—ignore-overlaps option was what was needed to get the pre-v1 mpileup output.
Thanks. Petr. > On Feb 2, 2015, at 12:50 AM, Petr Danecek <p...@sanger.ac.uk> wrote: > > Hi Paul, > > I think this might be related to bug fixes where the default MQ and BQ > filters were not applied with the raw mpileup output. > > Petr > > On Fri, 2015-01-30 at 15:07 -0800, Paul Lott wrote: >> Hi all, >> >> We have an amplicon pipeline that uses mpileup output. We recently updated >> samtools from 0.1.19 to 1.1. When performing some validation on the >> pipeline, we found that there were a significant number of variants missing >> from the caller(Varscan 2.3.7) output. The only difference was the output >> from mpileup. >> >> In the version 1.1, the coverage is greatly reduced and the base quality >> string is the same upto approx the middle (base quality string position >> ~1138); after that everything appears to be garbled. I’ve included outputs >> for one position, but it is pretty much the same for most positions. (see >> outputs below) >> >> I used the same command is for both versions: samtools mpileup -B -f >> /local/scratch/REFERENCE_DATA/GATK_Bundle/b37/human_g1k_v37_decoy.fasta -r >> 13:32911471-32911471 Sample.bam >> >> I’ve searched for an answer to the differences, but couldn’t find an >> explanation of why the outputs of v1.1 would be reduced and changed compared >> to 0.1.19. If there is an option to get similar output to v0.1.19, that >> would be great. Or, if it’s a bug it would need to be fixed. >> >> Any help or a point in the right direction would be appreciated. >> >> Thanks, >> >> Paul >> >> Paul Lott >> UC Davis Genome Center >> University of California, Davis >> >> >> Using samtools 0.1.19, we get the following output: >> >> [mpileup] 1 samples in 1 input files >> <mpileup> Set max per-file depth to 8000 >> 13 32911471 G 3656 >> ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,a,,..AA.....AAAAA.A.A.A.A.AAAA.AAA.A.AAA...AAAAAA..A..AAA.AA.AAA.A.A.A.AA..A....A.A.........A..A.A...A...AAA...AAA.....AA.....A.A.AA...A.A.A..AAAAAA...A.AA..A...AA..A....A.A.A..AAAA..AAA.A....A...A.A..AA..A.A..AA..A....A.AAA.....A..A....AAA..A.AAAAA..........A..AAA..A...A..AAAAA..A......A....A..AA...A.AAA.A....A..AAAAA.A.AA.AA....AA.A.A..A.AA..AA..A....AA.AAAAAA.....A.AAA.AA.AA.A..AAAAA...A.......AA..A.AAA...A.....A.....AAAA..A...AA.A...A..AA..A..AA..A.A..A..AA..AAA.AAA.....AAAAAAA.A.A.A...AA..A......AAAA.AAA.A.A..AAA.......AAA..A.AA..AAA..A...A.A...AA.AA...AA..A.A...A...A.AA.A..AA.AAAA.AA.AAAA...AA..AAAA.A...AA.....AA...A....A.A..A.A.A.AAA.AA.A........AAAA.A.AA.AA..AA..AAA..A..A.A.......A..AA.A...A..AAAA..AA.A..A.A...A.A...A......AA..A.A...A......AAA.A.A..A....AA..AAA.AAA.A.A...AA..AA..A.AA..AA.AAA..AA...AAAAAA.A.A......A....A.A.AA..A...A...A.A..A.A..AA...A....A.....AA.A..AA....A.A..AA.A.AA......A.AA..A.AAAAAAAA....AA..A.A..AAAAA.A.A...A.A..A....A..AA..AAAAA..AAAAA.A.A...A..A..A.A....AA.AA..A..A...A..A.AAAA.A.......A.A...A..A....AAAAA.AAAA....A.....AA....A.AAAA...A.A...AA....AAAA..AA....AAAA.A.....AAA.A.A.AA.A.AA....A.AA.AA...A.A............A...AA..AA..AA..AA...A..A..A..A.A.....AA...A..A.A..AAA.A.A.A..A....AA.A..AA..A....A...A.A...AAAA.A.A.AA.AAAAAA...AA.....AAA.AA.,.A.,,,,,,,,,,,,,,,,,,,,,aa,,,,a,,,aa,aa,aa,,,,,,,,a,a,,a,,,aaa,a,,,,,,a,,a,,aaa,a,a,a,aaa,aa,,aaa,,,aaaa,,a,,aaa,aaaa,a,a,a,aa,,a,aa,,,,,aa,a,,a,,,aaa,,aa,,,,,aa,,,aa,a,a,a,a,aa,,,aa,,a,,,,,a,,,a,,aaa,aaa,,a,,a,,a,a,a,aa,,,,a,aa,,,,a,,,,aaa,aaa,,,,,,,,a,,aa,,a,,,aaaaa,,a,,,,,,a,,aa,,,,aa,,,,,,aaa,a,a,aaa,,,,aa,a,,a,aa,,a,,a,,,aa,,,,aaaa,aa,aa,a,,aaaaa,,,,,aa,a,aaa,,a,,a,,,,aaaa,,,,aa,,,,a,,aa,a,,aa,,a,aa,,aa,,aaa,aaa,,,,aaaa,a,,a,,,aa,,,,,,aaa,aaa,,,aa,,,,,,aa,a,a,aa,,aaa,,a,,aa,,,aa,aa,,,a,,,aa,a,,,,aaa,aaaaa,a,aaa,,,aa,,aaa,a,,,a,,,,a,,a,,,,a,,aa,aa,aa,a,,,,,,a,aaaa,a,aa,a,aa,,,,aaa,a,aa,a,,a,,,a,a,,,,a,,,,,,a,,,,,,a,,,aa,a,,a,,,aa,,aaaa,a,a,,a,a,,a,aa,,aa,a,,aa,aaaa,,,,,,,,,a,,aa,,,a,a,,aa,a,,,,,,a,,,,,aa,,a,a,,aa,aa,,,,,a,,a,aaa,,a,a,a,,aaaa,a,,,a,,,a,,,a,,,,aaa,aaaa,a,a,aa,a,,,aa,aa,,,a,,aaaa,a,,,,,,a,,,,,a,,,aa,,,,,,aa,,,,aaaaa,a,a,,,,,aa,aa,,,aa,a,aa,a,a,aa,a,aa,,a,aaa,,,,,,,a,,aa,,aa,,aa,,a,,,a,a,a,,,,aa,,a,,a,a,,aaa,aaa,a,,aaa,,aa,,a,,,,a,aa,aaaa,a,aaaaaa,a,,,,aaa,a,,,aa,a,a,a,,a,a,,,a,,,,,,a,,,,,aaa,a,,,,a,,,,a,,,,aa,,,,,a,t,a,,,,a,,aaaa,,aaa,a,,,,a,,a,a,,,a,a,a,a,aa,,aa,aa,aaaa,aa,,,aaa,aaa,,,a,aa,,,aaaa,,a,,a,,a,,,,a,a,a,a,,,,,a,,aaa,,,,a,,a,aa,,,a,,,,,a,,,,,a,aa,aaaaa,a,,a,,,,,,,,,,,,,,aa,a,a,a,, >> >> GGGGGGGGGGGEGGGGGGGGGGGGGGGGGGGGGGG<GGGGGGG<GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGFGFGFGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGDGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGEGGGGGEGGGGGFEGGGFGGGGFGGGFGGGG<GGGGGGGGGGGGEGGFGGGGGGFGGGGGGGGFGGGGGGGGGGGFGGGGGCGGGGGGGGGGGGFGGFFGGGGFGGGGGFGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGFGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGFGGGGGGEGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGFGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGEGGGGGGGGFGGGGGGGGGGGGGGGGGGGEGFGGGGGGGFGGGGGGGGGGGGGGGGGFGGGGDGGGGGGGGGGGG@GGGGGGGGGGGGGGGGGFFGGGGGGEGGGGGGGGGGGGGGCFGGCGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGFFGGGGFGGFGGEGGGGGGGGGGAEFFGFGGC<FGGGDDGGEGGGGGGGDFG8GGGGGGGGGGGGGFGGGGGFGGGGGGFFEGGGEGG@F8FGGGGCFGGFGGGFGGGFFFG8GEFGGGGGCGGGGGFGFGGGGGFGGGCGGGGGG@@FDGGGEGECGGGC8GGGCG<FFFGGGGAGGFGGGGFGGGGGFCGGGGGGGGGFGDGGGGEGGFFFEGGGFC@GGGG8GGG8GDFGEFGGFGGFGGF8GGGGFGGGGAFGEGEFGCFFFCCGDGGGGEGFGFGG?GGGFFGC8FGDGGDFFC8GFGC<GEFFG<GC8GG@GFFDGGFF88G<F@FGGGGF@GF<GFFFGGFFD<E@G8GGGGGGEGFGGGGGGGGCGGGGGGGGGGGGGGGGGGAGGFGGGDGGGGGGGGGGGGGGGGGGGEGGAGGGGGGGGGGFGGG9FGGGGG@CG@GGEGGGGGGGGGGGECGGGDGGGGGGGGGGGGFGGGGGFFGGGGBGGGGGGGGGGGGFGGGGGG<GGGGGGGG?GGGGGEGFGGGDG9GGFGGGGGGGGDGGFGGGGGGGGGGGCGGGGGGGGGFGDGG@GGGGGGFGGCGGEGGFFDGGG<GGGGGGGGCGGF<GGGFGGFGGGGGGGGGFGGFFGGGGFGGGGGGCGGEGGGGGGGGGGGGDEGGGGGGFCGGGGGGGGGGFGGGGGGFGGGGGGDGGFGGGGFF9FE9FGGGGFFFGGGGCFGGFGFGGGDGGGGFGGGGGGGGGGGGGGG5GGGGGGAGEGG8GGGGGGGGFGGCGGGGGGGGGGGGFGGFGGGEGGFGGGGGGGFGGGGGGGGGGDGGGGGGGGGGGGGGGGGEGGG<DGGGGGGGGGGGDGGGGGFGGFG9GGGGGGGAGGGGGGFFEGGGGGGGGGGGCGFGG<G9GGGGGGGGGCGGGGGGGGGGGGG9CFGGGGFGGGFGGFGGEGFGGGGFGFGGG<GGGGGGG9<FDGGGFGGFGGGGGGGGGGGGGEGGGCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG<FGEGGGGFGDGGGGGAGAGGCG9FGGGGG<F<GGGFGGGGGFGGGGGAGGCGGGGGGGGGGG@GCGGGGDGGF9GGFGGGGGGFGGGGGCGGGFGGGGCGF<GGFGGGGGGGGEGDFGGGGGGGFGFGFGGGGGGGGGGGGGGGFAGGGGGGFGGGGGGCFGGGFGGGGGFGFE<GGGGGGGGG9FGGGGFGFFGGGGGG<FGFFGGCGGEGGGGGCGGFG@GGGFFGGGGGFGGGGGFGGGFGGGGFCGGGGGGGGGGGGGGGGFGGGDGGGFGGGGGGG@GGGFGGGGGFGGFGGFGFGFFGGGGGGGGGGGGEGGGGGGGG?GDGFGFGGCG9GGGGGGGFGGGC9GFGGFGGGGGGGGGGGAGGCGGGGGGCG9FGGGGGFFGGFG<GFGAGFFCGGG@GGGGFGCFGGGGGGFGGGGGGGGCGGGGGGGG9FGDEGGG9GGG9GGGG?GGFGFGGGGGGGGGGFGGGGGGGGGDAGFGGGGGGFFGGGFGGGGG?DGGCGGGGGGGGGGGGGGGDGG9FGEGGGGGGGFGGGGGGG<GGGGGGGGGDGAGGGFGGGFAGFGGGFGGGGFDGGGGGGGGGGGDGGFG9G=GGGGGGGGFGGGGGGGGGGGGGGGGFCF9FGGCFGCFGG8FFFCGCGCDG<FFGGFGFFGFGGGCCGGEFECFGGGGDGGGGGDCCGFGGGEFGFGGGFGGGFCGCGDD8GGGFGGF8FFGGFGGF=DGGGCFGFGGFGGG8GGGFGGGGGGGCGGFFGGFFDGG8GGG6FGDGFGEGCEGGGGFGDGGGG8GGG8GGEGGGGGGGFFGGGCDFGFFGGGGGFDGGGGGFFG8FGGFDGGGGGGEGGGG@8DGFGGGF8GGGGFGGGGDDFEGGGGGGGGGGGFGG8GDFGGGGGFEGFGGCGGGGGGGGFFG?GG=?G=GGGGGCGGGGFFGFGGGGFGG?GFGGFGGFGDF8FFGGGFFGGFGGDDFG?FGGGGGFGGGGE8G8GGGFGGDEFGGGFGGGFGGGGFFFDGGGGDEFGGGGGGFGFDFFF@GGGGGGGGFCGGGGGG8FFDGGDGF8GGCGGGGGFGDGGG8GGGCGGCD=GGGG8GGGGGFGGGCFCGEFGGG=GGGFGGGGFGGFGGGDGGGG=FG@DGDGG?FCFGG8GGGFGCF8GDFGF8B@GEF@GEGFGDGGGFGGGEFGFGFGCGFGGFGGFFFGGGGGGFG=CCFGGFGEGFGGFFGGGFFEGFGFGGDGG?GGGFGGDGDGFGGDGGGGGGGGGFFCGGGG=GGGFGFFFFGGGDGCGFGGGGGGF8GGGGEGGFGGDGGFGGF8GGFF?GGGFFGFGGGGGGGGGG=GFGGGGGFFGDGCGGFGG8GGGGDCFGGGGFGGGGGFGGG8G8CGGFGFGGFGDGFGGGGGG8G8G8GG8DGFGGFFFGDCGFGBG@GG8GGGFGGGGGGGGFFGFFFGGGFGGDGFG8FGFGGGG@G8DFGGEGGGFGGFGCFGGGGGGFG@GGGFDGGEDGGGEGEGFFF=GFGC?GGG8GGGGGCFDG=GGGGGGGGGGGGFGGGGGGGCGGGEF8FGFF=GFFGG8GGGFDGGFFDGGFFGGGFG>GGGFFFG8GGGFFGGFG8FG?GGGFG=GGFGGGGGGGDGGCGFFGD<DGFGGGFGG=GGGGGG8GGGGGGGGDGFG?=FGGG@GGFGFFGGC8GFGFGDGF8GFGBGE8FFFG8@?GGFEGG?F@GD@=8FFDG8G=GF=8F@FFDG8GGF8G=G88GE=G@C8@@GDFFGDGGGFGF?DCG@=G8?DGGGGDFDFG8G@?@GFDFGDEFGGDDCFGG6FFGG?FG=GD=GG8DFFCGFDG@@8=8B@F8CGG=GDGDGC@DGFG8EGG@CDFDF6G8GF >> >> >> >> >> Using Samtools 1.1, we get the following output: >> >> 13 32911471 G 2474 >> ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,a,,..AA.....AAAAA.A.A.A.A.AAAA.AAA.A.AAA...AAAAAA..A..AAA.AA.AAA.A.A.A.AA..A....A.A.........A..A.A...A...AAA...AAA.....AA.....A.A.AA...A.A.A..AAAAAA...A.AA...A...AA..A...A.A.A..AAAA..AAA.A....A...A.A..AA..A.A..AA..A....A.AAA.....A..A....AAA..AAAAAA..........A..AAA..A...A..AAAAA..A......A....A..AA...A.AAA.A....A..AAAA.A.AA.AA....AA.A.A..A.AA..AA..A....AA.AAAAAA.....A.AAA.AA.AA.A..AAAAA...A.......AA..A.AAA...A.....A.....AAAA..A...AA.A...A..AA..A..AA..A.A..A..AA..AAA.AAA.....AAAAAAA.A.A.A...AA..A......AAAA.AAA.A.A..AAA.......AAA..A.AA..AAA..A...A.A...AA.AA...AA...AA...A...A.AA.A..AA.AAAA.AA.AAAA...AA..AAAA.A...AA.....AA...A....A.A..A.A.A.AAA.AA.A........AAAA.A.AA.AA..AA..AAA..A..A.A.......A..AA.A...A..AAAA..AA.A..A.A...A.A...A......AA..A.A...A......AAA.A.A..A....AA..AAA.AAA.A.A...AA..AA..A.AA..AA.AAA..AA...AAAAAA.A.A......A....A.A.AA..A...A...A.A..A.A..AA...A....A.....AA.A..AA....A.A..AA.A.AA......A.AA..A.AAAAAAAA....AA..A.A..AAAAA.A.A...A.A..A....A..AA..AAAAA..AAAAA.A.A...A..A..A.A....AA.AA..A..A...A..A.AAAA.A.......A.A...A..A....AAAAA.AAAA....A.....AA....A.AAAAA...A.A...AA....AAAA..AA....AAAA.A.....AAA.A.A.AA.A.AA....A.AA.AA...A.A...........A...AA..AA..AA..AA...A..A..A..A.A.....AA...A..A.A..AAA.A.A.A..A....AA.A..AA..A....A...A.A...AAAA.A.A.AA.AAAAAA...AA.....AAA.AA..A.,,,,,,,,,,,,,,,,,,,,aa,,aa,a,aaa,,,aaa,aa,,a,a >> >> GGGGGGGGGGGEGGGGGGGGGGGGGGGGGGGGGGG<GGGGGGG<GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGFGFGFGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGDGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGEGGGGGEGGGGGFEGGGFGGGGFGGGFGGGG<GGGGGGGGGGGGEGGFGGGGGGFGGGGGGGGFGGGGGGGGGGGFGGGGGCGGGGGGGGGGGGFGGFFGGGGFGGGGGFGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGFGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGFGGGGGGEGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGFGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGEGGGGGGGGFGGGGGGGGGGGGGGGGGGGEGFGGGGGGGFGGGGGGGGGGGGGGGGGFGGGGDGGGGGGGGGGGG@GGGGGGGGGGGGGGGGGFFGGGGGGEGGGGGGGGGGGGGGCFGGCGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGFFGGGGFGGFGGEGGGGGGGGGGAEFFGFGGC<FGGGDDGGEGGGGGGGDFG8GGGGGGGGGGGGGFGGGGGFGGGGGGFFEGGGEGG@F8FGGGGCFGGFGGGFGGGFFFG8GEFGGGGGCGGGGGFGFGGGGGFGGGCGGGGGG@@FDGGGEGECGGGC8GGGCG<FFFGGGGAGGFGGGGFGGGGGFCGGGGGGGGGFGDGGGGEGGFFFEGGGFC@GGGG8GGG8GDFGEFGGFGGFGGF8GGGGFGGGGAFGEGEFGCFFFCCGDGGGGEGFGFGG?GGGFFGC8FGDGGDFFC8GFGC<GEFFG<GC8GG@GFFDGGFF88G<F@FGGGGF@GF<GFFFGGFFD<E@G8GmmmmmjiFmlimmmjjX^fmmmlmml^lmllemmldmlllcjjmmilmml^mmlmmm^mmmlEmmAmmmmmimmlllmmmWklRjmmdZmfmmhmjm\lmjmilmiiikmjGmmclmjmmmm^lmmjm^dlmGkmemmmmmmmmlcmillmmmil<GRmmllmml[mmmjjjFmmmDm_mlFlmm^GmmjDllejmGmmmmmmmRgmmmmmlf^jlkDlm^mml^RmlmmhlmklGllij^jbmGlmmm^fmmlbmmmlmllmm^mjlmmmlmlFllkmllmimfmmikikmmmmmllmemml`PefmmcmlimmmimGmmmklRmmmmllmmemGOlmllmmlli9k\^kmmmmFQlimllNbmmkmFmRjglmellmmmmlmmmmk^mmmc[m^mmjmfmkmj\lmmmlmmmkmmflmmmmmllljmmimmljklhmmlmmmlmmlilllfmmmmmGjmmmlimmmmmm^lljmmkjmlaim^mmimlmmmmimjjmRlmm]m_^mimmij]mmmGmmlFPmmmmmlfmmilCilklbm_cmmmlmmmmCmlmmlmmmjmmmmP_Qlfj^lmjmleRkil\mkm^mmlmllmiSl^mjhlm^Sgcmkl>fmjmlmGjmmimlmRmEmklilmlm^^imm?mlmmlfmmlllmRGmmmmml6FfkRmcidiilmmmlgmAkmilNlmmllm<l<mmfFmllmk>mll^mfmGCmmelmmmmlmm@mfjmlmbmGF\mmFmGmmmjlRmmllemmmemmlm_mi^mmkmmllllmmkjfbmjimlmmlmkmFmmll^mmmmkmmlmmFAjmmlmmhmll^mmikclldmimmllll\blmmmmmmmm^FmmmllmFQcmlmmm<lfllmkhlmhmmmimiRRFGemm^llmmmmjhlmmmmjlmklmmmm]hilmmm^mm^kl?ilGmljllgmlmllmmjmll@mmmlmm^mR]mGFmm]jlllFmmGllljmlmjiklmhmfmmjJmjmli]mmhm^mmmmmmmllllh^mFilklmlmmfmlmmjgmli^m^lmlhm_lGmfmkkFmmlfSjQlAmll_kmm@mlmmkmeFlmmRmmmdmmlmfmlmCmmmjljGm_lkfhmm^_mkm]mmcfellblbmlmiemmm^mlm^mmmRimGDflljjljmmbkmmlmmmmmejmmimlmmmmmmmiGmmmkjllXk^klml^mlclmllmmm^bmmljmmlljjmfllllmmmlblFdmmlmllll[mmmllmjfmGlj^l]lUmbeGmmRmmllcmmlmiRmGmGmmmmjFCF^kmbFGCFGG8FFFCGCGCDG<FFGDFGEF8GDD8FGF<=F8DFFGGGDG8 >> ------------------------------------------------------------------------------ >> Dive into the World of Parallel Programming. The Go Parallel Website, >> sponsored by Intel and developed in partnership with Slashdot Media, is your >> hub for all things parallel software development, from weekly thought >> leadership blogs to news, videos, case studies, tutorials and more. Take a >> look and join the conversation now. http://goparallel.sourceforge.net/ >> _______________________________________________ >> Samtools-help mailing list >> Samtools-help@lists.sourceforge.net >> https://lists.sourceforge.net/lists/listinfo/samtools-help > > > > > -- > The Wellcome Trust Sanger Institute is operated by Genome Research > Limited, a charity registered in England with number 1021457 and a > company registered in England with number 2742969, whose registered > office is 215 Euston Road, London, NW1 2BE. ------------------------------------------------------------------------------ Dive into the World of Parallel Programming. The Go Parallel Website, sponsored by Intel and developed in partnership with Slashdot Media, is your hub for all things parallel software development, from weekly thought leadership blogs to news, videos, case studies, tutorials and more. Take a look and join the conversation now. http://goparallel.sourceforge.net/ _______________________________________________ Samtools-help mailing list Samtools-help@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/samtools-help
