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Release 0.5.2
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@egonw
egonw committed Feb 17, 2024
1 parent 1eb913b commit 54d8b91
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4 changes: 2 additions & 2 deletions CITATION.cff
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Expand Up @@ -5,8 +5,8 @@ authors:
given-names: Egon
orcid: https://orcid.org/0000-0001-7542-0286
title: Bacting
version: 0.5.1
date-released: 2024-01-19
version: 0.5.2
date-released: 2024-02-17
doi: 10.5281/zenodo.2638709
url: "https://github.com/egonw/bacting"
preferred-citation:
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8 changes: 4 additions & 4 deletions README.md
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Expand Up @@ -47,15 +47,15 @@ If these requirements are fulfilled then the following commands to the job:

```shell
export MAVEN_OPTS="--add-opens=java.base/java.util=ALL-UNNAMED --add-opens=java.base/java.lang.reflect=ALL-UNNAMED --add-opens=java.base/java.text=ALL-UNNAMED --add-opens=java.desktop/java.awt.font=ALL-UNNAMED"
mvn versions:set -DnewVersion=0.5.1
mvn versions:set -DnewVersion=0.5.2
git commit -m "New release" -a
mvn deploy -P release
```

### Making snapshots

```shell
mvn versions:set -DnewVersion=0.5.2-SNAPSHOT
mvn versions:set -DnewVersion=0.5.3-SNAPSHOT
mvn deploy
```

Expand Down Expand Up @@ -83,7 +83,7 @@ itself), and then converts a [SMILES](https://en.wikipedia.org/wiki/Simplified_m
string to a Bioclipse `IMolecule` data object:

```groovy
@Grab(group='io.github.egonw.bacting', module='managers-cdk', version='0.5.1')
@Grab(group='io.github.egonw.bacting', module='managers-cdk', version='0.5.2')
workspaceRoot = "."
def cdk = new net.bioclipse.managers.CDKManager(workspaceRoot);
Expand Down Expand Up @@ -117,7 +117,7 @@ The code example looks like:

```python
from scyjava import config, jimport
config.add_endpoints('io.github.egonw.bacting:managers-cdk:0.5.1')
config.add_endpoints('io.github.egonw.bacting:managers-cdk:0.5.2')

workspaceRoot = "."
cdkClass = jimport("net.bioclipse.managers.CDKManager")
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2 changes: 1 addition & 1 deletion bacting-core/pom.xml
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Expand Up @@ -4,7 +4,7 @@
<parent>
<artifactId>bacting</artifactId>
<groupId>io.github.egonw.bacting</groupId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</parent>

<artifactId>bacting-core</artifactId>
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32 changes: 16 additions & 16 deletions bundle/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<artifactId>bacting</artifactId>
<groupId>io.github.egonw.bacting</groupId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</parent>

<artifactId>bacting-bundle</artifactId>
Expand All @@ -15,77 +15,77 @@
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>bacting-core</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-ui</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-rdf</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-xml</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>net.bioclipse.managers.wikidata</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-bridgedb</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-biojava</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-cdk</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-cdkdebug</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-chemspider</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-inchi</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-opsin</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-oscar</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-pubchem</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-excel</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
</dependencies>

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4 changes: 2 additions & 2 deletions managers-bioinfo/net.bioclipse.managers.biojava/pom.xml
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Expand Up @@ -4,7 +4,7 @@
<parent>
<artifactId>managers-bioinfo</artifactId>
<groupId>io.github.egonw.bacting</groupId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</parent>

<artifactId>managers-biojava</artifactId>
Expand Down Expand Up @@ -34,7 +34,7 @@
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>bacting-core</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>org.junit.jupiter</groupId>
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6 changes: 3 additions & 3 deletions managers-bioinfo/net.bioclipse.managers.bridgedb/pom.xml
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Expand Up @@ -4,7 +4,7 @@
<parent>
<artifactId>managers-bioinfo</artifactId>
<groupId>io.github.egonw.bacting</groupId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</parent>

<artifactId>managers-bridgedb</artifactId>
Expand Down Expand Up @@ -39,7 +39,7 @@
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>bacting-core</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>org.bridgedb</groupId>
Expand Down Expand Up @@ -97,7 +97,7 @@
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-ui</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
<scope>test</scope>
</dependency>
</dependencies>
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2 changes: 1 addition & 1 deletion managers-bioinfo/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<artifactId>bacting</artifactId>
<groupId>io.github.egonw.bacting</groupId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</parent>

<artifactId>managers-bioinfo</artifactId>
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6 changes: 3 additions & 3 deletions managers-cheminfo/net.bioclipse.managers.cdk/pom.xml
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Expand Up @@ -4,7 +4,7 @@
<parent>
<artifactId>managers-cheminfo</artifactId>
<groupId>io.github.egonw.bacting</groupId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</parent>

<artifactId>managers-cdk</artifactId>
Expand Down Expand Up @@ -34,13 +34,13 @@
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>bacting-core</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-ui</artifactId>
<scope>test</scope>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>xom</groupId>
Expand Down
4 changes: 2 additions & 2 deletions managers-cheminfo/net.bioclipse.managers.cdkdebug/pom.xml
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Expand Up @@ -4,7 +4,7 @@
<parent>
<artifactId>managers-cheminfo</artifactId>
<groupId>io.github.egonw.bacting</groupId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</parent>

<artifactId>managers-cdkdebug</artifactId>
Expand Down Expand Up @@ -34,7 +34,7 @@
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-cdk</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>org.openscience.cdk</groupId>
Expand Down
4 changes: 2 additions & 2 deletions managers-cheminfo/net.bioclipse.managers.chemspider/pom.xml
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Expand Up @@ -4,7 +4,7 @@
<parent>
<artifactId>managers-cheminfo</artifactId>
<groupId>io.github.egonw.bacting</groupId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</parent>

<artifactId>managers-chemspider</artifactId>
Expand Down Expand Up @@ -34,7 +34,7 @@
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-cdk</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>org.junit.jupiter</groupId>
Expand Down
6 changes: 3 additions & 3 deletions managers-cheminfo/net.bioclipse.managers.inchi/pom.xml
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Expand Up @@ -4,7 +4,7 @@
<parent>
<artifactId>managers-cheminfo</artifactId>
<groupId>io.github.egonw.bacting</groupId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</parent>

<artifactId>managers-inchi</artifactId>
Expand Down Expand Up @@ -49,7 +49,7 @@
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>bacting-core</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
Expand Down Expand Up @@ -81,7 +81,7 @@
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-cdk</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
<scope>test</scope>
</dependency>
</dependencies>
Expand Down
6 changes: 3 additions & 3 deletions managers-cheminfo/net.bioclipse.managers.nm/pom.xml
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Expand Up @@ -4,7 +4,7 @@
<parent>
<artifactId>managers-cheminfo</artifactId>
<groupId>io.github.egonw.bacting</groupId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</parent>

<artifactId>managers-nm</artifactId>
Expand Down Expand Up @@ -34,12 +34,12 @@
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>bacting-core</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-cdk</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw</groupId>
Expand Down
6 changes: 3 additions & 3 deletions managers-cheminfo/net.bioclipse.managers.opsin/pom.xml
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Expand Up @@ -4,7 +4,7 @@
<parent>
<artifactId>managers-cheminfo</artifactId>
<groupId>io.github.egonw.bacting</groupId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</parent>

<artifactId>managers-opsin</artifactId>
Expand Down Expand Up @@ -34,12 +34,12 @@
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>bacting-core</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-cdk</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>uk.ac.cam.ch.opsin</groupId>
Expand Down
6 changes: 3 additions & 3 deletions managers-cheminfo/net.bioclipse.managers.oscar/pom.xml
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Expand Up @@ -4,7 +4,7 @@
<parent>
<artifactId>managers-cheminfo</artifactId>
<groupId>io.github.egonw.bacting</groupId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</parent>

<artifactId>managers-oscar</artifactId>
Expand Down Expand Up @@ -34,7 +34,7 @@
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>bacting-core</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>uk.ac.cam.ch.wwmm.oscar</groupId>
Expand Down Expand Up @@ -70,7 +70,7 @@
<dependency>
<groupId>io.github.egonw.bacting</groupId>
<artifactId>managers-cdk</artifactId>
<version>0.5.2-SNAPSHOT</version>
<version>0.5.2</version>
</dependency>
<dependency>
<groupId>net.htmlparser.jericho</groupId>
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