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[](){expression}<LSEP>[assign](){<-}<LSEP>[](symbol){rt_queue_properties}<LEND>[](){function}<LSEP>[](pairlist){}<LSEP>[](symbol){queue}<LSEP>[](symbol){...}<LEND>[body; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){stopifnot}<LEND>[argument 0; call](){}<LSEP>[](symbol){is.character}<LSEP>[](symbol){queue}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){url}<LEND>[call](){}<LSEP>[](symbol){rt_url}<LSEP>[argument 0; litteral](str){queue}<LSEP>[](symbol){queue}<LEND>[statement 2; assign](){<-}<LSEP>[](symbol){response}<LEND>[call](){}<LSEP>[](symbol){rt_GET}<LSEP>[](symbol){url}<LSEP>[](symbol){...}<LEND>[statement 3; control flow](){if}<LSEP>[condition; call](){}<LSEP>[call name; call](){}<LSEP>[](symbol){::}<LSEP>[](symbol){stringr}<LSEP>[](symbol){str_detect}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LSEP>[](symbol){response}<LSEP>[](symbol){body}<LEND>[argument 1; litteral](str){No queue named}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){stop}<LSEP>[argument 0; litteral](str){No queue named }<LSEP>[](symbol){queue}<LSEP>[argument 2; litteral](str){ exists.}<LSEP>[argument 3; litteral](logical){FALSE}<LEND>[statement 4; call](){}<LSEP>[](symbol){stopforstatus}<LSEP>[](symbol){response}<LEND>[statement 5; call](){}<LSEP>[](symbol){parse_rt_properties}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LSEP>[](symbol){response}<LSEP>[](symbol){body}

[](){expression}<LSEP>[assign](){<-}<LSEP>[](symbol){cor.folder}<LEND>[](){function}<LSEP>[](pairlist){}<LSEP>[](symbol){x}<LSEP>[](symbol){use}<LSEP>[](symbol){method}<LEND>[body; block](){}<LSEP>[statement 0; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){!}<LEND>[argument 0; call](){}<LSEP>[](symbol){is.folder}<LSEP>[](symbol){x}<LEND>[true branch; call](){}<LSEP>[](symbol){stop}<LSEP>[argument 0; litteral](str){x must be an object of class '...}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){fold}<LSEP>[](symbol){x}<LEND>[statement 2; assign](){<-}<LSEP>[](symbol){x}<LEND>[call](){}<LSEP>[](symbol){[[}<LSEP>[](symbol){fold}<LSEP>[argument 1; litteral](real){1.000000}<LEND>[statement 3; assign](){<-}<LSEP>[](symbol){jnum}<LEND>[call](){}<LSEP>[](symbol){logical}<LEND>[argument 0; call](){}<LSEP>[](symbol){ncol}<LSEP>[](symbol){x}<LEND>[statement 4; control flow](){for}<LSEP>[](symbol){j}<LEND>[range; call](){}<LSEP>[](symbol){:}<LSEP>[argument 0; litteral](real){1.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){ncol}<LSEP>[](symbol){x}<LEND>[body; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){jnum}<LSEP>[](symbol){j}<LEND>[call](){}<LSEP>[](symbol){is.numeric}<LEND>[argument 0; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){x}<LSEP>[](symbol){}<LSEP>[](symbol){j}<LEND>[statement 5; assign](){<-}<LSEP>[](symbol){notnum}<LEND>[call](){}<LSEP>[](symbol){[}<LEND>[argument 0; call](){}<LSEP>[](symbol){colnames}<LSEP>[](symbol){x}<LEND>[argument 1; call](){}<LSEP>[](symbol){!}<LSEP>[](symbol){jnum}<LEND>[statement 6; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){>}<LEND>[argument 0; call](){}<LSEP>[](symbol){length}<LSEP>[](symbol){notnum}<LEND>[argument 1; litteral](real){0.000000}<LEND>[true branch; call](){}<LSEP>[](symbol){warning}<LEND>[argument 0; call](){}<LSEP>[](symbol){paste}<LSEP>[argument 0; litteral](str){There are omitted variables (n...}<LEND>[argument 1; call](){}<LSEP>[](symbol){paste}<LSEP>[](symbol){notnum}<LSEP>[argument 1; litteral](str){ }<LEND>[argument 2; litteral](str){}<LEND>[argument 1; litteral](logical){TRUE}<LEND>[statement 7; assign](){<-}<LSEP>[](symbol){fold.num}<LEND>[call](){}<LSEP>[](symbol){vector}<LSEP>[argument 0; litteral](str){list}<LEND>[argument 1; call](){}<LSEP>[](symbol){length}<LSEP>[](symbol){fold}<LEND>[statement 8; control flow](){for}<LSEP>[](symbol){n}<LEND>[range; call](){}<LSEP>[](symbol){:}<LSEP>[argument 0; litteral](real){1.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){length}<LSEP>[](symbol){fold.num}<LEND>[body; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){[[}<LSEP>[](symbol){fold.num}<LSEP>[](symbol){n}<LEND>[call](){}<LSEP>[](symbol){[}<LEND>[argument 0; call](){}<LSEP>[](symbol){[[}<LSEP>[](symbol){fold}<LSEP>[](symbol){n}<LEND>[](symbol){jnum}<LEND>[statement 9; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){names}<LSEP>[](symbol){fold.num}<LEND>[call](){}<LSEP>[](symbol){names}<LSEP>[](symbol){fold}<LEND>[statement 10; call](){}<LSEP>[](symbol){return}<LEND>[argument 0; call](){}<LSEP>[](symbol){lapply}<LSEP>[](symbol){fold.num}<LSEP>[](symbol){cor}<LSEP>[](symbol){use}<LSEP>[](symbol){method}

[](){expression}<LSEP>[assign](){<-}<LSEP>[](symbol){gl.read.vcf}<LEND>[](){function}<LSEP>[](pairlist){}<LSEP>[](symbol){vcffile}<LSEP>[](symbol){verbose}<LEND>[body; block](){}<LSEP>[statement 0; assign](){=}<LSEP>[](symbol){x}<LSEP>[litteral](NULL){NULL}<LEND>[statement 1; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){!}<LEND>[argument 0; call](){}<LSEP>[](symbol){(}<LEND>[argument 0; call](){}<LSEP>[](symbol){requireNamespace}<LSEP>[argument 0; litteral](str){vcfR}<LSEP>[argument 1; litteral](logical){TRUE}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){stop}<LSEP>[argument 0; litteral](str){To use this function you need ...}<LEND>[false branch; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[](symbol){vcf}<LEND>[call](){}<LSEP>[call name; call](){}<LSEP>[](symbol){::}<LSEP>[](symbol){vcfR}<LSEP>[](symbol){read.vcfR}<LEND>[](symbol){vcffile}<LSEP>[](symbol){verbose}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){x}<LEND>[call](){}<LSEP>[call name; call](){}<LSEP>[](symbol){::}<LSEP>[](symbol){vcfR}<LSEP>[](symbol){vcfR2genlight}<LEND>[](symbol){vcf}<LEND>[statement 2; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){ploidy}<LSEP>[](symbol){x}<LEND>[litteral](real){2.000000}<LEND>[statement 3; assign](){<-}<LSEP>[](symbol){x}<LEND>[call](){}<LSEP>[](symbol){gl.compliance.check}<LSEP>[](symbol){x}<LEND>[statement 4; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){$}<LEND>[argument 0; call](){}<LSEP>[](symbol){@}<LSEP>[](symbol){x}<LSEP>[](symbol){other}<LEND>[](symbol){history}<LEND>[call](){}<LSEP>[](symbol){list}<LEND>[argument 0; call](){}<LSEP>[](symbol){match.call}<LEND>[statement 5; assign](){<-}<LSEP>[](symbol){x}<LEND>[call](){}<LSEP>[](symbol){gl.recalc.metrics}<LSEP>[](symbol){x}<LEND>[statement 6; control flow](){if}<LSEP>[](symbol){verbose}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){genlight object does not have ...}<LEND>[statement 7; call](){}<LSEP>[](symbol){return}<LSEP>[](symbol){x}

[](){expression}<LSEP>[assign](){<-}<LSEP>[](symbol){new_RRRR}<LEND>[](){function}<LSEP>[](pairlist){}<LSEP>[](symbol){x}<LEND>[body; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){stopifnot}<LEND>[argument 0; call](){}<LSEP>[](symbol){is.list}<LSEP>[](symbol){x}<LEND>[statement 1; call](){}<LSEP>[](symbol){stopifnot}<LEND>[argument 0; call](){}<LSEP>[](symbol){all}<LEND>[argument 0; call](){}<LSEP>[](symbol){%in%}<LEND>[argument 0; call](){}<LSEP>[](symbol){c}<LSEP>[argument 0; litteral](str){spec}<LSEP>[argument 1; litteral](str){history}<LSEP>[argument 2; litteral](str){mu}<LSEP>[argument 3; litteral](str){A}<LSEP>[argument 4; litteral](str){B}<LSEP>[argument 5; litteral](str){D}<LSEP>[argument 6; litteral](str){Sigma}<LSEP>[argument 7; litteral](str){obj}<LEND>[argument 1; call](){}<LSEP>[](symbol){names}<LSEP>[](symbol){x}<LEND>[statement 2; call](){}<LSEP>[](symbol){structure}<LSEP>[](symbol){x}<LEND>[argument 1; call](){}<LSEP>[](symbol){c}<LSEP>[argument 0; litteral](str){RRRR}<LSEP>[argument 1; litteral](str){RRR}<LEND>[assign](){<-}<LSEP>[](symbol){print.RRRR}<LEND>[](){function}<LSEP>[](pairlist){}<LSEP>[](symbol){x}<LSEP>[](symbol){digits}<LSEP>[](symbol){...}<LEND>[body; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Robust Reduced-Rank Regression\n}<LEND>[statement 1; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){------\n}<LEND>[statement 2; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Majorisation-Minimisation\n}<LEND>[statement 3; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){------------\n}<LEND>[statement 4; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Specifications:\n}<LEND>[statement 5; call](){}<LSEP>[](symbol){print}<LEND>[argument 0; call](){}<LSEP>[](symbol){do.call}<LEND>[argument 0; call](){}<LSEP>[](symbol){::}<LSEP>[](symbol){base}<LSEP>[](symbol){c}<LEND>[argument 1; call](){}<LSEP>[](symbol){$}<LSEP>[](symbol){x}<LSEP>[](symbol){spec}<LEND>[statement 6; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){\nCoefficients:\n}<LEND>[statement 7; call](){}<LSEP>[](symbol){print}<LEND>[argument 0; call](){}<LSEP>[](symbol){coef}<LSEP>[](symbol){x}<LEND>[](symbol){digits}<LEND>[assign](){<-}<LSEP>[](symbol){plot.RRRR}<LEND>[](){function}<LSEP>[](pairlist){}<LSEP>[](symbol){x}<LSEP>[](symbol){aes_x}<LSEP>[](symbol){xlog10}<LSEP>[](symbol){...}<LEND>[body; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[](symbol){plot_data}<LEND>[call](){}<LSEP>[](symbol){data.frame}<LEND>[argument 0; call](){}<LSEP>[](symbol){cumsum}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LSEP>[](symbol){x}<LSEP>[](symbol){history}<LEND>[](symbol){runtime}<LEND>[argument 1; call](){}<LSEP>[](symbol){$}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LSEP>[](symbol){x}<LSEP>[](symbol){history}<LEND>[](symbol){obj}<LEND>[argument 2; call](){}<LSEP>[](symbol){seq_along}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LSEP>[](symbol){x}<LSEP>[](symbol){history}<LEND>[](symbol){obj}<LEND>[statement 1; control flow](){if}<LSEP>[](symbol){xlog10}<LEND>[true branch; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){[[}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LSEP>[](symbol){plot_data}<LSEP>[](symbol){runtime}<LEND>[argument 1; litteral](real){1.000000}<LEND>[litteral](real){0.001000}<LEND>[statement 2; assign](){<-}<LSEP>[](symbol){output}<LEND>[call](){}<LSEP>[](symbol){+}<LEND>[argument 0; call](){}<LSEP>[](symbol){+}<LEND>[argument 0; call](){}<LSEP>[call name; call](){}<LSEP>[](symbol){::}<LSEP>[](symbol){ggplot2}<LSEP>[](symbol){ggplot}<LEND>[](symbol){plot_data}<LSEP>[](symbol){...}<LEND>[argument 1; call](){}<LSEP>[call name; call](){}<LSEP>[](symbol){::}<LSEP>[](symbol){ggplot2}<LSEP>[](symbol){geom_line}<LEND>[argument 0; call](){}<LSEP>[call name; call](){}<LSEP>[](symbol){::}<LSEP>[](symbol){ggplot2}<LSEP>[](symbol){aes_string}<LEND>[argument 0; call](){}<LSEP>[](symbol){[[}<LSEP>[](symbol){aes_x}<LSEP>[argument 1; litteral](real){1.000000}<LEND>[argument 1; litteral](str){obj}<LEND>[argument 1; call](){}<LSEP>[call name; call](){}<LSEP>[](symbol){::}<LSEP>[](symbol){ggplot2}<LSEP>[](symbol){ylab}<LEND>[argument 0; litteral](str){Objective value}<LEND>[statement 3; control flow](){if}<LSEP>[](symbol){xlog10}<LEND>[true branch; assign](){<-}<LSEP>[](symbol){output}<LEND>[call](){}<LSEP>[](symbol){+}<LSEP>[](symbol){output}<LEND>[argument 1; call](){}<LSEP>[call name; call](){}<LSEP>[](symbol){::}<LSEP>[](symbol){ggplot2}<LSEP>[](symbol){coord_trans}<LEND>[argument 0; litteral](str){log10}<LEND>[statement 4; call](){}<LSEP>[](symbol){return}<LSEP>[](symbol){output}

[](){expression}<LSEP>[assign](){<-}<LSEP>[](symbol){plot.fmdsd}<LEND>[](){function}<LSEP>[](pairlist){}<LSEP>[](symbol){x}<LSEP>[](symbol){nscore}<LSEP>[](symbol){main}<LSEP>[](symbol){sub.title}<LSEP>[](symbol){color}<LSEP>[](symbol){fontsize.points}<LSEP>[](symbol){...}<LEND>[body; block](){}<LSEP>[statement 0; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){>}<LEND>[argument 0; call](){}<LSEP>[](symbol){length}<LSEP>[](symbol){nscore}<LEND>[argument 1; litteral](real){2.000000}<LEND>[true branch; call](){}<LSEP>[](symbol){warning}<LEND>[argument 0; call](){}<LSEP>[](symbol){paste}<LSEP>[argument 0; litteral](str){Since dad-4, nscore must be a ...}<LEND>[argument 1; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){nscore}<LSEP>[argument 1; litteral](real){1.000000}<LEND>[argument 2; litteral](str){and}<LEND>[argument 3; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){nscore}<LSEP>[argument 1; litteral](real){2.000000}<LEND>[argument 4; litteral](str){are plotted.}<LEND>[statement 1; 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[](){expression}<LSEP>[litteral](NULL){NULL}

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[](){expression}<LSEP>[call](){}<LSEP>[](symbol){::}<LSEP>[](symbol){magrittr}<LSEP>[argument 1; litteral](str){%>%}<LEND>[call](){}<LSEP>[](symbol){::}<LSEP>[](symbol){MASS}<LSEP>[](symbol){ginv}<LEND>[assign](){<-}<LSEP>[](symbol){sqrt_matrix}<LEND>[](){function}<LSEP>[](pairlist){}<LSEP>[](symbol){matr}<LEND>[body; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[](symbol){eigens}<LEND>[call](){}<LSEP>[](symbol){eigen}<LSEP>[](symbol){matr}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){vecs}<LEND>[call](){}<LSEP>[](symbol){[[}<LSEP>[](symbol){eigens}<LSEP>[argument 1; litteral](str){vectors}<LEND>[statement 2; assign](){<-}<LSEP>[](symbol){vals}<LEND>[call](){}<LSEP>[](symbol){[[}<LSEP>[](symbol){eigens}<LSEP>[argument 1; litteral](str){values}<LEND>[statement 3; call](){}<LSEP>[](symbol){%*%}<LEND>[argument 0; call](){}<LSEP>[](symbol){%*%}<LSEP>[](symbol){vecs}<LEND>[argument 1; call](){}<LSEP>[](symbol){diag}<LEND>[argument 0; call](){}<LSEP>[](symbol){sqrt}<LSEP>[](symbol){vals}<LEND>[argument 1; 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Proceeding ...\n}<LEND>[false branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){stop}<LSEP>[argument 0; litteral](str){Could not determine topskip (t...}<LEND>[statement 8; assign](){<-}<LSEP>[](symbol){snpraw}<LEND>[call](){}<LSEP>[](symbol){read.csv}<LSEP>[](symbol){filename}<LSEP>[](symbol){nas}<LSEP>[](symbol){topskip}<LSEP>[argument 3; litteral](logical){FALSE}<LSEP>[argument 4; litteral](logical){TRUE}<LEND>[statement 9; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){is.character}<LSEP>[](symbol){lastmetric}<LEND>[true branch; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[](symbol){lmet}<LEND>[call](){}<LSEP>[](symbol){which}<LEND>[argument 0; call](){}<LSEP>[](symbol){==}<LSEP>[](symbol){lastmetric}<LEND>[argument 1; call](){}<LSEP>[](symbol){names}<LSEP>[](symbol){snpraw}<LEND>[statement 1; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){==}<LEND>[argument 0; call](){}<LSEP>[](symbol){length}<LSEP>[](symbol){lmet}<LEND>[argument 1; 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litteral](str){both}<LEND>[statement 12; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){!=}<LEND>[argument 0; call](){}<LSEP>[](symbol){length}<LSEP>[](symbol){ind.names}<LEND>[argument 1; call](){}<LSEP>[](symbol){length}<LEND>[argument 0; call](){}<LSEP>[](symbol){unique}<LSEP>[](symbol){ind.names}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){The following labels for indiv...}<LEND>[statement 1; call](){}<LSEP>[](symbol){cat}<LEND>[argument 0; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){ind.names}<LEND>[argument 1; call](){}<LSEP>[](symbol){duplicated}<LSEP>[](symbol){ind.names}<LEND>[statement 2; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){\n}<LEND>[statement 3; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Warning: Individual names are ...}<LEND>[statement 4; assign](){<-}<LSEP>[](symbol){ind.names}<LEND>[call](){}<LSEP>[](symbol){make.unique}<LSEP>[](symbol){ind.names}<LEND>[statement 13; assign](){<-}<LSEP>[](symbol){datas}<LEND>[call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){snpraw}<LSEP>[](symbol){}<LEND>[argument 2; call](){}<LSEP>[](symbol){:}<LEND>[argument 0; call](){}<LSEP>[](symbol){(}<LEND>[argument 0; call](){}<LSEP>[](symbol){+}<LSEP>[](symbol){lmet}<LSEP>[argument 1; litteral](real){1.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){ncol}<LSEP>[](symbol){snpraw}<LEND>[statement 14; assign](){=}<LSEP>[](symbol){nrows}<LSEP>[litteral](real){1.000000}<LEND>[statement 15; assign](){<-}<LSEP>[](symbol){stdmetricscols}<LEND>[call](){}<LSEP>[](symbol){:}<LSEP>[argument 0; litteral](real){1.000000}<LSEP>[](symbol){lmet}<LEND>[statement 16; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){>=}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){2.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Added the following locus metr...}<LEND>[statement 1; call](){}<LSEP>[](symbol){cat}<LEND>[argument 0; call](){}<LSEP>[](symbol){paste}<LEND>[argument 0; call](){}<LSEP>[](symbol){paste}<LEND>[argument 0; call](){}<LSEP>[](symbol){[}<LEND>[argument 0; call](){}<LSEP>[](symbol){names}<LSEP>[](symbol){snpraw}<LEND>[](symbol){stdmetricscols}<LEND>[argument 1; litteral](str){ }<LEND>[argument 1; litteral](str){.\n}<LEND>[statement 17; assign](){<-}<LSEP>[](symbol){covmetrics}<LEND>[call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){snpraw}<LSEP>[](symbol){}<LSEP>[](symbol){stdmetricscols}<LEND>[statement 18; assign](){<-}<LSEP>[](symbol){nind}<LEND>[call](){}<LSEP>[](symbol){ncol}<LSEP>[](symbol){datas}<LEND>[statement 19; assign](){<-}<LSEP>[](symbol){nsnp}<LEND>[call](){}<LSEP>[](symbol){/}<LEND>[argument 0; call](){}<LSEP>[](symbol){nrow}<LSEP>[](symbol){covmetrics}<LEND>[](symbol){nrows}<LEND>[statement 20; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){>=}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){2.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LEND>[argument 0; call](){}<LSEP>[](symbol){paste}<LSEP>[argument 0; litteral](str){Recognised:}<LSEP>[](symbol){nind}<LSEP>[argument 2; litteral](str){individuals and}<LSEP>[](symbol){nsnp}<LSEP>[argument 4; litteral](str){Sequence Tags using}<LSEP>[](symbol){filename}<LSEP>[argument 6; litteral](str){\n}<LEND>[statement 21; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){||}<LEND>[argument 0; call](){}<LSEP>[](symbol){!=}<LEND>[argument 0; call](){}<LSEP>[](symbol){max}<LSEP>[](symbol){datas}<LSEP>[argument 1; litteral](logical){TRUE}<LEND>[argument 1; litteral](real){1.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){!=}<LEND>[argument 0; call](){}<LSEP>[](symbol){min}<LSEP>[](symbol){datas}<LSEP>[argument 1; litteral](logical){TRUE}<LEND>[argument 1; litteral](real){0.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){stop}<LSEP>[argument 0; litteral](str){Fatal Error: Tag P/A data must...}<LEND>[statement 22; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){>=}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){2.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){\nStarting conversion to a gen...}<LEND>[statement 1; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){ Please note conversion of bi...}<LEND>[statement 2; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){ Once finished, we recommend ...}<LEND>[statement 23; assign](){<-}<LSEP>[](symbol){index}<LEND>[call](){}<LSEP>[](symbol){unique}<LEND>[argument 0; call](){}<LSEP>[](symbol){[}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LSEP>[](symbol){covmetrics}<LSEP>[](symbol){CloneID}<LEND>[argument 1; call](){}<LSEP>[](symbol){which}<LEND>[argument 0; call](){}<LSEP>[](symbol){duplicated}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LSEP>[](symbol){covmetrics}<LSEP>[](symbol){CloneID}<LEND>[statement 24; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){length}<LEND>[argument 0; call](){}<LSEP>[](symbol){>}<LSEP>[](symbol){index}<LSEP>[argument 1; litteral](real){0.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Warning: Locus names [CloneIDs...}<LEND>[statement 1; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){ Rendering locus names...}<LEND>[statement 2; control flow](){for}<LSEP>[](symbol){i}<LEND>[range; call](){}<LSEP>[](symbol){:}<LSEP>[argument 0; litteral](real){1.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){length}<LSEP>[](symbol){index}<LEND>[body; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[](symbol){loc}<LEND>[call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){index}<LSEP>[](symbol){i}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){i2}<LEND>[call](){}<LSEP>[](symbol){which}<LEND>[argument 0; call](){}<LSEP>[](symbol){%in%}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LSEP>[](symbol){covmetrics}<LSEP>[](symbol){CloneID}<LEND>[](symbol){loc}<LEND>[statement 2; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){[}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LSEP>[](symbol){covmetrics}<LSEP>[](symbol){CloneID}<LEND>[](symbol){i2}<LEND>[call](){}<LSEP>[](symbol){paste0}<LEND>[argument 0; call](){}<LSEP>[](symbol){[}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LSEP>[](symbol){covmetrics}<LSEP>[](symbol){CloneID}<LEND>[](symbol){i2}<LEND>[argument 1; litteral](str){_}<LEND>[argument 2; call](){}<LSEP>[](symbol){:}<LSEP>[argument 0; litteral](real){1.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){length}<LSEP>[](symbol){i2}<LEND>[statement 25; assign](){<-}<LSEP>[](symbol){glout}<LEND>[call](){}<LSEP>[](symbol){new}<LSEP>[argument 0; litteral](str){genlight}<LEND>[argument 1; call](){}<LSEP>[](symbol){t}<LSEP>[](symbol){datas}<LEND>[argument 2; litteral](real){1.000000}<LSEP>[](symbol){ind.names}<LEND>[argument 4; call](){}<LSEP>[](symbol){$}<LSEP>[](symbol){covmetrics}<LSEP>[](symbol){CloneID}<LEND>[statement 26; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){$}<LEND>[argument 0; call](){}<LSEP>[](symbol){@}<LSEP>[](symbol){glout}<LSEP>[](symbol){other}<LEND>[](symbol){loc.metrics}<LEND>[](symbol){covmetrics}<LEND>[statement 27; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){!}<LEND>[argument 0; call](){}<LSEP>[](symbol){is.null}<LSEP>[](symbol){ind.metafile}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LEND>[argument 0; call](){}<LSEP>[](symbol){paste}<LSEP>[argument 0; litteral](str){ Adding individual metadata:}<LSEP>[](symbol){ind.metafile}<LSEP>[argument 2; litteral](str){.\n}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){ind.cov}<LEND>[call](){}<LSEP>[](symbol){read.csv}<LSEP>[](symbol){ind.metafile}<LSEP>[](symbol){T}<LSEP>[](symbol){T}<LEND>[statement 2; assign](){=}<LSEP>[](symbol){id.col}<LEND>[call](){}<LSEP>[](symbol){match}<LSEP>[argument 0; litteral](str){id}<LEND>[argument 1; call](){}<LSEP>[](symbol){names}<LSEP>[](symbol){ind.cov}<LEND>[statement 3; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){is.na}<LSEP>[](symbol){id.col}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){stop}<LSEP>[argument 0; litteral](str){Fatal Error: There is no id co...}<LEND>[false branch; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){ind.cov}<LSEP>[](symbol){}<LSEP>[](symbol){id.col}<LEND>[call](){}<LSEP>[](symbol){trimws}<LEND>[argument 0; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){ind.cov}<LSEP>[](symbol){}<LSEP>[](symbol){id.col}<LEND>[argument 1; litteral](str){both}<LEND>[statement 1; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){!=}<LEND>[argument 0; call](){}<LSEP>[](symbol){length}<LEND>[argument 0; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){ind.cov}<LSEP>[](symbol){}<LSEP>[](symbol){id.col}<LEND>[argument 1; call](){}<LSEP>[](symbol){length}<LEND>[argument 0; call](){}<LSEP>[](symbol){unique}<LEND>[argument 0; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){ind.cov}<LSEP>[](symbol){}<LSEP>[](symbol){id.col}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){stop}<LSEP>[argument 0; litteral](str){Fatal Error: Individual names ...}<LEND>[statement 2; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){!=}<LEND>[argument 0; call](){}<LSEP>[](symbol){length}<LEND>[argument 0; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){ind.cov}<LSEP>[](symbol){}<LSEP>[](symbol){id.col}<LEND>[argument 1; call](){}<LSEP>[](symbol){length}<LEND>[argument 0; call](){}<LSEP>[](symbol){names}<LSEP>[](symbol){datas}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Warning: Ids for individual me...}<LEND>[statement 3; assign](){<-}<LSEP>[](symbol){ord}<LEND>[call](){}<LSEP>[](symbol){match}<LEND>[argument 0; call](){}<LSEP>[](symbol){names}<LSEP>[](symbol){datas}<LEND>[argument 1; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){ind.cov}<LSEP>[](symbol){}<LSEP>[](symbol){id.col}<LEND>[statement 4; assign](){<-}<LSEP>[](symbol){ord}<LEND>[call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){ord}<LEND>[argument 1; call](){}<LSEP>[](symbol){!}<LEND>[argument 0; call](){}<LSEP>[](symbol){is.na}<LSEP>[](symbol){ord}<LEND>[statement 5; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){&}<LEND>[argument 0; call](){}<LSEP>[](symbol){>}<LEND>[argument 0; call](){}<LSEP>[](symbol){length}<LSEP>[](symbol){ord}<LEND>[argument 1; litteral](real){1.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){<=}<LEND>[argument 0; call](){}<LSEP>[](symbol){length}<LSEP>[](symbol){ord}<LEND>[](symbol){nind}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LEND>[argument 0; call](){}<LSEP>[](symbol){paste}<LSEP>[argument 0; litteral](str){Ids for individual metadata (a...}<LEND>[argument 1; call](){}<LSEP>[](symbol){length}<LEND>[argument 0; call](){}<LSEP>[](symbol){==}<LSEP>[](symbol){ord}<LSEP>[](symbol){nind}<LEND>[argument 2; litteral](str){matching ids out of}<LEND>[argument 3; call](){}<LSEP>[](symbol){nrow}<LSEP>[](symbol){ind.cov}<LEND>[argument 4; litteral](str){ids provided in the ind.metada...}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){ord2}<LEND>[call](){}<LSEP>[](symbol){match}<LEND>[argument 0; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){ind.cov}<LSEP>[](symbol){ord}<LSEP>[](symbol){id.col}<LEND>[argument 1; call](){}<LSEP>[](symbol){indNames}<LSEP>[](symbol){glout}<LEND>[statement 2; assign](){<-}<LSEP>[](symbol){glout}<LEND>[call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){glout}<LSEP>[](symbol){ord2}<LSEP>[](symbol){}<LEND>[false branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){stop}<LSEP>[argument 0; litteral](str){Fatal Error: Ids are not match...}<LEND>[statement 4; assign](){=}<LSEP>[](symbol){pop.col}<LEND>[call](){}<LSEP>[](symbol){match}<LSEP>[argument 0; litteral](str){pop}<LEND>[argument 1; call](){}<LSEP>[](symbol){names}<LSEP>[](symbol){ind.cov}<LEND>[statement 5; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){is.na}<LSEP>[](symbol){pop.col}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Please note: there is no pop c...}<LEND>[statement 1; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){pop}<LSEP>[](symbol){out}<LEND>[call](){}<LSEP>[](symbol){array}<LSEP>[argument 0; litteral](logical){NA}<LEND>[argument 1; call](){}<LSEP>[](symbol){nInd}<LSEP>[](symbol){glout}<LEND>[statement 2; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Created pop column with NAs\n}<LEND>[false branch; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){pop}<LSEP>[](symbol){glout}<LEND>[call](){}<LSEP>[](symbol){as.factor}<LEND>[argument 0; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){ind.cov}<LSEP>[](symbol){ord}<LSEP>[](symbol){pop.col}<LEND>[statement 1; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Added pop factor.\n}<LEND>[statement 6; assign](){=}<LSEP>[](symbol){lat.col}<LEND>[call](){}<LSEP>[](symbol){match}<LSEP>[argument 0; litteral](str){lat}<LEND>[argument 1; call](){}<LSEP>[](symbol){names}<LSEP>[](symbol){ind.cov}<LEND>[statement 7; assign](){=}<LSEP>[](symbol){lon.col}<LEND>[call](){}<LSEP>[](symbol){match}<LSEP>[argument 0; litteral](str){lon}<LEND>[argument 1; call](){}<LSEP>[](symbol){names}<LSEP>[](symbol){ind.cov}<LEND>[statement 8; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){is.na}<LSEP>[](symbol){lat.col}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Please note: there is no lat c...}<LEND>[statement 9; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){is.na}<LSEP>[](symbol){lon.col}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Please note: there is no lon c...}<LEND>[statement 10; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){&}<LEND>[argument 0; call](){}<LSEP>[](symbol){!}<LEND>[argument 0; call](){}<LSEP>[](symbol){is.na}<LSEP>[](symbol){lat.col}<LEND>[argument 1; call](){}<LSEP>[](symbol){!}<LEND>[argument 0; call](){}<LSEP>[](symbol){is.na}<LSEP>[](symbol){lon.col}<LEND>[true branch; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){$}<LEND>[argument 0; call](){}<LSEP>[](symbol){@}<LSEP>[](symbol){glout}<LSEP>[](symbol){other}<LEND>[](symbol){latlong}<LEND>[call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){ind.cov}<LSEP>[](symbol){ord}<LEND>[argument 2; call](){}<LSEP>[](symbol){c}<LSEP>[](symbol){lat.col}<LSEP>[](symbol){lon.col}<LEND>[statement 1; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){rownames}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LEND>[argument 0; call](){}<LSEP>[](symbol){@}<LSEP>[](symbol){glout}<LSEP>[](symbol){other}<LEND>[](symbol){latlong}<LEND>[call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){ind.cov}<LSEP>[](symbol){ord}<LSEP>[](symbol){id.col}<LEND>[statement 2; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){ Added latlon data.\n}<LEND>[statement 11; assign](){<-}<LSEP>[](symbol){other.col}<LEND>[call](){}<LSEP>[](symbol){names}<LSEP>[](symbol){ind.cov}<LEND>[statement 12; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){length}<LEND>[argument 0; call](){}<LSEP>[](symbol){>}<LSEP>[](symbol){other.col}<LSEP>[argument 1; litteral](real){0.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){$}<LEND>[argument 0; call](){}<LSEP>[](symbol){@}<LSEP>[](symbol){glout}<LSEP>[](symbol){other}<LEND>[](symbol){ind.metrics}<LEND>[call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){ind.cov}<LSEP>[](symbol){ord}<LSEP>[](symbol){other.col}<LSEP>[argument 3; litteral](logical){FALSE}<LEND>[statement 1; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){rownames}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LEND>[argument 0; call](){}<LSEP>[](symbol){@}<LSEP>[](symbol){glout}<LSEP>[](symbol){other}<LEND>[](symbol){ind.metrics}<LEND>[call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){ind.cov}<LSEP>[](symbol){ord}<LSEP>[](symbol){id.col}<LEND>[statement 2; call](){}<LSEP>[](symbol){cat}<LEND>[argument 0; call](){}<LSEP>[](symbol){paste}<LSEP>[argument 0; litteral](str){ Added }<LSEP>[](symbol){other.col}<LSEP>[argument 2; litteral](str){ to the other$ind.metrics slot.\n}<LEND>[statement 28; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){is.null}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LEND>[argument 0; call](){}<LSEP>[](symbol){@}<LSEP>[](symbol){glout}<LSEP>[](symbol){other}<LEND>[](symbol){history}<LEND>[true branch; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){$}<LEND>[argument 0; call](){}<LSEP>[](symbol){@}<LSEP>[](symbol){glout}<LSEP>[](symbol){other}<LEND>[](symbol){history}<LEND>[call](){}<LSEP>[](symbol){list}<LEND>[argument 0; call](){}<LSEP>[](symbol){match.call}<LEND>[statement 29; assign](){<-}<LSEP>[](symbol){recalc.flags}<LEND>[call](){}<LSEP>[](symbol){c}<LSEP>[argument 0; litteral](str){AvgPIC}<LSEP>[argument 1; litteral](str){OneRatioRef}<LSEP>[argument 2; litteral](str){OneRatioSnp}<LSEP>[argument 3; litteral](str){PICRef}<LSEP>[argument 4; litteral](str){PICSnp}<LSEP>[argument 5; litteral](str){CallRate}<LSEP>[argument 6; litteral](str){maf}<LSEP>[argument 7; litteral](str){FreqHets}<LSEP>[argument 8; litteral](str){FreqHomRef}<LSEP>[argument 9; litteral](str){FreqHomSnp}<LSEP>[argument 10; litteral](str){monomorphs}<LSEP>[argument 11; litteral](str){OneRatio}<LSEP>[argument 12; litteral](str){PIC}<LEND>[statement 30; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){$}<LEND>[argument 0; call](){}<LSEP>[](symbol){@}<LSEP>[](symbol){glout}<LSEP>[](symbol){other}<LEND>[](symbol){loc.metrics.flags}<LEND>[call](){}<LSEP>[](symbol){data.frame}<LEND>[argument 0; call](){}<LSEP>[](symbol){matrix}<LSEP>[argument 0; litteral](logical){TRUE}<LSEP>[argument 1; litteral](real){1.000000}<LEND>[argument 2; call](){}<LSEP>[](symbol){length}<LSEP>[](symbol){recalc.flags}<LEND>[statement 31; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){names}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LEND>[argument 0; call](){}<LSEP>[](symbol){@}<LSEP>[](symbol){glout}<LSEP>[](symbol){other}<LEND>[](symbol){loc.metrics.flags}<LEND>[](symbol){recalc.flags}<LEND>[statement 32; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){$}<LEND>[argument 0; call](){}<LSEP>[](symbol){@}<LSEP>[](symbol){glout}<LSEP>[](symbol){other}<LEND>[](symbol){verbose}<LEND>[litteral](real){2.000000}<LEND>[statement 33; 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[](){expression}<LSEP>[litteral](str){_PACKAGE}

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[](){expression}<LSEP>[assign](){<-}<LSEP>[](symbol){install_dat}<LEND>[](){function}<LSEP>[](pairlist){}<LSEP>[](symbol){link}<LSEP>[](symbol){dir}<LEND>[body; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){clone_dat}<LSEP>[](symbol){link}<LSEP>[](symbol){dir}<LEND>[statement 1; call](){}<LSEP>[call name; call](){}<LSEP>[](symbol){::}<LSEP>[](symbol){devtools}<LSEP>[](symbol){install}<LEND>[](symbol){dir}<LEND>[statement 2; call](){}<LSEP>[](symbol){unlink}<LSEP>[](symbol){dir}<LSEP>[argument 1; litteral](logical){TRUE}<LEND>[statement 3; call](){}<LSEP>[](symbol){message}<LSEP>[argument 0; litteral](str){Successfully installed package...}

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call](){}<LSEP>[](symbol){rdplot}<LSEP>[](symbol){d}<LEND>[statement 2; call](){}<LSEP>[](symbol){dev.flush}

[](){expression}<LSEP>[assign](){<-}<LSEP>[](symbol){utils.dart2genlight}<LEND>[](){function}<LSEP>[](pairlist){}<LSEP>[](symbol){dart}<LSEP>[](symbol){ind.metafile}<LSEP>[](symbol){covfilename}<LSEP>[](symbol){probar}<LSEP>[](symbol){verbose}<LEND>[body; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[](symbol){funname}<LEND>[call](){}<LSEP>[](symbol){[[}<LEND>[argument 0; call](){}<LSEP>[](symbol){match.call}<LEND>[argument 1; litteral](real){1.000000}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){build}<LSEP>[litteral](str){Jacob}<LEND>[statement 2; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){is.null}<LSEP>[](symbol){verbose}<LEND>[true branch; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[](symbol){verbose}<LSEP>[litteral](real){2.000000}<LEND>[statement 3; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){|}<LEND>[argument 0; call](){}<LSEP>[](symbol){<}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){0.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){>}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){5.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LEND>[argument 0; call](){}<LSEP>[](symbol){paste}<LSEP>[argument 0; litteral](str){ Warning: Parameter 'verbose'...}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){verbose}<LSEP>[litteral](real){2.000000}<LEND>[statement 4; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){>=}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){1.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){==}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){5.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Starting}<LSEP>[](symbol){funname}<LSEP>[argument 2; litteral](str){[ Build =}<LSEP>[](symbol){build}<LSEP>[argument 4; litteral](str){]\n}<LEND>[false branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Starting}<LSEP>[](symbol){funname}<LSEP>[argument 2; litteral](str){\n}<LEND>[statement 5; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){is.null}<LSEP>[](symbol){ind.metafile}<LEND>[true branch; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[](symbol){ind.metafile}<LSEP>[](symbol){covfilename}<LEND>[statement 6; assign](){<-}<LSEP>[](symbol){nind}<LEND>[call](){}<LSEP>[](symbol){[[}<LSEP>[](symbol){dart}<LSEP>[argument 1; litteral](str){nind}<LEND>[statement 7; assign](){<-}<LSEP>[](symbol){nsnp}<LEND>[call](){}<LSEP>[](symbol){[[}<LSEP>[](symbol){dart}<LSEP>[argument 1; litteral](str){nsnp}<LEND>[statement 8; assign](){<-}<LSEP>[](symbol){sraw}<LEND>[call](){}<LSEP>[](symbol){[[}<LSEP>[](symbol){dart}<LSEP>[argument 1; litteral](str){covmetrics}<LEND>[statement 9; assign](){<-}<LSEP>[](symbol){nrows}<LEND>[call](){}<LSEP>[](symbol){[[}<LSEP>[](symbol){dart}<LSEP>[argument 1; litteral](str){nrows}<LEND>[statement 10; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){is.null}<LSEP>[](symbol){nrows}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){nrows not provided. Trying to ...}<LEND>[statement 1; assign](){=}<LSEP>[](symbol){gnrows}<LEND>[call](){}<LSEP>[](symbol){-}<LSEP>[argument 0; litteral](real){3.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){max}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LSEP>[](symbol){dart}<LSEP>[](symbol){gendata}<LEND>[argument 1; litteral](logical){TRUE}<LEND>[statement 2; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){|}<LEND>[argument 0; call](){}<LSEP>[](symbol){==}<LSEP>[](symbol){gnrows}<LSEP>[argument 1; litteral](real){1.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){==}<LSEP>[](symbol){gnrows}<LSEP>[argument 1; litteral](real){2.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[](symbol){nrows}<LSEP>[](symbol){gnrows}<LEND>[statement 1; call](){}<LSEP>[](symbol){cat}<LEND>[argument 0; call](){}<LSEP>[](symbol){paste}<LSEP>[argument 0; litteral](str){Should be }<LSEP>[](symbol){nrows}<LSEP>[argument 2; litteral](str){ row(s) format. Please check i...}<LEND>[false branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){stop}<LSEP>[argument 0; litteral](str){Cannot be guessed. The dart fo...}<LEND>[statement 11; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){!=}<LEND>[argument 0; call](){}<LSEP>[](symbol){sum}<LEND>[argument 0; call](){}<LSEP>[](symbol){%in%}<LEND>[argument 0; call](){}<LSEP>[](symbol){c}<LSEP>[argument 0; litteral](str){SNP}<LSEP>[argument 1; litteral](str){SnpPosition}<LEND>[argument 1; call](){}<LSEP>[](symbol){names}<LSEP>[](symbol){sraw}<LEND>[argument 1; litteral](real){2.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){stop}<LSEP>[argument 0; litteral](str){Could not find SNP or SnpPosit...}<LEND>[statement 12; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){>=}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){2.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Starting conversion....\n}<LEND>[statement 1; call](){}<LSEP>[](symbol){cat}<LEND>[argument 0; call](){}<LSEP>[](symbol){paste0}<LSEP>[argument 0; 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call](){}<LSEP>[](symbol){<}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){0.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){>}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){5.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LEND>[argument 0; call](){}<LSEP>[](symbol){paste}<LSEP>[argument 0; litteral](str){ Warning: Parameter 'verbose'...}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){verbose}<LSEP>[litteral](real){2.000000}<LEND>[statement 6; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){>=}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){1.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){==}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){5.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Starting}<LSEP>[](symbol){funname}<LSEP>[argument 2; litteral](str){[ Build =}<LSEP>[](symbol){build}<LSEP>[argument 4; litteral](str){]\n}<LEND>[false branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Starting}<LSEP>[](symbol){funname}<LSEP>[argument 2; litteral](str){\n}<LEND>[statement 7; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){!=}<LEND>[argument 0; call](){}<LSEP>[](symbol){class}<LSEP>[](symbol){glPca}<LEND>[argument 1; litteral](str){glPca}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){stop}<LSEP>[argument 0; litteral](str){Fatal Error: glPca object requ...}<LEND>[statement 8; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){&&}<LEND>[argument 0; call](){}<LSEP>[](symbol){&&}<LEND>[argument 0; call](){}<LSEP>[](symbol){!=}<LEND>[argument 0; call](){}<LSEP>[](symbol){class}<LSEP>[](symbol){x}<LEND>[argument 1; litteral](str){genlight}<LEND>[argument 1; call](){}<LSEP>[](symbol){!=}<LEND>[argument 0; call](){}<LSEP>[](symbol){class}<LSEP>[](symbol){x}<LEND>[argument 1; 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call](){}<LSEP>[](symbol){!=}<LSEP>[](symbol){labels}<LSEP>[argument 1; litteral](str){legend}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){ Warning: Parameter 'labels' ...}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){labels}<LSEP>[litteral](str){pop}<LEND>[statement 10; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){|}<LEND>[argument 0; call](){}<LSEP>[](symbol){<}<LSEP>[](symbol){p}<LSEP>[argument 1; litteral](real){0.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){>}<LSEP>[](symbol){p}<LSEP>[argument 1; litteral](real){1.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){ Warning: Parameter 'p' must ...}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){p}<LSEP>[litteral](real){0.950000}<LEND>[statement 11; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){|}<LEND>[argument 0; call](){}<LSEP>[](symbol){<}<LSEP>[](symbol){hadjust}<LSEP>[argument 1; litteral](real){0.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){>}<LSEP>[](symbol){hadjust}<LSEP>[argument 1; litteral](real){3.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){ Warning: Parameter 'hadjust'...}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){hadjust}<LSEP>[litteral](real){1.500000}<LEND>[statement 12; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){|}<LEND>[argument 0; call](){}<LSEP>[](symbol){<}<LSEP>[](symbol){vadjust}<LSEP>[argument 1; litteral](real){0.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){>}<LSEP>[](symbol){hadjust}<LSEP>[argument 1; litteral](real){3.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){ Warning: Parameter 'vadjust'...}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){vadjust}<LSEP>[litteral](real){1.500000}<LEND>[statement 13; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){|}<LEND>[argument 0; 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call](){}<LSEP>[](symbol){(}<LEND>[argument 0; call](){}<LSEP>[](symbol){(}<LEND>[argument 0; call](){}<LSEP>[](symbol){/}<LEND>[argument 0; call](){}<LSEP>[](symbol){(}<LEND>[argument 0; call](){}<LSEP>[](symbol){*}<LEND>[argument 0; call](){}<LSEP>[](symbol){(}<LEND>[argument 0; call](){}<LSEP>[](symbol){-}<LSEP>[](symbol){nL}<LSEP>[argument 1; litteral](real){1.000000}<LEND>[](symbol){nL}<LEND>[argument 1; litteral](real){2.000000}<LEND>[argument 1; litteral](real){1.000000}<LEND>[statement 4; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){filtered}<LSEP>[](symbol){index}<LEND>[call](){}<LSEP>[](symbol){-}<LEND>[argument 0; call](){}<LSEP>[](symbol){(}<LEND>[argument 0; call](){}<LSEP>[](symbol){(}<LEND>[argument 0; call](){}<LSEP>[](symbol){/}<LEND>[argument 0; call](){}<LSEP>[](symbol){(}<LEND>[argument 0; call](){}<LSEP>[](symbol){*}<LEND>[argument 0; call](){}<LSEP>[](symbol){(}<LEND>[argument 0; call](){}<LSEP>[](symbol){-}<LSEP>[](symbol){nL}<LSEP>[argument 1; 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litteral](str){\n}<LEND>[statement 47; call](){}<LSEP>[](symbol){return}<LSEP>[](symbol){df}

[](){expression}<LSEP>[litteral](str){pendigits}<LSEP>[litteral](str){COMBO17}<LSEP>[litteral](str){tobacco}

[](){expression}<LSEP>[assign](){<-}<LSEP>[](symbol){gl.report.parent.offspring}<LEND>[](){function}<LSEP>[](pairlist){}<LSEP>[](symbol){x}<LSEP>[](symbol){min.rdepth}<LSEP>[](symbol){min.reproducibility}<LSEP>[](symbol){range}<LSEP>[](symbol){verbose}<LEND>[body; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[](symbol){funname}<LEND>[call](){}<LSEP>[](symbol){[[}<LEND>[argument 0; call](){}<LSEP>[](symbol){match.call}<LEND>[argument 1; litteral](real){1.000000}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){build}<LSEP>[litteral](str){Jacob}<LEND>[statement 2; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){is.null}<LSEP>[](symbol){verbose}<LEND>[true branch; block](){}<LSEP>[statement 0; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){!}<LEND>[argument 0; call](){}<LSEP>[](symbol){is.null}<LEND>[argument 0; call](){}<LSEP>[](symbol){$}<LEND>[argument 0; call](){}<LSEP>[](symbol){@}<LSEP>[](symbol){x}<LSEP>[](symbol){other}<LEND>[](symbol){verbose}<LEND>[true branch; 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call](){}<LSEP>[](symbol){>=}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){1.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){==}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){5.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Starting}<LSEP>[](symbol){funname}<LSEP>[argument 2; litteral](str){[ Build =}<LSEP>[](symbol){build}<LSEP>[argument 4; litteral](str){]\n}<LEND>[false branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){Starting}<LSEP>[](symbol){funname}<LSEP>[argument 2; litteral](str){\n}<LEND>[statement 5; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){!=}<LEND>[argument 0; call](){}<LSEP>[](symbol){class}<LSEP>[](symbol){x}<LEND>[argument 1; litteral](str){genlight}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){stop}<LSEP>[argument 0; litteral](str){Fatal Error: genlight object r...}<LEND>[statement 6; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){all}<LEND>[argument 0; call](){}<LSEP>[](symbol){==}<LEND>[argument 0; call](){}<LSEP>[](symbol){@}<LSEP>[](symbol){x}<LSEP>[](symbol){ploidy}<LEND>[argument 1; litteral](real){1.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){stop}<LSEP>[argument 0; litteral](str){Fatal Error: Detected Presence...}<LEND>[false branch; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){all}<LEND>[argument 0; call](){}<LSEP>[](symbol){==}<LEND>[argument 0; call](){}<LSEP>[](symbol){@}<LSEP>[](symbol){x}<LSEP>[](symbol){ploidy}<LEND>[argument 1; litteral](real){2.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){>=}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){2.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){ Processing a SNP dataset\n}<LEND>[false branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){stop}<LSEP>[argument 0; litteral](str){Fatal Error: Ploidy must be un...}<LEND>[statement 7; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){>=}<LSEP>[](symbol){verbose}<LSEP>[argument 1; litteral](real){2.000000}<LEND>[true branch; block](){}<LSEP>[statement 0; call](){}<LSEP>[](symbol){cat}<LSEP>[argument 0; litteral](str){ Generating null expectation ...}<LEND>[statement 8; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){pop}<LSEP>[](symbol){x}<LEND>[call](){}<LSEP>[](symbol){$}<LSEP>[](symbol){x}<LSEP>[](symbol){ind.names}<LEND>[statement 9; assign](){<-}<LSEP>[](symbol){x}<LEND>[call](){}<LSEP>[](symbol){gl.filter.reproducibility}<LSEP>[](symbol){x}<LSEP>[](symbol){min.reproducibility}<LSEP>[argument 2; litteral](real){0.000000}<LEND>[statement 10; assign](){<-}<LSEP>[](symbol){x}<LEND>[call](){}<LSEP>[](symbol){gl.filter.rdepth}<LSEP>[](symbol){x}<LSEP>[](symbol){min.rdepth}<LSEP>[argument 2; litteral](real){0.000000}<LEND>[statement 11; assign](){<-}<LSEP>[](symbol){x}<LEND>[call](){}<LSEP>[](symbol){gl.filter.callrate}<LSEP>[](symbol){x}<LSEP>[argument 1; litteral](real){0.950000}<LSEP>[argument 2; litteral](logical){FALSE}<LSEP>[argument 3; litteral](real){0.000000}<LEND>[statement 12; assign](){<-}<LSEP>[](symbol){nL}<LEND>[call](){}<LSEP>[](symbol){nLoc}<LSEP>[](symbol){x}<LEND>[statement 13; assign](){<-}<LSEP>[](symbol){nP}<LEND>[call](){}<LSEP>[](symbol){nPop}<LSEP>[](symbol){x}<LEND>[statement 14; assign](){<-}<LSEP>[](symbol){pN}<LEND>[call](){}<LSEP>[](symbol){popNames}<LSEP>[](symbol){x}<LEND>[statement 15; assign](){<-}<LSEP>[](symbol){count}<LEND>[call](){}<LSEP>[](symbol){array}<LSEP>[argument 0; litteral](logical){NA}<LEND>[argument 1; call](){}<LSEP>[](symbol){c}<LSEP>[](symbol){nP}<LSEP>[](symbol){nP}<LEND>[statement 16; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){row.names}<LSEP>[](symbol){count}<LEND>[call](){}<LSEP>[](symbol){popNames}<LSEP>[](symbol){x}<LEND>[statement 17; assign](){<-}<LSEP>[variable; call](){}<LSEP>[](symbol){colnames}<LSEP>[](symbol){count}<LEND>[call](){}<LSEP>[](symbol){popNames}<LSEP>[](symbol){x}<LEND>[statement 18; control flow](){for}<LSEP>[](symbol){i}<LEND>[range; call](){}<LSEP>[](symbol){:}<LSEP>[argument 0; litteral](real){1.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){(}<LEND>[argument 0; call](){}<LSEP>[](symbol){-}<LSEP>[](symbol){nP}<LSEP>[argument 1; litteral](real){1.000000}<LEND>[body; block](){}<LSEP>[statement 0; control flow](){for}<LSEP>[](symbol){j}<LEND>[range; call](){}<LSEP>[](symbol){:}<LEND>[argument 0; call](){}<LSEP>[](symbol){(}<LEND>[argument 0; call](){}<LSEP>[](symbol){+}<LSEP>[](symbol){i}<LSEP>[argument 1; litteral](real){1.000000}<LEND>[](symbol){nP}<LEND>[body; block](){}<LSEP>[statement 0; assign](){<-}<LSEP>[](symbol){pair}<LEND>[call](){}<LSEP>[](symbol){gl.keep.pop}<LSEP>[](symbol){x}<LEND>[argument 1; call](){}<LSEP>[](symbol){c}<LEND>[argument 0; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){pN}<LSEP>[](symbol){i}<LEND>[argument 1; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){pN}<LSEP>[](symbol){j}<LEND>[argument 2; litteral](real){0.000000}<LEND>[statement 1; assign](){<-}<LSEP>[](symbol){mat}<LEND>[call](){}<LSEP>[](symbol){as.matrix}<LSEP>[](symbol){pair}<LEND>[statement 2; assign](){<-}<LSEP>[](symbol){vect}<LEND>[call](){}<LSEP>[](symbol){+}<LEND>[argument 0; call](){}<LSEP>[](symbol){*}<LEND>[argument 0; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){mat}<LSEP>[argument 1; litteral](real){1.000000}<LSEP>[](symbol){}<LEND>[argument 1; litteral](real){10.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){[}<LSEP>[](symbol){mat}<LSEP>[argument 1; litteral](real){2.000000}<LSEP>[](symbol){}<LEND>[statement 3; assign](){<-}<LSEP>[](symbol){homalts}<LEND>[call](){}<LSEP>[](symbol){sum}<LEND>[argument 0; call](){}<LSEP>[](symbol){|}<LEND>[argument 0; call](){}<LSEP>[](symbol){==}<LSEP>[](symbol){vect}<LSEP>[argument 1; litteral](real){2.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){==}<LSEP>[](symbol){vect}<LSEP>[argument 1; 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call](){}<LSEP>[](symbol){c}<LSEP>[argument 0; litteral](real){2.000000}<LSEP>[argument 1; litteral](real){1.000000}<LEND>[argument 1; call](){}<LSEP>[](symbol){c}<LSEP>[argument 0; litteral](real){1.000000}<LSEP>[argument 1; litteral](real){1.000000}<LSEP>[argument 2; litteral](real){1.000000}<LSEP>[argument 3; litteral](real){1.000000}<LEND>[argument 2; call](){}<LSEP>[](symbol){c}<LSEP>[argument 0; litteral](real){0.500000}<LSEP>[argument 1; litteral](real){0.500000}<LSEP>[argument 2; litteral](real){0.500000}<LSEP>[argument 3; litteral](real){0.500000}<LEND>[argument 3; litteral](str){m}<LEND>[statement 23; call](){}<LSEP>[](symbol){par}<LEND>[argument 0; call](){}<LSEP>[](symbol){c}<LSEP>[argument 0; litteral](real){1.000000}<LSEP>[argument 1; litteral](real){0.500000}<LSEP>[argument 2; litteral](real){0.500000}<LSEP>[argument 3; litteral](real){0.500000}<LEND>[statement 24; control flow](){if}<LSEP>[condition; call](){}<LSEP>[](symbol){>=}<LSEP>[](symbol){verbose}<LSEP>[argument 1; 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