From 6445a870dd891c67d525e63049884c9dfb63d234 Mon Sep 17 00:00:00 2001
From: Jose Duarte <jose.m.duarte@gmail.com>
Date: Tue, 4 Jan 2022 21:25:52 -0800
Subject: [PATCH] [maven-release-plugin] prepare release biojava-6.0.4

---
 biojava-aa-prop/pom.xml                 |  6 +++---
 biojava-alignment/pom.xml               |  4 ++--
 biojava-core/pom.xml                    |  2 +-
 biojava-genome/pom.xml                  |  6 +++---
 biojava-integrationtest/pom.xml         |  4 ++--
 biojava-modfinder/pom.xml               |  4 ++--
 biojava-ontology/pom.xml                |  2 +-
 biojava-protein-comparison-tool/pom.xml | 10 +++++-----
 biojava-protein-disorder/pom.xml        |  4 ++--
 biojava-structure-gui/pom.xml           |  6 +++---
 biojava-structure/pom.xml               |  6 +++---
 biojava-survival/pom.xml                |  2 +-
 biojava-ws/pom.xml                      |  4 ++--
 pom.xml                                 |  4 ++--
 14 files changed, 32 insertions(+), 32 deletions(-)

diff --git a/biojava-aa-prop/pom.xml b/biojava-aa-prop/pom.xml
index 07d46c4c80..ceb1082b79 100644
--- a/biojava-aa-prop/pom.xml
+++ b/biojava-aa-prop/pom.xml
@@ -2,7 +2,7 @@
 	<parent>
 		<artifactId>biojava</artifactId>
 		<groupId>org.biojava</groupId>
-		<version>6.0.4-SNAPSHOT</version>
+		<version>6.0.4</version>
 	</parent>
 	<modelVersion>4.0.0</modelVersion>
 	<artifactId>biojava-aa-prop</artifactId>
@@ -70,12 +70,12 @@
 		<dependency>
 			<groupId>org.biojava</groupId>
 			<artifactId>biojava-core</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
 		</dependency>
 		<dependency>
 			<groupId>org.biojava</groupId>
 			<artifactId>biojava-structure</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
 		</dependency>
 
 		<!-- logging dependencies (managed by parent pom, don't set versions or scopes here) -->
diff --git a/biojava-alignment/pom.xml b/biojava-alignment/pom.xml
index 2148e57e3e..8544405ca3 100644
--- a/biojava-alignment/pom.xml
+++ b/biojava-alignment/pom.xml
@@ -4,7 +4,7 @@
 	<parent>
 		<artifactId>biojava</artifactId>
 		<groupId>org.biojava</groupId>
-		<version>6.0.4-SNAPSHOT</version>
+		<version>6.0.4</version>
 	</parent>
 	<artifactId>biojava-alignment</artifactId>
 	<name>biojava-alignment</name>
@@ -47,7 +47,7 @@
 		<dependency>
 			<groupId>org.biojava</groupId>
 			<artifactId>biojava-core</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
 			<scope>compile</scope>
 		</dependency>
 		<dependency>
diff --git a/biojava-core/pom.xml b/biojava-core/pom.xml
index aab20d6456..3d3dc6646b 100644
--- a/biojava-core/pom.xml
+++ b/biojava-core/pom.xml
@@ -3,7 +3,7 @@
 	<parent>
 		<artifactId>biojava</artifactId>
 		<groupId>org.biojava</groupId>
-		<version>6.0.4-SNAPSHOT</version>
+		<version>6.0.4</version>
 	</parent>
 	<modelVersion>4.0.0</modelVersion>
 	<artifactId>biojava-core</artifactId>
diff --git a/biojava-genome/pom.xml b/biojava-genome/pom.xml
index 15ef26743e..d96cf1d427 100644
--- a/biojava-genome/pom.xml
+++ b/biojava-genome/pom.xml
@@ -3,7 +3,7 @@
 	<parent>
 		<artifactId>biojava</artifactId>
 		<groupId>org.biojava</groupId>
-		<version>6.0.4-SNAPSHOT</version>
+		<version>6.0.4</version>
 	</parent>
 	<modelVersion>4.0.0</modelVersion>
 	<artifactId>biojava-genome</artifactId>
@@ -85,13 +85,13 @@
 		<dependency>
 			<groupId>org.biojava</groupId>
 			<artifactId>biojava-core</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
 			<scope>compile</scope>
 		</dependency>
 		<dependency>
 			<groupId>org.biojava</groupId>
 			<artifactId>biojava-alignment</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
 			<scope>compile</scope>
 		</dependency>
 		<dependency>
diff --git a/biojava-integrationtest/pom.xml b/biojava-integrationtest/pom.xml
index 9be1d0b797..fd1387f0b7 100644
--- a/biojava-integrationtest/pom.xml
+++ b/biojava-integrationtest/pom.xml
@@ -4,7 +4,7 @@
   <parent>
     <artifactId>biojava</artifactId>
     <groupId>org.biojava</groupId>
-    <version>6.0.4-SNAPSHOT</version>
+    <version>6.0.4</version>
   </parent>
   <artifactId>biojava-integrationtest</artifactId>
   <packaging>jar</packaging>
@@ -40,7 +40,7 @@
     <dependency>
     	<groupId>org.biojava</groupId>
     	<artifactId>biojava-structure</artifactId>
-    	<version>6.0.4-SNAPSHOT</version>
+    	<version>6.0.4</version>
     </dependency>
 		<!-- logging dependencies (managed by parent pom, don't set versions or scopes here) -->
 		<dependency>
diff --git a/biojava-modfinder/pom.xml b/biojava-modfinder/pom.xml
index 3d48a572bb..db99e09d26 100644
--- a/biojava-modfinder/pom.xml
+++ b/biojava-modfinder/pom.xml
@@ -4,7 +4,7 @@
 	<parent>
 		<artifactId>biojava</artifactId>
 		<groupId>org.biojava</groupId>
-		<version>6.0.4-SNAPSHOT</version>
+		<version>6.0.4</version>
 	</parent>
 	<artifactId>biojava-modfinder</artifactId>
 	<name>biojava-modfinder</name>
@@ -31,7 +31,7 @@
 		<dependency>
 			<groupId>org.biojava</groupId>
 			<artifactId>biojava-structure</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
 			<type>jar</type>
 			<scope>compile</scope>
 		</dependency>
diff --git a/biojava-ontology/pom.xml b/biojava-ontology/pom.xml
index 5a3c79099f..78c62cffb3 100644
--- a/biojava-ontology/pom.xml
+++ b/biojava-ontology/pom.xml
@@ -4,7 +4,7 @@
   <parent>
     <groupId>org.biojava</groupId>
     <artifactId>biojava</artifactId>
-    <version>6.0.4-SNAPSHOT</version>
+    <version>6.0.4</version>
   </parent>
 
   <artifactId>biojava-ontology</artifactId>
diff --git a/biojava-protein-comparison-tool/pom.xml b/biojava-protein-comparison-tool/pom.xml
index a4c8e97ded..023383dd6b 100644
--- a/biojava-protein-comparison-tool/pom.xml
+++ b/biojava-protein-comparison-tool/pom.xml
@@ -4,7 +4,7 @@
 	<parent>
 		<artifactId>biojava</artifactId>
 		<groupId>org.biojava</groupId>
-		<version>6.0.4-SNAPSHOT</version>
+		<version>6.0.4</version>
 	</parent>
 
 	<artifactId>biojava-protein-comparison-tool</artifactId>
@@ -36,23 +36,23 @@
 		<dependency>
 			<groupId>org.biojava</groupId>
 			<artifactId>biojava-alignment</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
 
 		</dependency>
 		<dependency>
 			<groupId>org.biojava</groupId>
 			<artifactId>biojava-core</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
 		</dependency>
 		<dependency>
 			<groupId>org.biojava</groupId>
 			<artifactId>biojava-structure</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
 		</dependency>
 		<dependency>
 			<groupId>org.biojava</groupId>
 			<artifactId>biojava-structure-gui</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
 		</dependency>
 		<dependency>
 			<groupId>net.sourceforge.jmol</groupId>
diff --git a/biojava-protein-disorder/pom.xml b/biojava-protein-disorder/pom.xml
index 559dc71c45..aa95715fd4 100644
--- a/biojava-protein-disorder/pom.xml
+++ b/biojava-protein-disorder/pom.xml
@@ -3,7 +3,7 @@
 	<parent>
 		<artifactId>biojava</artifactId>
 		<groupId>org.biojava</groupId>
-		<version>6.0.4-SNAPSHOT</version>
+		<version>6.0.4</version>
 	</parent>
 	<artifactId>biojava-protein-disorder</artifactId>
 	<packaging>jar</packaging>
@@ -63,7 +63,7 @@
 		<dependency>
 			<groupId>org.biojava</groupId>
 			<artifactId>biojava-core</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
 		</dependency>
 		<!-- logging dependencies (managed by parent pom, don't set versions or
 			scopes here) -->
diff --git a/biojava-structure-gui/pom.xml b/biojava-structure-gui/pom.xml
index dba36436e1..b6f3a924b1 100644
--- a/biojava-structure-gui/pom.xml
+++ b/biojava-structure-gui/pom.xml
@@ -3,7 +3,7 @@
     <parent>
         <artifactId>biojava</artifactId>
         <groupId>org.biojava</groupId>
-		<version>6.0.4-SNAPSHOT</version>
+		<version>6.0.4</version>
     </parent>
     <modelVersion>4.0.0</modelVersion>
     <artifactId>biojava-structure-gui</artifactId>
@@ -27,13 +27,13 @@
         <dependency>
             <groupId>org.biojava</groupId>
             <artifactId>biojava-structure</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
             <scope>compile</scope>
         </dependency>
         <dependency>
             <groupId>org.biojava</groupId>
             <artifactId>biojava-core</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
             <scope>compile</scope>
         </dependency>
 
diff --git a/biojava-structure/pom.xml b/biojava-structure/pom.xml
index ee1610a2e3..eff473b3ec 100644
--- a/biojava-structure/pom.xml
+++ b/biojava-structure/pom.xml
@@ -4,7 +4,7 @@
 	<parent>
 		<artifactId>biojava</artifactId>
 		<groupId>org.biojava</groupId>
-		<version>6.0.4-SNAPSHOT</version>
+		<version>6.0.4</version>
 	</parent>
 	<artifactId>biojava-structure</artifactId>
 	<name>biojava-structure</name>
@@ -44,13 +44,13 @@
 		<dependency>
 			<groupId>org.biojava</groupId>
 			<artifactId>biojava-alignment</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
 			<scope>compile</scope>
 		</dependency>
 		<dependency>
 			<groupId>org.biojava</groupId>
 			<artifactId>biojava-core</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
 			<scope>compile</scope>
 		</dependency>
 
diff --git a/biojava-survival/pom.xml b/biojava-survival/pom.xml
index a949df5e78..ebf69ef8e0 100644
--- a/biojava-survival/pom.xml
+++ b/biojava-survival/pom.xml
@@ -4,7 +4,7 @@
     <parent>
         <groupId>org.biojava</groupId>
         <artifactId>biojava</artifactId>
-        <version>6.0.4-SNAPSHOT</version>
+        <version>6.0.4</version>
     </parent>
 
     <artifactId>biojava-survival</artifactId>
diff --git a/biojava-ws/pom.xml b/biojava-ws/pom.xml
index e78bd878b3..92021a07ea 100644
--- a/biojava-ws/pom.xml
+++ b/biojava-ws/pom.xml
@@ -3,7 +3,7 @@
 	<parent>
 		<artifactId>biojava</artifactId>
 		<groupId>org.biojava</groupId>
-		<version>6.0.4-SNAPSHOT</version>
+		<version>6.0.4</version>
 	</parent>
 	<artifactId>biojava-ws</artifactId>
 	<name>biojava-ws</name>
@@ -19,7 +19,7 @@
 		<dependency>
 			<groupId>org.biojava</groupId>
 			<artifactId>biojava-core</artifactId>
-			<version>6.0.4-SNAPSHOT</version>
+			<version>6.0.4</version>
 			<scope>compile</scope>
 		</dependency>
 		<dependency>
diff --git a/pom.xml b/pom.xml
index 4709b2a7c9..4fd457478d 100644
--- a/pom.xml
+++ b/pom.xml
@@ -12,7 +12,7 @@
 	<groupId>org.biojava</groupId>
 	<artifactId>biojava</artifactId>
 	<packaging>pom</packaging>
-	<version>6.0.4-SNAPSHOT</version>
+	<version>6.0.4</version>
 	<name>biojava</name>
 	<description>BioJava is an open-source project dedicated to providing a Java framework for processing biological
         data. It provides analytical and statistical routines, parsers for common file formats and allows the
@@ -52,7 +52,7 @@
 		<developerConnection>scm:git:git@github.com:biojava/biojava.git</developerConnection>
 		<url>https://github.com/biojava/biojava</url>
 
-		<tag>HEAD</tag>
+		<tag>biojava-6.0.4</tag>
 	</scm>
 
 	<!-- This section required for release at Maven Central. For a full list