Mercurial > repos > greg > insect_phenology_model

comparison insect_phenology_model.R @ 51:35c7c8de5193 draft

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author greg
date Mon, 13 Nov 2017 11:21:18 -0500
parents 0579901169fb
children 9dc9dc41851b
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50:0579901169fb 51:35c7c8de5193
585 pdf(file=opt$output, width=20, height=30, bg="white") 585 pdf(file=opt$output, width=20, height=30, bg="white")
586 586
587 par(mar = c(5, 6, 4, 4), mfrow=c(3, 1)) 587 par(mar = c(5, 6, 4, 4), mfrow=c(3, 1))
588 588
589 # Subfigure 2: population size by life stage 589 # Subfigure 2: population size by life stage
590 title <- paste("BSMB Total Population Size by Life Stage:", opt$location, ", Latitude:", latitude, "," start_date, "to", end_date, sep=" ") 590 title <- paste("BSMB Total Population Size by Life Stage:", opt$location, ", Latitude:", latitude, ",", start_date, "to", end_date, sep=" ")
591 plot(day.all, sa, main=title, type="l", ylim=c(0, max(se + se.se, sn + sn.se, sa + sa.se)), axes=F, lwd=2, xlab="", ylab="Number", cex=3, cex.lab=2, cex.axis=3, cex.main=3) 591 plot(day.all, sa, main=title, type="l", ylim=c(0, max(se + se.se, sn + sn.se, sa + sa.se)), axes=F, lwd=2, xlab="", ylab="Number", cex=3, cex.lab=2, cex.axis=3, cex.main=3)
592 # Young and old nymphs. 592 # Young and old nymphs.
593 lines(day.all, sn, lwd=2, lty=1, col=2) 593 lines(day.all, sn, lwd=2, lty=1, col=2)
594 # Eggs 594 # Eggs
595 lines(day.all, se, lwd=2, lty=1, col=4) 595 lines(day.all, se, lwd=2, lty=1, col=4)
609 lines (day.all, se + se.se, col=4, lty=2) 609 lines (day.all, se + se.se, col=4, lty=2)
610 lines (day.all, se - se.se, col=4, lty=2) 610 lines (day.all, se - se.se, col=4, lty=2)
611 } 611 }
612 612
613 # Subfigure 3: population size by generation 613 # Subfigure 3: population size by generation
614 title <- paste("BSMB Total Population Size by Generation:", opt$location, ", Latitude:", latitude, "," start_date, "to", end_date, sep=" ") 614 title <- paste("BSMB Total Population Size by Generation:", opt$location, ", Latitude:", latitude, ",", start_date, "to", end_date, sep=" ")
615 plot(day.all, g0, main=title, type="l", ylim=c(0, max(g2)), axes=F, lwd=2, xlab="", ylab="Number", cex=3, cex.lab=2, cex.axis=3, cex.main=3) 615 plot(day.all, g0, main=title, type="l", ylim=c(0, max(g2)), axes=F, lwd=2, xlab="", ylab="Number", cex=3, cex.lab=2, cex.axis=3, cex.main=3)
616 lines(day.all, g1, lwd = 2, lty = 1, col = 2) 616 lines(day.all, g1, lwd = 2, lty = 1, col = 2)
617 lines(day.all, g2, lwd = 2, lty = 1, col = 4) 617 lines(day.all, g2, lwd = 2, lty = 1, col = 4)
618 axis(1, at = c(1:12) * 30 - 15, cex.axis = 3, labels = c("Jan", "Feb", "Mar", "Apr", "May", "Jun", "Jul", "Aug", "Sep", "Oct", "Nov", "Dec")) 618 axis(1, at = c(1:12) * 30 - 15, cex.axis = 3, labels = c("Jan", "Feb", "Mar", "Apr", "May", "Jun", "Jul", "Aug", "Sep", "Oct", "Nov", "Dec"))
619 axis(2, cex.axis = 3) 619 axis(2, cex.axis = 3)
631 lines (day.all, g2 + g2.se, col = 4, lty = 2) 631 lines (day.all, g2 + g2.se, col = 4, lty = 2)
632 lines (day.all, g2 - g2.se, col = 4, lty = 2) 632 lines (day.all, g2 - g2.se, col = 4, lty = 2)
633 } 633 }
634 634
635 # Subfigure 4: adult population size by generation 635 # Subfigure 4: adult population size by generation
636 title <- paste("BSMB Adult Population Size by Generation:", opt$location, ", Latitude:", latitude, "," start_date, "to", end_date, sep=" ") 636 title <- paste("BSMB Adult Population Size by Generation:", opt$location, ", Latitude:", latitude, ",", start_date, "to", end_date, sep=" ")
637 plot(day.all, g0a, ylim=c(0, max(g2a) + 100), main=title, type="l", axes=F, lwd=2, xlab="Year", ylab="Number", cex=3, cex.lab=2, cex.axis=3, cex.main=3) 637 plot(day.all, g0a, ylim=c(0, max(g2a) + 100), main=title, type="l", axes=F, lwd=2, xlab="Year", ylab="Number", cex=3, cex.lab=2, cex.axis=3, cex.main=3)
638 lines(day.all, g1a, lwd = 2, lty = 1, col = 2) 638 lines(day.all, g1a, lwd = 2, lty = 1, col = 2)
639 lines(day.all, g2a, lwd = 2, lty = 1, col = 4) 639 lines(day.all, g2a, lwd = 2, lty = 1, col = 4)
640 axis(1, at = c(1:12) * 30 - 15, cex.axis = 3, labels = c("Jan", "Feb", "Mar", "Apr", "May", "Jun", "Jul", "Aug", "Sep", "Oct", "Nov", "Dec")) 640 axis(1, at = c(1:12) * 30 - 15, cex.axis = 3, labels = c("Jan", "Feb", "Mar", "Apr", "May", "Jun", "Jul", "Aug", "Sep", "Oct", "Nov", "Dec"))
641 axis(2, cex.axis = 3) 641 axis(2, cex.axis = 3)