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biopet.biopet
Commits
1ef9b735
Commit
1ef9b735
authored
Apr 25, 2017
by
pjvan_thof
Browse files
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Plain Diff
Bump to 0.9.0-RC1
parent
6a6c8673
Changes
26
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26 changed files
with
31 additions
and
32 deletions
+31
-32
bam2wig/pom.xml
bam2wig/pom.xml
+1
-1
bammetrics/pom.xml
bammetrics/pom.xml
+1
-1
basty/pom.xml
basty/pom.xml
+1
-1
biopet-core/pom.xml
biopet-core/pom.xml
+3
-3
biopet-extensions/pom.xml
biopet-extensions/pom.xml
+1
-1
biopet-package/pom.xml
biopet-package/pom.xml
+1
-1
biopet-tools-extensions/pom.xml
biopet-tools-extensions/pom.xml
+1
-1
biopet-tools-package/pom.xml
biopet-tools-package/pom.xml
+1
-1
biopet-tools/pom.xml
biopet-tools/pom.xml
+1
-1
biopet-utils/pom.xml
biopet-utils/pom.xml
+1
-1
bump-version.sh
bump-version.sh
+1
-2
carp/pom.xml
carp/pom.xml
+1
-1
docs/examples/pom.xml
docs/examples/pom.xml
+1
-1
external-example/pom.xml
external-example/pom.xml
+4
-4
flexiprep/pom.xml
flexiprep/pom.xml
+1
-1
gears/pom.xml
gears/pom.xml
+1
-1
generate-indexes/pom.xml
generate-indexes/pom.xml
+1
-1
gentrap/pom.xml
gentrap/pom.xml
+1
-1
gwas-test/pom.xml
gwas-test/pom.xml
+1
-1
kopisu/pom.xml
kopisu/pom.xml
+1
-1
mapping/pom.xml
mapping/pom.xml
+1
-1
pom.xml
pom.xml
+1
-1
sage/pom.xml
sage/pom.xml
+1
-1
shiva/pom.xml
shiva/pom.xml
+1
-1
tinycap/pom.xml
tinycap/pom.xml
+1
-1
toucan/pom.xml
toucan/pom.xml
+1
-1
No files found.
bam2wig/pom.xml
View file @
1ef9b735
...
...
@@ -26,7 +26,7 @@
<parent>
<groupId>
nl.lumc.sasc
</groupId>
<artifactId>
Biopet
</artifactId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
...
...
bammetrics/pom.xml
View file @
1ef9b735
...
...
@@ -24,7 +24,7 @@
<parent>
<groupId>
nl.lumc.sasc
</groupId>
<artifactId>
Biopet
</artifactId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
...
...
basty/pom.xml
View file @
1ef9b735
...
...
@@ -31,7 +31,7 @@
<parent>
<groupId>
nl.lumc.sasc
</groupId>
<artifactId>
Biopet
</artifactId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
...
...
biopet-core/pom.xml
View file @
1ef9b735
...
...
@@ -21,7 +21,7 @@
<parent>
<artifactId>
Biopet
</artifactId>
<groupId>
nl.lumc.sasc
</groupId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
<modelVersion>
4.0.0
</modelVersion>
...
...
@@ -38,7 +38,7 @@
<dependency>
<groupId>
org.broadinstitute.gatk
</groupId>
<artifactId>
gatk-queue
</artifactId>
<version>
3.6
</version>
<version>
0.9.0
</version>
<exclusions>
<exclusion>
<groupId>
org.broadinstitute.gatk
</groupId>
...
...
@@ -49,7 +49,7 @@
<dependency>
<groupId>
org.broadinstitute.gatk
</groupId>
<artifactId>
gatk-queue-extensions-public
</artifactId>
<version>
3.6
</version>
<version>
0.9.0
</version>
</dependency>
</dependencies>
...
...
biopet-extensions/pom.xml
View file @
1ef9b735
...
...
@@ -21,7 +21,7 @@
<parent>
<artifactId>
Biopet
</artifactId>
<groupId>
nl.lumc.sasc
</groupId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
</parent>
<modelVersion>
4.0.0
</modelVersion>
...
...
biopet-package/pom.xml
View file @
1ef9b735
...
...
@@ -24,7 +24,7 @@
<parent>
<groupId>
nl.lumc.sasc
</groupId>
<artifactId>
Biopet
</artifactId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
...
...
biopet-tools-extensions/pom.xml
View file @
1ef9b735
...
...
@@ -21,7 +21,7 @@
<parent>
<artifactId>
Biopet
</artifactId>
<groupId>
nl.lumc.sasc
</groupId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
</parent>
<modelVersion>
4.0.0
</modelVersion>
...
...
biopet-tools-package/pom.xml
View file @
1ef9b735
...
...
@@ -21,7 +21,7 @@
<parent>
<artifactId>
Biopet
</artifactId>
<groupId>
nl.lumc.sasc
</groupId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
</parent>
<modelVersion>
4.0.0
</modelVersion>
...
...
biopet-tools/pom.xml
View file @
1ef9b735
...
...
@@ -21,7 +21,7 @@
<parent>
<artifactId>
Biopet
</artifactId>
<groupId>
nl.lumc.sasc
</groupId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
<modelVersion>
4.0.0
</modelVersion>
...
...
biopet-utils/pom.xml
View file @
1ef9b735
...
...
@@ -21,7 +21,7 @@
<parent>
<artifactId>
Biopet
</artifactId>
<groupId>
nl.lumc.sasc
</groupId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
<modelVersion>
4.0.0
</modelVersion>
...
...
bump-version.sh
View file @
1ef9b735
...
...
@@ -21,8 +21,7 @@ if [ ! $1 ] ; then
exit
1
fi
for
POM
in
`
find
$DIR
-name
"pom.xml"
`
do
mvn
-f
$
POM
versions:set
-DnewVersion
=
$1
-DgenerateBackupPoms
=
false
mvn
-f
$
DIR
/pom.xml
versions:set
-DnewVersion
=
$1
-DgenerateBackupPoms
=
false
done
carp/pom.xml
View file @
1ef9b735
...
...
@@ -24,7 +24,7 @@
<parent>
<groupId>
nl.lumc.sasc
</groupId>
<artifactId>
Biopet
</artifactId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
...
...
docs/examples/pom.xml
View file @
1ef9b735
...
...
@@ -22,7 +22,7 @@
<groupId>
path.to.your
</groupId>
<artifactId>
MyProject
</artifactId>
<version>
0.
8.0-SNAPSHOT
</version>
<version>
0.
9.0
</version>
<properties>
<project.build.sourceEncoding>
UTF-8
</project.build.sourceEncoding>
...
...
external-example/pom.xml
View file @
1ef9b735
...
...
@@ -27,7 +27,7 @@
<artifactId>
ExternalExample
</artifactId>
<!--TODO: replace version, for a new pipeline it's advised to start with '0.1.0-SNAPSHOT' -->
<version>
0.
8.0-SNAPSHOT
</version>
<version>
0.
9.0
</version>
<properties>
<project.build.sourceEncoding>
UTF-8
</project.build.sourceEncoding>
...
...
@@ -56,19 +56,19 @@
<artifactId>
BiopetCore
</artifactId>
<!--TODO: replace version of pipeline to a fixed version -->
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
</dependency>
<dependency>
<groupId>
nl.lumc.sasc
</groupId>
<artifactId>
BiopetExtensions
</artifactId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
</dependency>
<dependency>
<groupId>
nl.lumc.sasc
</groupId>
<artifactId>
Shiva
</artifactId>
<!--TODO: replace version of pipeline to a fixed version -->
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
</dependency>
</dependencies>
...
...
flexiprep/pom.xml
View file @
1ef9b735
...
...
@@ -24,7 +24,7 @@
<parent>
<groupId>
nl.lumc.sasc
</groupId>
<artifactId>
Biopet
</artifactId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
...
...
gears/pom.xml
View file @
1ef9b735
...
...
@@ -21,7 +21,7 @@
<parent>
<artifactId>
Biopet
</artifactId>
<groupId>
nl.lumc.sasc
</groupId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
<modelVersion>
4.0.0
</modelVersion>
...
...
generate-indexes/pom.xml
View file @
1ef9b735
...
...
@@ -26,7 +26,7 @@
<parent>
<groupId>
nl.lumc.sasc
</groupId>
<artifactId>
Biopet
</artifactId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
...
...
gentrap/pom.xml
View file @
1ef9b735
...
...
@@ -24,7 +24,7 @@
<parent>
<groupId>
nl.lumc.sasc
</groupId>
<artifactId>
Biopet
</artifactId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
...
...
gwas-test/pom.xml
View file @
1ef9b735
...
...
@@ -26,7 +26,7 @@
<parent>
<groupId>
nl.lumc.sasc
</groupId>
<artifactId>
Biopet
</artifactId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
...
...
kopisu/pom.xml
View file @
1ef9b735
...
...
@@ -24,7 +24,7 @@
<parent>
<groupId>
nl.lumc.sasc
</groupId>
<artifactId>
Biopet
</artifactId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
...
...
mapping/pom.xml
View file @
1ef9b735
...
...
@@ -24,7 +24,7 @@
<parent>
<groupId>
nl.lumc.sasc
</groupId>
<artifactId>
Biopet
</artifactId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
...
...
pom.xml
View file @
1ef9b735
...
...
@@ -21,7 +21,7 @@
<groupId>
nl.lumc.sasc
</groupId>
<name>
Biopet
</name>
<packaging>
pom
</packaging>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<modules>
<module>
gatk
</module>
...
...
sage/pom.xml
View file @
1ef9b735
...
...
@@ -24,7 +24,7 @@
<parent>
<groupId>
nl.lumc.sasc
</groupId>
<artifactId>
Biopet
</artifactId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
...
...
shiva/pom.xml
View file @
1ef9b735
...
...
@@ -21,7 +21,7 @@
<parent>
<artifactId>
Biopet
</artifactId>
<groupId>
nl.lumc.sasc
</groupId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
</parent>
<modelVersion>
4.0.0
</modelVersion>
...
...
tinycap/pom.xml
View file @
1ef9b735
...
...
@@ -21,7 +21,7 @@
<parent>
<artifactId>
Biopet
</artifactId>
<groupId>
nl.lumc.sasc
</groupId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
</parent>
<modelVersion>
4.0.0
</modelVersion>
...
...
toucan/pom.xml
View file @
1ef9b735
...
...
@@ -24,7 +24,7 @@
<parent>
<groupId>
nl.lumc.sasc
</groupId>
<artifactId>
Biopet
</artifactId>
<version>
0.9.0-
SNAPSHOT
</version>
<version>
0.9.0-
RC1
</version>
<relativePath>
../
</relativePath>
</parent>
...
...
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