haplogrep-cmd
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java.nio.file.DirectoryNotEmptyException
Hello,when I run haplogrep in Linux, I will meet an exception.
''''' mtDNA Haplogroup Classifiction v2.4.0 https://github.com/seppinho/haplogrep-cmd (c) Sebastian Schönherr, Hansi Weissensteiner, Lukas Forer, Dominic Pacher [email protected]
[classify, --in, /lustre/wangzh/mtDNA/genebank/sample/AB055387.1.fasta, --format, fasta, --extend-report, --out, /lustre/wangzh/mtDNA/genebank/result/AB055387.txt] phylotree17_FU1.xml Parameters: Input format: fasta Phylotree version: 17_FU1 Reference: rCRS Extended report: true Skip alignment rules: false Used metric: kulczynski Chip array data: false Lineage: 0
Start Classification... [M::bwa_idx_load_from_disk] read 0 ALT contigs java.nio.file.DirectoryNotEmptyException: jbwa-1639799703095 at sun.nio.fs.UnixFileSystemProvider.implDelete(UnixFileSystemProvider.java:242) at sun.nio.fs.AbstractFileSystemProvider.delete(AbstractFileSystemProvider.java:103) at java.nio.file.Files.delete(Files.java:1126) at org.apache.commons.io.FileUtils.delete(FileUtils.java:1175) at org.apache.commons.io.FileUtils.deleteDirectory(FileUtils.java:1194) at importer.FastaImporter.load(FastaImporter.java:165) at genepi.commands.HaplogrepCommand.call(HaplogrepCommand.java:167) at genepi.commands.HaplogrepCommand.call(HaplogrepCommand.java:20) at picocli.CommandLine.executeUserObject(CommandLine.java:1953) at picocli.CommandLine.access$1300(CommandLine.java:145) at picocli.CommandLine$RunLast.executeUserObjectOfLastSubcommandWithSameParent(CommandLine.java:2352) at picocli.CommandLine$RunLast.handle(CommandLine.java:2346) at picocli.CommandLine$RunLast.handle(CommandLine.java:2311) at picocli.CommandLine$AbstractParseResultHandler.execute(CommandLine.java:2179) at picocli.CommandLine.execute(CommandLine.java:2078) at genepi.App.main(App.java:59) ........
Could you tell me how to fix this exception?