Error while running command exportClonesOverlap

[pursellta]

I am trying to see the clonal overlap between bulk and single cell BCR data but get the following error:

Please copy the following information along with the stacktrace:
Version: 4.7.0; built=Wed Aug 07 12:19:48 PDT 2024; rev=976ba14139; lib=repseqio.v5.1
OS: Linux
Java: 11.0.13
Abs path: /home/tpursell/BulkIgFastqs/Epfu.M342.mixcr.v47.outs.20250227/findAlleles.lineage
Cmd args: exportClonesOverlap --chains IGH --only-productive --criteria CDR3|AA|V|J epfu.221a.sc.terminal.Spleen.BCR.contigs.allelic.clns epfu.221b.sc.terminal.Spleen.BCR.contigs.allelic.clns epfu.221c.sc.terminal.Spleen.BCR.contigs.allelic.clns epfu221.d0.FR1bulkBC.allelic.clns epfu221.d7.FR1bulkBC.allelic.clns epfu-221-igg.TAP3.5RACEbulk.TermSpleen.allelic.clns epfu221.TAP1.5RACEbulk.TermSpleen.allelic.clns epfu221.all.overlapTable.tsv
picocli.CommandLine$ExecutionException: Error while running command exportClonesOverlap java.lang.IllegalArgumentException: Conflict in tags info and clone tag counter.
at com.milaboratory.mixcr.cli.Main.registerExceptionHandlers$lambda-17(SourceFile:420)
at picocli.CommandLine.execute(CommandLine.java:2088)
at com.milaboratory.mixcr.cli.Main.execute(SourceFile:105)
at com.milaboratory.mixcr.cli.Main.main(SourceFile:101)
Caused by: java.lang.IllegalArgumentException: Conflict in tags info and clone tag counter.
at com.milaboratory.mixcr.basictypes.CloneSetInfo$TotalCounts$a.a(SourceFile:91)
at com.milaboratory.o.xa.a(SourceFile:56)
at com.milaboratory.mixcr.cli.CommandExportOverlap.run1(SourceFile:224)
at com.milaboratory.mixcr.cli.MiXCRCommandWithOutputs.run0(SourceFile:69)
at com.milaboratory.mixcr.cli.MiXCRCommand.run(SourceFile:37)
at picocli.CommandLine.executeUserObject(CommandLine.java:1939)
at picocli.CommandLine.access$1300(CommandLine.java:145)
at picocli.CommandLine$RunLast.executeUserObjectOfLastSubcommandWithSameParent(CommandLine.java:2358)
at picocli.CommandLine$RunLast.handle(CommandLine.java:2352)
at picocli.CommandLine$RunLast.handle(CommandLine.java:2314)
at picocli.CommandLine$AbstractParseResultHandler.execute(CommandLine.java:2179)
at picocli.CommandLine$RunLast.execute(CommandLine.java:2316)
at com.milaboratory.mixcr.cli.Main.registerLogger$lambda-32(SourceFile:539)
at picocli.CommandLine.execute(CommandLine.java:2078)
... 2 more
Suppressed: java.lang.IllegalStateException: random access primitivI blocks or primitivI reader not closed
at com.milaboratory.o.EH.a(SourceFile:174)
at com.milaboratory.o.EH.close(SourceFile:287)
at com.milaboratory.o.jj.close(SourceFile)
at kotlin.jdk7.AutoCloseableKt.closeFinally(AutoCloseable.kt:64)
at com.milaboratory.o.xa.a(SourceFile:49)
... 14 more

[mizraelson]

Hi, unfortunately, at the moment, only data with the same tag structure can be overlapped. This is because single-cell and bulk data have different dimensionalities—a single clone in bulk can appear multiple times across many cells in single-cell data. However, such overlap functionality will soon be available in our latest software, Platforma