTableSpec.scala → ...ail/expr/ir/AbstractMatrixTableSpec.scala b/...ail/expr/ir/AbstractMatrixTableSpec.scala → ...ail/expr/ir/AbstractMatrixTableSpec.scala
diff --git a/...a/is/hail/expr/ir/AbstractTableSpec.scala → ...a/is/hail/expr/ir/AbstractTableSpec.scala b/...a/is/hail/expr/ir/AbstractTableSpec.scala → ...a/is/hail/expr/ir/AbstractTableSpec.scala
diff --git a/...rc/main/scala/is/hail/expr/ir/AggOp.scala → ...rc/main/scala/is/hail/expr/ir/AggOp.scala b/...rc/main/scala/is/hail/expr/ir/AggOp.scala → ...rc/main/scala/is/hail/expr/ir/AggOp.scala
diff --git a/...n/scala/is/hail/expr/ir/ArraySorter.scala → ...n/scala/is/hail/expr/ir/ArraySorter.scala b/...n/scala/is/hail/expr/ir/ArraySorter.scala → ...n/scala/is/hail/expr/ir/ArraySorter.scala
diff --git a/...c/main/scala/is/hail/expr/ir/BaseIR.scala → ...c/main/scala/is/hail/expr/ir/BaseIR.scala b/...c/main/scala/is/hail/expr/ir/BaseIR.scala → ...c/main/scala/is/hail/expr/ir/BaseIR.scala
diff --git a/...main/scala/is/hail/expr/ir/BinaryOp.scala → ...main/scala/is/hail/expr/ir/BinaryOp.scala b/...main/scala/is/hail/expr/ir/BinaryOp.scala → ...main/scala/is/hail/expr/ir/BinaryOp.scala
diff --git a/.../scala/is/hail/expr/ir/BinarySearch.scala → .../scala/is/hail/expr/ir/BinarySearch.scala b/.../scala/is/hail/expr/ir/BinarySearch.scala → .../scala/is/hail/expr/ir/BinarySearch.scala
diff --git a/...rc/main/scala/is/hail/expr/ir/Binds.scala → ...rc/main/scala/is/hail/expr/ir/Binds.scala b/...rc/main/scala/is/hail/expr/ir/Binds.scala → ...rc/main/scala/is/hail/expr/ir/Binds.scala
diff --git a/...scala/is/hail/expr/ir/BlockMatrixIR.scala → ...scala/is/hail/expr/ir/BlockMatrixIR.scala b/...scala/is/hail/expr/ir/BlockMatrixIR.scala → ...scala/is/hail/expr/ir/BlockMatrixIR.scala
diff --git a/...a/is/hail/expr/ir/BlockMatrixWriter.scala → ...a/is/hail/expr/ir/BlockMatrixWriter.scala b/...a/is/hail/expr/ir/BlockMatrixWriter.scala → ...a/is/hail/expr/ir/BlockMatrixWriter.scala
diff --git a/...rc/main/scala/is/hail/expr/ir/Casts.scala → ...rc/main/scala/is/hail/expr/ir/Casts.scala b/...rc/main/scala/is/hail/expr/ir/Casts.scala → ...rc/main/scala/is/hail/expr/ir/Casts.scala
diff --git a/...main/scala/is/hail/expr/ir/Children.scala → ...main/scala/is/hail/expr/ir/Children.scala b/...main/scala/is/hail/expr/ir/Children.scala → ...main/scala/is/hail/expr/ir/Children.scala
diff --git a/.../scala/is/hail/expr/ir/ComparisonOp.scala → .../scala/is/hail/expr/ir/ComparisonOp.scala b/.../scala/is/hail/expr/ir/ComparisonOp.scala → .../scala/is/hail/expr/ir/ComparisonOp.scala
diff --git a/...in/scala/is/hail/expr/ir/Compilable.scala → ...in/scala/is/hail/expr/ir/Compilable.scala b/...in/scala/is/hail/expr/ir/Compilable.scala → ...in/scala/is/hail/expr/ir/Compilable.scala
diff --git a/.../main/scala/is/hail/expr/ir/Compile.scala → .../main/scala/is/hail/expr/ir/Compile.scala b/.../main/scala/is/hail/expr/ir/Compile.scala → .../main/scala/is/hail/expr/ir/Compile.scala
diff --git a/.../is/hail/expr/ir/CompileAndEvaluate.scala → .../is/hail/expr/ir/CompileAndEvaluate.scala b/.../is/hail/expr/ir/CompileAndEvaluate.scala → .../is/hail/expr/ir/CompileAndEvaluate.scala
diff --git a/.../is/hail/expr/ir/ComputeUsesAndDefs.scala → .../is/hail/expr/ir/ComputeUsesAndDefs.scala b/.../is/hail/expr/ir/ComputeUsesAndDefs.scala → .../is/hail/expr/ir/ComputeUsesAndDefs.scala
diff --git a/...src/main/scala/is/hail/expr/ir/Copy.scala → ...src/main/scala/is/hail/expr/ir/Copy.scala b/...src/main/scala/is/hail/expr/ir/Copy.scala → ...src/main/scala/is/hail/expr/ir/Copy.scala
diff --git a/...is/hail/expr/ir/DeprecatedIRBuilder.scala → ...is/hail/expr/ir/DeprecatedIRBuilder.scala b/...is/hail/expr/ir/DeprecatedIRBuilder.scala → ...is/hail/expr/ir/DeprecatedIRBuilder.scala
diff --git a/...ala/is/hail/expr/ir/DistinctlyKeyed.scala → ...ala/is/hail/expr/ir/DistinctlyKeyed.scala b/...ala/is/hail/expr/ir/DistinctlyKeyed.scala → ...ala/is/hail/expr/ir/DistinctlyKeyed.scala
diff --git a/...src/main/scala/is/hail/expr/ir/Emit.scala → ...src/main/scala/is/hail/expr/ir/Emit.scala b/...src/main/scala/is/hail/expr/ir/Emit.scala → ...src/main/scala/is/hail/expr/ir/Emit.scala
diff --git a/...la/is/hail/expr/ir/EmitClassBuilder.scala → ...la/is/hail/expr/ir/EmitClassBuilder.scala b/...la/is/hail/expr/ir/EmitClassBuilder.scala → ...la/is/hail/expr/ir/EmitClassBuilder.scala
diff --git a/...ala/is/hail/expr/ir/EmitCodeBuilder.scala → ...ala/is/hail/expr/ir/EmitCodeBuilder.scala b/...ala/is/hail/expr/ir/EmitCodeBuilder.scala → ...ala/is/hail/expr/ir/EmitCodeBuilder.scala
diff --git a/...s/hail/expr/ir/EmitStreamDistribute.scala → ...s/hail/expr/ir/EmitStreamDistribute.scala b/...s/hail/expr/ir/EmitStreamDistribute.scala → ...s/hail/expr/ir/EmitStreamDistribute.scala
diff --git a/.../src/main/scala/is/hail/expr/ir/Env.scala → .../src/main/scala/is/hail/expr/ir/Env.scala b/.../src/main/scala/is/hail/expr/ir/Env.scala → .../src/main/scala/is/hail/expr/ir/Env.scala
diff --git a/...c/main/scala/is/hail/expr/ir/Exists.scala → ...c/main/scala/is/hail/expr/ir/Exists.scala b/...c/main/scala/is/hail/expr/ir/Exists.scala → ...c/main/scala/is/hail/expr/ir/Exists.scala
diff --git a/...hail/expr/ir/ExtractIntervalFilters.scala → ...hail/expr/ir/ExtractIntervalFilters.scala b/...hail/expr/ir/ExtractIntervalFilters.scala → ...hail/expr/ir/ExtractIntervalFilters.scala
diff --git a/...scala/is/hail/expr/ir/FoldConstants.scala → ...scala/is/hail/expr/ir/FoldConstants.scala b/...scala/is/hail/expr/ir/FoldConstants.scala → ...scala/is/hail/expr/ir/FoldConstants.scala
diff --git a/...n/scala/is/hail/expr/ir/ForwardLets.scala → ...n/scala/is/hail/expr/ir/ForwardLets.scala b/...n/scala/is/hail/expr/ir/ForwardLets.scala → ...n/scala/is/hail/expr/ir/ForwardLets.scala
diff --git a/.../hail/expr/ir/ForwardRelationalLets.scala → .../hail/expr/ir/ForwardRelationalLets.scala b/.../hail/expr/ir/ForwardRelationalLets.scala → .../hail/expr/ir/ForwardRelationalLets.scala
diff --git a/...scala/is/hail/expr/ir/FreeVariables.scala → ...scala/is/hail/expr/ir/FreeVariables.scala b/...scala/is/hail/expr/ir/FreeVariables.scala → ...scala/is/hail/expr/ir/FreeVariables.scala
diff --git a/.../scala/is/hail/expr/ir/GenericLines.scala → .../scala/is/hail/expr/ir/GenericLines.scala b/.../scala/is/hail/expr/ir/GenericLines.scala → .../scala/is/hail/expr/ir/GenericLines.scala
diff --git a/...a/is/hail/expr/ir/GenericTableValue.scala → ...a/is/hail/expr/ir/GenericTableValue.scala b/...a/is/hail/expr/ir/GenericTableValue.scala → ...a/is/hail/expr/ir/GenericTableValue.scala
diff --git a/hail/src/main/scala/is/hail/expr/ir/IR.scala → ...s/src/main/scala/is/hail/expr/ir/IR.scala b/hail/src/main/scala/is/hail/expr/ir/IR.scala → ...s/src/main/scala/is/hail/expr/ir/IR.scala
diff --git a/...ain/scala/is/hail/expr/ir/IRBuilder.scala → ...ain/scala/is/hail/expr/ir/IRBuilder.scala b/...ain/scala/is/hail/expr/ir/IRBuilder.scala → ...ain/scala/is/hail/expr/ir/IRBuilder.scala
diff --git a/...c/main/scala/is/hail/expr/ir/IRSize.scala → ...c/main/scala/is/hail/expr/ir/IRSize.scala b/...c/main/scala/is/hail/expr/ir/IRSize.scala → ...c/main/scala/is/hail/expr/ir/IRSize.scala
diff --git a/...n/scala/is/hail/expr/ir/IRTraversal.scala → ...n/scala/is/hail/expr/ir/IRTraversal.scala b/...n/scala/is/hail/expr/ir/IRTraversal.scala → ...n/scala/is/hail/expr/ir/IRTraversal.scala
diff --git a/...cala/is/hail/expr/ir/InTailPosition.scala → ...cala/is/hail/expr/ir/InTailPosition.scala b/...cala/is/hail/expr/ir/InTailPosition.scala → ...cala/is/hail/expr/ir/InTailPosition.scala
diff --git a/...in/scala/is/hail/expr/ir/InferPType.scala → ...in/scala/is/hail/expr/ir/InferPType.scala b/...in/scala/is/hail/expr/ir/InferPType.scala → ...in/scala/is/hail/expr/ir/InferPType.scala
diff --git a/...ain/scala/is/hail/expr/ir/InferType.scala → ...ain/scala/is/hail/expr/ir/InferType.scala b/...ain/scala/is/hail/expr/ir/InferType.scala → ...ain/scala/is/hail/expr/ir/InferType.scala
diff --git a/...ain/scala/is/hail/expr/ir/Interpret.scala → ...ain/scala/is/hail/expr/ir/Interpret.scala b/...ain/scala/is/hail/expr/ir/Interpret.scala → ...ain/scala/is/hail/expr/ir/Interpret.scala
diff --git a/...scala/is/hail/expr/ir/Interpretable.scala → ...scala/is/hail/expr/ir/Interpretable.scala b/...scala/is/hail/expr/ir/Interpretable.scala → ...scala/is/hail/expr/ir/Interpretable.scala
diff --git a/...in/scala/is/hail/expr/ir/IsConstant.scala → ...in/scala/is/hail/expr/ir/IsConstant.scala b/...in/scala/is/hail/expr/ir/IsConstant.scala → ...in/scala/is/hail/expr/ir/IsConstant.scala
diff --git a/...c/main/scala/is/hail/expr/ir/IsPure.scala → ...c/main/scala/is/hail/expr/ir/IsPure.scala b/...c/main/scala/is/hail/expr/ir/IsPure.scala → ...c/main/scala/is/hail/expr/ir/IsPure.scala
diff --git a/...s/hail/expr/ir/LiftRelationalValues.scala → ...s/hail/expr/ir/LiftRelationalValues.scala b/...s/hail/expr/ir/LiftRelationalValues.scala → ...s/hail/expr/ir/LiftRelationalValues.scala
diff --git a/...scala/is/hail/expr/ir/LowerMatrixIR.scala → ...scala/is/hail/expr/ir/LowerMatrixIR.scala b/...scala/is/hail/expr/ir/LowerMatrixIR.scala → ...scala/is/hail/expr/ir/LowerMatrixIR.scala
diff --git a/...pr/ir/LowerOrInterpretNonCompilable.scala → ...pr/ir/LowerOrInterpretNonCompilable.scala b/...pr/ir/LowerOrInterpretNonCompilable.scala → ...pr/ir/LowerOrInterpretNonCompilable.scala
diff --git a/...la/is/hail/expr/ir/LoweringAnalyses.scala → ...la/is/hail/expr/ir/LoweringAnalyses.scala b/...la/is/hail/expr/ir/LoweringAnalyses.scala → ...la/is/hail/expr/ir/LoweringAnalyses.scala
diff --git a/...rc/main/scala/is/hail/expr/ir/MapIR.scala → ...rc/main/scala/is/hail/expr/ir/MapIR.scala b/...rc/main/scala/is/hail/expr/ir/MapIR.scala → ...rc/main/scala/is/hail/expr/ir/MapIR.scala
diff --git a/...main/scala/is/hail/expr/ir/MatrixIR.scala → ...main/scala/is/hail/expr/ir/MatrixIR.scala b/...main/scala/is/hail/expr/ir/MatrixIR.scala → ...main/scala/is/hail/expr/ir/MatrixIR.scala
diff --git a/...n/scala/is/hail/expr/ir/MatrixValue.scala → ...n/scala/is/hail/expr/ir/MatrixValue.scala b/...n/scala/is/hail/expr/ir/MatrixValue.scala → ...n/scala/is/hail/expr/ir/MatrixValue.scala
diff --git a/.../scala/is/hail/expr/ir/MatrixWriter.scala → .../scala/is/hail/expr/ir/MatrixWriter.scala b/.../scala/is/hail/expr/ir/MatrixWriter.scala → .../scala/is/hail/expr/ir/MatrixWriter.scala
diff --git a/...main/scala/is/hail/expr/ir/Mentions.scala → ...main/scala/is/hail/expr/ir/Mentions.scala b/...main/scala/is/hail/expr/ir/Mentions.scala → ...main/scala/is/hail/expr/ir/Mentions.scala
diff --git a/...is/hail/expr/ir/NativeReaderOptions.scala → ...is/hail/expr/ir/NativeReaderOptions.scala b/...is/hail/expr/ir/NativeReaderOptions.scala → ...is/hail/expr/ir/NativeReaderOptions.scala
diff --git a/.../scala/is/hail/expr/ir/NestingDepth.scala → .../scala/is/hail/expr/ir/NestingDepth.scala b/.../scala/is/hail/expr/ir/NestingDepth.scala → .../scala/is/hail/expr/ir/NestingDepth.scala
diff --git a/...cala/is/hail/expr/ir/NormalizeNames.scala → ...cala/is/hail/expr/ir/NormalizeNames.scala b/...cala/is/hail/expr/ir/NormalizeNames.scala → ...cala/is/hail/expr/ir/NormalizeNames.scala
diff --git a/...a/is/hail/expr/ir/NumericPrimitives.scala → ...a/is/hail/expr/ir/NumericPrimitives.scala b/...a/is/hail/expr/ir/NumericPrimitives.scala → ...a/is/hail/expr/ir/NumericPrimitives.scala
diff --git a/...main/scala/is/hail/expr/ir/Optimize.scala → ...main/scala/is/hail/expr/ir/Optimize.scala b/...main/scala/is/hail/expr/ir/Optimize.scala → ...main/scala/is/hail/expr/ir/Optimize.scala
diff --git a/...rc/main/scala/is/hail/expr/ir/Param.scala → ...rc/main/scala/is/hail/expr/ir/Param.scala b/...rc/main/scala/is/hail/expr/ir/Param.scala → ...rc/main/scala/is/hail/expr/ir/Param.scala
diff --git a/...c/main/scala/is/hail/expr/ir/Parser.scala → ...c/main/scala/is/hail/expr/ir/Parser.scala b/...c/main/scala/is/hail/expr/ir/Parser.scala → ...c/main/scala/is/hail/expr/ir/Parser.scala
diff --git a/...c/main/scala/is/hail/expr/ir/Pretty.scala → ...c/main/scala/is/hail/expr/ir/Pretty.scala b/...c/main/scala/is/hail/expr/ir/Pretty.scala → ...c/main/scala/is/hail/expr/ir/Pretty.scala
diff --git a/...imitiveTypeToIRIntermediateClassTag.scala → ...imitiveTypeToIRIntermediateClassTag.scala b/...imitiveTypeToIRIntermediateClassTag.scala → ...imitiveTypeToIRIntermediateClassTag.scala
diff --git a/...ala/is/hail/expr/ir/PruneDeadFields.scala → ...ala/is/hail/expr/ir/PruneDeadFields.scala b/...ala/is/hail/expr/ir/PruneDeadFields.scala → ...ala/is/hail/expr/ir/PruneDeadFields.scala
diff --git a/...c/main/scala/is/hail/expr/ir/Random.scala → ...c/main/scala/is/hail/expr/ir/Random.scala b/...c/main/scala/is/hail/expr/ir/Random.scala → ...c/main/scala/is/hail/expr/ir/Random.scala
diff --git a/...n/scala/is/hail/expr/ir/RefEquality.scala → ...n/scala/is/hail/expr/ir/RefEquality.scala b/...n/scala/is/hail/expr/ir/RefEquality.scala → ...n/scala/is/hail/expr/ir/RefEquality.scala
diff --git a/.../scala/is/hail/expr/ir/Requiredness.scala → .../scala/is/hail/expr/ir/Requiredness.scala b/.../scala/is/hail/expr/ir/Requiredness.scala → .../scala/is/hail/expr/ir/Requiredness.scala
diff --git a/...ala/is/hail/expr/ir/RewriteBottomUp.scala → ...ala/is/hail/expr/ir/RewriteBottomUp.scala b/...ala/is/hail/expr/ir/RewriteBottomUp.scala → ...ala/is/hail/expr/ir/RewriteBottomUp.scala
diff --git a/...cala/is/hail/expr/ir/RewriteTopDown.scala → ...cala/is/hail/expr/ir/RewriteTopDown.scala b/...cala/is/hail/expr/ir/RewriteTopDown.scala → ...cala/is/hail/expr/ir/RewriteTopDown.scala
diff --git a/...rc/main/scala/is/hail/expr/ir/Scope.scala → ...rc/main/scala/is/hail/expr/ir/Scope.scala b/...rc/main/scala/is/hail/expr/ir/Scope.scala → ...rc/main/scala/is/hail/expr/ir/Scope.scala
diff --git a/...main/scala/is/hail/expr/ir/Simplify.scala → ...main/scala/is/hail/expr/ir/Simplify.scala b/...main/scala/is/hail/expr/ir/Simplify.scala → ...main/scala/is/hail/expr/ir/Simplify.scala
diff --git a/...il/expr/ir/SpecializedArrayBuilders.scala → ...il/expr/ir/SpecializedArrayBuilders.scala b/...il/expr/ir/SpecializedArrayBuilders.scala → ...il/expr/ir/SpecializedArrayBuilders.scala
diff --git a/...a/is/hail/expr/ir/StringTableReader.scala → ...a/is/hail/expr/ir/StringTableReader.scala b/...a/is/hail/expr/ir/StringTableReader.scala → ...a/is/hail/expr/ir/StringTableReader.scala
diff --git a/...rc/main/scala/is/hail/expr/ir/Subst.scala → ...rc/main/scala/is/hail/expr/ir/Subst.scala b/...rc/main/scala/is/hail/expr/ir/Subst.scala → ...rc/main/scala/is/hail/expr/ir/Subst.scala
diff --git a/.../src/main/scala/is/hail/expr/ir/Sym.scala → .../src/main/scala/is/hail/expr/ir/Sym.scala b/.../src/main/scala/is/hail/expr/ir/Sym.scala → .../src/main/scala/is/hail/expr/ir/Sym.scala
diff --git a/.../main/scala/is/hail/expr/ir/TableIR.scala → .../main/scala/is/hail/expr/ir/TableIR.scala b/.../main/scala/is/hail/expr/ir/TableIR.scala → .../main/scala/is/hail/expr/ir/TableIR.scala
diff --git a/...in/scala/is/hail/expr/ir/TableValue.scala → ...in/scala/is/hail/expr/ir/TableValue.scala b/...in/scala/is/hail/expr/ir/TableValue.scala → ...in/scala/is/hail/expr/ir/TableValue.scala
diff --git a/...n/scala/is/hail/expr/ir/TableWriter.scala → ...n/scala/is/hail/expr/ir/TableWriter.scala b/...n/scala/is/hail/expr/ir/TableWriter.scala → ...n/scala/is/hail/expr/ir/TableWriter.scala
diff --git a/...ain/scala/is/hail/expr/ir/TypeCheck.scala → ...ain/scala/is/hail/expr/ir/TypeCheck.scala b/...ain/scala/is/hail/expr/ir/TypeCheck.scala → ...ain/scala/is/hail/expr/ir/TypeCheck.scala
diff --git a/.../main/scala/is/hail/expr/ir/UnaryOp.scala → .../main/scala/is/hail/expr/ir/UnaryOp.scala b/.../main/scala/is/hail/expr/ir/UnaryOp.scala → .../main/scala/is/hail/expr/ir/UnaryOp.scala
diff --git a/...n/scala/is/hail/expr/ir/ValueReader.scala → ...n/scala/is/hail/expr/ir/ValueReader.scala b/...n/scala/is/hail/expr/ir/ValueReader.scala → ...n/scala/is/hail/expr/ir/ValueReader.scala
diff --git a/...n/scala/is/hail/expr/ir/ValueWriter.scala → ...n/scala/is/hail/expr/ir/ValueWriter.scala b/...n/scala/is/hail/expr/ir/ValueWriter.scala → ...n/scala/is/hail/expr/ir/ValueWriter.scala
diff --git a/...cala/is/hail/expr/ir/add-ir-checklist.txt → ...cala/is/hail/expr/ir/add-ir-checklist.txt b/...cala/is/hail/expr/ir/add-ir-checklist.txt → ...cala/is/hail/expr/ir/add-ir-checklist.txt
diff --git a/...is/hail/expr/ir/agg/AggregatorState.scala → ...is/hail/expr/ir/agg/AggregatorState.scala b/...is/hail/expr/ir/agg/AggregatorState.scala → ...is/hail/expr/ir/agg/AggregatorState.scala
diff --git a/...is/hail/expr/ir/agg/AppendOnlyBTree.scala → ...is/hail/expr/ir/agg/AppendOnlyBTree.scala b/...is/hail/expr/ir/agg/AppendOnlyBTree.scala → ...is/hail/expr/ir/agg/AppendOnlyBTree.scala
diff --git a/...ail/expr/ir/agg/ApproxCDFAggregator.scala → ...ail/expr/ir/agg/ApproxCDFAggregator.scala b/...ail/expr/ir/agg/ApproxCDFAggregator.scala → ...ail/expr/ir/agg/ApproxCDFAggregator.scala
diff --git a/...l/expr/ir/agg/ApproxCDFStateManager.scala → ...l/expr/ir/agg/ApproxCDFStateManager.scala b/...l/expr/ir/agg/ApproxCDFStateManager.scala → ...l/expr/ir/agg/ApproxCDFStateManager.scala
diff --git a/...g/ArrayElementLengthCheckAggregator.scala → ...g/ArrayElementLengthCheckAggregator.scala b/...g/ArrayElementLengthCheckAggregator.scala → ...g/ArrayElementLengthCheckAggregator.scala
diff --git a/...ail/expr/ir/agg/CallStatsAggregator.scala → ...ail/expr/ir/agg/CallStatsAggregator.scala b/...ail/expr/ir/agg/CallStatsAggregator.scala → ...ail/expr/ir/agg/CallStatsAggregator.scala
diff --git a/.../hail/expr/ir/agg/CollectAggregator.scala → .../hail/expr/ir/agg/CollectAggregator.scala b/.../hail/expr/ir/agg/CollectAggregator.scala → .../hail/expr/ir/agg/CollectAggregator.scala
diff --git a/.../expr/ir/agg/CollectAsSetAggregator.scala → .../expr/ir/agg/CollectAsSetAggregator.scala b/.../expr/ir/agg/CollectAsSetAggregator.scala → .../expr/ir/agg/CollectAsSetAggregator.scala
diff --git a/...is/hail/expr/ir/agg/CountAggregator.scala → ...is/hail/expr/ir/agg/CountAggregator.scala b/...is/hail/expr/ir/agg/CountAggregator.scala → ...is/hail/expr/ir/agg/CountAggregator.scala
diff --git a/.../hail/expr/ir/agg/DensifyAggregator.scala → .../hail/expr/ir/agg/DensifyAggregator.scala b/.../hail/expr/ir/agg/DensifyAggregator.scala → .../hail/expr/ir/agg/DensifyAggregator.scala
diff --git a/...il/expr/ir/agg/DownsampleAggregator.scala → ...il/expr/ir/agg/DownsampleAggregator.scala b/...il/expr/ir/agg/DownsampleAggregator.scala → ...il/expr/ir/agg/DownsampleAggregator.scala
diff --git a/...n/scala/is/hail/expr/ir/agg/Extract.scala → ...n/scala/is/hail/expr/ir/agg/Extract.scala b/...n/scala/is/hail/expr/ir/agg/Extract.scala → ...n/scala/is/hail/expr/ir/agg/Extract.scala
diff --git a/.../is/hail/expr/ir/agg/FoldAggregator.scala → .../is/hail/expr/ir/agg/FoldAggregator.scala b/.../is/hail/expr/ir/agg/FoldAggregator.scala → .../is/hail/expr/ir/agg/FoldAggregator.scala
diff --git a/.../hail/expr/ir/agg/GroupedAggregator.scala → .../hail/expr/ir/agg/GroupedAggregator.scala b/.../hail/expr/ir/agg/GroupedAggregator.scala → .../hail/expr/ir/agg/GroupedAggregator.scala
diff --git a/...il/expr/ir/agg/ImputeTypeAggregator.scala → ...il/expr/ir/agg/ImputeTypeAggregator.scala b/...il/expr/ir/agg/ImputeTypeAggregator.scala → ...il/expr/ir/agg/ImputeTypeAggregator.scala
diff --git a/...r/ir/agg/LinearRegressionAggregator.scala → ...r/ir/agg/LinearRegressionAggregator.scala b/...r/ir/agg/LinearRegressionAggregator.scala → ...r/ir/agg/LinearRegressionAggregator.scala
diff --git a/...s/hail/expr/ir/agg/MonoidAggregator.scala → ...s/hail/expr/ir/agg/MonoidAggregator.scala b/...s/hail/expr/ir/agg/MonoidAggregator.scala → ...s/hail/expr/ir/agg/MonoidAggregator.scala
diff --git a/...ir/agg/NDArrayMultiplyAddAggregator.scala → ...ir/agg/NDArrayMultiplyAddAggregator.scala b/...ir/agg/NDArrayMultiplyAddAggregator.scala → ...ir/agg/NDArrayMultiplyAddAggregator.scala
diff --git a/...il/expr/ir/agg/NDArraySumAggregator.scala → ...il/expr/ir/agg/NDArraySumAggregator.scala b/...il/expr/ir/agg/NDArraySumAggregator.scala → ...il/expr/ir/agg/NDArraySumAggregator.scala
diff --git a/...l/expr/ir/agg/PrevNonNullAggregator.scala → ...l/expr/ir/agg/PrevNonNullAggregator.scala b/...l/expr/ir/agg/PrevNonNullAggregator.scala → ...l/expr/ir/agg/PrevNonNullAggregator.scala
diff --git a/...pr/ir/agg/ReservoirSampleAggregator.scala → ...pr/ir/agg/ReservoirSampleAggregator.scala b/...pr/ir/agg/ReservoirSampleAggregator.scala → ...pr/ir/agg/ReservoirSampleAggregator.scala
diff --git a/...s/hail/expr/ir/agg/StagedAggregator.scala → ...s/hail/expr/ir/agg/StagedAggregator.scala b/...s/hail/expr/ir/agg/StagedAggregator.scala → ...s/hail/expr/ir/agg/StagedAggregator.scala
diff --git a/...hail/expr/ir/agg/StagedArrayBuilder.scala → ...hail/expr/ir/agg/StagedArrayBuilder.scala b/...hail/expr/ir/agg/StagedArrayBuilder.scala → ...hail/expr/ir/agg/StagedArrayBuilder.scala
diff --git a/...l/expr/ir/agg/StagedBlockLinkedList.scala → ...l/expr/ir/agg/StagedBlockLinkedList.scala b/...l/expr/ir/agg/StagedBlockLinkedList.scala → ...l/expr/ir/agg/StagedBlockLinkedList.scala
diff --git a/.../is/hail/expr/ir/agg/TakeAggregator.scala → .../is/hail/expr/ir/agg/TakeAggregator.scala b/.../is/hail/expr/ir/agg/TakeAggregator.scala → .../is/hail/expr/ir/agg/TakeAggregator.scala
diff --git a/...s/hail/expr/ir/agg/TakeByAggregator.scala → ...s/hail/expr/ir/agg/TakeByAggregator.scala b/...s/hail/expr/ir/agg/TakeByAggregator.scala → ...s/hail/expr/ir/agg/TakeByAggregator.scala
diff --git a/...xpr/ir/analyses/ComputeMethodSplits.scala → ...xpr/ir/analyses/ComputeMethodSplits.scala b/...xpr/ir/analyses/ComputeMethodSplits.scala → ...xpr/ir/analyses/ComputeMethodSplits.scala
diff --git a/...r/analyses/ControlFlowPreventsSplit.scala → ...r/analyses/ControlFlowPreventsSplit.scala b/...r/analyses/ControlFlowPreventsSplit.scala → ...r/analyses/ControlFlowPreventsSplit.scala
diff --git a/...ail/expr/ir/analyses/ParentPointers.scala → ...ail/expr/ir/analyses/ParentPointers.scala b/...ail/expr/ir/analyses/ParentPointers.scala → ...ail/expr/ir/analyses/ParentPointers.scala
diff --git a/.../hail/expr/ir/analyses/SemanticHash.scala → .../hail/expr/ir/analyses/SemanticHash.scala b/.../hail/expr/ir/analyses/SemanticHash.scala → .../hail/expr/ir/analyses/SemanticHash.scala
diff --git a/...xpr/ir/functions/ApproxCDFFunctions.scala → ...xpr/ir/functions/ApproxCDFFunctions.scala b/...xpr/ir/functions/ApproxCDFFunctions.scala → ...xpr/ir/functions/ApproxCDFFunctions.scala
diff --git a/...il/expr/ir/functions/ArrayFunctions.scala → ...il/expr/ir/functions/ArrayFunctions.scala b/...il/expr/ir/functions/ArrayFunctions.scala → ...il/expr/ir/functions/ArrayFunctions.scala
diff --git a/...ail/expr/ir/functions/CallFunctions.scala → ...ail/expr/ir/functions/CallFunctions.scala b/...ail/expr/ir/functions/CallFunctions.scala → ...ail/expr/ir/functions/CallFunctions.scala
diff --git a/...ail/expr/ir/functions/DictFunctions.scala → ...ail/expr/ir/functions/DictFunctions.scala b/...ail/expr/ir/functions/DictFunctions.scala → ...ail/expr/ir/functions/DictFunctions.scala
diff --git a/...is/hail/expr/ir/functions/Functions.scala → ...is/hail/expr/ir/functions/Functions.scala b/...is/hail/expr/ir/functions/Functions.scala → ...is/hail/expr/ir/functions/Functions.scala
diff --git a/...expr/ir/functions/GenotypeFunctions.scala → ...expr/ir/functions/GenotypeFunctions.scala b/...expr/ir/functions/GenotypeFunctions.scala → ...expr/ir/functions/GenotypeFunctions.scala
diff --git a/...s/hail/expr/ir/functions/GetElement.scala → ...s/hail/expr/ir/functions/GetElement.scala b/...s/hail/expr/ir/functions/GetElement.scala → ...s/hail/expr/ir/functions/GetElement.scala
diff --git a/...expr/ir/functions/IntervalFunctions.scala → ...expr/ir/functions/IntervalFunctions.scala b/...expr/ir/functions/IntervalFunctions.scala → ...expr/ir/functions/IntervalFunctions.scala
diff --git a/...il/expr/ir/functions/LocusFunctions.scala → ...il/expr/ir/functions/LocusFunctions.scala b/...il/expr/ir/functions/LocusFunctions.scala → ...il/expr/ir/functions/LocusFunctions.scala
diff --git a/...ail/expr/ir/functions/MathFunctions.scala → ...ail/expr/ir/functions/MathFunctions.scala b/...ail/expr/ir/functions/MathFunctions.scala → ...ail/expr/ir/functions/MathFunctions.scala
diff --git a/...ir/functions/MatrixWriteBlockMatrix.scala → ...ir/functions/MatrixWriteBlockMatrix.scala b/...ir/functions/MatrixWriteBlockMatrix.scala → ...ir/functions/MatrixWriteBlockMatrix.scala
diff --git a/.../expr/ir/functions/NDArrayFunctions.scala → .../expr/ir/functions/NDArrayFunctions.scala b/.../expr/ir/functions/NDArrayFunctions.scala → .../expr/ir/functions/NDArrayFunctions.scala
diff --git a/.../ir/functions/RandomSeededFunctions.scala → .../ir/functions/RandomSeededFunctions.scala b/.../ir/functions/RandomSeededFunctions.scala → .../ir/functions/RandomSeededFunctions.scala
diff --git a/.../functions/ReferenceGenomeFunctions.scala → .../functions/ReferenceGenomeFunctions.scala b/.../functions/ReferenceGenomeFunctions.scala → .../functions/ReferenceGenomeFunctions.scala
diff --git a/...pr/ir/functions/RelationalFunctions.scala → ...pr/ir/functions/RelationalFunctions.scala b/...pr/ir/functions/RelationalFunctions.scala → ...pr/ir/functions/RelationalFunctions.scala
diff --git a/...hail/expr/ir/functions/SetFunctions.scala → ...hail/expr/ir/functions/SetFunctions.scala b/...hail/expr/ir/functions/SetFunctions.scala → ...hail/expr/ir/functions/SetFunctions.scala
diff --git a/...l/expr/ir/functions/StringFunctions.scala → ...l/expr/ir/functions/StringFunctions.scala b/...l/expr/ir/functions/StringFunctions.scala → ...l/expr/ir/functions/StringFunctions.scala
diff --git a/...nctions/TableCalculateNewPartitions.scala → ...nctions/TableCalculateNewPartitions.scala b/...nctions/TableCalculateNewPartitions.scala → ...nctions/TableCalculateNewPartitions.scala
diff --git a/...ail/expr/ir/functions/UtilFunctions.scala → ...ail/expr/ir/functions/UtilFunctions.scala b/...ail/expr/ir/functions/UtilFunctions.scala → ...ail/expr/ir/functions/UtilFunctions.scala
diff --git a/...xpr/ir/lowering/CanLowerEfficiently.scala → ...xpr/ir/lowering/CanLowerEfficiently.scala b/...xpr/ir/lowering/CanLowerEfficiently.scala → ...xpr/ir/lowering/CanLowerEfficiently.scala
diff --git a/...expr/ir/lowering/EvalRelationalLets.scala → ...expr/ir/lowering/EvalRelationalLets.scala b/...expr/ir/lowering/EvalRelationalLets.scala → ...expr/ir/lowering/EvalRelationalLets.scala
diff --git a/...la/is/hail/expr/ir/lowering/IRState.scala → ...la/is/hail/expr/ir/lowering/IRState.scala b/...la/is/hail/expr/ir/lowering/IRState.scala → ...la/is/hail/expr/ir/lowering/IRState.scala
diff --git a/...ir/lowering/LowerAndExecuteShuffles.scala → ...ir/lowering/LowerAndExecuteShuffles.scala b/...ir/lowering/LowerAndExecuteShuffles.scala → ...ir/lowering/LowerAndExecuteShuffles.scala
diff --git a/...expr/ir/lowering/LowerBlockMatrixIR.scala → ...expr/ir/lowering/LowerBlockMatrixIR.scala b/...expr/ir/lowering/LowerBlockMatrixIR.scala → ...expr/ir/lowering/LowerBlockMatrixIR.scala
diff --git a/...pr/ir/lowering/LowerDistributedSort.scala → ...pr/ir/lowering/LowerDistributedSort.scala b/...pr/ir/lowering/LowerDistributedSort.scala → ...pr/ir/lowering/LowerDistributedSort.scala
diff --git a/.../hail/expr/ir/lowering/LowerTableIR.scala → .../hail/expr/ir/lowering/LowerTableIR.scala b/.../hail/expr/ir/lowering/LowerTableIR.scala → .../hail/expr/ir/lowering/LowerTableIR.scala
diff --git a/...xpr/ir/lowering/LowerTableIRHelpers.scala → ...xpr/ir/lowering/LowerTableIRHelpers.scala b/...xpr/ir/lowering/LowerTableIRHelpers.scala → ...xpr/ir/lowering/LowerTableIRHelpers.scala
diff --git a/...is/hail/expr/ir/lowering/LowerToCDA.scala → ...is/hail/expr/ir/lowering/LowerToCDA.scala b/...is/hail/expr/ir/lowering/LowerToCDA.scala → ...is/hail/expr/ir/lowering/LowerToCDA.scala
diff --git a/.../hail/expr/ir/lowering/LoweringPass.scala → .../hail/expr/ir/lowering/LoweringPass.scala b/.../hail/expr/ir/lowering/LoweringPass.scala → .../hail/expr/ir/lowering/LoweringPass.scala
diff --git a/...l/expr/ir/lowering/LoweringPipeline.scala → ...l/expr/ir/lowering/LoweringPipeline.scala b/...l/expr/ir/lowering/LoweringPipeline.scala → ...l/expr/ir/lowering/LoweringPipeline.scala
diff --git a/...il/expr/ir/lowering/RVDToTableStage.scala → ...il/expr/ir/lowering/RVDToTableStage.scala b/...il/expr/ir/lowering/RVDToTableStage.scala → ...il/expr/ir/lowering/RVDToTableStage.scala
diff --git a/...scala/is/hail/expr/ir/lowering/Rule.scala → ...scala/is/hail/expr/ir/lowering/Rule.scala b/...scala/is/hail/expr/ir/lowering/Rule.scala → ...scala/is/hail/expr/ir/lowering/Rule.scala
diff --git a/...pr/ir/lowering/TableStageDependency.scala → ...pr/ir/lowering/TableStageDependency.scala b/...pr/ir/lowering/TableStageDependency.scala → ...pr/ir/lowering/TableStageDependency.scala
diff --git a/...s/hail/expr/ir/ndarrays/EmitNDArray.scala → ...s/hail/expr/ir/ndarrays/EmitNDArray.scala b/...s/hail/expr/ir/ndarrays/EmitNDArray.scala → ...s/hail/expr/ir/ndarrays/EmitNDArray.scala
diff --git a/...il/expr/ir/orderings/BinaryOrdering.scala → ...il/expr/ir/orderings/BinaryOrdering.scala b/...il/expr/ir/orderings/BinaryOrdering.scala → ...il/expr/ir/orderings/BinaryOrdering.scala
diff --git a/...hail/expr/ir/orderings/CallOrdering.scala → ...hail/expr/ir/orderings/CallOrdering.scala b/...hail/expr/ir/orderings/CallOrdering.scala → ...hail/expr/ir/orderings/CallOrdering.scala
diff --git a/...hail/expr/ir/orderings/CodeOrdering.scala → ...hail/expr/ir/orderings/CodeOrdering.scala b/...hail/expr/ir/orderings/CodeOrdering.scala → ...hail/expr/ir/orderings/CodeOrdering.scala
diff --git a/.../expr/ir/orderings/IntervalOrdering.scala → .../expr/ir/orderings/IntervalOrdering.scala b/.../expr/ir/orderings/IntervalOrdering.scala → .../expr/ir/orderings/IntervalOrdering.scala
diff --git a/.../expr/ir/orderings/IterableOrdering.scala → .../expr/ir/orderings/IterableOrdering.scala b/.../expr/ir/orderings/IterableOrdering.scala → .../expr/ir/orderings/IterableOrdering.scala
diff --git a/...ail/expr/ir/orderings/LocusOrdering.scala → ...ail/expr/ir/orderings/LocusOrdering.scala b/...ail/expr/ir/orderings/LocusOrdering.scala → ...ail/expr/ir/orderings/LocusOrdering.scala
diff --git a/...expr/ir/orderings/PrimitiveOrdering.scala → ...expr/ir/orderings/PrimitiveOrdering.scala b/...expr/ir/orderings/PrimitiveOrdering.scala → ...expr/ir/orderings/PrimitiveOrdering.scala
diff --git a/...il/expr/ir/orderings/StringOrdering.scala → ...il/expr/ir/orderings/StringOrdering.scala b/...il/expr/ir/orderings/StringOrdering.scala → ...il/expr/ir/orderings/StringOrdering.scala
diff --git a/...il/expr/ir/orderings/StructOrdering.scala → ...il/expr/ir/orderings/StructOrdering.scala b/...il/expr/ir/orderings/StructOrdering.scala → ...il/expr/ir/orderings/StructOrdering.scala
diff --git a/.../main/scala/is/hail/expr/ir/package.scala → .../main/scala/is/hail/expr/ir/package.scala b/.../main/scala/is/hail/expr/ir/package.scala → .../main/scala/is/hail/expr/ir/package.scala
diff --git a/.../is/hail/expr/ir/streams/EmitStream.scala → .../is/hail/expr/ir/streams/EmitStream.scala b/.../is/hail/expr/ir/streams/EmitStream.scala → .../is/hail/expr/ir/streams/EmitStream.scala
diff --git a/.../hail/expr/ir/streams/StagedMinHeap.scala → .../hail/expr/ir/streams/StagedMinHeap.scala b/.../hail/expr/ir/streams/StagedMinHeap.scala → .../hail/expr/ir/streams/StagedMinHeap.scala
diff --git a/...is/hail/expr/ir/streams/StreamUtils.scala → ...is/hail/expr/ir/streams/StreamUtils.scala b/...is/hail/expr/ir/streams/StreamUtils.scala → ...is/hail/expr/ir/streams/StreamUtils.scala
diff --git a/...src/main/scala/is/hail/expr/package.scala → ...src/main/scala/is/hail/expr/package.scala b/...src/main/scala/is/hail/expr/package.scala → ...src/main/scala/is/hail/expr/package.scala
diff --git a/...ala/is/hail/io/AbstractBinaryReader.scala → ...ala/is/hail/io/AbstractBinaryReader.scala b/...ala/is/hail/io/AbstractBinaryReader.scala → ...ala/is/hail/io/AbstractBinaryReader.scala
diff --git a/...c/main/scala/is/hail/io/BufferSpecs.scala → ...c/main/scala/is/hail/io/BufferSpecs.scala b/...c/main/scala/is/hail/io/BufferSpecs.scala → ...c/main/scala/is/hail/io/BufferSpecs.scala
diff --git a/...in/scala/is/hail/io/ByteArrayReader.scala → ...in/scala/is/hail/io/ByteArrayReader.scala b/...in/scala/is/hail/io/ByteArrayReader.scala → ...in/scala/is/hail/io/ByteArrayReader.scala
diff --git a/...src/main/scala/is/hail/io/CodecSpec.scala → ...src/main/scala/is/hail/io/CodecSpec.scala b/...src/main/scala/is/hail/io/CodecSpec.scala → ...src/main/scala/is/hail/io/CodecSpec.scala
diff --git a/hail/src/main/scala/is/hail/io/Decoder.scala → ...s/src/main/scala/is/hail/io/Decoder.scala b/hail/src/main/scala/is/hail/io/Decoder.scala → ...s/src/main/scala/is/hail/io/Decoder.scala