Command line: java -Xmx8192m -jar beagle.27Feb25.75f.jar

  gt=GENO.vcf

  out=imputed_snp

  nthreads=48

No genetic map is specified: using 1 cM = 1 Mb

java.lang.IllegalArgumentException: Duplicate marker: 1 77806149        AX-90568401     C       T

        at vcf.Markers.markerSet(Markers.java:127)

        at vcf.Markers.<init>(Markers.java:82)

        at vcf.Markers.create(Markers.java:61)

        at vcf.BasicGT.markers(BasicGT.java:158)

        at vcf.BasicGT.<init>(BasicGT.java:103)

        at vcf.BasicGT.<init>(BasicGT.java:82)

        at vcf.TargSlidingWindow$Reader.window(TargSlidingWindow.java:234)

        at vcf.TargSlidingWindow$Reader.readWindow(TargSlidingWindow.java:230)

        at vcf.TargSlidingWindow$Reader.run(TargSlidingWindow.java:197)

        at java.base/java.lang.Thread.run(Thread.java:1583)

Terminating program.

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