diff --git a/BinaryMetaAnalyzer/pom.xml b/BinaryMetaAnalyzer/pom.xml index 17bc4e383..5163cf601 100644 --- a/BinaryMetaAnalyzer/pom.xml +++ b/BinaryMetaAnalyzer/pom.xml @@ -5,7 +5,7 @@ nl.systemsgenetics systemsgenetics - 1.0.3-SNAPSHOT + 1.0.4-SNAPSHOT BinaryMetaAnalyzer 1.0.16-SNAPSHOT @@ -52,6 +52,7 @@ maven-assembly-plugin + 3.1.1 jar-with-dependencies @@ -76,6 +77,7 @@ org.apache.maven.plugins maven-compiler-plugin + 3.8.1 1.8 1.8 diff --git a/DEPICT2/pom.xml b/DEPICT2/pom.xml index de413284a..f79ec3a5c 100644 --- a/DEPICT2/pom.xml +++ b/DEPICT2/pom.xml @@ -4,7 +4,7 @@ nl.systemsgenetics systemsgenetics - 1.0.3-SNAPSHOT + 1.0.4-SNAPSHOT DEPICT2 2.0.17-SNAPSHOT @@ -47,7 +47,7 @@ org.apache.maven.plugins maven-jar-plugin - 2.3.1 + 3.1.2 @@ -71,7 +71,7 @@ org.apache.maven.plugins maven-compiler-plugin - 2.3.2 + 3.8.1 1.8 1.8 diff --git a/Decon2/Decon-eQTL/pom.xml b/Decon2/Decon-eQTL/pom.xml index ed3f645fa..37e018379 100644 --- a/Decon2/Decon-eQTL/pom.xml +++ b/Decon2/Decon-eQTL/pom.xml @@ -1,99 +1,101 @@ - - 4.0.0 - Decon-eQTL - Decon-eQTL - jar - v1.3.0 - Decon-eQTL - Decon-eQTL is part of Decon2, a statistical framework for estimating cell counts using molecular profiling such as expression or methylation data from heterogeneous samples (Decon-cell) and consecutive deconvolution of expression quantitative trait loci (Decon-eQTL) into each cell subpopulation. - - - - src/main/resources - true - - - - - org.apache.maven.plugins - maven-assembly-plugin - - - package - - single - - - - - - - true - main.java.decon_eQTL.Main - - - - jar-with-dependencies - - - - - org.apache.maven.plugins - maven-compiler-plugin - 3.1 - - 1.8 - 1.8 - - - - maven-jar-plugin - 3.1.1 - - - default-jar - none - - - - - - https://github.com/molgenis/systemsgenetics/tree/master/Decon2/Decon-eQTL - - - org.apache.commons - commons-lang3 - 3.7 - - - net.sf.jsci - jsci - 1.2 - - - commons-cli - commons-cli - 1.4 - - - org.apache.commons - commons-math3 - 3.6.1 - - - commons-io - commons-io - 2.4 - - - org.apache.commons - commons-csv - 1.5 - - - junit - junit - 4.12 - - + + 4.0.0 + Decon-eQTL + Decon-eQTL + jar + v1.3.0 + Decon-eQTL + Decon-eQTL is part of Decon2, a statistical framework for estimating cell counts using molecular profiling such as expression or methylation data from heterogeneous samples (Decon-cell) and consecutive deconvolution of expression quantitative trait loci (Decon-eQTL) into each cell subpopulation. + + + + src/main/resources + true + + + + + org.apache.maven.plugins + maven-assembly-plugin + 3.1.1 + + + package + + single + + + + + + + true + main.java.decon_eQTL.Main + + + + jar-with-dependencies + + + + + org.apache.maven.plugins + maven-compiler-plugin + 3.8.1 + + 1.8 + 1.8 + + + + maven-jar-plugin + 3.1.2 + + + default-jar + none + + + + + + https://github.com/molgenis/systemsgenetics/tree/master/Decon2/Decon-eQTL + + + org.apache.commons + commons-lang3 + 3.7 + + + net.sf.jsci + jsci + 1.2 + + + commons-cli + commons-cli + 1.4 + + + org.apache.commons + commons-math3 + 3.6.1 + + + commons-io + commons-io + 2.4 + + + org.apache.commons + commons-csv + 1.5 + + + junit + junit + 4.12 + + diff --git a/FunctionEnrichmentOfTransQtls/pom.xml b/FunctionEnrichmentOfTransQtls/pom.xml index ad565b87f..158c9489c 100644 --- a/FunctionEnrichmentOfTransQtls/pom.xml +++ b/FunctionEnrichmentOfTransQtls/pom.xml @@ -5,7 +5,7 @@ nl.systemsgenetics systemsgenetics - 1.0.3-SNAPSHOT + 1.0.4-SNAPSHOT FunctionEnrichmentOfTransQtls jar @@ -53,6 +53,7 @@ maven-assembly-plugin + 3.1.1 jar-with-dependencies @@ -77,7 +78,7 @@ org.apache.maven.plugins maven-compiler-plugin - 3.0 + 3.8.1 1.8 1.8 diff --git a/GadoCommandline/pom.xml b/GadoCommandline/pom.xml index bbc7a1925..521af8366 100644 --- a/GadoCommandline/pom.xml +++ b/GadoCommandline/pom.xml @@ -4,7 +4,7 @@ nl.systemsgenetics systemsgenetics - 1.0.3-SNAPSHOT + 1.0.4-SNAPSHOT GadoCommandline 1.0.1 diff --git a/GeneNetworkBackend/pom.xml b/GeneNetworkBackend/pom.xml index 228aec93e..80d2253c1 100644 --- a/GeneNetworkBackend/pom.xml +++ b/GeneNetworkBackend/pom.xml @@ -1,110 +1,112 @@ - - 4.0.0 - - nl.systemsgenetics - systemsgenetics - 1.0.3-SNAPSHOT - - GeneNetworkBackend - 1.0.7-SNAPSHOT - jar - - - - org.apache.maven.plugins - maven-compiler-plugin - 2.3.2 - - 1.8 - 1.8 - - - - maven-assembly-plugin - - - jar-with-dependencies - - - - nl.systemsgenetics.genenetworkbackend.legacy.PredictGenesetMemberBasedOnTCs - true - true - - - - - - package - - single - - - - - - - - - - net.sourceforge.parallelcolt - parallelcolt - 0.11.2-SNAPSHOT - jar - - - net.sf.jsci - jsci - 1.2 - - - com.opencsv - opencsv - 4.0 - - - nl.systemsgenetics - genetica-libraries - 1.0.10-SNAPSHOT - - - org.biojava - biojava-ontology - 4.2.11 - - - org.apache.commons - commons-math3 - 3.6.1 - - - net.sf.trove4j - trove4j - 3.0.3 - + + 4.0.0 + + nl.systemsgenetics + systemsgenetics + 1.0.4-SNAPSHOT + + GeneNetworkBackend + 1.0.7-SNAPSHOT + jar + + + + org.apache.maven.plugins + maven-compiler-plugin + 3.8.1 + + 1.8 + 1.8 + + + + maven-assembly-plugin + 3.1.1 + + + jar-with-dependencies + + + + nl.systemsgenetics.genenetworkbackend.legacy.PredictGenesetMemberBasedOnTCs + true + true + + + + + + package + + single + + + + + + + + + + net.sourceforge.parallelcolt + parallelcolt + 0.11.2-SNAPSHOT + jar + + + net.sf.jsci + jsci + 1.2 + + + com.opencsv + opencsv + 4.0 + + + nl.systemsgenetics + genetica-libraries + 1.0.10-SNAPSHOT + + + org.biojava + biojava-ontology + 4.2.11 + + + org.apache.commons + commons-math3 + 3.6.1 + + + net.sf.trove4j + trove4j + 3.0.3 + - + \ No newline at end of file diff --git a/GeneticRiskScoreCalculator/pom.xml b/GeneticRiskScoreCalculator/pom.xml index 65901c845..edce69ef4 100644 --- a/GeneticRiskScoreCalculator/pom.xml +++ b/GeneticRiskScoreCalculator/pom.xml @@ -6,7 +6,7 @@ nl.systemsgenetics systemsgenetics - 1.0.3-SNAPSHOT + 1.0.4-SNAPSHOT GeneticRiskScoreCalculator 0.1.4.1-SNAPSHOT @@ -54,7 +54,7 @@ org.apache.maven.plugins maven-assembly-plugin - 2.4 + 3.1.1 @@ -76,7 +76,7 @@ org.apache.maven.plugins maven-jar-plugin - 2.3.1 + 3.1.2 @@ -101,7 +101,7 @@ org.apache.maven.plugins maven-compiler-plugin - 2.3.2 + 3.8.1 1.8 1.8 diff --git a/Genotype-Harmonizer/pom.xml b/Genotype-Harmonizer/pom.xml index 7d8a05fdb..e33fa3f8f 100644 --- a/Genotype-Harmonizer/pom.xml +++ b/Genotype-Harmonizer/pom.xml @@ -3,7 +3,7 @@ nl.systemsgenetics systemsgenetics - 1.0.3-SNAPSHOT + 1.0.4-SNAPSHOT 4.0.0 Genotype-Harmonizer diff --git a/Genotype-IO/pom.xml b/Genotype-IO/pom.xml index 1997bcc17..b24d75120 100644 --- a/Genotype-IO/pom.xml +++ b/Genotype-IO/pom.xml @@ -1,158 +1,162 @@ - - nl.systemsgenetics - systemsgenetics - 1.0.3-SNAPSHOT - - 4.0.0 - Genotype-IO - 1.0.6-SNAPSHOT - jar - - - net.sf.opencsv - opencsv - 2.3 - - - commons-io - commons-io - 2.4 - - - org.utgenome.thirdparty - picard - 1.102.0 - - - org.testng - testng - 6.4 - test - - - org.mockito - mockito-all - 1.8.4 - - - org.apache.commons - commons-lang3 - 3.1 - - - log4j - log4j - 1.2.17 - - - com.google.guava - guava - 14.0.1 - - - com.kenai.nbpwr - edu-umd-cs-findbugs-annotations - 1.3.2-201002241900 - - - com.google.code.findbugs - jsr305 - 2.0.1 - - - net.sf.trove4j - trove4j - 3.0.3 - - - commons-cli - commons-cli - 1.2 - - - org.xerial - sqlite-jdbc - 3.20.1 - test - - - com.facebook.presto - presto-orc - 0.188-SNAPSHOT - jar - - - com.facebook.presto.hive - hive-apache - - - - - - UTF-8 - - - - - org.apache.maven.plugins - maven-compiler-plugin - 2.3.2 - - UTF-8 - 8 - 8 - - - - maven-assembly-plugin - - - jar-with-dependencies - - - - org.molgenis.genotype.GenotypeInfo - true - true - - - - - - package - - single - - - - - - - - - netbeans-private-testng - - - netbeans.testng.action - - - - - - org.apache.maven.plugins - maven-surefire-plugin - 2.10 - - - target/nb-private/testng-suite.xml - - - - - - - - Genotype IO + xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd"> + + nl.systemsgenetics + systemsgenetics + 1.0.4-SNAPSHOT + + 4.0.0 + Genotype-IO + 1.0.6-SNAPSHOT + jar + + UTF-8 + UTF-8 + + + + net.sf.opencsv + opencsv + 2.3 + + + commons-io + commons-io + 2.4 + + + org.utgenome.thirdparty + picard + 1.102.0 + + + org.testng + testng + 6.4 + test + + + org.mockito + mockito-all + 1.8.4 + + + org.apache.commons + commons-lang3 + 3.1 + + + log4j + log4j + 1.2.17 + + + com.google.guava + guava + 14.0.1 + + + com.kenai.nbpwr + edu-umd-cs-findbugs-annotations + 1.3.2-201002241900 + + + com.google.code.findbugs + jsr305 + 2.0.1 + + + net.sf.trove4j + trove4j + 3.0.3 + + + commons-cli + commons-cli + 1.2 + + + org.xerial + sqlite-jdbc + 3.20.1 + test + + + com.facebook.presto + presto-orc + 0.188-SNAPSHOT + jar + + + com.facebook.presto.hive + hive-apache + + + + + + + + org.apache.maven.plugins + maven-compiler-plugin + 3.8.1 + + UTF-8 + 8 + 8 + + + + maven-assembly-plugin + 3.1.1 + + UTF-8 + + jar-with-dependencies + + + + org.molgenis.genotype.GenotypeInfo + true + true + + + + + + package + + single + + + + + + + + + netbeans-private-testng + + + netbeans.testng.action + + + + + + org.apache.maven.plugins + maven-surefire-plugin + 2.10 + + UTF-8 + + target/nb-private/testng-suite.xml + + + + + + + + Genotype IO \ No newline at end of file diff --git a/MetaGenomicDataProcessing/pom.xml b/MetaGenomicDataProcessing/pom.xml index 8941f69f2..d101e9128 100644 --- a/MetaGenomicDataProcessing/pom.xml +++ b/MetaGenomicDataProcessing/pom.xml @@ -5,7 +5,7 @@ nl.systemsgenetics systemsgenetics - 1.0.3-SNAPSHOT + 1.0.4-SNAPSHOT MetaGenomicDataProcessing MetaGenomicDataProcessing @@ -31,6 +31,7 @@ org.apache.maven.plugins maven-compiler-plugin + 3.8.1 1.7 1.7 diff --git a/cellTypeSpecificAlleleSpecificExpression/pom.xml b/cellTypeSpecificAlleleSpecificExpression/pom.xml index 2829b1f48..2d61bb4fd 100644 --- a/cellTypeSpecificAlleleSpecificExpression/pom.xml +++ b/cellTypeSpecificAlleleSpecificExpression/pom.xml @@ -4,7 +4,7 @@ nl.systemsgenetics systemsgenetics - 1.0.3-SNAPSHOT + 1.0.4-SNAPSHOT (Covariate Specific) Allele Specific Expression @@ -69,6 +69,7 @@ maven-assembly-plugin + 3.1.1 package @@ -91,6 +92,7 @@ org.apache.maven.plugins maven-compiler-plugin + 3.8.1 1.8 1.8 diff --git a/eQTLInteractionAnalyser/pom.xml b/eQTLInteractionAnalyser/pom.xml index 1cc5c9ad0..1709af14f 100644 --- a/eQTLInteractionAnalyser/pom.xml +++ b/eQTLInteractionAnalyser/pom.xml @@ -1,99 +1,95 @@ - - 4.0.0 - - nl.systemsgenetics - systemsgenetics - 1.0.3-SNAPSHOT - - eQTLInteractionAnalyser - 1.2-SNAPSHOT - eQTLInteractionAnalyser - http://maven.apache.org - - UTF-8 - - - - net.sf.jsci - jsci - 1.2 - - - org.apache.commons - commons-math3 - 3.2 - - - net.sourceforge.parallelcolt - parallelcolt - 0.10.0 - - - gov.nist.math.jama - gov.nist.math.jama - 1.1.1 - - - junit - junit - 3.8.1 - test - - - nl.systemsgenetics - genetica-libraries - 1.0.10-SNAPSHOT - - - com.opencsv - opencsv - 3.4 - + + 4.0.0 + + nl.systemsgenetics + systemsgenetics + 1.0.4-SNAPSHOT + + eQTLInteractionAnalyser + 1.2-SNAPSHOT + eQTLInteractionAnalyser + http://maven.apache.org + + UTF-8 + + + + net.sf.jsci + jsci + 1.2 + + + org.apache.commons + commons-math3 + 3.2 + + + net.sourceforge.parallelcolt + parallelcolt + 0.10.0 + + + gov.nist.math.jama + gov.nist.math.jama + 1.1.1 + + + junit + junit + 3.8.1 + test + + + nl.systemsgenetics + genetica-libraries + 1.0.10-SNAPSHOT + + + com.opencsv + opencsv + 3.4 + - - - - - org.apache.maven.plugins - maven-compiler-plugin - 2.3.2 - - UTF-8 - - - - maven-assembly-plugin - - - jar-with-dependencies - - - - nl.systemsgenetics.eqtlinteractionanalyser.eqtlinteractionanalyser.EQTLInteractionAnalyser - true - true - - - - - - package - - single - - - - - - org.apache.maven.plugins - maven-compiler-plugin - - 1.8 - 1.8 - - - - + + + + + org.apache.maven.plugins + maven-compiler-plugin + 3.8.1 + + UTF-8 + 1.8 + 1.8 + + + + maven-assembly-plugin + 3.1.1 + + + jar-with-dependencies + + + + nl.systemsgenetics.eqtlinteractionanalyser.eqtlinteractionanalyser.EQTLInteractionAnalyser + true + true + + + + + + package + + single + + + + + + diff --git a/eqtl-functional-enrichment/pom.xml b/eqtl-functional-enrichment/pom.xml index 38e7b65d5..b730801f0 100644 --- a/eqtl-functional-enrichment/pom.xml +++ b/eqtl-functional-enrichment/pom.xml @@ -1,108 +1,110 @@ - - nl.systemsgenetics - systemsgenetics - 1.0.3-SNAPSHOT - - 4.0.0 - eqtl-functional-enrichment - 0.0.4-SNAPSHOT - eqtl-functional-enrichment - jar - - - nl.systemsgenetics - Genotype-IO - 1.0.6-SNAPSHOT - - - ${project.groupId} - genetica-libraries - 1.0.10-SNAPSHOT - - - commons-cli - commons-cli - 1.2 - - - log4j - log4j - 1.2.17 - - - org.testng - testng - 6.5.2 - test - - + xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd"> + + nl.systemsgenetics + systemsgenetics + 1.0.4-SNAPSHOT + + 4.0.0 + eqtl-functional-enrichment + 0.0.4-SNAPSHOT + eqtl-functional-enrichment + jar + + + nl.systemsgenetics + Genotype-IO + 1.0.6-SNAPSHOT + + + ${project.groupId} + genetica-libraries + 1.0.10-SNAPSHOT + + + commons-cli + commons-cli + 1.2 + + + log4j + log4j + 1.2.17 + + + org.testng + testng + 6.5.2 + test + + - - UTF-8 - + + UTF-8 + - - - - org.apache.maven.plugins - maven-compiler-plugin - 2.3.2 - - UTF-8 - 1.7 - 1.7 - - - - maven-assembly-plugin - - - jar-with-dependencies - - - - nl.systemsgenetics.eqtlpermutationtranscriptionfactoranalysis.EQtlPermutationTranscriptionFactorAnalysis - true - true - - - - - - package - - single - - - - - + + + + org.apache.maven.plugins + maven-compiler-plugin + 3.8.1 + + UTF-8 + 1.7 + 1.7 + + + + maven-assembly-plugin + 3.1.1 + + UTF-8 + + jar-with-dependencies + + + + nl.systemsgenetics.eqtlpermutationtranscriptionfactoranalysis.EQtlPermutationTranscriptionFactorAnalysis + true + true + + + + + + package + + single + + + + + - - - - netbeans-private-testng - - - netbeans.testng.action - - - - - - org.apache.maven.plugins - maven-surefire-plugin - 2.11 - - - target/nb-private/testng-suite.xml - - - - - - - + + + + netbeans-private-testng + + + netbeans.testng.action + + + + + + org.apache.maven.plugins + maven-surefire-plugin + 3.0.0-M3 + + + target/nb-private/testng-suite.xml + + + + + + + \ No newline at end of file diff --git a/eqtl-mapping-pipeline/pom.xml b/eqtl-mapping-pipeline/pom.xml index 96ce5c2da..e84e7e3e3 100644 --- a/eqtl-mapping-pipeline/pom.xml +++ b/eqtl-mapping-pipeline/pom.xml @@ -4,7 +4,7 @@ nl.systemsgenetics systemsgenetics - 1.0.3-SNAPSHOT + 1.0.4-SNAPSHOT eqtl-mapping-pipeline 1.4.6-SNAPSHOT @@ -86,28 +86,25 @@ javax.xml.bind jaxb-api - 2.2.11 + 2.3.1 com.sun.xml.bind jaxb-core - 2.2.11 + 2.3.0.1 com.sun.xml.bind jaxb-impl - 2.2.11 - - - javax.activation - activation - 1.1.1 + 2.4.0-b180830.0438 + org.rosuda.REngine Rserve 1.8.2-SNAPSHOT + @@ -125,7 +122,7 @@ org.apache.maven.plugins maven-assembly-plugin - 2.4 + 3.1.1 @@ -147,7 +144,7 @@ org.apache.maven.plugins maven-jar-plugin - 2.4 + 3.1.2 @@ -171,7 +168,7 @@ org.apache.maven.plugins maven-compiler-plugin - 3.0 + 3.8.1 1.8 1.8 diff --git a/eqtl-mapping-pipeline/src/main/assembly/assembly.xml b/eqtl-mapping-pipeline/src/main/assembly/assembly.xml index 5067b62d1..b036f4591 100644 --- a/eqtl-mapping-pipeline/src/main/assembly/assembly.xml +++ b/eqtl-mapping-pipeline/src/main/assembly/assembly.xml @@ -22,30 +22,30 @@ README.md - / + ./ LICENSE - / + ./ ${project.build.directory}/eqtl-mapping-pipeline-${project.version}.jar - / + ./ eqtl-mapping-pipeline.jar src/main/resources/cisSnps.txt.gz - / + ./ cisSnps.txt.gz src/main/resources/settings.xml - / + ./ settings.xml src/main/resources/transSnps.txt.gz - / + ./ transSnps.txt.gz @@ -58,14 +58,14 @@ --> ${project.build.scriptSourceDirectory} - / + ./ settings.xml src/main/resources/GeuvadisTestData - /GeuvadisTestData + ./GeuvadisTestData * diff --git a/genetica-libraries/pom.xml b/genetica-libraries/pom.xml index ce0a473ed..cddd7a578 100644 --- a/genetica-libraries/pom.xml +++ b/genetica-libraries/pom.xml @@ -4,7 +4,7 @@ nl.systemsgenetics systemsgenetics - 1.0.3-SNAPSHOT + 1.0.4-SNAPSHOT genetica-libraries 1.0.10-SNAPSHOT diff --git a/imputation-tool/pom.xml b/imputation-tool/pom.xml index eec57f63b..40918c59d 100644 --- a/imputation-tool/pom.xml +++ b/imputation-tool/pom.xml @@ -4,7 +4,7 @@ nl.systemsgenetics systemsgenetics - 1.0.3-SNAPSHOT + 1.0.4-SNAPSHOT imputation-tool 1.0.5-SNAPSHOT @@ -21,6 +21,7 @@ maven-assembly-plugin + 3.1.1 jar-with-dependencies @@ -46,6 +47,7 @@ org.apache.maven.plugins maven-compiler-plugin + 3.8.1 1.8 1.8 diff --git a/javaPoCA/pom.xml b/javaPoCA/pom.xml index 102da781e..f732ceeb8 100644 --- a/javaPoCA/pom.xml +++ b/javaPoCA/pom.xml @@ -4,7 +4,7 @@ nl.systemsgenetics systemsgenetics - 1.0.3-SNAPSHOT + 1.0.4-SNAPSHOT javaPCoA 1.0.7-SNAPSHOT @@ -36,6 +36,7 @@ maven-assembly-plugin + 3.1.1 jar-with-dependencies @@ -61,7 +62,7 @@ org.apache.maven.plugins maven-compiler-plugin - 2.3.2 + 3.8.1 1.7 1.7 diff --git a/pom.xml b/pom.xml index 75d9bb92c..2dc116657 100644 --- a/pom.xml +++ b/pom.xml @@ -1,94 +1,108 @@ - - 4.0.0 - - org.sonatype.oss - oss-parent - 9 - - nl.systemsgenetics - systemsgenetics - 1.0.4 - pom - - UTF-8 - UTF-8 - - - - - - - org.apache.maven.plugins - maven-compiler-plugin - 3.0 - - 1.6 - 1.6 - - - - - - - org.apache.maven.plugins - maven-site-plugin - 3.3 - - - org.apache.maven.plugins - maven-javadoc-plugin - 2.10.1 - - -Xdoclint:none - - - - - - - - - - org.codehaus.mojo - cobertura-maven-plugin - 2.6 - - true - - html - xml - - - - - - org.codehaus.mojo - findbugs-maven-plugin - 3.0.0 - - true - - - - - - genetica-libraries - imputation-tool - eqtl-mapping-pipeline - Genotype-IO - GadoCommandline - Genotype-Harmonizer - eqtl-functional-enrichment - GeneticRiskScoreCalculator - BinaryMetaAnalyzer - eQTLInteractionAnalyser - javaPoCA - cellTypeSpecificAlleleSpecificExpression - MetaGenomicDataProcessing - GeneNetworkBackend - Decon2/Decon-eQTL - FunctionEnrichmentOfTransQtls - DEPICT2 - + + 4.0.0 + + org.sonatype.oss + oss-parent + 9 + + nl.systemsgenetics + systemsgenetics + 1.0.4-SNAPSHOT + pom + + UTF-8 + UTF-8 + + + + + + + org.apache.maven.plugins + maven-compiler-plugin + 3.8.1 + + 1.6 + 1.6 + + + + + + + org.apache.maven.plugins + maven-site-plugin + 3.3 + + + org.apache.maven.plugins + maven-javadoc-plugin + 3.1.1 + + -Xdoclint:none + + + + + + + + TUDelft + TUDelft + https://simulation.tudelft.nl/maven/ + + + Maven Central + Maven Central + https://repo1.maven.org/maven2/ + + + + + + + org.codehaus.mojo + cobertura-maven-plugin + 2.7 + + true + + html + xml + + + + + + org.codehaus.mojo + findbugs-maven-plugin + 3.0.5 + + true + + + + + + genetica-libraries + imputation-tool + eqtl-mapping-pipeline + Genotype-IO + GadoCommandline + Genotype-Harmonizer + eqtl-functional-enrichment + GeneticRiskScoreCalculator + BinaryMetaAnalyzer + eQTLInteractionAnalyser + javaPoCA + cellTypeSpecificAlleleSpecificExpression + MetaGenomicDataProcessing + GeneNetworkBackend + Decon2/Decon-eQTL + FunctionEnrichmentOfTransQtls + DEPICT2 +