4.0.0 jar org.dishevelled dsh-bio 4.0 dsh-bio-tools dsh-bio-tools Command line tools. org.dishevelled dsh-bio-align ${project.version} org.dishevelled dsh-bio-alignment ${project.version} org.dishevelled dsh-bio-assembly ${project.version} org.dishevelled dsh-bio-feature ${project.version} org.dishevelled dsh-bio-protein ${project.version} org.dishevelled dsh-bio-range ${project.version} org.dishevelled dsh-bio-read ${project.version} org.dishevelled dsh-bio-variant ${project.version} com.github.davidmoten rtree compile com.google.cloud google-cloud-nio runtime com.google.code.findbugs jsr305 compile com.google.guava guava compile commons-io commons-io compile junit junit test org.apache.commons commons-csv compile org.apache.commons commons-math3 compile org.biojava alignment compile org.biojava core compile org.biojava sequencing compile org.dishevelled dsh-commandline compile org.dishevelled dsh-compress compile org.dishevelled dsh-bio-align compile org.dishevelled dsh-bio-alignment compile org.dishevelled dsh-bio-assembly compile org.dishevelled dsh-bio-feature compile org.dishevelled dsh-bio-protein compile org.dishevelled dsh-bio-range compile org.dishevelled dsh-bio-read compile org.dishevelled dsh-bio-variant compile org.duckdb duckdb_jdbc compile org.slf4j slf4j-api compile software.amazon.nio.s3 aws-java-nio-spi-for-s3 runtime org.slf4j slf4j-simple runtime org.codehaus.mojo templating-maven-plugin filter-src filter-sources pl.project13.maven git-commit-id-plugin revision org.codehaus.mojo appassembler-maven-plugin --enable-native-access=ALL-UNNAMED flat lib dsh-bin-fastq-quality-scores org.dishevelled.bio.tools.BinFastqQualityScores dsh-compress-bed org.dishevelled.bio.tools.CompressBed dsh-compress-fasta org.dishevelled.bio.tools.CompressFasta dsh-compress-fastq org.dishevelled.bio.tools.CompressFastq dsh-compress-gaf org.dishevelled.bio.tools.CompressGaf dsh-compress-gfa1 org.dishevelled.bio.tools.CompressGfa1 dsh-compress-gfa2 org.dishevelled.bio.tools.CompressGfa2 dsh-compress-gff3 org.dishevelled.bio.tools.CompressGff3 dsh-compress-vcf org.dishevelled.bio.tools.CompressVcf dsh-compress-paf org.dishevelled.bio.tools.CompressPaf dsh-compress-rgfa org.dishevelled.bio.tools.CompressRgfa dsh-compress-sam org.dishevelled.bio.tools.CompressSam dsh-count-fastq org.dishevelled.bio.tools.CountFastq dsh-create-sequence-dictionary org.dishevelled.bio.tools.CreateSequenceDictionary dsh-disinterleave-fastq org.dishevelled.bio.tools.DisinterleaveFastq dsh-downsample-fastq org.dishevelled.bio.tools.DownsampleFastq dsh-downsample-interleaved-fastq org.dishevelled.bio.tools.DownsampleInterleavedFastq dsh-export-segments org.dishevelled.bio.tools.ExportSegments dsh-extract-fasta-kmers org.dishevelled.bio.tools.ExtractFastaKmers dsh-extract-fasta-kmers-to-parquet org.dishevelled.bio.tools.ExtractFastaKmersToParquet dsh-extract-fasta-kmers-to-partitioned-parquet org.dishevelled.bio.tools.ExtractFastaKmersToPartitionedParquet dsh-extract-fastq org.dishevelled.bio.tools.ExtractFastq dsh-extract-fastq-by-length org.dishevelled.bio.tools.ExtractFastqByLength dsh-extract-uniprot-features org.dishevelled.bio.tools.ExtractUniprotFeatures dsh-extract-uniprot-features-to-parquet org.dishevelled.bio.tools.ExtractUniprotFeaturesToParquet dsh-extract-uniprot-features-to-partitioned-parquet org.dishevelled.bio.tools.ExtractUniprotFeaturesToPartitionedParquet dsh-extract-uniprot-sequences org.dishevelled.bio.tools.ExtractUniprotSequences dsh-fasta-to-fastq org.dishevelled.bio.tools.FastaToFastq dsh-fasta-to-pangenome org.dishevelled.bio.tools.FastaToPangenome dsh-fasta-to-pangenome-tree org.dishevelled.bio.tools.FastaToPangenomeTree dsh-fasta-index-to-pangenome org.dishevelled.bio.tools.FastaIndexToPangenome dsh-fasta-index-to-pangenome-tree org.dishevelled.bio.tools.FastaIndexToPangenomeTree dsh-fasta-to-parquet org.dishevelled.bio.tools.FastaToParquet dsh-fasta-to-partitioned-parquet org.dishevelled.bio.tools.FastaToPartitionedParquet dsh-fasta-to-text org.dishevelled.bio.tools.FastaToText dsh-fastq-description org.dishevelled.bio.tools.FastqDescription dsh-fastq-sequence-length org.dishevelled.bio.tools.FastqSequenceLength dsh-fastq-to-bam org.dishevelled.bio.tools.FastqToBam dsh-fastq-to-fasta org.dishevelled.bio.tools.FastqToFasta dsh-fastq-to-parquet org.dishevelled.bio.tools.FastqToParquet dsh-fastq-to-partitioned-parquet org.dishevelled.bio.tools.FastqToPartitionedParquet dsh-fastq-to-text org.dishevelled.bio.tools.FastqToText dsh-filter-bed org.dishevelled.bio.tools.FilterBed dsh-filter-fasta org.dishevelled.bio.tools.FilterFasta dsh-filter-fastq org.dishevelled.bio.tools.FilterFastq dsh-filter-gaf org.dishevelled.bio.tools.FilterGaf dsh-filter-gfa1 org.dishevelled.bio.tools.FilterGfa1 dsh-filter-gfa2 org.dishevelled.bio.tools.FilterGfa2 dsh-filter-gff3 org.dishevelled.bio.tools.FilterGff3 dsh-filter-paf org.dishevelled.bio.tools.FilterPaf dsh-filter-rgfa org.dishevelled.bio.tools.FilterRgfa dsh-filter-sam org.dishevelled.bio.tools.FilterSam dsh-filter-vcf org.dishevelled.bio.tools.FilterVcf dsh-gfa1-to-gfa2 org.dishevelled.bio.tools.Gfa1ToGfa2 dsh-gff3-to-bed org.dishevelled.bio.tools.Gff3ToBed dsh-identify-gfa1 org.dishevelled.bio.tools.IdentifyGfa1 dsh-interleave-fastq org.dishevelled.bio.tools.InterleaveFastq dsh-interleaved-fastq-to-bam org.dishevelled.bio.tools.InterleavedFastqToBam dsh-links-to-cytoscape-edges org.dishevelled.bio.tools.LinksToCytoscapeEdges dsh-links-to-property-graph org.dishevelled.bio.tools.LinksToPropertyGraph dsh-list-filesystems org.dishevelled.bio.tools.ListFilesystems dsh-parquet-reads-to-fastq org.dishevelled.bio.tools.ParquetReadsToFastq dsh-parquet-sequences-to-fasta org.dishevelled.bio.tools.ParquetSequencesToFasta dsh-reassemble-paths org.dishevelled.bio.tools.ReassemblePaths dsh-remap-dbsnp org.dishevelled.bio.tools.RemapDbSnp dsh-remap-phase-set org.dishevelled.bio.tools.RemapPhaseSet dsh-rename-bed-references org.dishevelled.bio.tools.RenameBedReferences dsh-rename-gff3-references org.dishevelled.bio.tools.RenameGff3References dsh-rename-vcf-references org.dishevelled.bio.tools.RenameVcfReferences dsh-segments-to-cytoscape-nodes org.dishevelled.bio.tools.SegmentsToCytoscapeNodes dsh-segments-to-property-graph org.dishevelled.bio.tools.SegmentsToPropertyGraph dsh-split-bed org.dishevelled.bio.tools.SplitBed dsh-split-fasta org.dishevelled.bio.tools.SplitFasta dsh-split-fastq org.dishevelled.bio.tools.SplitFastq dsh-split-gaf org.dishevelled.bio.tools.SplitGaf dsh-split-gff3 org.dishevelled.bio.tools.SplitGff3 dsh-split-interleaved-fastq org.dishevelled.bio.tools.SplitInterleavedFastq dsh-split-paf org.dishevelled.bio.tools.SplitPaf dsh-split-sam org.dishevelled.bio.tools.SplitSam dsh-split-vcf org.dishevelled.bio.tools.SplitVcf dsh-summarize-uniprot-entries org.dishevelled.bio.tools.SummarizeUniprotEntries dsh-summarize-uniprot-entries-to-parquet org.dishevelled.bio.tools.SummarizeUniprotEntriesToParquet dsh-text-to-fasta org.dishevelled.bio.tools.TextToFasta dsh-text-to-fastq org.dishevelled.bio.tools.TextToFastq dsh-traversals-to-cytoscape-edges org.dishevelled.bio.tools.TraversalsToCytoscapeEdges dsh-traversals-to-property-graph org.dishevelled.bio.tools.TraversalsToPropertyGraph dsh-traverse-paths org.dishevelled.bio.tools.TraversePaths dsh-truncate-fasta org.dishevelled.bio.tools.TruncateFasta dsh-truncate-paths org.dishevelled.bio.tools.TruncatePaths dsh-variant-table-to-vcf org.dishevelled.bio.tools.EnsemblVariantTableToVcf dsh-vcf-header org.dishevelled.bio.tools.VcfHeader dsh-vcf-pedigree org.dishevelled.bio.tools.VcfPedigree dsh-vcf-samples org.dishevelled.bio.tools.VcfSamples dsh-vcf-to-parquet org.dishevelled.bio.tools.VcfToParquet dsh-vcf-to-partitioned-parquet org.dishevelled.bio.tools.VcfToPartitionedParquet dsh-bio org.dishevelled.bio.tools.Tools package assemble org.apache.maven.plugins maven-assembly-plugin src/main/assembly/assembly.xml posix package single org.codehaus.mojo build-helper-maven-plugin timestamp-property timestamp-property build-helper-maven-plugin.build.timestamp yyyy-MM-dd en_US