From 239b1d3e1b8a20844d19775323e8a22d09016179 Mon Sep 17 00:00:00 2001
From: Stephane Dallongeville <stephane.dallongeville@pasteur.fr>
Date: Thu, 22 Apr 2021 11:18:10 +0200
Subject: [PATCH] Added new Get/Set Property blocks
---
pom.xml | 10 ++-
.../infos/GetSequenceProperty.java | 68 ++++++++++++++++++
.../infos/SetSequenceProperty.java | 69 +++++++++++++++++++
3 files changed, 145 insertions(+), 2 deletions(-)
create mode 100644 src/main/java/plugins/tprovoost/sequenceblocks/infos/GetSequenceProperty.java
create mode 100644 src/main/java/plugins/tprovoost/sequenceblocks/infos/SetSequenceProperty.java
diff --git a/pom.xml b/pom.xml
index a45fa44..bf39fc7 100644
--- a/pom.xml
+++ b/pom.xml
@@ -7,15 +7,21 @@
<parent>
<groupId>org.bioimageanalysis.icy</groupId>
<artifactId>parent-pom-plugin</artifactId>
- <version>1.0.3</version>
+ <version>1.0.4</version>
</parent>
<artifactId>sequence-blocks</artifactId>
- <version>2.0.16</version>
+ <version>2.1.0</version>
<name>SequenceBlocks</name>
<dependencies>
+ <dependency>
+ <groupId>org.bioimageanalysis.icy</groupId>
+ <artifactId>icy-kernel</artifactId>
+ <version>2.1.3</version>
+ </dependency>
+
<dependency>
<groupId>org.bioimageanalysis.icy</groupId>
<artifactId>blocks</artifactId>
diff --git a/src/main/java/plugins/tprovoost/sequenceblocks/infos/GetSequenceProperty.java b/src/main/java/plugins/tprovoost/sequenceblocks/infos/GetSequenceProperty.java
new file mode 100644
index 0000000..278ae20
--- /dev/null
+++ b/src/main/java/plugins/tprovoost/sequenceblocks/infos/GetSequenceProperty.java
@@ -0,0 +1,68 @@
+package plugins.tprovoost.sequenceblocks.infos;
+
+import icy.plugin.abstract_.Plugin;
+import icy.plugin.interface_.PluginBundled;
+import icy.plugin.interface_.PluginLibrary;
+import icy.sequence.Sequence;
+import plugins.adufour.blocks.tools.sequence.SequenceBlock;
+import plugins.adufour.blocks.util.VarList;
+import plugins.adufour.vars.lang.VarSequence;
+import plugins.adufour.vars.lang.VarString;
+import plugins.tprovoost.sequenceblocks.SequenceBlocks;
+
+/**
+ * Block to retrieve value (in String format) of a Sequence property (name, pixel size, custom...)<br>
+ * Default metadata information can be retrieved using specific property name:<br>
+ * <ul>
+ * <li><i>id</i> = sequence internal Id</li>
+ * <li><i>name</i> = sequence name</li>
+ * <li><i>positionX</i> = absolute position X of the image (in um)</li>
+ * <li><i>positionY</i> = absolute position Y of the image (in um)</li>
+ * <li><i>positionZ</i> = absolute position Z of the image (in um)</li>
+ * <li><i>positionT</i> = acquisition date time</li>
+ * <li><i>positionTOffset</i> = not available for property;</li>
+ * <li><i>pixelSizeX</i> = pixel size X (in um)</li>
+ * <li><i>pixelSizeY</i> = pixel size Y (in um)</li>
+ * <li><i>pixelSizeZ</i> = pixel size Z (in um)</li>
+ * <li><i>timeInterval</i> = time interval between each image (in second)</li>
+ * <li><i>channelName</i> = not available for property</li>
+ * <li><i>userName</i> = user who generated / acquired the dataset</li>
+ * <li><i>virtual</i> = virtual mode enabled on the dataset</li>
+ * </ul>
+ *
+ * @author Stephane
+ */
+public class GetSequenceProperty extends Plugin implements SequenceBlock, PluginLibrary, PluginBundled
+{
+ protected VarSequence sequence = new VarSequence("Sequence", null);
+ protected VarString propertyName = new VarString("Property", "name");
+ protected VarString value = new VarString("Value", "");
+
+ @Override
+ public void run()
+ {
+ final Sequence seq = sequence.getValue();
+
+ if (seq != null)
+ value.setValue(seq.getProperty(propertyName.getValue()));
+ }
+
+ @Override
+ public void declareInput(VarList inputMap)
+ {
+ inputMap.add("sequence", sequence);
+ inputMap.add("property", propertyName);
+ }
+
+ @Override
+ public void declareOutput(VarList outputMap)
+ {
+ outputMap.add("value", value);
+ }
+
+ @Override
+ public String getMainPluginClassName()
+ {
+ return SequenceBlocks.class.getName();
+ }
+}
diff --git a/src/main/java/plugins/tprovoost/sequenceblocks/infos/SetSequenceProperty.java b/src/main/java/plugins/tprovoost/sequenceblocks/infos/SetSequenceProperty.java
new file mode 100644
index 0000000..21aa719
--- /dev/null
+++ b/src/main/java/plugins/tprovoost/sequenceblocks/infos/SetSequenceProperty.java
@@ -0,0 +1,69 @@
+package plugins.tprovoost.sequenceblocks.infos;
+
+import icy.plugin.abstract_.Plugin;
+import icy.plugin.interface_.PluginBundled;
+import icy.plugin.interface_.PluginLibrary;
+import icy.sequence.Sequence;
+import plugins.adufour.blocks.tools.sequence.SequenceBlock;
+import plugins.adufour.blocks.util.VarList;
+import plugins.adufour.vars.lang.VarSequence;
+import plugins.adufour.vars.lang.VarString;
+import plugins.tprovoost.sequenceblocks.SequenceBlocks;
+
+/**
+ * Block to set value (in String format) of a Sequence property (name, pixel size, custom...)<br>
+ * Default metadata information can be set using specific property name:<br>
+ * <ul>
+ * <li><i>id</i> = sequence internal Id</li>
+ * <li><i>name</i> = sequence name</li>
+ * <li><i>positionX</i> = absolute position X of the image (in um)</li>
+ * <li><i>positionY</i> = absolute position Y of the image (in um)</li>
+ * <li><i>positionZ</i> = absolute position Z of the image (in um)</li>
+ * <li><i>positionT</i> = acquisition date time</li>
+ * <li><i>positionTOffset</i> = not available for property;</li>
+ * <li><i>pixelSizeX</i> = pixel size X (in um)</li>
+ * <li><i>pixelSizeY</i> = pixel size Y (in um)</li>
+ * <li><i>pixelSizeZ</i> = pixel size Z (in um)</li>
+ * <li><i>timeInterval</i> = time interval between each image (in second)</li>
+ * <li><i>channelName</i> = not available for property</li>
+ * <li><i>userName</i> = user who generated / acquired the dataset</li>
+ * <li><i>virtual</i> = virtual mode enabled on the dataset</li>
+ * </ul>
+ *
+ * @author Stephane
+ */
+public class SetSequenceProperty extends Plugin implements SequenceBlock, PluginLibrary, PluginBundled
+{
+ protected VarSequence sequence = new VarSequence("Sequence", null);
+ protected VarString propertyName = new VarString("Property", "name");
+ protected VarString value = new VarString("Value", "");
+
+ @Override
+ public void run()
+ {
+ final Sequence seq = sequence.getValue();
+
+ if (seq != null)
+ seq.setProperty(propertyName.getValue(), value.getValue());
+ }
+
+ @Override
+ public void declareInput(VarList inputMap)
+ {
+ inputMap.add("sequence", sequence);
+ inputMap.add("property", propertyName);
+ inputMap.add("value", value);
+ }
+
+ @Override
+ public void declareOutput(VarList outputMap)
+ {
+ //
+ }
+
+ @Override
+ public String getMainPluginClassName()
+ {
+ return SequenceBlocks.class.getName();
+ }
+}
--
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