Update to version 0.2.1 to make conda release

Author: minnerbe

install.sh

@@ -15,7 +15,7 @@ display_usage () {
   exit
 }
 
-VERSION="0.2.0-SNAPSHOT"
+VERSION="0.2.1"
 
 while getopts :hi:r: flag
 do

install_windows.bat

@@ -3,7 +3,7 @@ setlocal EnableExtensions
 
 :: This is a translation of the corresponding linux install script that
 :: is adapted from https://github.com/saalfeldlab/n5-utils, by @axtimwalde & co
-set "VERSION=0.2.0-SNAPSHOT"
+set "VERSION=0.2.1"
 
 :: default for installation dir = current directory
 set "INSTALL_DIR=%CD%"

pom.xml

@@ -10,7 +10,7 @@
 	</parent>
 
 	<artifactId>imglib2-st</artifactId>
-	<version>0.2.0-SNAPSHOT</version>
+	<version>0.2.1</version>
 
 	<name>ImgLib2 Spatial Transcriptiomics</name>
 	<description>This project shows the application of imglib2 to spatial transcriptomics</description>

src/main/java/cmd/AddAnnotations.java

@@ -21,7 +21,7 @@
 import picocli.CommandLine.Command;
 import picocli.CommandLine.Option;
 
-@Command(name = "st-add-annotations", mixinStandardHelpOptions = true, version = "0.2.0", description = "Spatial Transcriptomics as IMages project - add annotations to slice-dataset")
+@Command(name = "st-add-annotations", mixinStandardHelpOptions = true, version = "0.2.1", description = "Spatial Transcriptomics as IMages project - add annotations to slice-dataset")
 public class AddAnnotations implements Callable<Void> {
 
 	@Option(names = {"-i", "--input"}, required = true, description = "input dataset, e.g. -i /home/ssq.n5/Puck_180528_20")
@@ -113,4 +113,4 @@ public Void call() throws Exception {
 	public static final void main(final String... args) {
 		CommandLine.call(new AddAnnotations(), args);
 	}
-}
+}

src/main/java/cmd/AddPairwiseMatch.java

@@ -24,7 +24,7 @@
 import java.util.concurrent.ExecutorService;
 import java.util.concurrent.Executors;
 
-@Command(name = "st-align-pairs-add", mixinStandardHelpOptions = true, version = "0.2.0", description = "Spatial Transcriptomics as IMages project - add manual landmarks to align pairs of slices")
+@Command(name = "st-align-pairs-add", mixinStandardHelpOptions = true, version = "0.2.1", description = "Spatial Transcriptomics as IMages project - add manual landmarks to align pairs of slices")
 public class AddPairwiseMatch implements Callable<Void> {
 
 	@Option(names = {"-c", "--container"}, required = true, description = "input N5 container path, e.g. -i /home/ssq.n5.")

src/main/java/cmd/AddSlice.java

@@ -10,7 +10,7 @@
 import java.util.concurrent.ExecutorService;
 import java.util.concurrent.Executors;
 
-@Command(name = "st-add-slice", mixinStandardHelpOptions = true, version = "0.2.0", description = "Spatial Transcriptomics as IMages project - add slice-dataset to a container")
+@Command(name = "st-add-slice", mixinStandardHelpOptions = true, version = "0.2.1", description = "Spatial Transcriptomics as IMages project - add slice-dataset to a container")
 public class AddSlice implements Callable<Void> {
 
 	@Option(names = {"-i", "--input"}, required = true, description = "input dataset, e.g. -i /home/ssq.n5")

src/main/java/cmd/BigDataViewerDisplay.java

@@ -45,7 +45,7 @@
 import picocli.CommandLine.Option;
 import render.Render;
 
-@Command(name = "st-bdv-view", mixinStandardHelpOptions = true, version = "0.2.0", description = "Spatial Transcriptomics as IMages project - visualize ST data in BigDataViewer")
+@Command(name = "st-bdv-view", mixinStandardHelpOptions = true, version = "0.2.1", description = "Spatial Transcriptomics as IMages project - visualize ST data in BigDataViewer")
 public class BigDataViewerDisplay implements Callable<Void>
 {
 	@Option(names = {"-i", "--input"}, required = true, description = "input file (AnnData) or N5 container, e.g. -i /home/ssq.n5")

src/main/java/cmd/BigDataViewerStackDisplay.java

@@ -39,7 +39,7 @@
 import picocli.CommandLine.Option;
 import render.Render;
 
-@Command(name = "st-bdv-view3d", mixinStandardHelpOptions = true, version = "0.2.0", description = "Spatial Transcriptomics as IMages project - visualize ST data in BigDataViewer")
+@Command(name = "st-bdv-view3d", mixinStandardHelpOptions = true, version = "0.2.1", description = "Spatial Transcriptomics as IMages project - visualize ST data in BigDataViewer")
 public class BigDataViewerStackDisplay implements Callable<Void> {
 
 	@Option(names = {"-i", "--input"}, required = true, description = "input file or N5 container, e.g. -i /home/ssq.n5")

src/main/java/cmd/GlobalOpt.java

@@ -17,7 +17,7 @@
 import picocli.CommandLine.Command;
 import util.Threads;
 
-@Command(name = "st-align-global", mixinStandardHelpOptions = true, version = "0.2.0", description = "Spatial Transcriptomics as IMages project - global alignment of all slices")
+@Command(name = "st-align-global", mixinStandardHelpOptions = true, version = "0.2.1", description = "Spatial Transcriptomics as IMages project - global alignment of all slices")
 public class GlobalOpt implements Callable<Void> {
 
 	@Option(names = {"-c", "--container"}, required = true, description = "input N5 container path, e.g. -i /home/ssq.n5.")

src/main/java/cmd/Normalize.java

@@ -17,7 +17,7 @@
 import picocli.CommandLine.Option;
 import picocli.CommandLine.Command;
 
-@Command(name = "st-normalize", mixinStandardHelpOptions = true, version = "0.2.0", description = "Spatial Transcriptomics as IMages project - normalize dataset")
+@Command(name = "st-normalize", mixinStandardHelpOptions = true, version = "0.2.1", description = "Spatial Transcriptomics as IMages project - normalize dataset")
 public class Normalize implements Callable<Void> {
 
 		@Option(names = {"-c", "--container"}, required = false, description = "N5 container; if given, all datasets are taken from and added to that container")