Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-08-21 11:41 -0400 (Wed, 21 Aug 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4703 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4440 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4472 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4421 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4414 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
Package 917/2255 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
GWASTools 1.51.0 (landing page) Stephanie M. Gogarten
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the GWASTools package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GWASTools.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: GWASTools |
Version: 1.51.0 |
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:GWASTools.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings GWASTools_1.51.0.tar.gz |
StartedAt: 2024-08-21 01:33:27 -0400 (Wed, 21 Aug 2024) |
EndedAt: 2024-08-21 01:39:37 -0400 (Wed, 21 Aug 2024) |
EllapsedTime: 369.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: GWASTools.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:GWASTools.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings GWASTools_1.51.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/GWASTools.Rcheck' * using R version 4.4.1 (2024-06-14 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'GWASTools/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'GWASTools' version '1.51.0' * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking whether package 'GWASTools' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking 'build' directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking dependencies in R code ... NOTE Unexported object imported by a ':::' call: 'S4Vectors:::make_zero_col_DataFrame' See the note in ?`:::` about the use of this operator. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... NOTE checkRd: (-1) imputedDosageFile.Rd:95: Lost braces in \itemize; meant \describe ? checkRd: (-1) imputedDosageFile.Rd:96: Lost braces in \itemize; meant \describe ? checkRd: (-1) imputedDosageFile.Rd:97: Lost braces in \itemize; meant \describe ? * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking contents of 'data' directory ... OK * checking data for non-ASCII characters ... OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking sizes of PDF files under 'inst/doc' ... OK * checking files in 'vignettes' ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed vcfWrite 14.43 1.27 16 * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'test.R' OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See 'F:/biocbuild/bbs-3.20-bioc/meat/GWASTools.Rcheck/00check.log' for details.
GWASTools.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL GWASTools ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.20-bioc/R/library' * installing *source* package 'GWASTools' ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (GWASTools)
GWASTools.Rcheck/tests/test.Rout
R version 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(GWASdata) Loading required package: GWASTools Loading required package: Biobase Loading required package: BiocGenerics Attaching package: 'BiocGenerics' The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append, as.data.frame, basename, cbind, colnames, dirname, do.call, duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rownames, sapply, setdiff, table, tapply, union, unique, unsplit, which.max, which.min Welcome to Bioconductor Vignettes contain introductory material; view with 'browseVignettes()'. To cite Bioconductor, see 'citation("Biobase")', and for packages 'citation("pkgname")'. > library(ncdf4) > library(gdsfmt) > BiocGenerics:::testPackage("GWASTools", pattern=".*_test\\.R$") block 1 of 1 adding variables: quality, X, Y Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c73625335' (67.1K) # of fragments: 35 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c73625335.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c73625335.tmp' (66.9K, reduced: 216B) # of fragments: 17 adding variables: quality, X, Y Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7acf1946' (67.1K) # of fragments: 35 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7acf1946.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7acf1946.tmp' (66.9K, reduced: 216B) # of fragments: 17 Analyzing: X280 Analyzing: X281 Analyzing: X280 Analyzing: X281 Analyzing: X280 Analyzing: X281 Wed Aug 21 01:37:20 2024 Chromosome 1 Wed Aug 21 01:37:20 2024 Chromosome 2 Wed Aug 21 01:37:20 2024 Chromosome 3 Wed Aug 21 01:37:20 2024 Chromosome 4 Wed Aug 21 01:37:20 2024 Chromosome 5 Wed Aug 21 01:37:20 2024 Chromosome 6 Wed Aug 21 01:37:20 2024 Chromosome 7 Wed Aug 21 01:37:20 2024 Chromosome 8 Wed Aug 21 01:37:20 2024 Chromosome 9 Wed Aug 21 01:37:20 2024 Chromosome 10 Wed Aug 21 01:37:20 2024 Chromosome 11 Wed Aug 21 01:37:20 2024 Chromosome 12 Wed Aug 21 01:37:20 2024 Chromosome 13 Wed Aug 21 01:37:20 2024 Chromosome 14 Wed Aug 21 01:37:20 2024 Chromosome 15 Wed Aug 21 01:37:20 2024 Chromosome 16 Wed Aug 21 01:37:20 2024 Chromosome 17 Wed Aug 21 01:37:20 2024 Chromosome 18 Wed Aug 21 01:37:20 2024 Chromosome 19 Wed Aug 21 01:37:20 2024 Chromosome 20 Wed Aug 21 01:37:20 2024 Chromosome 21 Wed Aug 21 01:37:20 2024 Chromosome 22 Wed Aug 21 01:37:20 2024 Chromosome 23 Wed Aug 21 01:37:20 2024 Chromosome 24 Wed Aug 21 01:37:20 2024 Chromosome 25 Wed Aug 21 01:37:20 2024 Chromosome 26 Wed Aug 21 01:37:20 2024 Total # of SNPs selected: 7 Wed Aug 21 01:37:20 2024 Chromosome 1 Wed Aug 21 01:37:20 2024 Chromosome 2 Wed Aug 21 01:37:20 2024 Chromosome 3 Wed Aug 21 01:37:20 2024 Chromosome 4 Wed Aug 21 01:37:20 2024 Chromosome 5 Wed Aug 21 01:37:20 2024 Chromosome 6 Wed Aug 21 01:37:20 2024 Chromosome 7 Wed Aug 21 01:37:20 2024 Chromosome 8 Wed Aug 21 01:37:20 2024 Chromosome 9 Wed Aug 21 01:37:20 2024 Chromosome 10 Wed Aug 21 01:37:20 2024 Chromosome 11 Wed Aug 21 01:37:20 2024 Chromosome 12 Wed Aug 21 01:37:20 2024 Chromosome 13 Wed Aug 21 01:37:20 2024 Chromosome 14 Wed Aug 21 01:37:20 2024 Chromosome 15 Wed Aug 21 01:37:20 2024 Chromosome 16 Wed Aug 21 01:37:20 2024 Chromosome 17 Wed Aug 21 01:37:20 2024 Chromosome 18 Wed Aug 21 01:37:20 2024 Chromosome 19 Wed Aug 21 01:37:20 2024 Chromosome 20 Wed Aug 21 01:37:20 2024 Chromosome 21 Wed Aug 21 01:37:20 2024 Chromosome 22 Wed Aug 21 01:37:20 2024 Chromosome 23 Wed Aug 21 01:37:20 2024 Chromosome 24 Wed Aug 21 01:37:20 2024 Chromosome 25 Wed Aug 21 01:37:20 2024 Chromosome 26 Wed Aug 21 01:37:20 2024 Total # of SNPs selected: 9 Loading required package: VariantAnnotation Loading required package: MatrixGenerics Loading required package: matrixStats Attaching package: 'matrixStats' The following objects are masked from 'package:Biobase': anyMissing, rowMedians Attaching package: 'MatrixGenerics' The following objects are masked from 'package:matrixStats': colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse, colCounts, colCummaxs, colCummins, colCumprods, colCumsums, colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs, colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats, colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds, colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads, colWeightedMeans, colWeightedMedians, colWeightedSds, colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet, rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods, rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps, rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins, rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks, rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars, rowWeightedMads, rowWeightedMeans, rowWeightedMedians, rowWeightedSds, rowWeightedVars The following object is masked from 'package:Biobase': rowMedians Loading required package: GenomeInfoDb Loading required package: S4Vectors Loading required package: stats4 Attaching package: 'S4Vectors' The following object is masked from 'package:utils': findMatches The following objects are masked from 'package:base': I, expand.grid, unname Loading required package: IRanges Attaching package: 'IRanges' The following object is masked from 'package:grDevices': windows Loading required package: GenomicRanges Loading required package: SummarizedExperiment Loading required package: Rsamtools Loading required package: Biostrings Loading required package: XVector Attaching package: 'Biostrings' The following object is masked from 'package:base': strsplit Attaching package: 'VariantAnnotation' The following object is masked from 'package:base': tabulate Loading required package: SNPRelate SNPRelate -- supported by Streaming SIMD Extensions 2 (SSE2) Reading in Phenotype and Covariate Data... Running analysis with 40 Samples Beginning Calculations... Block 1 of 1 Completed - 0.4944 secs Reading in Phenotype and Covariate Data... Running analysis with 50 Samples Beginning Calculations... [1] "hi" LR.Stat LR.pval 8.55400428 0.03584773 [1] "hi" LR.Stat LR.pval 1.6733633 0.6428719 [1] "hi" LR.Stat LR.pval 11.30391026 0.01019107 [1] "hi" LR.Stat LR.pval 3.5479450 0.3145968 [1] "hi" LR.Stat LR.pval 8.85703394 0.03125334 [1] "hi" LR.Stat LR.pval 4.5360542 0.2090968 [1] "hi" LR.Stat LR.pval 5.2442899 0.1547585 [1] "hi" LR.Stat LR.pval 2.6576472 0.4474727 [1] "hi" LR.Stat LR.pval 15.67110354 0.00132434 [1] "hi" LR.Stat LR.pval 1.7737546 0.6206628 [1] "hi" LR.Stat LR.pval 2.7135101 0.4379363 [1] "hi" LR.Stat LR.pval 2.4907942 0.4769571 [1] "hi" LR.Stat LR.pval 10.06391337 0.01803059 [1] "hi" LR.Stat LR.pval 4.834600 0.184317 [1] "hi" LR.Stat LR.pval 6.85119755 0.07679492 [1] "hi" LR.Stat LR.pval 12.410321031 0.006101951 [1] "hi" LR.Stat LR.pval 5.9806637 0.1125548 [1] "hi" LR.Stat LR.pval 4.5674714 0.2063504 [1] "hi" LR.Stat LR.pval 10.29919824 0.01618679 [1] "hi" LR.Stat LR.pval 12.161441314 0.006850104 [1] "hi" LR.Stat LR.pval 8.85117856 0.03133641 [1] "hi" LR.Stat LR.pval 4.6736748 0.1973122 Block 1 of 1 Completed - 1.773 secs Reading in Phenotype and Covariate Data... Running analysis with 50 Samples Beginning Calculations... [1] "hi" LR.Stat LR.pval 1.567110e+01 7.536688e-05 [1] "hi" LR.Stat LR.pval 1.6624991 0.1972662 [1] "hi" LR.Stat LR.pval 8.38393977 0.00378551 Block 1 of 1 Completed - 1.103 secs Reading in Phenotype and Covariate Data... Running analysis with 50 Samples Beginning Calculations... Block 1 of 1 Completed - 0.6154 secs Reading in Phenotype and Covariate Data... Running analysis with 500 Samples Beginning Calculations... Block 1 of 1 Completed - 0.7234 secs Reading in Phenotype and Covariate Data... Running analysis with 50 Samples Beginning Calculations... Block 1 of 1 Completed - 0.8163 secs Reading in Phenotype and Covariate Data... Running analysis with 50 Samples Beginning Calculations... Block 1 of 1 Completed - 0.2129 secs Reading in Phenotype and Covariate Data... Running analysis with 23 Samples Beginning Calculations... Block 1 of 1 Completed - 0.1679 secs Reading in Phenotype and Covariate Data... Running analysis with 23 Samples Beginning Calculations... Block 1 of 1 Completed - 0.2369 secs Reading in Phenotype and Covariate Data... Reading in Phenotype and Covariate Data... Running analysis with 50 Samples Beginning Calculations... Block 1 of 1 Completed - 0.2041 secs Reading in Phenotype and Covariate Data... Running analysis with 50 Samples Beginning Calculations... Block 1 of 4 Completed - 0.0662 secs Block 2 of 4 Completed - 0.0486 secs Block 3 of 4 Completed - 0.04569 secs Block 4 of 4 Completed - 0.001645 secs Reading in Phenotype and Covariate Data... Running analysis with 50 Samples Beginning Calculations... Block 1 of 1 Completed - 0.2444 secs Reading in Phenotype and Covariate Data... Running analysis with 50 Samples Beginning Calculations... Block 1 of 1 Completed - 0.2723 secs Reading in Phenotype and Covariate Data... Running analysis with 40 Samples Beginning Calculations... Block 1 of 1 Completed - 0.5527 secs Reading in Phenotype and Covariate Data... Running analysis with 40 Samples Beginning Calculations... Block 1 of 1 Completed - 0.2211 secs Reading in Phenotype and Covariate Data... Running analysis with 40 Samples Beginning Calculations... Block 1 of 1 Completed - 0.2684 secs Loading required package: zoo Attaching package: 'zoo' The following objects are masked from 'package:Rsamtools': index, index<- The following objects are masked from 'package:base': as.Date, as.Date.numeric Reading in Phenotype and Covariate Data... Running analysis with 40 Samples Beginning Calculations... Block 1 of 1 Completed - 0.3826 secs Reading in Phenotype and Covariate Data... Running analysis with 50 Samples Beginning Calculations... Block 1 of 1 Completed - 0.1503 secs Reading in Phenotype and Covariate Data... Running analysis with 50 Samples Beginning Calculations... Block 1 of 1 Completed - 0.06238 secs Reading in Phenotype and Covariate Data... Running analysis with 50 Samples Beginning Calculations... Block 1 of 1 Completed - 0.06359 secs Wed Aug 21 01:37:46 2024 Load genotype dataset ... Wed Aug 21 01:37:46 2024 1/2 batch1 Wed Aug 21 01:37:47 2024 Load genotype dataset ... Wed Aug 21 01:37:47 2024 1/4 batch1 Wed Aug 21 01:37:47 2024 2/4 batch2 Wed Aug 21 01:37:47 2024 3/4 batch3 Wed Aug 21 01:37:47 2024 4/4 batch4 Wed Aug 21 01:37:47 2024 Load genotype dataset ... Wed Aug 21 01:37:47 2024 1/4 batch1 Wed Aug 21 01:37:47 2024 2/4 batch2 Wed Aug 21 01:37:47 2024 3/4 batch3 Wed Aug 21 01:37:47 2024 4/4 batch4 Wed Aug 21 01:37:47 2024 Load genotype dataset ... Wed Aug 21 01:37:47 2024 1/4 batch1 Wed Aug 21 01:37:47 2024 2/4 batch2 Wed Aug 21 01:37:47 2024 3/4 batch3 Wed Aug 21 01:37:47 2024 4/4 batch4 Wed Aug 21 01:37:47 2024 Load genotype dataset ... Wed Aug 21 01:37:47 2024 1/4 batch1 Wed Aug 21 01:37:47 2024 2/4 batch2 Wed Aug 21 01:37:47 2024 3/4 batch3 Wed Aug 21 01:37:47 2024 4/4 batch4 Wed Aug 21 01:37:47 2024 Load genotype dataset ... Wed Aug 21 01:37:47 2024 1/4 batch1 Wed Aug 21 01:37:47 2024 2/4 batch2 Wed Aug 21 01:37:47 2024 3/4 batch3 Wed Aug 21 01:37:47 2024 4/4 batch4 Wed Aug 21 01:37:48 2024 Load genotype dataset ... Wed Aug 21 01:37:48 2024 1/4 batch1 Wed Aug 21 01:37:48 2024 2/4 batch2 Wed Aug 21 01:37:48 2024 3/4 batch3 Wed Aug 21 01:37:48 2024 4/4 batch4 Wed Aug 21 01:37:48 2024 Load genotype dataset ... Wed Aug 21 01:37:48 2024 1/4 batch1 Wed Aug 21 01:37:48 2024 2/4 batch2 Wed Aug 21 01:37:48 2024 3/4 batch3 Wed Aug 21 01:37:48 2024 4/4 batch4 Wed Aug 21 01:37:48 2024 Load genotype dataset ... Wed Aug 21 01:37:48 2024 1/4 batch1 Wed Aug 21 01:37:48 2024 2/4 batch2 Wed Aug 21 01:37:48 2024 3/4 batch3 Wed Aug 21 01:37:48 2024 4/4 batch4 Wed Aug 21 01:37:48 2024 Load genotype dataset ... Wed Aug 21 01:37:48 2024 1/2 batch1 Wed Aug 21 01:37:49 2024 Load genotype dataset ... Wed Aug 21 01:37:49 2024 1/4 batch1 Wed Aug 21 01:37:49 2024 2/4 batch2 Wed Aug 21 01:37:49 2024 3/4 batch3 Wed Aug 21 01:37:49 2024 4/4 batch4 Wed Aug 21 01:37:49 2024 Load genotype dataset ... Wed Aug 21 01:37:49 2024 1/2 batch1 Wed Aug 21 01:37:50 2024 Load genotype dataset ... Wed Aug 21 01:37:50 2024 1/2 batch1 Wed Aug 21 01:37:50 2024 Load genotype dataset ... Wed Aug 21 01:37:50 2024 1/2 batch1 Wed Aug 21 01:37:50 2024 Load genotype dataset ... Wed Aug 21 01:37:50 2024 1/2 batch1 Wed Aug 21 01:37:50 2024 Load genotype dataset ... Wed Aug 21 01:37:50 2024 1/2 batch1 Wed Aug 21 01:37:50 2024 Load genotype dataset ... Wed Aug 21 01:37:50 2024 1/2 batch1 Wed Aug 21 01:37:50 2024 Load genotype dataset ... Wed Aug 21 01:37:50 2024 1/2 batch1 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 100 Block 2 of 100 Block 3 of 100 Block 4 of 100 Block 5 of 100 Block 6 of 100 Block 7 of 100 Block 8 of 100 Block 9 of 100 Block 10 of 100 Block 11 of 100 Block 12 of 100 Block 13 of 100 Block 14 of 100 Block 15 of 100 Block 16 of 100 Block 17 of 100 Block 18 of 100 Block 19 of 100 Block 20 of 100 Block 21 of 100 Block 22 of 100 Block 23 of 100 Block 24 of 100 Block 25 of 100 Block 26 of 100 Block 27 of 100 Block 28 of 100 Block 29 of 100 Block 30 of 100 Block 31 of 100 Block 32 of 100 Block 33 of 100 Block 34 of 100 Block 35 of 100 Block 36 of 100 Block 37 of 100 Block 38 of 100 Block 39 of 100 Block 40 of 100 Block 41 of 100 Block 42 of 100 Block 43 of 100 Block 44 of 100 Block 45 of 100 Block 46 of 100 Block 47 of 100 Block 48 of 100 Block 49 of 100 Block 50 of 100 Block 51 of 100 Block 52 of 100 Block 53 of 100 Block 54 of 100 Block 55 of 100 Block 56 of 100 Block 57 of 100 Block 58 of 100 Block 59 of 100 Block 60 of 100 Block 61 of 100 Block 62 of 100 Block 63 of 100 Block 64 of 100 Block 65 of 100 Block 66 of 100 Block 67 of 100 Block 68 of 100 Block 69 of 100 Block 70 of 100 Block 71 of 100 Block 72 of 100 Block 73 of 100 Block 74 of 100 Block 75 of 100 Block 76 of 100 Block 77 of 100 Block 78 of 100 Block 79 of 100 Block 80 of 100 Block 81 of 100 Block 82 of 100 Block 83 of 100 Block 84 of 100 Block 85 of 100 Block 86 of 100 Block 87 of 100 Block 88 of 100 Block 89 of 100 Block 90 of 100 Block 91 of 100 Block 92 of 100 Block 93 of 100 Block 94 of 100 Block 95 of 100 Block 96 of 100 Block 97 of 100 Block 98 of 100 Block 99 of 100 Block 100 of 100 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 100 Block 2 of 100 Block 3 of 100 Block 4 of 100 Block 5 of 100 Block 6 of 100 Block 7 of 100 Block 8 of 100 Block 9 of 100 Block 10 of 100 Block 11 of 100 Block 12 of 100 Block 13 of 100 Block 14 of 100 Block 15 of 100 Block 16 of 100 Block 17 of 100 Block 18 of 100 Block 19 of 100 Block 20 of 100 Block 21 of 100 Block 22 of 100 Block 23 of 100 Block 24 of 100 Block 25 of 100 Block 26 of 100 Block 27 of 100 Block 28 of 100 Block 29 of 100 Block 30 of 100 Block 31 of 100 Block 32 of 100 Block 33 of 100 Block 34 of 100 Block 35 of 100 Block 36 of 100 Block 37 of 100 Block 38 of 100 Block 39 of 100 Block 40 of 100 Block 41 of 100 Block 42 of 100 Block 43 of 100 Block 44 of 100 Block 45 of 100 Block 46 of 100 Block 47 of 100 Block 48 of 100 Block 49 of 100 Block 50 of 100 Block 51 of 100 Block 52 of 100 Block 53 of 100 Block 54 of 100 Block 55 of 100 Block 56 of 100 Block 57 of 100 Block 58 of 100 Block 59 of 100 Block 60 of 100 Block 61 of 100 Block 62 of 100 Block 63 of 100 Block 64 of 100 Block 65 of 100 Block 66 of 100 Block 67 of 100 Block 68 of 100 Block 69 of 100 Block 70 of 100 Block 71 of 100 Block 72 of 100 Block 73 of 100 Block 74 of 100 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 100 Block 2 of 100 Block 3 of 100 Block 4 of 100 Block 5 of 100 Block 6 of 100 Block 7 of 100 Block 8 of 100 Block 9 of 100 Block 10 of 100 Block 11 of 100 Block 12 of 100 Block 13 of 100 Block 14 of 100 Block 15 of 100 Block 16 of 100 Block 17 of 100 Block 18 of 100 Block 19 of 100 Block 20 of 100 Block 21 of 100 Block 22 of 100 Block 23 of 100 Block 24 of 100 Block 25 of 100 Block 26 of 100 Block 27 of 100 Block 28 of 100 Block 29 of 100 Block 30 of 100 Block 31 of 100 Block 32 of 100 Block 33 of 100 Block 34 of 100 Block 35 of 100 Block 36 of 100 Block 37 of 100 Block 38 of 100 Block 39 of 100 Block 40 of 100 Block 41 of 100 Block 42 of 100 Block 43 of 100 Block 44 of 100 Block 45 of 100 Block 46 of 100 Block 47 of 100 Block 48 of 100 Block 49 of 100 Block 50 of 100 Block 51 of 100 Block 52 of 100 Block 53 of 100 Block 54 of 100 Block 55 of 100 Block 56 of 100 Block 57 of 100 Block 58 of 100 Block 59 of 100 Block 60 of 100 Block 61 of 100 Block 62 of 100 Block 63 of 100 Block 64 of 100 Block 65 of 100 Block 66 of 100 Block 67 of 100 Block 68 of 100 Block 69 of 100 Block 70 of 100 Block 71 of 100 Block 72 of 100 Block 73 of 100 Block 74 of 100 Block 75 of 100 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 100 Block 2 of 100 Block 3 of 100 Block 4 of 100 Block 5 of 100 Block 6 of 100 Block 7 of 100 Block 8 of 100 Block 9 of 100 Block 10 of 100 Block 11 of 100 Block 12 of 100 Block 13 of 100 Block 14 of 100 Block 15 of 100 Block 16 of 100 Block 17 of 100 Block 18 of 100 Block 19 of 100 Block 20 of 100 Block 21 of 100 Block 22 of 100 Block 23 of 100 Block 24 of 100 Block 25 of 100 Block 26 of 100 Block 27 of 100 Block 28 of 100 Block 29 of 100 Block 30 of 100 Block 31 of 100 Block 32 of 100 Block 33 of 100 Block 34 of 100 Block 35 of 100 Block 36 of 100 Block 37 of 100 Block 38 of 100 Block 39 of 100 Block 40 of 100 Block 41 of 100 Block 42 of 100 Block 43 of 100 Block 44 of 100 Block 45 of 100 Block 46 of 100 Block 47 of 100 Block 48 of 100 Block 49 of 100 Block 50 of 100 Block 51 of 100 Block 52 of 100 Block 53 of 100 Block 54 of 100 Block 55 of 100 Block 56 of 100 Block 57 of 100 Block 58 of 100 Block 59 of 100 Block 60 of 100 Block 61 of 100 Block 62 of 100 Block 63 of 100 Block 64 of 100 Block 65 of 100 Block 66 of 100 Block 67 of 100 Block 68 of 100 Block 69 of 100 Block 70 of 100 Block 71 of 100 Block 72 of 100 Block 73 of 100 Block 74 of 100 Block 75 of 100 Block 76 of 100 Block 77 of 100 Block 78 of 100 Block 79 of 100 Block 80 of 100 Block 81 of 100 Block 82 of 100 Block 83 of 100 Block 84 of 100 Block 85 of 100 Block 86 of 100 Block 87 of 100 Block 88 of 100 Block 89 of 100 Block 90 of 100 Block 91 of 100 Block 92 of 100 Block 93 of 100 Block 94 of 100 Block 95 of 100 Block 96 of 100 Block 97 of 100 Block 98 of 100 Block 99 of 100 Block 100 of 100 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 100 Block 2 of 100 Block 3 of 100 Block 4 of 100 Block 5 of 100 Block 6 of 100 Block 7 of 100 Block 8 of 100 Block 9 of 100 Block 10 of 100 Block 11 of 100 Block 12 of 100 Block 13 of 100 Block 14 of 100 Block 15 of 100 Block 16 of 100 Block 17 of 100 Block 18 of 100 Block 19 of 100 Block 20 of 100 Block 21 of 100 Block 22 of 100 Block 23 of 100 Block 24 of 100 Block 25 of 100 Block 26 of 100 Block 27 of 100 Block 28 of 100 Block 29 of 100 Block 30 of 100 Block 31 of 100 Block 32 of 100 Block 33 of 100 Block 34 of 100 Block 35 of 100 Block 36 of 100 Block 37 of 100 Block 38 of 100 Block 39 of 100 Block 40 of 100 Block 41 of 100 Block 42 of 100 Block 43 of 100 Block 44 of 100 Block 45 of 100 Block 46 of 100 Block 47 of 100 Block 48 of 100 Block 49 of 100 Block 50 of 100 Block 51 of 100 Block 52 of 100 Block 53 of 100 Block 54 of 100 Block 55 of 100 Block 56 of 100 Block 57 of 100 Block 58 of 100 Block 59 of 100 Block 60 of 100 Block 61 of 100 Block 62 of 100 Block 63 of 100 Block 64 of 100 Block 65 of 100 Block 66 of 100 Block 67 of 100 Block 68 of 100 Block 69 of 100 Block 70 of 100 Block 71 of 100 Block 72 of 100 Block 73 of 100 Block 74 of 100 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 100 Block 2 of 100 Block 3 of 100 Block 4 of 100 Block 5 of 100 Block 6 of 100 Block 7 of 100 Block 8 of 100 Block 9 of 100 Block 10 of 100 Block 11 of 100 Block 12 of 100 Block 13 of 100 Block 14 of 100 Block 15 of 100 Block 16 of 100 Block 17 of 100 Block 18 of 100 Block 19 of 100 Block 20 of 100 Block 21 of 100 Block 22 of 100 Block 23 of 100 Block 24 of 100 Block 25 of 100 Block 26 of 100 Block 27 of 100 Block 28 of 100 Block 29 of 100 Block 30 of 100 Block 31 of 100 Block 32 of 100 Block 33 of 100 Block 34 of 100 Block 35 of 100 Block 36 of 100 Block 37 of 100 Block 38 of 100 Block 39 of 100 Block 40 of 100 Block 41 of 100 Block 42 of 100 Block 43 of 100 Block 44 of 100 Block 45 of 100 Block 46 of 100 Block 47 of 100 Block 48 of 100 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 4 Block 2 of 4 Block 3 of 4 Block 4 of 4 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 4 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 2 Block 2 of 2 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 2 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 4 Block 2 of 4 Block 3 of 4 Block 4 of 4 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 4 Block 2 of 4 Block 3 of 4 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 2 Block 2 of 2 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 2 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 4 Block 2 of 4 Block 3 of 4 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 2 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 33 Block 2 of 33 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 13 Block 2 of 13 Block 3 of 13 Block 4 of 13 Block 5 of 13 Block 6 of 13 Block 7 of 13 Block 8 of 13 Block 9 of 13 Block 10 of 13 Block 11 of 13 Block 12 of 13 Block 13 of 13 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 13 Block 2 of 13 Block 3 of 13 Block 4 of 13 Block 5 of 13 Block 6 of 13 Block 7 of 13 Block 8 of 13 Block 9 of 13 Block 10 of 13 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 13 Block 2 of 13 Block 3 of 13 Block 4 of 13 Block 5 of 13 Block 6 of 13 Block 7 of 13 Block 8 of 13 Block 9 of 13 Block 10 of 13 Block 11 of 13 Block 12 of 13 Block 13 of 13 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 13 Block 2 of 13 Block 3 of 13 Block 4 of 13 Block 5 of 13 Block 6 of 13 Block 7 of 13 Block 8 of 13 Block 9 of 13 Block 10 of 13 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 6 Block 2 of 6 Block 3 of 6 Block 4 of 6 Block 5 of 6 Block 6 of 6 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 6 Block 2 of 6 Block 3 of 6 Block 4 of 6 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 6 Block 2 of 6 Block 3 of 6 Block 4 of 6 Block 5 of 6 Block 6 of 6 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 6 Block 2 of 6 Block 3 of 6 Block 4 of 6 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 13 Block 2 of 13 Block 3 of 13 Block 4 of 13 Block 5 of 13 Block 6 of 13 Block 7 of 13 Block 8 of 13 Block 9 of 13 Block 10 of 13 Block 11 of 13 Block 12 of 13 Block 13 of 13 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 13 Block 2 of 13 Block 3 of 13 Block 4 of 13 Block 5 of 13 Block 6 of 13 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 13 Block 2 of 13 Block 3 of 13 Block 4 of 13 Block 5 of 13 Block 6 of 13 Block 7 of 13 Block 8 of 13 Block 9 of 13 Block 10 of 13 Block 11 of 13 Block 12 of 13 Block 13 of 13 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 13 Block 2 of 13 Block 3 of 13 Block 4 of 13 Block 5 of 13 Block 6 of 13 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 6 Block 2 of 6 Block 3 of 6 Block 4 of 6 Block 5 of 6 Block 6 of 6 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 6 Block 2 of 6 Block 3 of 6 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 6 Block 2 of 6 Block 3 of 6 Block 4 of 6 Block 5 of 6 Block 6 of 6 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 6 Block 2 of 6 Block 3 of 6 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 500 Block 2 of 500 Block 3 of 500 Block 4 of 500 Block 5 of 500 Block 6 of 500 Block 7 of 500 Block 8 of 500 Block 9 of 500 Block 10 of 500 Block 11 of 500 Block 12 of 500 Block 13 of 500 Block 14 of 500 Block 15 of 500 Block 16 of 500 Block 17 of 500 Block 17 of 500 Block 18 of 500 Block 19 of 500 Block 20 of 500 Block 21 of 500 Block 22 of 500 Block 23 of 500 Block 24 of 500 Block 25 of 500 Block 26 of 500 Block 27 of 500 Block 28 of 500 Block 29 of 500 Block 30 of 500 Block 31 of 500 Block 32 of 500 Block 33 of 500 Block 34 of 500 Block 35 of 500 Block 36 of 500 Block 37 of 500 Block 38 of 500 Block 39 of 500 Block 40 of 500 Block 41 of 500 Block 42 of 500 Block 43 of 500 Block 44 of 500 Block 45 of 500 Block 46 of 500 Block 47 of 500 Block 48 of 500 Block 49 of 500 Block 50 of 500 Block 51 of 500 Block 52 of 500 Block 53 of 500 Block 53 of 500 Block 54 of 500 Block 55 of 500 Block 56 of 500 Block 57 of 500 Block 58 of 500 Block 59 of 500 Block 60 of 500 Block 61 of 500 Block 62 of 500 Block 63 of 500 Block 64 of 500 Block 65 of 500 Block 66 of 500 Block 67 of 500 Block 68 of 500 Block 69 of 500 Block 70 of 500 Block 71 of 500 Block 72 of 500 Block 73 of 500 Block 74 of 500 Block 75 of 500 Block 76 of 500 Block 77 of 500 Block 78 of 500 Block 79 of 500 Block 80 of 500 Block 81 of 500 Block 82 of 500 Block 83 of 500 Block 84 of 500 Block 85 of 500 Block 86 of 500 Block 87 of 500 Block 88 of 500 Block 89 of 500 Block 90 of 500 Block 91 of 500 Block 92 of 500 Block 93 of 500 Block 94 of 500 Block 95 of 500 Block 96 of 500 Block 97 of 500 Block 98 of 500 Block 99 of 500 Block 100 of 500 Block 101 of 500 Block 102 of 500 Block 103 of 500 Block 104 of 500 Block 105 of 500 Block 106 of 500 Block 107 of 500 Block 108 of 500 Block 109 of 500 Block 110 of 500 Block 111 of 500 Block 112 of 500 Block 113 of 500 Block 114 of 500 Block 115 of 500 Block 116 of 500 Block 117 of 500 Block 118 of 500 Block 119 of 500 Block 120 of 500 Block 121 of 500 Block 122 of 500 Block 123 of 500 Block 124 of 500 Block 125 of 500 Block 126 of 500 Block 127 of 500 Block 128 of 500 Block 129 of 500 Block 130 of 500 Block 131 of 500 Block 132 of 500 Block 133 of 500 Block 134 of 500 Block 135 of 500 Block 136 of 500 Block 137 of 500 Block 138 of 500 Block 139 of 500 Block 140 of 500 Block 141 of 500 Block 142 of 500 Block 143 of 500 Block 144 of 500 Block 145 of 500 Block 146 of 500 Block 147 of 500 Block 148 of 500 Block 149 of 500 Block 150 of 500 Block 151 of 500 Block 152 of 500 Block 153 of 500 Block 154 of 500 Block 155 of 500 Block 156 of 500 Block 157 of 500 Block 158 of 500 Block 159 of 500 Block 160 of 500 Block 161 of 500 Block 162 of 500 Block 163 of 500 Block 164 of 500 Block 165 of 500 Block 166 of 500 Block 167 of 500 Block 168 of 500 Block 169 of 500 Block 170 of 500 Block 171 of 500 Block 172 of 500 Block 173 of 500 Block 174 of 500 Block 175 of 500 Block 176 of 500 Block 177 of 500 Block 178 of 500 Block 179 of 500 Block 180 of 500 Block 181 of 500 Block 182 of 500 Block 183 of 500 Block 184 of 500 Block 185 of 500 Block 185 of 500 Block 186 of 500 Block 187 of 500 Block 188 of 500 Block 189 of 500 Block 190 of 500 Block 191 of 500 Block 192 of 500 Block 193 of 500 Block 194 of 500 Block 195 of 500 Block 196 of 500 Block 197 of 500 Block 198 of 500 Block 199 of 500 Block 200 of 500 Block 201 of 500 Block 202 of 500 Block 203 of 500 Block 204 of 500 Block 205 of 500 Block 206 of 500 Block 207 of 500 Block 208 of 500 Block 209 of 500 Block 210 of 500 Block 211 of 500 Block 212 of 500 Block 213 of 500 Block 214 of 500 Block 215 of 500 Block 216 of 500 Block 217 of 500 Block 218 of 500 Block 219 of 500 Block 220 of 500 Block 221 of 500 Block 222 of 500 Block 223 of 500 Block 224 of 500 Block 225 of 500 Block 226 of 500 Block 227 of 500 Block 228 of 500 Block 229 of 500 Block 230 of 500 Block 231 of 500 Block 232 of 500 Block 233 of 500 Block 234 of 500 Block 235 of 500 Block 236 of 500 Block 237 of 500 Block 238 of 500 Block 239 of 500 Block 240 of 500 Block 241 of 500 Block 242 of 500 Block 243 of 500 Block 244 of 500 Block 245 of 500 Block 246 of 500 Block 247 of 500 Block 248 of 500 Block 249 of 500 Block 250 of 500 Block 251 of 500 Block 252 of 500 Block 253 of 500 Block 254 of 500 Block 255 of 500 Block 256 of 500 Block 257 of 500 Block 258 of 500 Block 259 of 500 Block 260 of 500 Block 261 of 500 Block 262 of 500 Block 263 of 500 Block 264 of 500 Block 265 of 500 Block 266 of 500 Block 267 of 500 Block 268 of 500 Block 268 of 500 Block 269 of 500 Block 270 of 500 Block 271 of 500 Block 272 of 500 Block 273 of 500 Block 274 of 500 Block 275 of 500 Block 276 of 500 Block 277 of 500 Block 278 of 500 Block 279 of 500 Block 280 of 500 Block 281 of 500 Block 282 of 500 Block 283 of 500 Block 284 of 500 Block 285 of 500 Block 286 of 500 Block 287 of 500 Block 288 of 500 Block 289 of 500 Block 290 of 500 Block 291 of 500 Block 292 of 500 Block 293 of 500 Block 294 of 500 Block 295 of 500 Block 296 of 500 Block 297 of 500 Block 298 of 500 Block 299 of 500 Block 300 of 500 Block 301 of 500 Block 302 of 500 Block 303 of 500 Block 304 of 500 Block 305 of 500 Block 306 of 500 Block 307 of 500 Block 308 of 500 Block 309 of 500 Block 310 of 500 Block 311 of 500 Block 312 of 500 Block 313 of 500 Block 314 of 500 Block 315 of 500 Block 316 of 500 Block 317 of 500 Block 318 of 500 Block 319 of 500 Block 320 of 500 Block 321 of 500 Block 322 of 500 Block 323 of 500 Block 324 of 500 Block 325 of 500 Block 326 of 500 Block 327 of 500 Block 328 of 500 Block 329 of 500 Block 330 of 500 Block 331 of 500 Block 332 of 500 Block 333 of 500 Block 334 of 500 Block 335 of 500 Block 336 of 500 Block 337 of 500 Block 338 of 500 Block 339 of 500 Block 340 of 500 Block 341 of 500 Block 342 of 500 Block 343 of 500 Block 344 of 500 Block 345 of 500 Block 346 of 500 Block 347 of 500 Block 348 of 500 Block 349 of 500 Block 350 of 500 Block 351 of 500 Block 352 of 500 Block 353 of 500 Block 354 of 500 Block 355 of 500 Block 355 of 500 Block 356 of 500 Block 357 of 500 Block 358 of 500 Block 359 of 500 Block 360 of 500 Block 361 of 500 Block 362 of 500 Block 363 of 500 Block 364 of 500 Block 365 of 500 Block 366 of 500 Block 367 of 500 Block 368 of 500 Block 369 of 500 Block 370 of 500 Block 371 of 500 Block 372 of 500 Block 373 of 500 Block 374 of 500 Block 375 of 500 Block 376 of 500 Block 377 of 500 Block 378 of 500 Block 379 of 500 Block 380 of 500 Block 381 of 500 Block 382 of 500 Block 383 of 500 Block 384 of 500 Block 385 of 500 Block 386 of 500 Block 387 of 500 Block 388 of 500 Block 389 of 500 Block 390 of 500 Block 391 of 500 Block 392 of 500 Block 393 of 500 Block 394 of 500 Block 395 of 500 Block 396 of 500 Block 397 of 500 Block 398 of 500 Block 399 of 500 Block 400 of 500 Block 401 of 500 Block 402 of 500 Block 403 of 500 Block 404 of 500 Block 405 of 500 Block 406 of 500 Block 407 of 500 Block 408 of 500 Block 409 of 500 Block 410 of 500 Block 411 of 500 Block 412 of 500 Block 413 of 500 Block 414 of 500 Block 415 of 500 Block 416 of 500 Block 417 of 500 Block 418 of 500 Block 419 of 500 Block 420 of 500 Block 421 of 500 Block 422 of 500 Block 423 of 500 Block 424 of 500 Block 425 of 500 Block 426 of 500 Block 427 of 500 Block 428 of 500 Block 429 of 500 Block 430 of 500 Block 431 of 500 Block 432 of 500 Block 433 of 500 Block 434 of 500 Block 435 of 500 Block 436 of 500 Block 437 of 500 Block 438 of 500 Block 439 of 500 Block 440 of 500 Block 441 of 500 Block 442 of 500 Block 443 of 500 Block 444 of 500 Block 445 of 500 Block 446 of 500 Block 447 of 500 Block 448 of 500 Block 449 of 500 Block 450 of 500 Block 451 of 500 Block 452 of 500 Block 453 of 500 Block 454 of 500 Block 455 of 500 Block 456 of 500 Block 457 of 500 Block 458 of 500 Block 459 of 500 Block 460 of 500 Block 461 of 500 Block 462 of 500 Block 463 of 500 Block 464 of 500 Block 465 of 500 Block 466 of 500 Block 467 of 500 Block 468 of 500 Block 469 of 500 Block 470 of 500 Block 471 of 500 Block 472 of 500 Block 473 of 500 Block 474 of 500 Block 475 of 500 Block 476 of 500 Block 477 of 500 Block 478 of 500 Block 479 of 500 Block 480 of 500 Block 481 of 500 Block 482 of 500 Block 483 of 500 Block 484 of 500 Block 485 of 500 Block 486 of 500 Block 487 of 500 Block 488 of 500 Block 489 of 500 Block 490 of 500 Block 491 of 500 Block 492 of 500 Block 493 of 500 Block 494 of 500 Block 495 of 500 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 500 Block 2 of 500 Block 3 of 500 Block 4 of 500 Block 5 of 500 Block 6 of 500 Block 7 of 500 Block 8 of 500 Block 9 of 500 Block 10 of 500 Block 11 of 500 Block 12 of 500 Block 13 of 500 Block 14 of 500 Block 15 of 500 Block 16 of 500 Block 17 of 500 Block 17 of 500 Block 18 of 500 Block 19 of 500 Block 20 of 500 Block 21 of 500 Block 22 of 500 Block 23 of 500 Block 24 of 500 Block 25 of 500 Block 26 of 500 Block 27 of 500 Block 28 of 500 Block 29 of 500 Block 30 of 500 Block 31 of 500 Block 32 of 500 Block 33 of 500 Block 34 of 500 Block 35 of 500 Block 36 of 500 Block 37 of 500 Block 38 of 500 Block 39 of 500 Block 40 of 500 Block 41 of 500 Block 42 of 500 Block 43 of 500 Block 44 of 500 Block 45 of 500 Block 46 of 500 Block 47 of 500 Block 48 of 500 Block 49 of 500 Block 50 of 500 Block 51 of 500 Block 52 of 500 Block 53 of 500 Block 53 of 500 Block 54 of 500 Block 55 of 500 Block 56 of 500 Block 57 of 500 Block 58 of 500 Block 59 of 500 Block 60 of 500 Block 61 of 500 Block 62 of 500 Block 63 of 500 Block 64 of 500 Block 65 of 500 Block 66 of 500 Block 67 of 500 Block 68 of 500 Block 69 of 500 Block 70 of 500 Block 71 of 500 Block 72 of 500 Block 73 of 500 Block 74 of 500 Block 75 of 500 Block 76 of 500 Block 77 of 500 Block 78 of 500 Block 79 of 500 Block 80 of 500 Block 81 of 500 Block 82 of 500 Block 83 of 500 Block 84 of 500 Block 85 of 500 Block 86 of 500 Block 87 of 500 Block 88 of 500 Block 89 of 500 Block 90 of 500 Block 91 of 500 Block 92 of 500 Block 93 of 500 Block 94 of 500 Block 95 of 500 Block 96 of 500 Block 97 of 500 Block 98 of 500 Block 99 of 500 Block 100 of 500 Block 101 of 500 Block 102 of 500 Block 103 of 500 Block 104 of 500 Block 105 of 500 Block 106 of 500 Block 107 of 500 Block 108 of 500 Block 109 of 500 Block 110 of 500 Block 111 of 500 Block 112 of 500 Block 113 of 500 Block 114 of 500 Block 115 of 500 Block 116 of 500 Block 117 of 500 Block 118 of 500 Block 119 of 500 Block 120 of 500 Block 121 of 500 Block 122 of 500 Block 123 of 500 Block 124 of 500 Block 125 of 500 Block 126 of 500 Block 127 of 500 Block 128 of 500 Block 129 of 500 Block 130 of 500 Block 131 of 500 Block 132 of 500 Block 133 of 500 Block 134 of 500 Block 135 of 500 Block 136 of 500 Block 137 of 500 Block 138 of 500 Block 139 of 500 Block 140 of 500 Block 141 of 500 Block 142 of 500 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 500 Block 2 of 500 Block 3 of 500 Block 4 of 500 Block 5 of 500 Block 6 of 500 Block 7 of 500 Block 8 of 500 Block 9 of 500 Block 10 of 500 Block 11 of 500 Block 12 of 500 Block 13 of 500 Block 14 of 500 Block 15 of 500 Block 16 of 500 Block 17 of 500 Block 17 of 500 Block 18 of 500 Block 19 of 500 Block 20 of 500 Block 21 of 500 Block 22 of 500 Block 23 of 500 Block 24 of 500 Block 25 of 500 Block 26 of 500 Block 27 of 500 Block 28 of 500 Block 29 of 500 Block 30 of 500 Block 31 of 500 Block 32 of 500 Block 33 of 500 Block 34 of 500 Block 35 of 500 Block 36 of 500 Block 37 of 500 Block 38 of 500 Block 39 of 500 Block 40 of 500 Block 41 of 500 Block 42 of 500 Block 43 of 500 Block 44 of 500 Block 45 of 500 Block 46 of 500 Block 47 of 500 Block 48 of 500 Block 49 of 500 Block 50 of 500 Block 51 of 500 Block 52 of 500 Block 53 of 500 Block 53 of 500 Block 54 of 500 Block 55 of 500 Block 56 of 500 Block 57 of 500 Block 58 of 500 Block 59 of 500 Block 60 of 500 Block 61 of 500 Block 62 of 500 Block 63 of 500 Block 64 of 500 Block 65 of 500 Block 66 of 500 Block 67 of 500 Block 68 of 500 Block 69 of 500 Block 70 of 500 Block 71 of 500 Block 72 of 500 Block 73 of 500 Block 74 of 500 Block 75 of 500 Block 76 of 500 Block 77 of 500 Block 78 of 500 Block 79 of 500 Block 80 of 500 Block 81 of 500 Block 82 of 500 Block 83 of 500 Block 84 of 500 Block 85 of 500 Block 86 of 500 Block 87 of 500 Block 88 of 500 Block 89 of 500 Block 90 of 500 Block 91 of 500 Block 92 of 500 Block 93 of 500 Block 94 of 500 Block 95 of 500 Block 96 of 500 Block 97 of 500 Block 98 of 500 Block 99 of 500 Block 100 of 500 Block 101 of 500 Block 102 of 500 Block 103 of 500 Block 104 of 500 Block 105 of 500 Block 106 of 500 Block 107 of 500 Block 108 of 500 Block 109 of 500 Block 110 of 500 Block 111 of 500 Block 112 of 500 Block 113 of 500 Block 114 of 500 Block 115 of 500 Block 116 of 500 Block 117 of 500 Block 118 of 500 Block 119 of 500 Block 120 of 500 Block 121 of 500 Block 122 of 500 Block 123 of 500 Block 124 of 500 Block 125 of 500 Block 126 of 500 Block 127 of 500 Block 128 of 500 Block 129 of 500 Block 130 of 500 Block 131 of 500 Block 132 of 500 Block 133 of 500 Block 134 of 500 Block 135 of 500 Block 136 of 500 Block 137 of 500 Block 138 of 500 Block 139 of 500 Block 140 of 500 Block 141 of 500 Block 142 of 500 Block 143 of 500 Block 144 of 500 Block 145 of 500 Block 146 of 500 Block 147 of 500 Block 148 of 500 Block 149 of 500 Block 150 of 500 Block 151 of 500 Block 152 of 500 Block 153 of 500 Block 154 of 500 Block 155 of 500 Block 156 of 500 Block 157 of 500 Block 158 of 500 Block 159 of 500 Block 160 of 500 Block 161 of 500 Block 162 of 500 Block 163 of 500 Block 164 of 500 Block 165 of 500 Block 166 of 500 Block 167 of 500 Block 168 of 500 Block 169 of 500 Block 170 of 500 Block 171 of 500 Block 172 of 500 Block 173 of 500 Block 174 of 500 Block 175 of 500 Block 176 of 500 Block 177 of 500 Block 178 of 500 Block 179 of 500 Block 180 of 500 Block 181 of 500 Block 182 of 500 Block 183 of 500 Block 184 of 500 Block 185 of 500 Block 185 of 500 Block 186 of 500 Block 187 of 500 Block 188 of 500 Block 189 of 500 Block 190 of 500 Block 191 of 500 Block 192 of 500 Block 193 of 500 Block 194 of 500 Block 195 of 500 Block 196 of 500 Block 197 of 500 Block 198 of 500 Block 199 of 500 Block 200 of 500 Block 201 of 500 Block 202 of 500 Block 203 of 500 Block 204 of 500 Block 205 of 500 Block 206 of 500 Block 207 of 500 Block 208 of 500 Block 209 of 500 Block 210 of 500 Block 211 of 500 Block 212 of 500 Block 213 of 500 Block 214 of 500 Block 215 of 500 Block 216 of 500 Block 217 of 500 Block 218 of 500 Block 219 of 500 Block 220 of 500 Block 221 of 500 Block 222 of 500 Block 223 of 500 Block 224 of 500 Block 225 of 500 Block 226 of 500 Block 227 of 500 Block 228 of 500 Block 229 of 500 Block 230 of 500 Block 231 of 500 Block 232 of 500 Block 233 of 500 Block 234 of 500 Block 235 of 500 Block 236 of 500 Block 237 of 500 Block 238 of 500 Block 239 of 500 Block 240 of 500 Block 241 of 500 Block 242 of 500 Block 243 of 500 Block 244 of 500 Block 245 of 500 Block 246 of 500 Block 247 of 500 Block 248 of 500 Block 249 of 500 Block 250 of 500 Block 251 of 500 Block 252 of 500 Block 253 of 500 Block 254 of 500 Block 255 of 500 Block 256 of 500 Block 257 of 500 Block 258 of 500 Block 259 of 500 Block 260 of 500 Block 261 of 500 Block 262 of 500 Block 263 of 500 Block 264 of 500 Block 265 of 500 Block 266 of 500 Block 267 of 500 Block 268 of 500 Block 268 of 500 Block 269 of 500 Block 270 of 500 Block 271 of 500 Block 272 of 500 Block 273 of 500 Block 274 of 500 Block 275 of 500 Block 276 of 500 Block 277 of 500 Block 278 of 500 Block 279 of 500 Block 280 of 500 Block 281 of 500 Block 282 of 500 Block 283 of 500 Block 284 of 500 Block 285 of 500 Block 286 of 500 Block 287 of 500 Block 288 of 500 Block 289 of 500 Block 290 of 500 Block 291 of 500 Block 292 of 500 Block 293 of 500 Block 294 of 500 Block 295 of 500 Block 296 of 500 Block 297 of 500 Block 298 of 500 Block 299 of 500 Block 300 of 500 Block 301 of 500 Block 302 of 500 Block 303 of 500 Block 304 of 500 Block 305 of 500 Block 306 of 500 Block 307 of 500 Block 308 of 500 Block 309 of 500 Block 310 of 500 Block 311 of 500 Block 312 of 500 Block 313 of 500 Block 314 of 500 Block 315 of 500 Block 316 of 500 Block 317 of 500 Block 318 of 500 Block 319 of 500 Block 320 of 500 Block 321 of 500 Block 322 of 500 Block 323 of 500 Block 324 of 500 Block 325 of 500 Block 326 of 500 Block 327 of 500 Block 328 of 500 Block 329 of 500 Block 330 of 500 Block 331 of 500 Block 332 of 500 Block 333 of 500 Block 334 of 500 Block 335 of 500 Block 336 of 500 Block 337 of 500 Block 338 of 500 Block 339 of 500 Block 340 of 500 Block 341 of 500 Block 342 of 500 Block 343 of 500 Block 344 of 500 Block 345 of 500 Block 346 of 500 Block 347 of 500 Block 348 of 500 Block 349 of 500 Block 350 of 500 Block 351 of 500 Block 352 of 500 Block 353 of 500 Block 354 of 500 Block 355 of 500 Block 355 of 500 Block 356 of 500 Block 357 of 500 Block 358 of 500 Block 359 of 500 Block 360 of 500 Block 361 of 500 Block 362 of 500 Block 363 of 500 Block 364 of 500 Block 365 of 500 Block 366 of 500 Block 367 of 500 Block 368 of 500 Block 369 of 500 Block 370 of 500 Block 371 of 500 Block 372 of 500 Block 373 of 500 Block 374 of 500 Block 375 of 500 Block 376 of 500 Block 377 of 500 Block 378 of 500 Block 379 of 500 Block 380 of 500 Block 381 of 500 Block 382 of 500 Block 383 of 500 Block 384 of 500 Block 385 of 500 Block 386 of 500 Block 387 of 500 Block 388 of 500 Block 389 of 500 Block 390 of 500 Block 391 of 500 Block 392 of 500 Block 393 of 500 Block 394 of 500 Block 395 of 500 Block 396 of 500 Block 397 of 500 Block 398 of 500 Block 399 of 500 Block 400 of 500 Block 401 of 500 Block 402 of 500 Block 403 of 500 Block 404 of 500 Block 405 of 500 Block 406 of 500 Block 407 of 500 Block 408 of 500 Block 409 of 500 Block 410 of 500 Block 411 of 500 Block 412 of 500 Block 413 of 500 Block 414 of 500 Block 415 of 500 Block 416 of 500 Block 417 of 500 Block 418 of 500 Block 419 of 500 Block 420 of 500 Block 421 of 500 Block 422 of 500 Block 423 of 500 Block 424 of 500 Block 425 of 500 Block 426 of 500 Block 427 of 500 Block 428 of 500 Block 429 of 500 Block 430 of 500 Block 431 of 500 Block 432 of 500 Block 433 of 500 Block 434 of 500 Block 435 of 500 Block 436 of 500 Block 437 of 500 Block 438 of 500 Block 439 of 500 Block 440 of 500 Block 441 of 500 Block 442 of 500 Block 443 of 500 Block 444 of 500 Block 445 of 500 Block 446 of 500 Block 447 of 500 Block 448 of 500 Block 449 of 500 Block 450 of 500 Block 451 of 500 Block 452 of 500 Block 453 of 500 Block 454 of 500 Block 455 of 500 Block 456 of 500 Block 457 of 500 Block 458 of 500 Block 459 of 500 Block 460 of 500 Block 461 of 500 Block 462 of 500 Block 463 of 500 Block 464 of 500 Block 465 of 500 Block 466 of 500 Block 467 of 500 Block 468 of 500 Block 469 of 500 Block 470 of 500 Block 471 of 500 Block 472 of 500 Block 473 of 500 Block 474 of 500 Block 475 of 500 Block 476 of 500 Block 477 of 500 Block 478 of 500 Block 479 of 500 Block 480 of 500 Block 481 of 500 Block 482 of 500 Block 483 of 500 Block 484 of 500 Block 485 of 500 Block 486 of 500 Block 487 of 500 Block 488 of 500 Block 489 of 500 Block 490 of 500 Block 491 of 500 Block 492 of 500 Block 493 of 500 Block 494 of 500 Block 495 of 500 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 500 Block 2 of 500 Block 3 of 500 Block 4 of 500 Block 5 of 500 Block 6 of 500 Block 7 of 500 Block 8 of 500 Block 9 of 500 Block 10 of 500 Block 11 of 500 Block 12 of 500 Block 13 of 500 Block 14 of 500 Block 15 of 500 Block 16 of 500 Block 17 of 500 Block 17 of 500 Block 18 of 500 Block 19 of 500 Block 20 of 500 Block 21 of 500 Block 22 of 500 Block 23 of 500 Block 24 of 500 Block 25 of 500 Block 26 of 500 Block 27 of 500 Block 28 of 500 Block 29 of 500 Block 30 of 500 Block 31 of 500 Block 32 of 500 Block 33 of 500 Block 34 of 500 Block 35 of 500 Block 36 of 500 Block 37 of 500 Block 38 of 500 Block 39 of 500 Block 40 of 500 Block 41 of 500 Block 42 of 500 Block 43 of 500 Block 44 of 500 Block 45 of 500 Block 46 of 500 Block 47 of 500 Block 48 of 500 Block 49 of 500 Block 50 of 500 Block 51 of 500 Block 52 of 500 Block 53 of 500 Block 53 of 500 Block 54 of 500 Block 55 of 500 Block 56 of 500 Block 57 of 500 Block 58 of 500 Block 59 of 500 Block 60 of 500 Block 61 of 500 Block 62 of 500 Block 63 of 500 Block 64 of 500 Block 65 of 500 Block 66 of 500 Block 67 of 500 Block 68 of 500 Block 69 of 500 Block 70 of 500 Block 71 of 500 Block 72 of 500 Block 73 of 500 Block 74 of 500 Block 75 of 500 Block 76 of 500 Block 77 of 500 Block 78 of 500 Block 79 of 500 Block 80 of 500 Block 81 of 500 Block 82 of 500 Block 83 of 500 Block 84 of 500 Block 85 of 500 Block 86 of 500 Block 87 of 500 Block 88 of 500 Block 89 of 500 Block 90 of 500 Block 91 of 500 Block 92 of 500 Block 93 of 500 Block 94 of 500 Block 95 of 500 Block 96 of 500 Block 97 of 500 Block 98 of 500 Block 99 of 500 Block 100 of 500 Block 101 of 500 Block 102 of 500 Block 103 of 500 Block 104 of 500 Block 105 of 500 Block 106 of 500 Block 107 of 500 Block 108 of 500 Block 109 of 500 Block 110 of 500 Block 111 of 500 Block 112 of 500 Block 113 of 500 Block 114 of 500 Block 115 of 500 Block 116 of 500 Block 117 of 500 Block 118 of 500 Block 119 of 500 Block 120 of 500 Block 121 of 500 Block 122 of 500 Block 123 of 500 Block 124 of 500 Block 125 of 500 Block 126 of 500 Block 127 of 500 Block 128 of 500 Block 129 of 500 Block 130 of 500 Block 131 of 500 Block 132 of 500 Block 133 of 500 Block 134 of 500 Block 135 of 500 Block 136 of 500 Block 137 of 500 Block 138 of 500 Block 139 of 500 Block 140 of 500 Block 141 of 500 Block 142 of 500 Block 143 of 500 Block 144 of 500 Block 145 of 500 Block 146 of 500 Block 147 of 500 Block 148 of 500 Block 149 of 500 Block 150 of 500 Block 151 of 500 Block 152 of 500 Block 153 of 500 Block 154 of 500 Block 155 of 500 Block 156 of 500 Block 157 of 500 Block 158 of 500 Block 159 of 500 Block 160 of 500 Block 161 of 500 Block 162 of 500 Block 163 of 500 Block 164 of 500 Block 165 of 500 Block 166 of 500 Block 167 of 500 Block 168 of 500 Block 169 of 500 Block 170 of 500 Block 171 of 500 Block 172 of 500 Block 173 of 500 Block 174 of 500 Block 175 of 500 Block 176 of 500 Block 177 of 500 Block 178 of 500 Block 179 of 500 Block 180 of 500 Block 181 of 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of 500 Block 240 of 500 Block 241 of 500 Block 242 of 500 Block 243 of 500 Block 244 of 500 Block 245 of 500 Block 246 of 500 Block 247 of 500 Block 248 of 500 Block 249 of 500 Block 250 of 500 Block 251 of 500 Block 252 of 500 Block 253 of 500 Block 254 of 500 Block 255 of 500 Block 256 of 500 Block 257 of 500 Block 258 of 500 Block 259 of 500 Block 260 of 500 Block 261 of 500 Block 262 of 500 Block 263 of 500 Block 264 of 500 Block 265 of 500 Block 266 of 500 Block 267 of 500 Block 268 of 500 Block 268 of 500 Block 269 of 500 Block 270 of 500 Block 271 of 500 Block 272 of 500 Block 273 of 500 Block 274 of 500 Block 275 of 500 Block 276 of 500 Block 277 of 500 Block 278 of 500 Block 279 of 500 Block 280 of 500 Block 281 of 500 Block 282 of 500 Block 283 of 500 Block 284 of 500 Block 285 of 500 Block 286 of 500 Block 287 of 500 Block 288 of 500 Block 289 of 500 Block 290 of 500 Block 291 of 500 Block 292 of 500 Block 293 of 500 Block 294 of 500 Block 295 of 500 Block 296 of 500 Block 297 of 500 Block 298 of 500 Block 299 of 500 Block 300 of 500 Block 301 of 500 Block 302 of 500 Block 303 of 500 Block 304 of 500 Block 305 of 500 Block 306 of 500 Block 307 of 500 Block 308 of 500 Block 309 of 500 Block 310 of 500 Block 311 of 500 Block 312 of 500 Block 313 of 500 Block 314 of 500 Block 315 of 500 Block 316 of 500 Block 317 of 500 Block 318 of 500 Block 319 of 500 Block 320 of 500 Block 321 of 500 Block 322 of 500 Block 323 of 500 Block 324 of 500 Block 325 of 500 Block 326 of 500 Block 327 of 500 Block 328 of 500 Block 329 of 500 Block 330 of 500 Block 331 of 500 Block 332 of 500 Block 333 of 500 Block 334 of 500 Block 335 of 500 Block 336 of 500 Block 337 of 500 Block 338 of 500 Block 339 of 500 Block 340 of 500 Block 341 of 500 Block 342 of 500 Block 343 of 500 Block 344 of 500 Block 345 of 500 Block 346 of 500 Block 347 of 500 Block 348 of 500 Block 349 of 500 Block 350 of 500 Block 351 of 500 Block 352 of 500 Block 353 of 500 Block 354 of 500 Block 355 of 500 Block 355 of 500 Block 356 of 500 Block 357 of 500 Block 358 of 500 Block 359 of 500 Block 360 of 500 Block 361 of 500 Block 362 of 500 Block 363 of 500 Block 364 of 500 Block 365 of 500 Block 366 of 500 Block 367 of 500 Block 368 of 500 Block 369 of 500 Block 370 of 500 Block 371 of 500 Block 372 of 500 Block 373 of 500 Block 374 of 500 Block 375 of 500 Block 376 of 500 Block 377 of 500 Block 378 of 500 Block 379 of 500 Block 380 of 500 Block 381 of 500 Block 382 of 500 Block 383 of 500 Block 384 of 500 Block 385 of 500 Block 386 of 500 Block 387 of 500 Block 388 of 500 Block 389 of 500 Block 390 of 500 Block 391 of 500 Block 392 of 500 Block 393 of 500 Block 394 of 500 Block 395 of 500 Block 396 of 500 Block 397 of 500 Block 398 of 500 Block 399 of 500 Block 400 of 500 Block 401 of 500 Block 402 of 500 Block 403 of 500 Block 404 of 500 Block 405 of 500 Block 406 of 500 Block 407 of 500 Block 408 of 500 Block 409 of 500 Block 410 of 500 Block 411 of 500 Block 412 of 500 Block 413 of 500 Block 414 of 500 Block 415 of 500 Block 416 of 500 Block 417 of 500 Block 418 of 500 Block 419 of 500 Block 420 of 500 Block 421 of 500 Block 422 of 500 Block 423 of 500 Block 424 of 500 Block 425 of 500 Block 426 of 500 Block 427 of 500 Block 428 of 500 Block 429 of 500 Block 430 of 500 Block 431 of 500 Block 432 of 500 Block 433 of 500 Block 434 of 500 Block 435 of 500 Block 436 of 500 Block 437 of 500 Block 438 of 500 Block 439 of 500 Block 440 of 500 Block 441 of 500 Block 442 of 500 Block 443 of 500 Block 444 of 500 Block 445 of 500 Block 446 of 500 Block 447 of 500 Block 448 of 500 Block 449 of 500 Block 450 of 500 Block 451 of 500 Block 452 of 500 Block 453 of 500 Block 454 of 500 Block 455 of 500 Block 456 of 500 Block 457 of 500 Block 458 of 500 Block 459 of 500 Block 460 of 500 Block 461 of 500 Block 462 of 500 Block 463 of 500 Block 464 of 500 Block 465 of 500 Block 466 of 500 Block 467 of 500 Block 468 of 500 Block 469 of 500 Block 470 of 500 Block 471 of 500 Block 472 of 500 Block 473 of 500 Block 474 of 500 Block 475 of 500 Block 476 of 500 Block 477 of 500 Block 478 of 500 Block 479 of 500 Block 480 of 500 Block 481 of 500 Block 482 of 500 Block 483 of 500 Block 484 of 500 Block 485 of 500 Block 486 of 500 Block 487 of 500 Block 488 of 500 Block 489 of 500 Block 490 of 500 Block 491 of 500 Block 492 of 500 Block 493 of 500 Block 494 of 500 Block 495 of 500 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 500 Block 2 of 500 Block 3 of 500 Block 4 of 500 Block 5 of 500 Block 6 of 500 Block 7 of 500 Block 8 of 500 Block 9 of 500 Block 10 of 500 Block 11 of 500 Block 12 of 500 Block 13 of 500 Block 14 of 500 Block 15 of 500 Block 16 of 500 Block 17 of 500 Block 17 of 500 Block 18 of 500 Block 19 of 500 Block 20 of 500 Block 21 of 500 Block 22 of 500 Block 23 of 500 Block 24 of 500 Block 25 of 500 Block 26 of 500 Block 27 of 500 Block 28 of 500 Block 29 of 500 Block 30 of 500 Block 31 of 500 Block 32 of 500 Block 33 of 500 Block 34 of 500 Block 35 of 500 Block 36 of 500 Block 37 of 500 Block 38 of 500 Block 39 of 500 Block 40 of 500 Block 41 of 500 Block 42 of 500 Block 43 of 500 Block 44 of 500 Block 45 of 500 Block 46 of 500 Block 47 of 500 Block 48 of 500 Block 49 of 500 Block 50 of 500 Block 51 of 500 Block 52 of 500 Block 53 of 500 Block 53 of 500 Block 54 of 500 Block 55 of 500 Block 56 of 500 Block 57 of 500 Block 58 of 500 Block 59 of 500 Block 60 of 500 Block 61 of 500 Block 62 of 500 Block 63 of 500 Block 64 of 500 Block 65 of 500 Block 66 of 500 Block 67 of 500 Block 68 of 500 Block 69 of 500 Block 70 of 500 Block 71 of 500 Block 72 of 500 Block 73 of 500 Block 74 of 500 Block 75 of 500 Block 76 of 500 Block 77 of 500 Block 78 of 500 Block 79 of 500 Block 80 of 500 Block 81 of 500 Block 82 of 500 Block 83 of 500 Block 84 of 500 Block 85 of 500 Block 86 of 500 Block 87 of 500 Block 88 of 500 Block 89 of 500 Block 90 of 500 Block 91 of 500 Block 92 of 500 Block 93 of 500 Block 94 of 500 Block 95 of 500 Block 96 of 500 Block 97 of 500 Block 98 of 500 Block 99 of 500 Block 100 of 500 Block 101 of 500 Block 102 of 500 Block 103 of 500 Block 104 of 500 Block 105 of 500 Block 106 of 500 Block 107 of 500 Block 108 of 500 Block 109 of 500 Block 110 of 500 Block 111 of 500 Block 112 of 500 Block 113 of 500 Block 114 of 500 Block 115 of 500 Block 116 of 500 Block 117 of 500 Block 118 of 500 Block 119 of 500 Block 120 of 500 Block 121 of 500 Block 122 of 500 Block 123 of 500 Block 124 of 500 Block 125 of 500 Block 126 of 500 Block 127 of 500 Block 128 of 500 Block 129 of 500 Block 130 of 500 Block 131 of 500 Block 132 of 500 Block 133 of 500 Block 134 of 500 Block 135 of 500 Block 136 of 500 Block 137 of 500 Block 138 of 500 Block 139 of 500 Block 140 of 500 Block 141 of 500 Block 142 of 500 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 500 Block 2 of 500 Block 3 of 500 Block 4 of 500 Block 5 of 500 Block 6 of 500 Block 7 of 500 Block 8 of 500 Block 9 of 500 Block 10 of 500 Block 11 of 500 Block 12 of 500 Block 13 of 500 Block 14 of 500 Block 15 of 500 Block 16 of 500 Block 17 of 500 Block 17 of 500 Block 18 of 500 Block 19 of 500 Block 20 of 500 Block 21 of 500 Block 22 of 500 Block 23 of 500 Block 24 of 500 Block 25 of 500 Block 26 of 500 Block 27 of 500 Block 28 of 500 Block 29 of 500 Block 30 of 500 Block 31 of 500 Block 32 of 500 Block 33 of 500 Block 34 of 500 Block 35 of 500 Block 36 of 500 Block 37 of 500 Block 38 of 500 Block 39 of 500 Block 40 of 500 Block 41 of 500 Block 42 of 500 Block 43 of 500 Block 44 of 500 Block 45 of 500 Block 46 of 500 Block 47 of 500 Block 48 of 500 Block 49 of 500 Block 50 of 500 Block 51 of 500 Block 52 of 500 Block 53 of 500 Block 53 of 500 Block 54 of 500 Block 55 of 500 Block 56 of 500 Block 57 of 500 Block 58 of 500 Block 59 of 500 Block 60 of 500 Block 61 of 500 Block 62 of 500 Block 63 of 500 Block 64 of 500 Block 65 of 500 Block 66 of 500 Block 67 of 500 Block 68 of 500 Block 69 of 500 Block 70 of 500 Block 71 of 500 Block 72 of 500 Block 73 of 500 Block 74 of 500 Block 75 of 500 Block 76 of 500 Block 77 of 500 Block 78 of 500 Block 79 of 500 Block 80 of 500 Block 81 of 500 Block 82 of 500 Block 83 of 500 Block 84 of 500 Block 85 of 500 Block 86 of 500 Block 87 of 500 Block 88 of 500 Block 89 of 500 Block 90 of 500 Block 91 of 500 Block 92 of 500 Block 93 of 500 Block 94 of 500 Block 95 of 500 Block 96 of 500 Block 97 of 500 Block 98 of 500 Block 99 of 500 Block 100 of 500 Block 101 of 500 Block 102 of 500 Block 103 of 500 Block 104 of 500 Block 105 of 500 Block 106 of 500 Block 107 of 500 Block 108 of 500 Block 109 of 500 Block 110 of 500 Block 111 of 500 Block 112 of 500 Block 113 of 500 Block 114 of 500 Block 115 of 500 Block 116 of 500 Block 117 of 500 Block 118 of 500 Block 119 of 500 Block 120 of 500 Block 121 of 500 Block 122 of 500 Block 123 of 500 Block 124 of 500 Block 125 of 500 Block 126 of 500 Block 127 of 500 Block 128 of 500 Block 129 of 500 Block 130 of 500 Block 131 of 500 Block 132 of 500 Block 133 of 500 Block 134 of 500 Block 135 of 500 Block 136 of 500 Block 137 of 500 Block 138 of 500 Block 139 of 500 Block 140 of 500 Block 141 of 500 Block 142 of 500 Block 143 of 500 Block 144 of 500 Block 145 of 500 Block 146 of 500 Block 147 of 500 Block 148 of 500 Block 149 of 500 Block 150 of 500 Block 151 of 500 Block 152 of 500 Block 153 of 500 Block 154 of 500 Block 155 of 500 Block 156 of 500 Block 157 of 500 Block 158 of 500 Block 159 of 500 Block 160 of 500 Block 161 of 500 Block 162 of 500 Block 163 of 500 Block 164 of 500 Block 165 of 500 Block 166 of 500 Block 167 of 500 Block 168 of 500 Block 169 of 500 Block 170 of 500 Block 171 of 500 Block 172 of 500 Block 173 of 500 Block 174 of 500 Block 175 of 500 Block 176 of 500 Block 177 of 500 Block 178 of 500 Block 179 of 500 Block 180 of 500 Block 181 of 500 Block 182 of 500 Block 183 of 500 Block 184 of 500 Block 185 of 500 Block 185 of 500 Block 186 of 500 Block 187 of 500 Block 188 of 500 Block 189 of 500 Block 190 of 500 Block 191 of 500 Block 192 of 500 Block 193 of 500 Block 194 of 500 Block 195 of 500 Block 196 of 500 Block 197 of 500 Block 198 of 500 Block 199 of 500 Block 200 of 500 Block 201 of 500 Block 202 of 500 Block 203 of 500 Block 204 of 500 Block 205 of 500 Block 206 of 500 Block 207 of 500 Block 208 of 500 Block 209 of 500 Block 210 of 500 Block 211 of 500 Block 212 of 500 Block 213 of 500 Block 214 of 500 Block 215 of 500 Block 216 of 500 Block 217 of 500 Block 218 of 500 Block 219 of 500 Block 220 of 500 Block 221 of 500 Block 222 of 500 Block 223 of 500 Block 224 of 500 Block 225 of 500 Block 226 of 500 Block 227 of 500 Block 228 of 500 Block 229 of 500 Block 230 of 500 Block 231 of 500 Block 232 of 500 Block 233 of 500 Block 234 of 500 Block 235 of 500 Block 236 of 500 Block 237 of 500 Block 238 of 500 Block 239 of 500 Block 240 of 500 Block 241 of 500 Block 242 of 500 Block 243 of 500 Block 244 of 500 Block 245 of 500 Block 246 of 500 Block 247 of 500 Block 248 of 500 Block 249 of 500 Block 250 of 500 Block 251 of 500 Block 252 of 500 Block 253 of 500 Block 254 of 500 Block 255 of 500 Block 256 of 500 Block 257 of 500 Block 258 of 500 Block 259 of 500 Block 260 of 500 Block 261 of 500 Block 262 of 500 Block 263 of 500 Block 264 of 500 Block 265 of 500 Block 266 of 500 Block 267 of 500 Block 268 of 500 Block 268 of 500 Block 269 of 500 Block 270 of 500 Block 271 of 500 Block 272 of 500 Block 273 of 500 Block 274 of 500 Block 275 of 500 Block 276 of 500 Block 277 of 500 Block 278 of 500 Block 279 of 500 Block 280 of 500 Block 281 of 500 Block 282 of 500 Block 283 of 500 Block 284 of 500 Block 285 of 500 Block 286 of 500 Block 287 of 500 Block 288 of 500 Block 289 of 500 Block 290 of 500 Block 291 of 500 Block 292 of 500 Block 293 of 500 Block 294 of 500 Block 295 of 500 Block 296 of 500 Block 297 of 500 Block 298 of 500 Block 299 of 500 Block 300 of 500 Block 301 of 500 Block 302 of 500 Block 303 of 500 Block 304 of 500 Block 305 of 500 Block 306 of 500 Block 307 of 500 Block 308 of 500 Block 309 of 500 Block 310 of 500 Block 311 of 500 Block 312 of 500 Block 313 of 500 Block 314 of 500 Block 315 of 500 Block 316 of 500 Block 317 of 500 Block 318 of 500 Block 319 of 500 Block 320 of 500 Block 321 of 500 Block 322 of 500 Block 323 of 500 Block 324 of 500 Block 325 of 500 Block 326 of 500 Block 327 of 500 Block 328 of 500 Block 329 of 500 Block 330 of 500 Block 331 of 500 Block 332 of 500 Block 333 of 500 Block 334 of 500 Block 335 of 500 Block 336 of 500 Block 337 of 500 Block 338 of 500 Block 339 of 500 Block 340 of 500 Block 341 of 500 Block 342 of 500 Block 343 of 500 Block 344 of 500 Block 345 of 500 Block 346 of 500 Block 347 of 500 Block 348 of 500 Block 349 of 500 Block 350 of 500 Block 351 of 500 Block 352 of 500 Block 353 of 500 Block 354 of 500 Block 355 of 500 Block 355 of 500 Block 356 of 500 Block 357 of 500 Block 358 of 500 Block 359 of 500 Block 360 of 500 Block 361 of 500 Block 362 of 500 Block 363 of 500 Block 364 of 500 Block 365 of 500 Block 366 of 500 Block 367 of 500 Block 368 of 500 Block 369 of 500 Block 370 of 500 Block 371 of 500 Block 372 of 500 Block 373 of 500 Block 374 of 500 Block 375 of 500 Block 376 of 500 Block 377 of 500 Block 378 of 500 Block 379 of 500 Block 380 of 500 Block 381 of 500 Block 382 of 500 Block 383 of 500 Block 384 of 500 Block 385 of 500 Block 386 of 500 Block 387 of 500 Block 388 of 500 Block 389 of 500 Block 390 of 500 Block 391 of 500 Block 392 of 500 Block 393 of 500 Block 394 of 500 Block 395 of 500 Block 396 of 500 Block 397 of 500 Block 398 of 500 Block 399 of 500 Block 400 of 500 Block 401 of 500 Block 402 of 500 Block 403 of 500 Block 404 of 500 Block 405 of 500 Block 406 of 500 Block 407 of 500 Block 408 of 500 Block 409 of 500 Block 410 of 500 Block 411 of 500 Block 412 of 500 Block 413 of 500 Block 414 of 500 Block 415 of 500 Block 416 of 500 Block 417 of 500 Block 418 of 500 Block 419 of 500 Block 420 of 500 Block 421 of 500 Block 422 of 500 Block 423 of 500 Block 424 of 500 Block 425 of 500 Block 426 of 500 Block 427 of 500 Block 428 of 500 Block 429 of 500 Block 430 of 500 Block 431 of 500 Block 432 of 500 Block 433 of 500 Block 434 of 500 Block 435 of 500 Block 436 of 500 Block 437 of 500 Block 438 of 500 Block 439 of 500 Block 440 of 500 Block 441 of 500 Block 442 of 500 Block 443 of 500 Block 444 of 500 Block 445 of 500 Block 446 of 500 Block 447 of 500 Block 448 of 500 Block 449 of 500 Block 450 of 500 Block 451 of 500 Block 452 of 500 Block 453 of 500 Block 454 of 500 Block 455 of 500 Block 456 of 500 Block 457 of 500 Block 458 of 500 Block 459 of 500 Block 460 of 500 Block 461 of 500 Block 462 of 500 Block 463 of 500 Block 464 of 500 Block 465 of 500 Block 466 of 500 Block 467 of 500 Block 468 of 500 Block 469 of 500 Block 470 of 500 Block 471 of 500 Block 472 of 500 Block 473 of 500 Block 474 of 500 Block 475 of 500 Block 476 of 500 Block 477 of 500 Block 478 of 500 Block 479 of 500 Block 480 of 500 Block 481 of 500 Block 482 of 500 Block 483 of 500 Block 484 of 500 Block 485 of 500 Block 486 of 500 Block 487 of 500 Block 488 of 500 Block 489 of 500 Block 490 of 500 Block 491 of 500 Block 492 of 500 Block 493 of 500 Block 494 of 500 Block 495 of 500 adding variables: quality, X, Y Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c5aa27b21' (67.1K) # of fragments: 35 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c5aa27b21.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c5aa27b21.tmp' (66.9K, reduced: 216B) # of fragments: 17 Wed Aug 21 01:38:23 2024 begin convertNcdfGds ... Wed Aug 21 01:38:23 2024 Creating GDS file ... Wed Aug 21 01:38:23 2024 Adding sample data... Wed Aug 21 01:38:23 2024 end convertNcdfGds. Wed Aug 21 01:38:23 2024 begin checkNcdfGds ... The numbers of samples are equal The numbers of snps are equal. Wed Aug 21 01:38:23 2024 Checking in the sample order ... OK!!! Wed Aug 21 01:38:23 2024 begin checkNcdfGds ... The numbers of samples are equal The numbers of snps are equal. Wed Aug 21 01:38:23 2024 Checking in the sample order ... The 1th sample error! Wed Aug 21 01:38:23 2024 begin convertGdsNcdf ... Wed Aug 21 01:38:23 2024 Creating NetCDF file ... Wed Aug 21 01:38:23 2024 Adding sample data ... Wed Aug 21 01:38:23 2024 end convertGdsNcdf. Wed Aug 21 01:38:24 2024 begin convertGdsNcdf ... Wed Aug 21 01:38:24 2024 Creating NetCDF file ... Wed Aug 21 01:38:24 2024 Adding sample data ... Wed Aug 21 01:38:24 2024 end convertGdsNcdf. SNP genotypes: 20 samples, 260 SNPs Genotype matrix is being transposed ... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c55745216' (4.3K) # of fragments: 13 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c55745216.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c55745216.tmp' (3.0K, reduced: 1.4K) # of fragments: 11 Wed Aug 21 01:38:24 2024 begin convertGdsNcdf ... Wed Aug 21 01:38:24 2024 Creating NetCDF file ... Wed Aug 21 01:38:24 2024 Adding sample data ... Wed Aug 21 01:38:24 2024 end convertGdsNcdf. Wed Aug 21 01:38:24 2024 begin convertNcdfGds ... Wed Aug 21 01:38:24 2024 Creating GDS file ... Wed Aug 21 01:38:24 2024 Adding sample data... Wed Aug 21 01:38:24 2024 end convertNcdfGds. Wed Aug 21 01:38:24 2024 begin convertNcdfGds ... Wed Aug 21 01:38:24 2024 Creating GDS file ... Wed Aug 21 01:38:24 2024 Adding sample data... Wed Aug 21 01:38:24 2024 end convertNcdfGds. Wed Aug 21 01:38:24 2024 begin convertNcdfGds ... Wed Aug 21 01:38:24 2024 Creating GDS file ... Wed Aug 21 01:38:24 2024 Adding sample data... Wed Aug 21 01:38:24 2024 end convertNcdfGds. Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7ae2339a' (88.4K) # of fragments: 31 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7ae2339a.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7ae2339a.tmp' (88.3K, reduced: 192B) # of fragments: 15 adding variables: genotype Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c31ad6c65' (25.3K) # of fragments: 26 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c31ad6c65.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c31ad6c65.tmp' (25.1K, reduced: 156B) # of fragments: 13 adding variables: genotype adding variables: genotype Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c11f92431' (28.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c11f92431.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c11f92431.tmp' (28.3K, reduced: 180B) # of fragments: 15 adding variables: genotype Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c61ba1fa3' (27.1K) # of fragments: 26 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c61ba1fa3.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c61ba1fa3.tmp' (27.0K, reduced: 156B) # of fragments: 13 adding variables: genotype adding variables: quality, X, Y Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c2dc75eb4' (67.1K) # of fragments: 35 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c2dc75eb4.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c2dc75eb4.tmp' (66.9K, reduced: 216B) # of fragments: 17 adding variables: quality, X, Y adding variables: genotype Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c5c5c6532' (28.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c5c5c6532.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c5c5c6532.tmp' (28.3K, reduced: 180B) # of fragments: 15 working on genotype genotype - sample 10 of 10 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6ee732b8' (2.6K) # of fragments: 31 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6ee732b8.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6ee732b8.tmp' (2.4K, reduced: 192B) # of fragments: 15 working on genotype genotype - sample 10 of 10 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c4805124d' (2.6K) # of fragments: 31 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c4805124d.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c4805124d.tmp' (2.4K, reduced: 192B) # of fragments: 15 Comparing identical datasets Matching variants on position, alleles Calculating squared correlation of allelic dosages at 20 overlapping variants in 10 duplicate sample pairs Detecting that the two datasets are counting different A alleles at 0 variants Getting genotypes: Calculating correlation by SNP Block 1 of 2 Block 2 of 2 Calculating correlation by sample Block 1 of 2 Block 2 of 2 Finished! Comparing no matching samples Comparing >1 dup pair Matching variants on position, alleles Calculating squared correlation of allelic dosages at 20 overlapping variants in 9 duplicate sample pairs Detecting that the two datasets are counting different A alleles at 0 variants Getting genotypes: Calculating correlation by SNP Block 1 of 1 Calculating correlation by sample Block 1 of 1 Finished! Comparing different datasets Matching variants on position, alleles Calculating squared correlation of allelic dosages at 19 overlapping variants in 9 duplicate sample pairs Detecting that the two datasets are counting different A alleles at 1 variants Getting genotypes: Calculating correlation by SNP Block 1 of 1 Calculating correlation by sample Block 1 of 1 Finished! selecting genotypes from genoData1 selecting genotypes from genoData2 subject 1 out of 3, 2 replications subject 2 out of 3, 2 replications subject 3 out of 3, 2 replications subject 1 out of 3, 2 replications subject 2 out of 3, 2 replications subject 3 out of 3, 2 replications subject 1 out of 3, 2 replications subject 2 out of 3, 2 replications subject 3 out of 3, 2 replications Calculating allele freqency in genoData1 subject 1 out of 3, 2 replications subject 2 out of 3, 2 replications subject 3 out of 3, 2 replications subject 1 out of 3, 2 replications subject 2 out of 3, 2 replications subject 3 out of 3, 3 replications subject 1 out of 3, 2 replications subject 2 out of 3, 2 replications subject 3 out of 3, 2 replications subject 1 out of 3, 2 replications subject 2 out of 3, 2 replications subject 3 out of 3, 3 replications subject 1 out of 3, 2 replications subject 2 out of 3, 2 replications subject 3 out of 3, 3 replications subject 1 out of 2, 2 replications subject 2 out of 2, 2 replications Calculating allele freqency in genoData1 subject 1 out of 4 subject 2 out of 4 subject 3 out of 4 subject 4 out of 4 subject 1 out of 2, 3 replications subject 2 out of 2, 2 replications calculating dosage correlation by SNP, in blocks of 5,000 SNPs Block 1 of 1 subject 1 out of 2, 2 replications subject 2 out of 2, 2 replications calculating dosage correlation by SNP, in blocks of 5,000 SNPs Block 1 of 1 subject 1 out of 2, 3 replications subject 2 out of 2, 2 replications calculating dosage correlation by SNP, in blocks of 5,000 SNPs Block 1 of 1 subject 1 out of 2, 2 replications subject 2 out of 2, 2 replications subject 1 out of 2, 3 replications subject 2 out of 2, 2 replications subject 1 out of 2, 3 replications subject 2 out of 2, 2 replications Beginning Calculations... Block 1 of 1 Completed - 0.0005739 secs Beginning Calculations... Block 1 of 1 Completed - 0.0004549 secs Beginning Calculations... Block 1 of 1 Completed - 0.0004921 secs Beginning Calculations... Block 1 of 1 Completed - 0.001507 secs Beginning Calculations... Block 1 of 1 Completed - 0.000392 secs Beginning Calculations... Block 1 of 1 Completed - 0.0009189 secs working on genotype genotype - sample 10 of 10 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c56da40d3' (2.3K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c56da40d3.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c56da40d3.tmp' (2.1K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over samples All variables match. working on genotype genotype - sample 10 of 10 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c557b68b5' (2.3K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c557b68b5.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c557b68b5.tmp' (2.2K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over samples All variables match. working on genotype working on genotype working on genotype genotype - sample 10 of 10 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c36fb3721' (2.3K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c36fb3721.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c36fb3721.tmp' (2.2K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over samples All variables match. working on genotype genotype - looping over samples working on genotype genotype - looping over samples All variables match. working on genotype genotype - looping over samples working on genotype genotype - sample 10 of 10 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c21c7414c' (2.3K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c21c7414c.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c21c7414c.tmp' (2.2K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over samples working on genotype genotype - sample 10 of 10 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c765b4dbf' (2.3K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c765b4dbf.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c765b4dbf.tmp' (2.2K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over samples All variables match. working on genotype genotype - sample 10 of 10 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8ccca476' (3.2K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8ccca476.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8ccca476.tmp' (3.0K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over samples All variables match. working on genotype genotype - sample 10 of 20 genotype - sample 20 of 20 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c31bc14fd' (2.5K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c31bc14fd.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c31bc14fd.tmp' (2.3K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over samples All variables match. working on genotype genotype - sample 10 of 10 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c8145b0' (2.3K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c8145b0.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c8145b0.tmp' (2.2K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over samples All variables match. working on genotype working on genotype genotype - block 1 of 1 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7da1146f' (2.3K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7da1146f.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7da1146f.tmp' (2.2K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over snps All variables match. working on genotype genotype - block 1 of 13 genotype - block 2 of 13 genotype - block 3 of 13 genotype - block 4 of 13 genotype - block 5 of 13 genotype - block 6 of 13 genotype - block 7 of 13 genotype - block 8 of 13 genotype - block 9 of 13 genotype - block 10 of 13 genotype - block 11 of 13 genotype - block 12 of 13 genotype - block 13 of 13 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c2893516b' (2.3K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c2893516b.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c2893516b.tmp' (2.2K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over snps All variables match. working on genotype genotype - block 1 of 2 genotype - block 2 of 2 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c1a495bed' (2.3K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c1a495bed.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c1a495bed.tmp' (2.2K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over snps All variables match. working on genotype genotype - block 1 of 260 genotype - block 2 of 260 genotype - block 3 of 260 genotype - block 4 of 260 genotype - block 5 of 260 genotype - block 6 of 260 genotype - block 7 of 260 genotype - block 8 of 260 genotype - block 9 of 260 genotype - block 10 of 260 genotype - block 11 of 260 genotype - block 12 of 260 genotype - block 13 of 260 genotype - block 14 of 260 genotype - block 15 of 260 genotype - block 16 of 260 genotype - block 17 of 260 genotype - block 18 of 260 genotype - block 19 of 260 genotype - block 20 of 260 genotype - block 21 of 260 genotype - block 22 of 260 genotype - block 23 of 260 genotype - block 24 of 260 genotype - block 25 of 260 genotype - block 26 of 260 genotype - block 27 of 260 genotype - block 28 of 260 genotype - block 29 of 260 genotype - block 30 of 260 genotype - block 31 of 260 genotype - block 32 of 260 genotype - block 33 of 260 genotype - block 34 of 260 genotype - block 35 of 260 genotype - block 36 of 260 genotype - block 37 of 260 genotype - block 38 of 260 genotype - block 39 of 260 genotype - block 40 of 260 genotype - block 41 of 260 genotype - block 42 of 260 genotype - block 43 of 260 genotype - block 44 of 260 genotype - block 45 of 260 genotype - block 46 of 260 genotype - block 47 of 260 genotype - block 48 of 260 genotype - block 49 of 260 genotype - block 50 of 260 genotype - block 51 of 260 genotype - block 52 of 260 genotype - block 53 of 260 genotype - block 54 of 260 genotype - block 55 of 260 genotype - block 56 of 260 genotype - block 57 of 260 genotype - block 58 of 260 genotype - block 59 of 260 genotype - block 60 of 260 genotype - block 61 of 260 genotype - block 62 of 260 genotype - block 63 of 260 genotype - block 64 of 260 genotype - block 65 of 260 genotype - block 66 of 260 genotype - block 67 of 260 genotype - block 68 of 260 genotype - block 69 of 260 genotype - block 70 of 260 genotype - block 71 of 260 genotype - block 72 of 260 genotype - block 73 of 260 genotype - block 74 of 260 genotype - block 75 of 260 genotype - block 76 of 260 genotype - block 77 of 260 genotype - block 78 of 260 genotype - block 79 of 260 genotype - block 80 of 260 genotype - block 81 of 260 genotype - block 82 of 260 genotype - block 83 of 260 genotype - block 84 of 260 genotype - block 85 of 260 genotype - block 86 of 260 genotype - block 87 of 260 genotype - block 88 of 260 genotype - block 89 of 260 genotype - block 90 of 260 genotype - block 91 of 260 genotype - block 92 of 260 genotype - block 93 of 260 genotype - block 94 of 260 genotype - block 95 of 260 genotype - block 96 of 260 genotype - block 97 of 260 genotype - block 98 of 260 genotype - block 99 of 260 genotype - block 100 of 260 genotype - block 101 of 260 genotype - block 102 of 260 genotype - block 103 of 260 genotype - block 104 of 260 genotype - block 105 of 260 genotype - block 106 of 260 genotype - block 107 of 260 genotype - block 108 of 260 genotype - block 109 of 260 genotype - block 110 of 260 genotype - block 111 of 260 genotype - block 112 of 260 genotype - block 113 of 260 genotype - block 114 of 260 genotype - block 115 of 260 genotype - block 116 of 260 genotype - block 117 of 260 genotype - block 118 of 260 genotype - block 119 of 260 genotype - block 120 of 260 genotype - block 121 of 260 genotype - block 122 of 260 genotype - block 123 of 260 genotype - block 124 of 260 genotype - block 125 of 260 genotype - block 126 of 260 genotype - block 127 of 260 genotype - block 128 of 260 genotype - block 129 of 260 genotype - block 130 of 260 genotype - block 131 of 260 genotype - block 132 of 260 genotype - block 133 of 260 genotype - block 134 of 260 genotype - block 135 of 260 genotype - block 136 of 260 genotype - block 137 of 260 genotype - block 138 of 260 genotype - block 139 of 260 genotype - block 140 of 260 genotype - block 141 of 260 genotype - block 142 of 260 genotype - block 143 of 260 genotype - block 144 of 260 genotype - block 145 of 260 genotype - block 146 of 260 genotype - block 147 of 260 genotype - block 148 of 260 genotype - block 149 of 260 genotype - block 150 of 260 genotype - block 151 of 260 genotype - block 152 of 260 genotype - block 153 of 260 genotype - block 154 of 260 genotype - block 155 of 260 genotype - block 156 of 260 genotype - block 157 of 260 genotype - block 158 of 260 genotype - block 159 of 260 genotype - block 160 of 260 genotype - block 161 of 260 genotype - block 162 of 260 genotype - block 163 of 260 genotype - block 164 of 260 genotype - block 165 of 260 genotype - block 166 of 260 genotype - block 167 of 260 genotype - block 168 of 260 genotype - block 169 of 260 genotype - block 170 of 260 genotype - block 171 of 260 genotype - block 172 of 260 genotype - block 173 of 260 genotype - block 174 of 260 genotype - block 175 of 260 genotype - block 176 of 260 genotype - block 177 of 260 genotype - block 178 of 260 genotype - block 179 of 260 genotype - block 180 of 260 genotype - block 181 of 260 genotype - block 182 of 260 genotype - block 183 of 260 genotype - block 184 of 260 genotype - block 185 of 260 genotype - block 186 of 260 genotype - block 187 of 260 genotype - block 188 of 260 genotype - block 189 of 260 genotype - block 190 of 260 genotype - block 191 of 260 genotype - block 192 of 260 genotype - block 193 of 260 genotype - block 194 of 260 genotype - block 195 of 260 genotype - block 196 of 260 genotype - block 197 of 260 genotype - block 198 of 260 genotype - block 199 of 260 genotype - block 200 of 260 genotype - block 201 of 260 genotype - block 202 of 260 genotype - block 203 of 260 genotype - block 204 of 260 genotype - block 205 of 260 genotype - block 206 of 260 genotype - block 207 of 260 genotype - block 208 of 260 genotype - block 209 of 260 genotype - block 210 of 260 genotype - block 211 of 260 genotype - block 212 of 260 genotype - block 213 of 260 genotype - block 214 of 260 genotype - block 215 of 260 genotype - block 216 of 260 genotype - block 217 of 260 genotype - block 218 of 260 genotype - block 219 of 260 genotype - block 220 of 260 genotype - block 221 of 260 genotype - block 222 of 260 genotype - block 223 of 260 genotype - block 224 of 260 genotype - block 225 of 260 genotype - block 226 of 260 genotype - block 227 of 260 genotype - block 228 of 260 genotype - block 229 of 260 genotype - block 230 of 260 genotype - block 231 of 260 genotype - block 232 of 260 genotype - block 233 of 260 genotype - block 234 of 260 genotype - block 235 of 260 genotype - block 236 of 260 genotype - block 237 of 260 genotype - block 238 of 260 genotype - block 239 of 260 genotype - block 240 of 260 genotype - block 241 of 260 genotype - block 242 of 260 genotype - block 243 of 260 genotype - block 244 of 260 genotype - block 245 of 260 genotype - block 246 of 260 genotype - block 247 of 260 genotype - block 248 of 260 genotype - block 249 of 260 genotype - block 250 of 260 genotype - block 251 of 260 genotype - block 252 of 260 genotype - block 253 of 260 genotype - block 254 of 260 genotype - block 255 of 260 genotype - block 256 of 260 genotype - block 257 of 260 genotype - block 258 of 260 genotype - block 259 of 260 genotype - block 260 of 260 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c4efe67c0' (2.3K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c4efe67c0.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c4efe67c0.tmp' (2.2K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over snps All variables match. working on genotype genotype - block 1 of 1 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c39c65842' (3.2K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c39c65842.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c39c65842.tmp' (3.0K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over snps All variables match. working on genotype genotype - block 1 of 1 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c42d565f3' (2.5K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c42d565f3.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c42d565f3.tmp' (2.3K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over snps All variables match. working on genotype genotype - block 1 of 11 genotype - block 2 of 11 genotype - block 3 of 11 genotype - block 4 of 11 genotype - block 5 of 11 genotype - block 6 of 11 genotype - block 7 of 11 genotype - block 8 of 11 genotype - block 9 of 11 genotype - block 10 of 11 genotype - block 11 of 11 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c82c7af6' (2.4K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c82c7af6.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c82c7af6.tmp' (2.2K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over snps All variables match. working on genotype genotype - block 1 of 1 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8cf8945e9' (3.1K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8cf8945e9.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8cf8945e9.tmp' (3.0K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over snps All variables match. working on genotype genotype - block 1 of 1 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c55ab2031' (2.5K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c55ab2031.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c55ab2031.tmp' (2.3K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over snps All variables match. working on genotype genotype - sample 10 of 10 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7175277d' (2.4K) # of fragments: 27 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7175277d.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7175277d.tmp' (2.2K, reduced: 168B) # of fragments: 13 working on genotype genotype - looping over samples All variables match. working on genotype1 genotype1 - sample 10 of 10 working on genotype2 genotype2 - sample 10 of 10 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c76c245ec' (2.6K) # of fragments: 32 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c76c245ec.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c76c245ec.tmp' (2.4K, reduced: 204B) # of fragments: 15 working on genotype1 genotype1 - looping over samples working on genotype2 genotype2 - looping over samples All variables match. working on genotype1 genotype1 - sample 10 of 10 working on genotype2 genotype2 - sample 10 of 10 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c57822c71' (4.0K) # of fragments: 32 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c57822c71.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c57822c71.tmp' (3.8K, reduced: 204B) # of fragments: 15 working on genotype1 genotype1 - looping over samples working on genotype2 genotype2 - looping over samples All variables match. working on genotype1 genotype1 - sample 10 of 20 genotype1 - sample 20 of 20 working on genotype2 genotype2 - sample 10 of 20 genotype2 - sample 20 of 20 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3bbf21f0' (2.9K) # of fragments: 32 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3bbf21f0.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3bbf21f0.tmp' (2.7K, reduced: 204B) # of fragments: 15 working on genotype1 genotype1 - looping over samples working on genotype2 genotype2 - looping over samples All variables match. Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' (2.5K, reduced: 727B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' (2.5K, reduced: 727B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' (2.5K, reduced: 727B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' (2.5K, reduced: 727B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' (2.5K, reduced: 727B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c6e9719b2.tmp' (2.5K, reduced: 727B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a' (2.6K) # of fragments: 31 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a.tmp' (2.4K, reduced: 204B) # of fragments: 14 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a' (2.6K) # of fragments: 31 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a.tmp' (2.4K, reduced: 204B) # of fragments: 14 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a' (2.6K) # of fragments: 31 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a.tmp' (2.4K, reduced: 204B) # of fragments: 14 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a' (2.6K) # of fragments: 31 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a.tmp' (2.4K, reduced: 204B) # of fragments: 14 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a' (2.6K) # of fragments: 31 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a.tmp' (2.4K, reduced: 204B) # of fragments: 14 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a' (2.6K) # of fragments: 31 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c7147505a.tmp' (2.4K, reduced: 204B) # of fragments: 14 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d' (3.2K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c322963d.tmp' (2.5K, reduced: 723B) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 1 Writing annotation... Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 1 Writing annotation... Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047' (3.6K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' (2.5K, reduced: 1.0K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047' (3.6K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' (2.5K, reduced: 1.0K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047' (3.6K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' (2.5K, reduced: 1.0K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047' (3.6K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' (2.5K, reduced: 1.0K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047' (3.6K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' (2.5K, reduced: 1.0K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047' (3.6K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' (2.5K, reduced: 1.0K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 100 Block 2 of 100 Block 3 of 100 Block 4 of 100 Block 5 of 100 Block 6 of 100 Block 7 of 100 Block 8 of 100 Block 9 of 100 Block 10 of 100 Block 11 of 100 Block 12 of 100 Block 13 of 100 Block 14 of 100 Block 15 of 100 Block 16 of 100 Block 17 of 100 Block 18 of 100 Block 19 of 100 Block 20 of 100 Block 21 of 100 Block 22 of 100 Block 23 of 100 Block 24 of 100 Block 25 of 100 Block 26 of 100 Block 27 of 100 Block 28 of 100 Block 29 of 100 Block 30 of 100 Block 31 of 100 Block 32 of 100 Block 33 of 100 Block 34 of 100 Block 35 of 100 Block 36 of 100 Block 37 of 100 Block 38 of 100 Block 39 of 100 Block 40 of 100 Block 41 of 100 Block 42 of 100 Block 43 of 100 Block 44 of 100 Block 45 of 100 Block 46 of 100 Block 47 of 100 Block 48 of 100 Block 49 of 100 Block 50 of 100 Block 51 of 100 Block 52 of 100 Block 53 of 100 Block 54 of 100 Block 55 of 100 Block 56 of 100 Block 57 of 100 Block 58 of 100 Block 59 of 100 Block 60 of 100 Block 61 of 100 Block 62 of 100 Block 63 of 100 Block 64 of 100 Block 65 of 100 Block 66 of 100 Block 67 of 100 Block 68 of 100 Block 69 of 100 Block 70 of 100 Block 71 of 100 Block 72 of 100 Block 73 of 100 Block 74 of 100 Block 75 of 100 Block 76 of 100 Block 77 of 100 Block 78 of 100 Block 79 of 100 Block 80 of 100 Block 81 of 100 Block 82 of 100 Block 83 of 100 Block 84 of 100 Block 85 of 100 Block 86 of 100 Block 87 of 100 Block 88 of 100 Block 89 of 100 Block 90 of 100 Block 91 of 100 Block 92 of 100 Block 93 of 100 Block 94 of 100 Block 95 of 100 Block 96 of 100 Block 97 of 100 Block 98 of 100 Block 99 of 100 Block 100 of 100 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047' (3.6K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' (2.5K, reduced: 1.0K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP file... Reading genotype file... Block 1 of 100 Block 2 of 100 Block 3 of 100 Block 4 of 100 Block 5 of 100 Block 6 of 100 Block 7 of 100 Block 8 of 100 Block 9 of 100 Block 10 of 100 Block 11 of 100 Block 12 of 100 Block 13 of 100 Block 14 of 100 Block 15 of 100 Block 16 of 100 Block 17 of 100 Block 18 of 100 Block 19 of 100 Block 20 of 100 Block 21 of 100 Block 22 of 100 Block 23 of 100 Block 24 of 100 Block 25 of 100 Block 26 of 100 Block 27 of 100 Block 28 of 100 Block 29 of 100 Block 30 of 100 Block 31 of 100 Block 32 of 100 Block 33 of 100 Block 34 of 100 Block 35 of 100 Block 36 of 100 Block 37 of 100 Block 38 of 100 Block 39 of 100 Block 40 of 100 Block 41 of 100 Block 42 of 100 Block 43 of 100 Block 44 of 100 Block 45 of 100 Block 46 of 100 Block 47 of 100 Block 48 of 100 Block 49 of 100 Block 50 of 100 Block 51 of 100 Block 52 of 100 Block 53 of 100 Block 54 of 100 Block 55 of 100 Block 56 of 100 Block 57 of 100 Block 58 of 100 Block 59 of 100 Block 60 of 100 Block 61 of 100 Block 62 of 100 Block 63 of 100 Block 64 of 100 Block 65 of 100 Block 66 of 100 Block 67 of 100 Block 68 of 100 Block 69 of 100 Block 70 of 100 Block 71 of 100 Block 72 of 100 Block 73 of 100 Block 74 of 100 Block 75 of 100 Block 76 of 100 Block 77 of 100 Block 78 of 100 Block 79 of 100 Block 80 of 100 Block 81 of 100 Block 82 of 100 Block 83 of 100 Block 84 of 100 Block 85 of 100 Block 86 of 100 Block 87 of 100 Block 88 of 100 Block 89 of 100 Block 90 of 100 Block 91 of 100 Block 92 of 100 Block 93 of 100 Block 94 of 100 Block 95 of 100 Block 96 of 100 Block 97 of 100 Block 98 of 100 Block 99 of 100 Block 100 of 100 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047' (3.6K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c79824047.tmp' (2.5K, reduced: 1.0K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a' (34.7K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a.tmp' (4.9K, reduced: 29.8K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 4 Block 2 of 4 Block 3 of 4 Block 4 of 4 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a' (34.7K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a.tmp' (4.9K, reduced: 29.8K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a' (34.7K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a.tmp' (4.9K, reduced: 29.8K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a' (34.7K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a.tmp' (4.9K, reduced: 29.8K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 4 Block 2 of 4 Block 3 of 4 Block 4 of 4 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a' (34.7K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a.tmp' (4.9K, reduced: 29.8K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a' (34.7K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c9736d3a.tmp' (4.9K, reduced: 29.8K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28' (4.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28.tmp' (3.5K, reduced: 1010B) # of fragments: 14 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 4 Block 2 of 4 Block 3 of 4 Block 4 of 4 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28' (4.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28.tmp' (3.5K, reduced: 1010B) # of fragments: 14 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 4 Block 2 of 4 Block 3 of 4 Block 4 of 4 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28' (4.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28.tmp' (3.5K, reduced: 1010B) # of fragments: 14 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 2 Block 2 of 2 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28' (4.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28.tmp' (3.5K, reduced: 1.0K) # of fragments: 14 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 4 Block 2 of 4 Block 3 of 4 Block 4 of 4 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28' (4.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28.tmp' (3.5K, reduced: 1.0K) # of fragments: 14 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 4 Block 2 of 4 Block 3 of 4 Block 4 of 4 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28' (4.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d99b28.tmp' (3.5K, reduced: 1.0K) # of fragments: 14 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 2 Block 2 of 2 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c31db315b' (34.7K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c31db315b.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c31db315b.tmp' (4.9K, reduced: 29.8K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 33 Block 2 of 33 Block 3 of 33 Block 4 of 33 Block 5 of 33 Block 6 of 33 Block 7 of 33 Block 8 of 33 Block 9 of 33 Block 10 of 33 Block 11 of 33 Block 12 of 33 Block 13 of 33 Block 14 of 33 Block 15 of 33 Block 16 of 33 Block 17 of 33 Block 18 of 33 Block 19 of 33 Block 20 of 33 Block 21 of 33 Block 22 of 33 Block 23 of 33 Block 24 of 33 Block 25 of 33 Block 26 of 33 Block 27 of 33 Block 28 of 33 Block 29 of 33 Block 30 of 33 Block 31 of 33 Block 32 of 33 Block 33 of 33 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c31db315b' (34.7K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c31db315b.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c31db315b.tmp' (4.9K, reduced: 29.8K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 1 Writing annotation... Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 4 Block 2 of 4 Block 3 of 4 Block 4 of 4 Writing annotation... Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading sample file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c37ef1ed2' (34.7K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c37ef1ed2.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c37ef1ed2.tmp' (4.9K, reduced: 29.8K) # of fragments: 14 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c347e27ef' (29.3K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c347e27ef.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c347e27ef.tmp' (4.2K, reduced: 25.1K) # of fragments: 14 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 4 Block 2 of 4 Block 3 of 4 Block 4 of 4 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c347e27ef' (29.3K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c347e27ef.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c347e27ef.tmp' (4.2K, reduced: 25.1K) # of fragments: 14 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c347e27ef' (29.3K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c347e27ef.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c347e27ef.tmp' (4.2K, reduced: 25.1K) # of fragments: 14 Determining number of SNPs and samples... Reading sample file... Reading genotype file... Block 1 of 33 Block 2 of 33 Block 3 of 33 Block 4 of 33 Block 5 of 33 Block 6 of 33 Block 7 of 33 Block 8 of 33 Block 9 of 33 Block 10 of 33 Block 11 of 33 Block 12 of 33 Block 13 of 33 Block 14 of 33 Block 15 of 33 Block 16 of 33 Block 17 of 33 Block 18 of 33 Block 19 of 33 Block 20 of 33 Block 21 of 33 Block 22 of 33 Block 23 of 33 Block 24 of 33 Block 25 of 33 Block 26 of 33 Block 27 of 33 Block 28 of 33 Block 29 of 33 Block 30 of 33 Block 31 of 33 Block 32 of 33 Block 33 of 33 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c347e27ef' (29.3K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c347e27ef.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c347e27ef.tmp' (4.2K, reduced: 25.1K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' (87.7K, reduced: 262.8K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' (86.3K, reduced: 264.2K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' (87.7K, reduced: 262.8K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' (86.3K, reduced: 264.2K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' (87.7K, reduced: 262.8K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' (86.3K, reduced: 264.2K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' (91.1K, reduced: 259.3K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' (90.6K, reduced: 259.9K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' (91.1K, reduced: 259.3K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' (90.6K, reduced: 259.9K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' (91.1K, reduced: 259.3K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c45bc5e55.tmp' (90.6K, reduced: 259.9K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8' (24.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8.tmp' (10.9K, reduced: 13.6K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8' (24.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8.tmp' (10.9K, reduced: 13.6K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8' (24.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8.tmp' (10.9K, reduced: 13.6K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 2 Block 2 of 2 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8' (24.6K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8.tmp' (10.2K, reduced: 14.3K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8' (24.6K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8.tmp' (10.2K, reduced: 14.3K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8' (24.6K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c404013c8.tmp' (10.2K, reduced: 14.3K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 2 Block 2 of 2 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c41d41e75' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c41d41e75.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c41d41e75.tmp' (87.7K, reduced: 262.8K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c41d41e75' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c41d41e75.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c41d41e75.tmp' (86.3K, reduced: 264.2K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... 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of 500 Block 478 of 500 Block 479 of 500 Block 480 of 500 Block 481 of 500 Block 482 of 500 Block 483 of 500 Block 484 of 500 Block 485 of 500 Block 486 of 500 Block 487 of 500 Block 488 of 500 Block 489 of 500 Block 490 of 500 Block 491 of 500 Block 492 of 500 Block 493 of 500 Block 494 of 500 Block 495 of 500 Block 496 of 500 Block 497 of 500 Block 498 of 500 Block 499 of 500 Block 500 of 500 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c41d41e75' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c41d41e75.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c41d41e75.tmp' (87.7K, reduced: 262.8K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 500 Block 2 of 500 Block 3 of 500 Block 4 of 500 Block 5 of 500 Block 6 of 500 Block 7 of 500 Block 8 of 500 Block 9 of 500 Block 10 of 500 Block 11 of 500 Block 12 of 500 Block 13 of 500 Block 14 of 500 Block 15 of 500 Block 16 of 500 Block 17 of 500 Block 18 of 500 Block 19 of 500 Block 20 of 500 Block 21 of 500 Block 22 of 500 Block 23 of 500 Block 24 of 500 Block 25 of 500 Block 26 of 500 Block 27 of 500 Block 28 of 500 Block 29 of 500 Block 30 of 500 Block 31 of 500 Block 32 of 500 Block 33 of 500 Block 34 of 500 Block 35 of 500 Block 36 of 500 Block 37 of 500 Block 38 of 500 Block 39 of 500 Block 40 of 500 Block 41 of 500 Block 42 of 500 Block 43 of 500 Block 44 of 500 Block 45 of 500 Block 46 of 500 Block 47 of 500 Block 48 of 500 Block 49 of 500 Block 50 of 500 Block 51 of 500 Block 52 of 500 Block 53 of 500 Block 54 of 500 Block 55 of 500 Block 56 of 500 Block 57 of 500 Block 58 of 500 Block 59 of 500 Block 60 of 500 Block 61 of 500 Block 62 of 500 Block 63 of 500 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Block 125 of 500 Block 126 of 500 Block 127 of 500 Block 128 of 500 Block 129 of 500 Block 130 of 500 Block 131 of 500 Block 132 of 500 Block 133 of 500 Block 134 of 500 Block 135 of 500 Block 136 of 500 Block 137 of 500 Block 138 of 500 Block 139 of 500 Block 140 of 500 Block 141 of 500 Block 142 of 500 Block 143 of 500 Block 144 of 500 Block 145 of 500 Block 146 of 500 Block 147 of 500 Block 148 of 500 Block 149 of 500 Block 150 of 500 Block 151 of 500 Block 152 of 500 Block 153 of 500 Block 154 of 500 Block 155 of 500 Block 156 of 500 Block 157 of 500 Block 158 of 500 Block 159 of 500 Block 160 of 500 Block 161 of 500 Block 162 of 500 Block 163 of 500 Block 164 of 500 Block 165 of 500 Block 166 of 500 Block 167 of 500 Block 168 of 500 Block 169 of 500 Block 170 of 500 Block 171 of 500 Block 172 of 500 Block 173 of 500 Block 174 of 500 Block 175 of 500 Block 176 of 500 Block 177 of 500 Block 178 of 500 Block 179 of 500 Block 180 of 500 Block 181 of 500 Block 182 of 500 Block 183 of 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of 500 Block 243 of 500 Block 244 of 500 Block 245 of 500 Block 246 of 500 Block 247 of 500 Block 248 of 500 Block 249 of 500 Block 250 of 500 Block 251 of 500 Block 252 of 500 Block 253 of 500 Block 254 of 500 Block 255 of 500 Block 256 of 500 Block 257 of 500 Block 258 of 500 Block 259 of 500 Block 260 of 500 Block 261 of 500 Block 262 of 500 Block 263 of 500 Block 264 of 500 Block 265 of 500 Block 266 of 500 Block 267 of 500 Block 268 of 500 Block 269 of 500 Block 270 of 500 Block 271 of 500 Block 272 of 500 Block 273 of 500 Block 274 of 500 Block 275 of 500 Block 276 of 500 Block 277 of 500 Block 278 of 500 Block 279 of 500 Block 280 of 500 Block 281 of 500 Block 282 of 500 Block 283 of 500 Block 284 of 500 Block 285 of 500 Block 286 of 500 Block 287 of 500 Block 288 of 500 Block 289 of 500 Block 290 of 500 Block 291 of 500 Block 292 of 500 Block 293 of 500 Block 294 of 500 Block 295 of 500 Block 296 of 500 Block 297 of 500 Block 298 of 500 Block 299 of 500 Block 300 of 500 Block 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Block 360 of 500 Block 361 of 500 Block 362 of 500 Block 363 of 500 Block 364 of 500 Block 365 of 500 Block 366 of 500 Block 367 of 500 Block 368 of 500 Block 369 of 500 Block 370 of 500 Block 371 of 500 Block 372 of 500 Block 373 of 500 Block 374 of 500 Block 375 of 500 Block 376 of 500 Block 377 of 500 Block 378 of 500 Block 379 of 500 Block 380 of 500 Block 381 of 500 Block 382 of 500 Block 383 of 500 Block 384 of 500 Block 385 of 500 Block 386 of 500 Block 387 of 500 Block 388 of 500 Block 389 of 500 Block 390 of 500 Block 391 of 500 Block 392 of 500 Block 393 of 500 Block 394 of 500 Block 395 of 500 Block 396 of 500 Block 397 of 500 Block 398 of 500 Block 399 of 500 Block 400 of 500 Block 401 of 500 Block 402 of 500 Block 403 of 500 Block 404 of 500 Block 405 of 500 Block 406 of 500 Block 407 of 500 Block 408 of 500 Block 409 of 500 Block 410 of 500 Block 411 of 500 Block 412 of 500 Block 413 of 500 Block 414 of 500 Block 415 of 500 Block 416 of 500 Block 417 of 500 Block 418 of 500 Block 419 of 500 Block 420 of 500 Block 421 of 500 Block 422 of 500 Block 423 of 500 Block 424 of 500 Block 425 of 500 Block 426 of 500 Block 427 of 500 Block 428 of 500 Block 429 of 500 Block 430 of 500 Block 431 of 500 Block 432 of 500 Block 433 of 500 Block 434 of 500 Block 435 of 500 Block 436 of 500 Block 437 of 500 Block 438 of 500 Block 439 of 500 Block 440 of 500 Block 441 of 500 Block 442 of 500 Block 443 of 500 Block 444 of 500 Block 445 of 500 Block 446 of 500 Block 447 of 500 Block 448 of 500 Block 449 of 500 Block 450 of 500 Block 451 of 500 Block 452 of 500 Block 453 of 500 Block 454 of 500 Block 455 of 500 Block 456 of 500 Block 457 of 500 Block 458 of 500 Block 459 of 500 Block 460 of 500 Block 461 of 500 Block 462 of 500 Block 463 of 500 Block 464 of 500 Block 465 of 500 Block 466 of 500 Block 467 of 500 Block 468 of 500 Block 469 of 500 Block 470 of 500 Block 471 of 500 Block 472 of 500 Block 473 of 500 Block 474 of 500 Block 475 of 500 Block 476 of 500 Block 477 of 500 Block 478 of 500 Block 479 of 500 Block 480 of 500 Block 481 of 500 Block 482 of 500 Block 483 of 500 Block 484 of 500 Block 485 of 500 Block 486 of 500 Block 487 of 500 Block 488 of 500 Block 489 of 500 Block 490 of 500 Block 491 of 500 Block 492 of 500 Block 493 of 500 Block 494 of 500 Block 495 of 500 Block 496 of 500 Block 497 of 500 Block 498 of 500 Block 499 of 500 Block 500 of 500 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c41d41e75' (350.5K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c41d41e75.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c41d41e75.tmp' (86.3K, reduced: 264.2K) # of fragments: 14 Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 1 Writing annotation... Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 1 Writing annotation... Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 3 Block 2 of 3 Block 3 of 3 Writing annotation... Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Determining number of SNPs and samples... Including all SNPs. scan.df not given. Assigning scanIDs automatically. Reading SNP files... Reading genotype file... Block 1 of 2 Block 2 of 2 Writing annotation... Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238' (338.0K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' (85.1K, reduced: 252.9K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 1 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238' (338.0K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' (84.0K, reduced: 254.0K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 3 Block 1 of 3 Block 2 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238' (338.0K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' (85.1K, reduced: 252.9K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 3 Block 1 of 3 Block 2 of 3 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238' (338.0K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' (84.0K, reduced: 254.0K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 2 Block 1 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238' (338.0K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' (85.1K, reduced: 252.9K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 2 Block 1 of 2 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238' (338.0K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' (84.0K, reduced: 254.0K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 500 Block 2 of 500 Block 3 of 500 Block 4 of 500 Block 5 of 500 Block 6 of 500 Block 7 of 500 Block 8 of 500 Block 9 of 500 Block 10 of 500 Block 11 of 500 Block 12 of 500 Block 13 of 500 Block 14 of 500 Block 15 of 500 Block 16 of 500 Block 17 of 500 Block 18 of 500 Block 19 of 500 Block 20 of 500 Block 21 of 500 Block 22 of 500 Block 23 of 500 Block 24 of 500 Block 25 of 500 Block 26 of 500 Block 27 of 500 Block 28 of 500 Block 29 of 500 Block 30 of 500 Block 31 of 500 Block 32 of 500 Block 33 of 500 Block 34 of 500 Block 35 of 500 Block 36 of 500 Block 37 of 500 Block 38 of 500 Block 39 of 500 Block 40 of 500 Block 41 of 500 Block 42 of 500 Block 43 of 500 Block 44 of 500 Block 45 of 500 Block 46 of 500 Block 47 of 500 Block 48 of 500 Block 49 of 500 Block 50 of 500 Block 51 of 500 Block 52 of 500 Block 53 of 500 Block 54 of 500 Block 55 of 500 Block 56 of 500 Block 57 of 500 Block 58 of 500 Block 58 of 500 Block 59 of 500 Block 60 of 500 Block 61 of 500 Block 62 of 500 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of 500 Block 242 of 500 Block 243 of 500 Block 244 of 500 Block 245 of 500 Block 246 of 500 Block 247 of 500 Block 247 of 500 Block 248 of 500 Block 249 of 500 Block 250 of 500 Block 251 of 500 Block 252 of 500 Block 253 of 500 Block 254 of 500 Block 255 of 500 Block 256 of 500 Block 257 of 500 Block 258 of 500 Block 259 of 500 Block 260 of 500 Block 261 of 500 Block 262 of 500 Block 263 of 500 Block 264 of 500 Block 265 of 500 Block 266 of 500 Block 267 of 500 Block 268 of 500 Block 268 of 500 Block 269 of 500 Block 270 of 500 Block 271 of 500 Block 272 of 500 Block 273 of 500 Block 274 of 500 Block 275 of 500 Block 276 of 500 Block 277 of 500 Block 278 of 500 Block 279 of 500 Block 280 of 500 Block 281 of 500 Block 282 of 500 Block 283 of 500 Block 284 of 500 Block 285 of 500 Block 286 of 500 Block 287 of 500 Block 288 of 500 Block 289 of 500 Block 290 of 500 Block 291 of 500 Block 292 of 500 Block 293 of 500 Block 294 of 500 Block 295 of 500 Block 296 of 500 Block 297 of 500 Block 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500 Block 414 of 500 Block 415 of 500 Block 416 of 500 Block 417 of 500 Block 418 of 500 Block 419 of 500 Block 420 of 500 Block 421 of 500 Block 422 of 500 Block 423 of 500 Block 424 of 500 Block 425 of 500 Block 426 of 500 Block 427 of 500 Block 428 of 500 Block 429 of 500 Block 430 of 500 Block 431 of 500 Block 432 of 500 Block 433 of 500 Block 434 of 500 Block 435 of 500 Block 436 of 500 Block 437 of 500 Block 438 of 500 Block 439 of 500 Block 440 of 500 Block 441 of 500 Block 442 of 500 Block 443 of 500 Block 444 of 500 Block 445 of 500 Block 446 of 500 Block 447 of 500 Block 448 of 500 Block 449 of 500 Block 450 of 500 Block 451 of 500 Block 452 of 500 Block 453 of 500 Block 454 of 500 Block 455 of 500 Block 456 of 500 Block 457 of 500 Block 458 of 500 Block 459 of 500 Block 460 of 500 Block 461 of 500 Block 462 of 500 Block 463 of 500 Block 464 of 500 Block 465 of 500 Block 466 of 500 Block 467 of 500 Block 468 of 500 Block 469 of 500 Block 470 of 500 Block 471 of 500 Block 472 of 500 Block 473 of 500 Block 474 of 500 Block 475 of 500 Block 476 of 500 Block 477 of 500 Block 478 of 500 Block 479 of 500 Block 480 of 500 Block 481 of 500 Block 482 of 500 Block 483 of 500 Block 484 of 500 Block 485 of 500 Block 486 of 500 Block 487 of 500 Block 488 of 500 Block 489 of 500 Block 490 of 500 Block 491 of 500 Block 492 of 500 Block 493 of 500 Block 494 of 500 Block 495 of 500 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238' (338.0K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' (85.1K, reduced: 252.9K) # of fragments: 14 Determining number of SNPs and samples... Reading SNP files... Reading genotype file... Block 1 of 500 Block 2 of 500 Block 3 of 500 Block 4 of 500 Block 5 of 500 Block 6 of 500 Block 7 of 500 Block 8 of 500 Block 9 of 500 Block 10 of 500 Block 11 of 500 Block 12 of 500 Block 13 of 500 Block 14 of 500 Block 15 of 500 Block 16 of 500 Block 17 of 500 Block 18 of 500 Block 19 of 500 Block 20 of 500 Block 21 of 500 Block 22 of 500 Block 23 of 500 Block 24 of 500 Block 25 of 500 Block 26 of 500 Block 27 of 500 Block 28 of 500 Block 29 of 500 Block 30 of 500 Block 31 of 500 Block 32 of 500 Block 33 of 500 Block 34 of 500 Block 35 of 500 Block 36 of 500 Block 37 of 500 Block 38 of 500 Block 39 of 500 Block 40 of 500 Block 41 of 500 Block 42 of 500 Block 43 of 500 Block 44 of 500 Block 45 of 500 Block 46 of 500 Block 47 of 500 Block 48 of 500 Block 49 of 500 Block 50 of 500 Block 51 of 500 Block 52 of 500 Block 53 of 500 Block 54 of 500 Block 55 of 500 Block 56 of 500 Block 57 of 500 Block 58 of 500 Block 58 of 500 Block 59 of 500 Block 60 of 500 Block 61 of 500 Block 62 of 500 Block 63 of 500 Block 64 of 500 Block 65 of 500 Block 66 of 500 Block 67 of 500 Block 68 of 500 Block 69 of 500 Block 70 of 500 Block 71 of 500 Block 72 of 500 Block 73 of 500 Block 74 of 500 Block 75 of 500 Block 76 of 500 Block 77 of 500 Block 78 of 500 Block 79 of 500 Block 80 of 500 Block 81 of 500 Block 82 of 500 Block 83 of 500 Block 84 of 500 Block 85 of 500 Block 86 of 500 Block 87 of 500 Block 88 of 500 Block 89 of 500 Block 90 of 500 Block 91 of 500 Block 92 of 500 Block 93 of 500 Block 94 of 500 Block 95 of 500 Block 96 of 500 Block 97 of 500 Block 98 of 500 Block 99 of 500 Block 100 of 500 Block 101 of 500 Block 102 of 500 Block 103 of 500 Block 104 of 500 Block 105 of 500 Block 106 of 500 Block 107 of 500 Block 108 of 500 Block 109 of 500 Block 110 of 500 Block 111 of 500 Block 112 of 500 Block 113 of 500 Block 114 of 500 Block 115 of 500 Block 116 of 500 Block 117 of 500 Block 118 of 500 Block 119 of 500 Block 120 of 500 Block 121 of 500 Block 122 of 500 Block 123 of 500 Block 124 of 500 Block 125 of 500 Block 126 of 500 Block 127 of 500 Block 128 of 500 Block 129 of 500 Block 130 of 500 Block 131 of 500 Block 132 of 500 Block 133 of 500 Block 134 of 500 Block 135 of 500 Block 136 of 500 Block 137 of 500 Block 138 of 500 Block 139 of 500 Block 140 of 500 Block 141 of 500 Block 142 of 500 Block 143 of 500 Block 144 of 500 Block 145 of 500 Block 146 of 500 Block 147 of 500 Block 148 of 500 Block 149 of 500 Block 150 of 500 Block 151 of 500 Block 152 of 500 Block 153 of 500 Block 154 of 500 Block 155 of 500 Block 156 of 500 Block 157 of 500 Block 158 of 500 Block 159 of 500 Block 160 of 500 Block 161 of 500 Block 162 of 500 Block 163 of 500 Block 164 of 500 Block 165 of 500 Block 166 of 500 Block 167 of 500 Block 168 of 500 Block 169 of 500 Block 170 of 500 Block 171 of 500 Block 172 of 500 Block 173 of 500 Block 174 of 500 Block 175 of 500 Block 176 of 500 Block 177 of 500 Block 178 of 500 Block 179 of 500 Block 180 of 500 Block 181 of 500 Block 182 of 500 Block 183 of 500 Block 184 of 500 Block 185 of 500 Block 186 of 500 Block 187 of 500 Block 188 of 500 Block 189 of 500 Block 190 of 500 Block 191 of 500 Block 192 of 500 Block 193 of 500 Block 194 of 500 Block 195 of 500 Block 196 of 500 Block 197 of 500 Block 198 of 500 Block 199 of 500 Block 200 of 500 Block 201 of 500 Block 202 of 500 Block 203 of 500 Block 204 of 500 Block 205 of 500 Block 206 of 500 Block 207 of 500 Block 208 of 500 Block 209 of 500 Block 210 of 500 Block 211 of 500 Block 212 of 500 Block 213 of 500 Block 214 of 500 Block 215 of 500 Block 216 of 500 Block 217 of 500 Block 218 of 500 Block 219 of 500 Block 220 of 500 Block 221 of 500 Block 222 of 500 Block 223 of 500 Block 224 of 500 Block 225 of 500 Block 226 of 500 Block 227 of 500 Block 228 of 500 Block 229 of 500 Block 230 of 500 Block 231 of 500 Block 232 of 500 Block 233 of 500 Block 234 of 500 Block 235 of 500 Block 236 of 500 Block 237 of 500 Block 238 of 500 Block 239 of 500 Block 240 of 500 Block 241 of 500 Block 242 of 500 Block 243 of 500 Block 244 of 500 Block 245 of 500 Block 246 of 500 Block 247 of 500 Block 247 of 500 Block 248 of 500 Block 249 of 500 Block 250 of 500 Block 251 of 500 Block 252 of 500 Block 253 of 500 Block 254 of 500 Block 255 of 500 Block 256 of 500 Block 257 of 500 Block 258 of 500 Block 259 of 500 Block 260 of 500 Block 261 of 500 Block 262 of 500 Block 263 of 500 Block 264 of 500 Block 265 of 500 Block 266 of 500 Block 267 of 500 Block 268 of 500 Block 268 of 500 Block 269 of 500 Block 270 of 500 Block 271 of 500 Block 272 of 500 Block 273 of 500 Block 274 of 500 Block 275 of 500 Block 276 of 500 Block 277 of 500 Block 278 of 500 Block 279 of 500 Block 280 of 500 Block 281 of 500 Block 282 of 500 Block 283 of 500 Block 284 of 500 Block 285 of 500 Block 286 of 500 Block 287 of 500 Block 288 of 500 Block 289 of 500 Block 290 of 500 Block 291 of 500 Block 292 of 500 Block 293 of 500 Block 294 of 500 Block 295 of 500 Block 296 of 500 Block 297 of 500 Block 298 of 500 Block 298 of 500 Block 299 of 500 Block 300 of 500 Block 301 of 500 Block 302 of 500 Block 303 of 500 Block 304 of 500 Block 305 of 500 Block 306 of 500 Block 307 of 500 Block 308 of 500 Block 309 of 500 Block 310 of 500 Block 311 of 500 Block 312 of 500 Block 313 of 500 Block 314 of 500 Block 315 of 500 Block 316 of 500 Block 317 of 500 Block 318 of 500 Block 319 of 500 Block 320 of 500 Block 321 of 500 Block 322 of 500 Block 323 of 500 Block 324 of 500 Block 325 of 500 Block 326 of 500 Block 327 of 500 Block 328 of 500 Block 329 of 500 Block 330 of 500 Block 331 of 500 Block 332 of 500 Block 333 of 500 Block 334 of 500 Block 335 of 500 Block 336 of 500 Block 337 of 500 Block 338 of 500 Block 339 of 500 Block 340 of 500 Block 341 of 500 Block 342 of 500 Block 343 of 500 Block 344 of 500 Block 345 of 500 Block 346 of 500 Block 347 of 500 Block 348 of 500 Block 349 of 500 Block 350 of 500 Block 351 of 500 Block 352 of 500 Block 353 of 500 Block 354 of 500 Block 355 of 500 Block 356 of 500 Block 357 of 500 Block 358 of 500 Block 359 of 500 Block 360 of 500 Block 361 of 500 Block 362 of 500 Block 363 of 500 Block 364 of 500 Block 365 of 500 Block 366 of 500 Block 367 of 500 Block 368 of 500 Block 369 of 500 Block 370 of 500 Block 371 of 500 Block 372 of 500 Block 373 of 500 Block 374 of 500 Block 375 of 500 Block 376 of 500 Block 377 of 500 Block 378 of 500 Block 379 of 500 Block 380 of 500 Block 380 of 500 Block 381 of 500 Block 382 of 500 Block 383 of 500 Block 384 of 500 Block 385 of 500 Block 386 of 500 Block 387 of 500 Block 388 of 500 Block 389 of 500 Block 390 of 500 Block 391 of 500 Block 392 of 500 Block 393 of 500 Block 394 of 500 Block 395 of 500 Block 396 of 500 Block 397 of 500 Block 398 of 500 Block 399 of 500 Block 400 of 500 Block 401 of 500 Block 402 of 500 Block 403 of 500 Block 404 of 500 Block 405 of 500 Block 406 of 500 Block 407 of 500 Block 408 of 500 Block 409 of 500 Block 410 of 500 Block 411 of 500 Block 412 of 500 Block 413 of 500 Block 414 of 500 Block 415 of 500 Block 416 of 500 Block 417 of 500 Block 418 of 500 Block 419 of 500 Block 420 of 500 Block 421 of 500 Block 422 of 500 Block 423 of 500 Block 424 of 500 Block 425 of 500 Block 426 of 500 Block 427 of 500 Block 428 of 500 Block 429 of 500 Block 430 of 500 Block 431 of 500 Block 432 of 500 Block 433 of 500 Block 434 of 500 Block 435 of 500 Block 436 of 500 Block 437 of 500 Block 438 of 500 Block 439 of 500 Block 440 of 500 Block 441 of 500 Block 442 of 500 Block 443 of 500 Block 444 of 500 Block 445 of 500 Block 446 of 500 Block 447 of 500 Block 448 of 500 Block 449 of 500 Block 450 of 500 Block 451 of 500 Block 452 of 500 Block 453 of 500 Block 454 of 500 Block 455 of 500 Block 456 of 500 Block 457 of 500 Block 458 of 500 Block 459 of 500 Block 460 of 500 Block 461 of 500 Block 462 of 500 Block 463 of 500 Block 464 of 500 Block 465 of 500 Block 466 of 500 Block 467 of 500 Block 468 of 500 Block 469 of 500 Block 470 of 500 Block 471 of 500 Block 472 of 500 Block 473 of 500 Block 474 of 500 Block 475 of 500 Block 476 of 500 Block 477 of 500 Block 478 of 500 Block 479 of 500 Block 480 of 500 Block 481 of 500 Block 482 of 500 Block 483 of 500 Block 484 of 500 Block 485 of 500 Block 486 of 500 Block 487 of 500 Block 488 of 500 Block 489 of 500 Block 490 of 500 Block 491 of 500 Block 492 of 500 Block 493 of 500 Block 494 of 500 Block 495 of 500 Writing annotation... Compressing... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238' (338.0K) # of fragments: 30 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c473c3238.tmp' (84.0K, reduced: 254.0K) # of fragments: 14 All row numbers refer to row in the full pedigree (not just within family). Correct current problems and rerun pedigreeCheck. There may be additional problems not investigated because of the current problems. All row numbers refer to row in the full pedigree (not just within family). Correct current problems and rerun pedigreeCheck. There may be additional problems not investigated because of the current problems. All row numbers refer to row in the full pedigree (not just within family). Correct current problems and rerun pedigreeCheck. There may be additional problems not investigated because of the current problems. All row numbers refer to row in the full pedigree (not just within family). Correct current problems and rerun pedigreeCheck. There may be additional problems not investigated because of the current problems. All row numbers refer to row in the full pedigree (not just within family). Correct current problems and rerun pedigreeCheck. There may be additional problems not investigated because of the current problems. All row numbers refer to row in the full pedigree (not just within family). Correct current problems and rerun pedigreeCheck. There may be additional problems not investigated because of the current problems. All row numbers refer to row in the full pedigree (not just within family). Correct current problems and rerun pedigreeCheck. There may be additional problems not investigated because of the current problems. All row numbers refer to row in the full pedigree (not just within family). Correct current problems and rerun pedigreeCheck. There may be additional problems not investigated because of the current problems. All row numbers refer to row in the full pedigree (not just within family). Correct current problems and rerun pedigreeCheck. There may be additional problems not investigated because of the current problems. All row numbers refer to row in the full pedigree (not just within family). Correct current problems and rerun pedigreeCheck. There may be additional problems not investigated because of the current problems. All row numbers refer to row in the full pedigree (not just within family). Correct current problems and rerun pedigreeCheck. There may be additional problems not investigated because of the current problems. All row numbers refer to row in the full pedigree (not just within family). Correct current problems and rerun pedigreeCheck. There may be additional problems not investigated because of the current problems. Checking SNPs against map file Checking sample data and genotypes in each line of ped file Checking SNPs against map file Checking sample data and genotypes in each line of ped file Checking SNPs against map file Checking sample data and genotypes in each line of ped file Checking SNPs against map file Checking sample data and genotypes in each line of ped file writing block 1 of 1: scans 1-20 x being coerced from class: matrix to data.table Checking SNPs against map file Checking sample data and genotypes in each line of ped file Checking SNPs against map file Checking sample data and genotypes in each line of ped file writing block 1 of 1: scans 1-20 x being coerced from class: matrix to data.table Checking SNPs against map file Checking sample data and genotypes in each line of ped file writing block 1 of 1: scans 1-3 x being coerced from class: matrix to data.table writing block 1 of 1: scans 1-3 x being coerced from class: matrix to data.table block number= 1 vector index= 1 block number= 1 vector index= 1 block number= 1 vector index= 1 block number= 2 vector index= 51 block number= 3 vector index= 101 block number= 4 vector index= 151 block number= 5 vector index= 201 block number= 6 vector index= 251 block number= 1 vector index= 1 block number= 2 vector index= 2 block number= 3 vector index= 3 block number= 4 vector index= 4 block number= 5 vector index= 5 block number= 6 vector index= 6 block number= 7 vector index= 7 block number= 8 vector index= 8 block number= 9 vector index= 9 block number= 10 vector index= 10 block number= 11 vector index= 11 block number= 12 vector index= 12 block number= 13 vector index= 13 block number= 14 vector index= 14 block number= 15 vector index= 15 block number= 16 vector index= 16 block number= 17 vector index= 17 block number= 18 vector index= 18 block number= 19 vector index= 19 block number= 20 vector index= 20 block number= 21 vector index= 21 block number= 22 vector index= 22 block number= 23 vector index= 23 block number= 24 vector index= 24 block number= 25 vector index= 25 block number= 26 vector index= 26 block number= 27 vector index= 27 block number= 28 vector index= 28 block number= 29 vector index= 29 block number= 30 vector index= 30 block number= 31 vector index= 31 block number= 32 vector index= 32 block number= 33 vector index= 33 block number= 34 vector index= 34 block number= 35 vector index= 35 block number= 36 vector index= 36 block number= 37 vector index= 37 block number= 38 vector index= 38 block number= 39 vector index= 39 block number= 40 vector index= 40 block number= 41 vector index= 41 block number= 42 vector index= 42 block number= 43 vector index= 43 block number= 44 vector index= 44 block number= 45 vector index= 45 block number= 46 vector index= 46 block number= 47 vector index= 47 block number= 48 vector index= 48 block number= 49 vector index= 49 block number= 50 vector index= 50 block number= 51 vector index= 51 block number= 52 vector index= 52 block number= 53 vector index= 53 block number= 54 vector index= 54 block number= 55 vector index= 55 block number= 56 vector index= 56 block number= 57 vector index= 57 block number= 58 vector index= 58 block number= 59 vector index= 59 block number= 60 vector index= 60 block number= 61 vector index= 61 block number= 62 vector index= 62 block number= 63 vector index= 63 block number= 64 vector index= 64 block number= 65 vector index= 65 block number= 66 vector index= 66 block number= 67 vector index= 67 block number= 68 vector index= 68 block number= 69 vector index= 69 block number= 70 vector index= 70 block number= 71 vector index= 71 block number= 72 vector index= 72 block number= 73 vector index= 73 block number= 74 vector index= 74 block number= 75 vector index= 75 block number= 76 vector index= 76 block number= 77 vector index= 77 block number= 78 vector index= 78 block number= 79 vector index= 79 block number= 80 vector index= 80 block number= 81 vector index= 81 block number= 82 vector index= 82 block number= 83 vector index= 83 block number= 84 vector index= 84 block number= 85 vector index= 85 block number= 86 vector index= 86 block number= 87 vector index= 87 block number= 88 vector index= 88 block number= 89 vector index= 89 block number= 90 vector index= 90 block number= 91 vector index= 91 block number= 92 vector index= 92 block number= 93 vector index= 93 block number= 94 vector index= 94 block number= 95 vector index= 95 block number= 96 vector index= 96 block number= 97 vector index= 97 block number= 98 vector index= 98 block number= 99 vector index= 99 block number= 100 vector index= 100 block number= 101 vector index= 101 block number= 102 vector index= 102 block number= 103 vector index= 103 block number= 104 vector index= 104 block number= 105 vector index= 105 block number= 106 vector index= 106 block number= 107 vector index= 107 block number= 108 vector index= 108 block number= 109 vector index= 109 block number= 110 vector index= 110 block number= 111 vector index= 111 block number= 112 vector index= 112 block number= 113 vector index= 113 block number= 114 vector index= 114 block number= 115 vector index= 115 block number= 116 vector index= 116 block number= 117 vector index= 117 block number= 118 vector index= 118 block number= 119 vector index= 119 block number= 120 vector index= 120 block number= 121 vector index= 121 block number= 122 vector index= 122 block number= 123 vector index= 123 block number= 124 vector index= 124 block number= 125 vector index= 125 block number= 126 vector index= 126 block number= 127 vector index= 127 block number= 128 vector index= 128 block number= 129 vector index= 129 block number= 130 vector index= 130 block number= 131 vector index= 131 block number= 132 vector index= 132 block number= 133 vector index= 133 block number= 134 vector index= 134 block number= 135 vector index= 135 block number= 136 vector index= 136 block number= 137 vector index= 137 block number= 138 vector index= 138 block number= 139 vector index= 139 block number= 140 vector index= 140 block number= 141 vector index= 141 block number= 142 vector index= 142 block number= 143 vector index= 143 block number= 144 vector index= 144 block number= 145 vector index= 145 block number= 146 vector index= 146 block number= 147 vector index= 147 block number= 148 vector index= 148 block number= 149 vector index= 149 block number= 150 vector index= 150 block number= 151 vector index= 151 block number= 152 vector index= 152 block number= 153 vector index= 153 block number= 154 vector index= 154 block number= 155 vector index= 155 block number= 156 vector index= 156 block number= 157 vector index= 157 block number= 158 vector index= 158 block number= 159 vector index= 159 block number= 160 vector index= 160 block number= 161 vector index= 161 block number= 162 vector index= 162 block number= 163 vector index= 163 block number= 164 vector index= 164 block number= 165 vector index= 165 block number= 166 vector index= 166 block number= 167 vector index= 167 block number= 168 vector index= 168 block number= 169 vector index= 169 block number= 170 vector index= 170 block number= 171 vector index= 171 block number= 172 vector index= 172 block number= 173 vector index= 173 block number= 174 vector index= 174 block number= 175 vector index= 175 block number= 176 vector index= 176 block number= 177 vector index= 177 block number= 178 vector index= 178 block number= 179 vector index= 179 block number= 180 vector index= 180 block number= 181 vector index= 181 block number= 182 vector index= 182 block number= 183 vector index= 183 block number= 184 vector index= 184 block number= 185 vector index= 185 block number= 186 vector index= 186 block number= 187 vector index= 187 block number= 188 vector index= 188 block number= 189 vector index= 189 block number= 190 vector index= 190 block number= 191 vector index= 191 block number= 192 vector index= 192 block number= 193 vector index= 193 block number= 194 vector index= 194 block number= 195 vector index= 195 block number= 196 vector index= 196 block number= 197 vector index= 197 block number= 198 vector index= 198 block number= 199 vector index= 199 block number= 200 vector index= 200 block number= 201 vector index= 201 block number= 202 vector index= 202 block number= 203 vector index= 203 block number= 204 vector index= 204 block number= 205 vector index= 205 block number= 206 vector index= 206 block number= 207 vector index= 207 block number= 208 vector index= 208 block number= 209 vector index= 209 block number= 210 vector index= 210 block number= 211 vector index= 211 block number= 212 vector index= 212 block number= 213 vector index= 213 block number= 214 vector index= 214 block number= 215 vector index= 215 block number= 216 vector index= 216 block number= 217 vector index= 217 block number= 218 vector index= 218 block number= 219 vector index= 219 block number= 220 vector index= 220 block number= 221 vector index= 221 block number= 222 vector index= 222 block number= 223 vector index= 223 block number= 224 vector index= 224 block number= 225 vector index= 225 block number= 226 vector index= 226 block number= 227 vector index= 227 block number= 228 vector index= 228 block number= 229 vector index= 229 block number= 230 vector index= 230 block number= 231 vector index= 231 block number= 232 vector index= 232 block number= 233 vector index= 233 block number= 234 vector index= 234 block number= 235 vector index= 235 block number= 236 vector index= 236 block number= 237 vector index= 237 block number= 238 vector index= 238 block number= 239 vector index= 239 block number= 240 vector index= 240 block number= 241 vector index= 241 block number= 242 vector index= 242 block number= 243 vector index= 243 block number= 244 vector index= 244 block number= 245 vector index= 245 block number= 246 vector index= 246 block number= 247 vector index= 247 block number= 248 vector index= 248 block number= 249 vector index= 249 block number= 250 vector index= 250 block number= 251 vector index= 251 block number= 252 vector index= 252 block number= 253 vector index= 253 block number= 254 vector index= 254 block number= 255 vector index= 255 block number= 256 vector index= 256 block number= 257 vector index= 257 block number= 258 vector index= 258 block number= 259 vector index= 259 block number= 260 vector index= 260 sample 10 of 20 sample 20 of 20 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c46533cb8' (3.4K) # of fragments: 22 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c46533cb8.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c46533cb8.tmp' (3.2K, reduced: 132B) # of fragments: 11 working on genotype genotype - looping over samples All variables match. sample 10 of 10 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c2dbe387f' (2.6K) # of fragments: 22 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c2dbe387f.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c2dbe387f.tmp' (2.5K, reduced: 132B) # of fragments: 11 working on genotype genotype - looping over samples All variables match. sample 10 of 20 sample 20 of 20 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c2f7032f3' (3.4K) # of fragments: 22 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c2f7032f3.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c2f7032f3.tmp' (3.2K, reduced: 132B) # of fragments: 11 sample 10 of 10 Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c259473a7' (2.6K) # of fragments: 22 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c259473a7.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c259473a7.tmp' (2.5K, reduced: 132B) # of fragments: 11 Loading required namespace: snpStats Start file conversion from VCF to SNP GDS ... Method: extracting biallelic SNPs Number of samples: 5 Parsing "F:/biocbuild/bbs-3.20-bioc/R/library/VariantAnnotation/extdata/chr22.vcf.gz" ... import 9969 variants. + genotype { Bit2 5x9969, 12.2K } * Optimize the access efficiency ... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c2432860' (73.0K) # of fragments: 46 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c2432860.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c2432860.tmp' (72.7K, reduced: 312B) # of fragments: 20 Block 1 of 10... 1000 SNPs x being coerced from class: matrix to data.table Block 2 of 10... 1000 SNPs x being coerced from class: matrix to data.table Block 3 of 10... 1000 SNPs x being coerced from class: matrix to data.table Block 4 of 10... 1000 SNPs x being coerced from class: matrix to data.table Block 5 of 10... 1000 SNPs x being coerced from class: matrix to data.table Block 6 of 10... 1000 SNPs x being coerced from class: matrix to data.table Block 7 of 10... 1000 SNPs x being coerced from class: matrix to data.table Block 8 of 10... 1000 SNPs x being coerced from class: matrix to data.table Block 9 of 10... 1000 SNPs x being coerced from class: matrix to data.table Block 10 of 10... 969 SNPs x being coerced from class: matrix to data.table Block 1 of 1... 3 SNPs x being coerced from class: matrix to data.table Block 1 of 1... 3 SNPs x being coerced from class: matrix to data.table Block 1 of 1... 3 SNPs x being coerced from class: matrix to data.table Block 1 of 1... 3 SNPs x being coerced from class: matrix to data.table Block 1 of 1... 3 SNPs x being coerced from class: matrix to data.table Block 1 of 1... 3 SNPs x being coerced from class: matrix to data.table Block 1 of 1... 3 SNPs x being coerced from class: matrix to data.table Block 1 of 1... 3 SNPs x being coerced from class: matrix to data.table Block 1 of 3... 2 SNPs x being coerced from class: matrix to data.table Block 2 of 3... 4 SNPs x being coerced from class: matrix to data.table Block 3 of 3... 2 SNPs x being coerced from class: matrix to data.table Block 1 of 3... 0 SNPs Block 2 of 3... 1 SNPs x being coerced from class: matrix to data.table Block 3 of 3... 2 SNPs x being coerced from class: matrix to data.table Start file conversion from VCF to SNP GDS ... Method: extracting biallelic SNPs Number of samples: 3 Parsing "F:/biocbuild/bbs-3.20-bioc/R/library/SNPRelate/extdata/sequence.vcf" ... import 2 variants. + genotype { Bit2 3x2, 2B } * Optimize the access efficiency ... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c5f25944' (2.9K) # of fragments: 46 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c5f25944.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c5f25944.tmp' (2.6K, reduced: 312B) # of fragments: 20 Block 1 of 1... 2 SNPs x being coerced from class: matrix to data.table Start file conversion from VCF to SNP GDS ... Method: extracting biallelic SNPs Number of samples: 3 Parsing "F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c24a05207" ... import 2 variants. + genotype { Bit2 3x2, 2B } * Optimize the access efficiency ... Clean up the fragments of GDS file: open the file 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d0c7d40' (2.9K) # of fragments: 46 save to 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d0c7d40.tmp' rename 'F:\biocbuild\bbs-3.20-bioc\tmpdir\RtmpsPJUlu\file16a8c3d0c7d40.tmp' (2.6K, reduced: 312B) # of fragments: 20 Block 1 of 1... 5 SNPs x being coerced from class: matrix to data.table Checked 5 SNPs Block 1 of 1... 5 SNPs x being coerced from class: matrix to data.table Block 1 of 1... 5 SNPs x being coerced from class: matrix to data.table Block 1 of 1... 5 SNPs x being coerced from class: matrix to data.table Checked 5 SNPs Block 1 of 1... 3 SNPs x being coerced from class: matrix to data.table Excluding 1 genoData samples from check Excluding 2 genoData SNPs from check Note, sample order in VCF differs from genoData Checked 3 SNPs RUNIT TEST PROTOCOL -- Wed Aug 21 01:39:20 2024 *********************************************** Number of test functions: 211 Number of errors: 0 Number of failures: 0 1 Test Suite : GWASTools RUnit Tests - 211 test functions, 0 errors, 0 failures Number of test functions: 211 Number of errors: 0 Number of failures: 0 There were 50 or more warnings (use warnings() to see the first 50) > > proc.time() user system elapsed 107.32 15.53 134.26
GWASTools.Rcheck/GWASTools-Ex.timings
name | user | system | elapsed | |
BAFfromClusterMeans | 1.61 | 0.11 | 1.80 | |
BAFfromGenotypes | 0 | 0 | 0 | |
GdsGenotypeReader-class | 0.07 | 0.00 | 0.09 | |
GdsIntensityReader-class | 0.03 | 0.00 | 0.03 | |
GdsReader-class | 0.05 | 0.00 | 0.07 | |
GenotypeData-class | 0.25 | 0.03 | 0.33 | |
GenotypeIterator-class | 0.05 | 0.00 | 0.05 | |
HLA | 0.00 | 0.02 | 0.01 | |
IntensityData-class | 0.05 | 0.00 | 0.05 | |
MatrixGenotypeReader-class | 0.04 | 0.00 | 0.05 | |
NcdfGenotypeReader-class | 0.02 | 0.01 | 0.06 | |
NcdfIntensityReader-class | 0.01 | 0.02 | 0.03 | |
NcdfReader-class | 0.02 | 0.00 | 0.03 | |
ScanAnnotationDataFrame-class | 0.06 | 0.00 | 0.08 | |
ScanAnnotationSQLite-class | 0.20 | 0.01 | 0.27 | |
SnpAnnotationDataFrame-class | 0.10 | 0.02 | 0.11 | |
SnpAnnotationSQLite-class | 0.17 | 0.01 | 0.18 | |
alleleFrequency | 0.08 | 0.03 | 0.11 | |
allequal | 0 | 0 | 0 | |
anomDetectBAF | 1.45 | 0.04 | 1.50 | |
anomDetectLOH | 0.91 | 0.00 | 0.93 | |
anomIdentifyLowQuality | 0.90 | 0.04 | 0.95 | |
anomSegStats | 0.39 | 0.03 | 0.44 | |
apartSnpSelection | 0.07 | 0.02 | 0.07 | |
assocCoxPH | 0.54 | 0.03 | 0.60 | |
assocRegression | 0.64 | 0.00 | 0.64 | |
batchTest | 1.24 | 0.14 | 1.37 | |
centromeres | 0.01 | 0.00 | 0.01 | |
chromIntensityPlot | 0.13 | 0.01 | 0.15 | |
convertNcdfGds | 0.20 | 0.05 | 0.32 | |
createDataFile | 0.39 | 0.27 | 0.91 | |
duplicateDiscordance | 0.28 | 0.03 | 0.31 | |
duplicateDiscordanceAcrossDatasets | 0.13 | 0.00 | 0.13 | |
duplicateDiscordanceProbability | 0 | 0 | 0 | |
exactHWE | 0.11 | 0.00 | 0.11 | |
findBAFvariance | 0.22 | 0.03 | 0.25 | |
gdsSubset | 0.00 | 0.04 | 0.07 | |
genoClusterPlot | 0.64 | 0.08 | 0.75 | |
genotypeToCharacter | 0 | 0 | 0 | |
getobj | 0 | 0 | 0 | |
hetByScanChrom | 0.07 | 0.02 | 0.08 | |
hetBySnpSex | 0.11 | 0.03 | 0.14 | |
ibdPlot | 0.21 | 0.02 | 0.25 | |
imputedDosageFile | 1.16 | 0.84 | 2.51 | |
intensityOutliersPlot | 0.30 | 0.01 | 0.32 | |
manhattanPlot | 0.06 | 0.00 | 0.06 | |
meanIntensityByScanChrom | 0.27 | 0.02 | 0.28 | |
mendelErr | 0.81 | 0.09 | 0.91 | |
mendelList | 0 | 0 | 0 | |
missingGenotypeByScanChrom | 0.11 | 0.02 | 0.12 | |
missingGenotypeBySnpSex | 0.08 | 0.02 | 0.10 | |
pasteSorted | 0 | 0 | 0 | |
pcaSnpFilters | 0.03 | 0.00 | 0.03 | |
pedigreeCheck | 0.01 | 0.00 | 0.01 | |
pedigreeDeleteDuplicates | 0.02 | 0.00 | 0.02 | |
pedigreeMaxUnrelated | 0.05 | 0.00 | 0.05 | |
pedigreePairwiseRelatedness | 0.00 | 0.01 | 0.01 | |
plinkUtils | 2.70 | 0.11 | 2.86 | |
pseudoautoIntensityPlot | 0.17 | 0.03 | 0.20 | |
pseudoautosomal | 0.00 | 0.02 | 0.02 | |
qqPlot | 0.19 | 0.01 | 0.20 | |
qualityScoreByScan | 0.18 | 0.00 | 0.19 | |
qualityScoreBySnp | 0.04 | 0.00 | 0.04 | |
readWriteFirst | 0 | 0 | 0 | |
relationsMeanVar | 0.02 | 0.00 | 0.02 | |
saveas | 0.00 | 0.00 | 0.01 | |
setMissingGenotypes | 0.06 | 0.05 | 0.14 | |
simulateGenotypeMatrix | 0.88 | 0.09 | 1.04 | |
snpCorrelationPlot | 0.04 | 0.00 | 0.04 | |
snpStats | 0.74 | 0.05 | 0.78 | |
vcfWrite | 14.43 | 1.27 | 16.00 | |