-------------------------------------------------------------------------------- scape 2.3.3 (2020-11-23) -------------------------------------------------------------------------------- o Maintenance release. -------------------------------------------------------------------------------- scape 2.3-1 (2017-06-20) -------------------------------------------------------------------------------- o Added function importADCAM() to import results from ADCAM-type models. o Added example object x.saithe. o Hardwired stringsAsFactors=FALSE in importCol() and removed '...' argument. o User can pass a data frame as the main argument to functions, instead of a scape object. -------------------------------------------------------------------------------- scape 2.2-0 (2014-03-11) -------------------------------------------------------------------------------- o Package loads quietly, thanks to explicit namespace handling. o Added functions importMCMC() and importProj() to import MCMC results from Coleraine. These functions were a part of the "scapeMCMC" package, which has now been renamed to "plotMCMC" and no longer contains Coleraine-specific functions. o Removed argument 'info' from importCol(). o Improved plotCA() and plotCL() handling of NA data values. -------------------------------------------------------------------------------- scape 2.1-0 (2011-04-28) -------------------------------------------------------------------------------- o Added argument 'swap' to plotCA(), plotCL(), and plotN(). o Added argument 'strip' to plotCA(), plotCL(), plotIndex(), plotLA(), plotN(), and plotSel(). o Added type "l"[ast year] to plotN(). o Improved type "r"[ecruitment] plotN(), so age at recruitment is no longer hardwired as 1. -------------------------------------------------------------------------------- scape 2.0-1 (2010-09-13) -------------------------------------------------------------------------------- o Improved scape-package help page. -------------------------------------------------------------------------------- scape 2.0-0 (2010-09-12) -------------------------------------------------------------------------------- o Added suite of functions to diagnose sigmas and sample sizes: estN(), estN.int(), estSigmaI(), estSigmaR(), getN(), getSigmaI(), getSigmaR(), and iterate(). o Fixed missing error bars in plotIndex, by reestablishing Hmisc dependency. -------------------------------------------------------------------------------- scape 1.1-5 (2010-09-03) -------------------------------------------------------------------------------- o Improved handling of character/factor/integer in plotting functions. o Improved importCol() so that Year column is integer, not double. -------------------------------------------------------------------------------- scape 1.1-4 (2010-09-02) -------------------------------------------------------------------------------- o Minor improvements in help pages. -------------------------------------------------------------------------------- scape 1.1-2 (2010-09-01) -------------------------------------------------------------------------------- o Added argument '...' to importCol(), e.g. to pass stringsAsFactors=FALSE. o Example objects x.cod, x.ling, x.oreo, and x.sbw have character instead of factor columns. -------------------------------------------------------------------------------- scape 1.1-0 (2010-08-31) -------------------------------------------------------------------------------- o Changed default value of 'what' in plotIndex() to "s" (survey biomass index). o Added argument 'col.strip' to plotCA(), plotCL(), plotIndex(), plotLA(), plotN(), and plotSel(), with gray as default. o Reduced clutter during startup, by importing Hmisc and suggesting gdata. o Added three vignettes: dsc-vignette.pdf, gallery.pdf, and mymodel.pdf. -------------------------------------------------------------------------------- scape 1.0-8 (2007-09-29) -------------------------------------------------------------------------------- o Added argument 'col.points' to plotN(). -------------------------------------------------------------------------------- scape 1.0-7 (2005-10-24) -------------------------------------------------------------------------------- o Fixed plotIndex() so it returns trellis object or data frame, as documented. -------------------------------------------------------------------------------- scape 1.0-6 (2005-10-19) -------------------------------------------------------------------------------- o Improved help pages. -------------------------------------------------------------------------------- scape 1.0-5 (2005-10-18) -------------------------------------------------------------------------------- o Added help page for scape-package. o Renamed importRes() to importCol(). o Renamed plot*() arguments: 'log.transform'->'log', 'base.log'->'base', and 'plot.it'->'plot'. o Improved plotIndex() and plotLA() so default y-axis limits extend 4% beyond data extremes, except lower limit is zero when values are not log-transformed. -------------------------------------------------------------------------------- scape 1.0-4 (2005-09-02) -------------------------------------------------------------------------------- o Fixed documentation for plotN() argument 'axes'. -------------------------------------------------------------------------------- scape 1.0-3 (2005-09-01) -------------------------------------------------------------------------------- o Fixed importRes() example. -------------------------------------------------------------------------------- scape 1.0-2 (2005-08-28) -------------------------------------------------------------------------------- o Fixed discrepancy between default argument values in functions and help pages. -------------------------------------------------------------------------------- scape 1.0-1 (2005-08-26) -------------------------------------------------------------------------------- o Removed redundant argument 'fitted.also' from plotIndex(). User can pass lty.lines=0 to suppress fitted lines. o Renamed argument 'fitted.also' to 'fit' in plotCA() and plotCL(). -------------------------------------------------------------------------------- scape 1.0-0 (2005-08-25) -------------------------------------------------------------------------------- o Standardized and vectorized graphical arguments further. o Submitted to CRAN. -------------------------------------------------------------------------------- scape 0.2-2 (2005-08-24) -------------------------------------------------------------------------------- o Added help pages for all functions. o Improved importRes() so both survey and commercial selectivity are imported. o Renamed Survey and Gear columns to Series, in scape elements CAc, CAs, CLc, CLs, and Sel. o Changed plotCA() and plotCL() so they assume what="s" was intended if what="c" failed. o Added argument 'together' to plotSel() to plot gears in one panel. o Standardized graphical arguments further between plot functions. -------------------------------------------------------------------------------- scape 0.2-1 (2005-08-17) -------------------------------------------------------------------------------- o Added argument 'cex.legend' to plotB() to set legend text size. o Added argument 'ratio.bars' to plotN() to set bar width in barplots. o Improved tutorial by adding DSC proceedings paper. -------------------------------------------------------------------------------- scape 0.2-0 (2005-08-10) -------------------------------------------------------------------------------- o Added function plotB() to plot biomass trajectories, landings, and stock recruitment. o Changed plotCA(), plotCL(), and plotIndex() so first series is plotted by default. o Added argument 'together' to plotLA() to plot both sexes in one panel. o Changed importRes() so imported Coleraine models have attributes call=[call] and scape.version=[version]. The info attribute is now empty quotes. o Changed importRes() to CPUE data are imported without a Gear column. Series name can contain the gear name if the user wishes. o Renamed scape element B column Years to Year. o Changed graphical arguments in all plot functions, to simplify and standardize. o Updated x.ling and ling.res to a newer version of Coleraine. -------------------------------------------------------------------------------- scape 0.1-7 (2004-11-09) -------------------------------------------------------------------------------- o Added function plotIndex(), making plotCPUE() and plotSurvey() obsolete. o Improved importRes() to support gear-specific vulnerable biomass, and label annual Dev elements with years instead of cohorts. o Improved x.ling so it does not contain CLs element, since survey catch-at-length data were not used in that assessment. -------------------------------------------------------------------------------- scape 0.1-6 (2004-07-26) -------------------------------------------------------------------------------- o Renamed plotSelMat() to plotSel(), and added support for gear-specific plots. o Renamed scape element SelMat to Sel, with a new Gear column. o Improved importRes() so CPUE element will not contain empty Gear:Series combinations. o Added example object x.ling and example Coleraine file ling.res. -------------------------------------------------------------------------------- scape 0.1-5 (2004-05-24) -------------------------------------------------------------------------------- o Updated tutorial. o Improved plotCPUE() and plotSurvey() multipanel layout control, using 'as.table' instead of 'rev.series'. o Improved plotCPUE() and plotSurvey() grid lines at low values. -------------------------------------------------------------------------------- scape 0.1-4 (2004-05-23) -------------------------------------------------------------------------------- o Renamed argument 'div' to 'q' in plotCPUE() and plotSurvey() to clarify its purpose. o Improved plotCPUE() and plotSurvey() so internal arguments 'yobs' and 'yfit' do not cause a conflict with top-level argument abbreviation 'fit'. o Changed plotSelMat() so default cex.points=1. o Improved importRes() so needless warnings are suppressed. o Improved plotCPUE() and plotSurvey() so strip labels are more informative. o Added argument 'fitted.also' to plotCPUE(), plotLA(), and plotSurvey(). o Improved importRes() so it looks for correctly spelled Number_of_survey_C@A flag. o Improved x.cod so it contains CAs element. o Updated tutorial. o Improved importRes() so maturity is calculated without NaN values. -------------------------------------------------------------------------------- scape 0.1-3 (2004-05-19) -------------------------------------------------------------------------------- o Updated tutorial. -------------------------------------------------------------------------------- scape 0.1-2 (2004-05-18) -------------------------------------------------------------------------------- o Added tutorial. o Added example Coleraine files cod.res, l_at_age.txt, oreo.res, oreo.txt, and sbw.res. o Improved plotN() to draw smarter y axis. o Changed importRes() so imported Coleraine models have attributes class="scape" and info=[path]. o Removed functions importCor(), plotB(), and plotPearsonCLc(). -------------------------------------------------------------------------------- scape 0.1-1 (2004-05-12) -------------------------------------------------------------------------------- o Added example objects x.cod, x.oreo, and x.sbw. -------------------------------------------------------------------------------- scape 0.1-0 (2004-05-11) -------------------------------------------------------------------------------- o Added functions importCor(), importRes(), plotB(), plotCA(), plotCL(), plotCPUE(), plotLA(), plotN(), plotPearsonCLc(), plotSelMat(), and plotSurvey().