msmc2 -I 4,5,6,7 error

[SC-Duan]

Hi,

I want to do cross-population analysis using MSMC2, I have generate a combined input file with eight haplotypes like this (two from each population)， 1 567 38 TTTTGGGG 1 573 6 AAAACCCC 1 11355 64 CCCCAAAA 1 11433 5 TTTTCCCC .......... When I run "msmc2 -t 19 -s -I 0,1,2,3 -o WEU.msmc2.out chr.txt chr2.txt......", it works, but when I run "msmc2 -t 19 -s -I 4,5,6,7 -o CEU.msmc2.out chr.txt chr2.txt.....", it reported an error. the log was, core.exception.RangeError@msmc2.d(139): Range violation

??:? _d_arraybounds [0x5b9a3f] ??:? msmc2.__array [0x57d06c] ??:? void msmc2.parseCommandLine(immutable(char)[][]).handleIndices(immutable(char)[], immutable(char)[]) [0x574c11] ??:? bool std.getopt.handleOption!(void delegate(immutable(char)[], immutable(char)[])).handleOption(immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), ref immutable(char)[][], ref std.getopt.configuration, bool) [0x5787b5] ??:? void std.getopt.getoptImpl!(immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x57a737] ??:? void std.getopt.getoptImpl!(immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x579f9e] ??:? void std.getopt.getoptImpl!(immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x579730] ??:? void std.getopt.getoptImpl!(immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x578d62] ??:? void std.getopt.getoptImpl!(immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x57837d] ??:? void std.getopt.getoptImpl!(immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x577f0c] ??:? void std.getopt.getoptImpl!(immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x577496] ??:? void std.getopt.getoptImpl!(immutable(char)[], ulong, immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], ulong, immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x576a10] ??:? void std.getopt.getoptImpl!(std.getopt.config, immutable(char)[], ulong, immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, std.getopt.config, immutable(char)[], ulong, immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x576556] ??:? std.getopt.GetoptResult std.getopt.getopt!(std.getopt.config, immutable(char)[], ulong, immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getopt(ref immutable(char)[][], std.getopt.config, immutable(char)[], ulong, immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x576235] ??:? void msmc2.parseCommandLine(immutable(char)[][]) [0x5740cb] ??:? _Dmain [0x573d83] ??:? _D2rt6dmain211_d_run_mainUiPPaPUAAaZiZ6runAllMFZ9lambda1MFZv [0x5bbd22] ??:? void rt.dmain2._d_run_main(int, char, extern (C) int function(char[][])*).tryExec(scope void delegate()) [0x5bbc78] ??:? void rt.dmain2._d_run_main(int, char*, extern (C) int function(char[][])).runAll() [0x5bbcde] ??:? void rt.dmain2._d_run_main(int, char, extern (C) int function(char[][])*).tryExec(scope void delegate()) [0x5bbc78] ??:? _d_run_main [0x5bbbd5] ??:? main [0x57d0d5] ??:? libc_start_main [0x7351eb14]

Can you give me some help? Thank you, zac

[stschiff]

Hmm, can you email me your input file, please?

Stephan

On 15 Sep 2018, at 09:05, dzaccook notifications@github.com wrote:

Hi, I want to do cross-population analysis using MSMC2, I have generate a combined input file with eight haplotypes like this (two from each population)， 1 567 38 TTTTGGGG 1 573 6 AAAACCCC 1 11355 64 CCCCAAAA 1 11433 5 TTTTCCCC .......... When I run "msmc2 -t 19 -s -I 0,1,2,3 -o WEU.msmc2.out chr.txt chr2.txt......", it works, but when I run "msmc2 -t 19 -s -I 4,5,6,7 -o CEU.msmc2.out chr.txt chr2.txt.....", it reported an error. the log was, core.exception.RangeError@msmc2.d mailto:core.exception.RangeError@msmc2.d(139): Range violation

??:? _d_arraybounds [0x5b9a3f] ??:? msmc2.__array [0x57d06c] ??:? void msmc2.parseCommandLine(immutable(char)[][]).handleIndices(immutable(char)[], immutable(char)[]) [0x574c11] ??:? bool std.getopt.handleOption!(void delegate(immutable(char)[], immutable(char)[])).handleOption(immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), ref immutable(char)[][], ref std.getopt.configuration, bool) [0x5787b5] ??:? void std.getopt.getoptImpl!(immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x57a737] ??:? void std.getopt.getoptImpl!(immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x579f9e] ??:? void std.getopt.getoptImpl!(immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x579730] ??:? void std.getopt.getoptImpl!(immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x578d62] ??:? void std.getopt.getoptImpl!(immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x57837d] ??:? void std.getopt.getoptImpl!(immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x577f0c] ??:? void std.getopt.getoptImpl!(immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x577496] ??:? void std.getopt.getoptImpl!(immutable(char)[], ulong, immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, immutable(char)[], ulong, immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x576a10] ??:? void std.getopt.getoptImpl!(std.getopt.config, immutable(char)[], ulong, immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getoptImpl(ref immutable(char)[][], ref std.getopt.configuration, ref std.getopt.GetoptResult, ref std.getopt.GetOptException, std.getopt.config, immutable(char)[], ulong, immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x576556] ??:? std.getopt.GetoptResult std.getopt.getopt!(std.getopt.config, immutable(char)[], ulong, immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool).getopt(ref immutable(char)[][], std.getopt.config, immutable(char)[], ulong, immutable(char)[], double, immutable(char)[], double, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], uint, immutable(char)[], bool, immutable(char)[], immutable(char)[], immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], bool, immutable(char)[], void delegate(), immutable(char)[], ulong, immutable(char)[], bool, immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], void delegate(immutable(char)[], immutable(char)[]), immutable(char)[], double, immutable(char)[], bool) [0x576235] ??:? void msmc2.parseCommandLine(immutable(char)[][]) [0x5740cb] ??:? _Dmain [0x573d83] ??:? _D2rt6dmain211_d_run_mainUiPPaPUAAaZiZ6runAllMFZ9lambda1MFZv [0x5bbd22] ??:? void rt.dmain2._d_run_main(int, char, extern (C) int function(char[][])).tryExec(scope void delegate()) [0x5bbc78] ??:? void rt.dmain2._d_run_main(int, char, extern (C) int function(char[][])).runAll() [0x5bbcde] ??:? void rt.dmain2._d_run_main(int, char*, extern (C) int function(char[][])).tryExec(scope void delegate()) [0x5bbc78] ??:? _d_run_main [0x5bbbd5] ??:? main [0x57d0d5] ??:? libc_start_main [0x7351eb14]

Can you give me some help? Thank you, zac

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[SC-Duan]

Hi, Please give me a mail address? I can not open the google....

[stschiff]

Sorry: schiffels@shh.mpg.de mailto:schiffels@shh.mpg.de

Thanks, Stephan

On 17 Sep 2018, at 11:13, dzaccook notifications@github.com wrote:

Hi, Please give me a mail address? I can not open the google....

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[stsmall]

Hi Stephan, I seem to be having the exact same error as @dzaccook. while this works: msmc2 -r 2.5 -t 10 --skipAmbiguous -I 0,1,2,3 -o moz.Cc.msmc2.out 3R.3Moz.2Tan.3Ug.msmc2-Cc.in this gives the same range error as above: msmc2 -r 2.5 -t 10 --skipAmbiguous -I 6,7,8,9 -o tan.Cc.msmc2.out 3R.3Moz.2Tan.3Ug.msmc2-Cc.in

I also tried remove ambig sites manually, but the error is the same. I can also send my file if it would be helpful. thanks, @stsmall

[stschiff]

OK, I fixed it. It was a quite stupid bug, and I don't know why it hasn't shown up before. Thanks for reporting it. You can find the new release under the releases tab. I will still upload binaries later.

[SC-Duan]

Thank you, it works now.

[stsmall]

yes, thank you Stephan. Works for me as well