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add unified getOmeroMetadata and getBioformats2rawLayout for all versions
1 parent 8dfef02 commit 94ec5db

4 files changed

Lines changed: 27 additions & 5 deletions

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src/main/java/dev/zarr/zarrjava/experimental/ome/MultiscaleImage.java

Lines changed: 14 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -3,9 +3,11 @@
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import dev.zarr.zarrjava.ZarrException;
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import dev.zarr.zarrjava.core.Node;
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import dev.zarr.zarrjava.experimental.ome.metadata.MultiscalesEntry;
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import dev.zarr.zarrjava.experimental.ome.metadata.OmeroMetadata;
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import dev.zarr.zarrjava.store.StoreHandle;
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import dev.zarr.zarrjava.utils.Utils;
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import javax.annotation.Nullable;
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import java.io.IOException;
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import java.util.ArrayList;
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import java.util.Collections;
@@ -37,6 +39,18 @@ public interface MultiscaleImage {
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*/
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int getScaleLevelCount() throws ZarrException;
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/**
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* Returns the OmeroMetadata if present, or null if not.
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*/
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@Nullable
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OmeroMetadata getOmeroMetadata();
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/**
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* Returns the bioformats2raw.layout property if present, or null if not
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*/
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@Nullable
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Integer getBioformats2rawLayout();
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/**
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* Returns the axis names of the first multiscale entry.
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*/

src/main/java/dev/zarr/zarrjava/experimental/ome/v0_4/MultiscaleImage.java

Lines changed: 3 additions & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -30,7 +30,7 @@ public final class MultiscaleImage extends OmeV2Group implements MultiscalesMeta
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@Nullable
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private OmeroMetadata omeroMetadata;
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@Nullable
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private Integer bioformats2rawLayout;
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private final Integer bioformats2rawLayout;
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private MultiscaleImage(
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@Nonnull StoreHandle storeHandle,
@@ -83,6 +83,7 @@ public dev.zarr.zarrjava.store.StoreHandle getStoreHandle() {
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return this.storeHandle;
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}
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@Override
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@Nullable
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public OmeroMetadata getOmeroMetadata() {
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return omeroMetadata;
@@ -93,6 +94,7 @@ public void setOmeroMetadata(@Nullable OmeroMetadata omeroMetadata) throws IOExc
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persistAttributes();
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}
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@Override
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@Nullable
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public Integer getBioformats2rawLayout() {
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return bioformats2rawLayout;

src/main/java/dev/zarr/zarrjava/experimental/ome/v0_5/MultiscaleImage.java

Lines changed: 5 additions & 2 deletions
Original file line numberDiff line numberDiff line change
@@ -13,6 +13,7 @@
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import dev.zarr.zarrjava.v3.GroupMetadata;
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import javax.annotation.Nonnull;
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import javax.annotation.Nullable;
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import java.io.IOException;
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import java.util.Collections;
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import java.util.List;
@@ -68,12 +69,14 @@ public MultiscalesEntry getMultiscalesEntry(int i) throws ZarrException {
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return omeMetadata.multiscales.get(i);
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}
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@javax.annotation.Nullable
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@Override
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@Nullable
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public dev.zarr.zarrjava.experimental.ome.metadata.OmeroMetadata getOmeroMetadata() {
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return omeMetadata.omero;
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}
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@javax.annotation.Nullable
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@Override
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@Nullable
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public Integer getBioformats2rawLayout() {
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return omeMetadata.bioformats2rawLayout;
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}

src/main/java/dev/zarr/zarrjava/experimental/ome/v0_6/MultiscaleImage.java

Lines changed: 5 additions & 2 deletions
Original file line numberDiff line numberDiff line change
@@ -18,6 +18,7 @@
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import dev.zarr.zarrjava.v3.GroupMetadata;
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import javax.annotation.Nonnull;
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import javax.annotation.Nullable;
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import java.io.IOException;
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import java.util.ArrayList;
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import java.util.Collections;
@@ -85,12 +86,14 @@ public MultiscalesEntry getMultiscalesEntry(int i) throws ZarrException {
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return omeMetadata.multiscales.get(i);
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}
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@javax.annotation.Nullable
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@Override
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@Nullable
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public dev.zarr.zarrjava.experimental.ome.metadata.OmeroMetadata getOmeroMetadata() {
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return omeMetadata.omero;
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}
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@javax.annotation.Nullable
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@Override
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@Nullable
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public Integer getBioformats2rawLayout() {
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return omeMetadata.bioformats2rawLayout;
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}

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