NEWS

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scape 2.3.5 (2024-10-22)

• Maintenance release.

scape 2.3.3 (2020-11-23)

• Maintenance release.

scape 2.3-1 (2017-06-20)

• Added function importADCAM() to import results from ADCAM-type models.

• Added example object x.saithe.

• Hardwired stringsAsFactors=FALSE in importCol() and removed '...' argument.

• User can pass a data frame as the main argument to functions, instead of a scape object.

scape 2.2-0 (2014-03-12)

• Package loads quietly, thanks to explicit namespace handling.

• 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.

• Removed argument 'info' from importCol().

• Improved plotCA() and plotCL() handling of NA data values.

scape 2.1-0 (2013-04-09)

• Added argument 'swap' to plotCA(), plotCL(), and plotN().

• Added argument 'strip' to plotCA(), plotCL(), plotIndex(), plotLA(), plotN(), and plotSel().

• Added type "l"[ast year] to plotN().

• Improved type "r"[ecruitment] plotN(), so age at recruitment is no longer hardwired as 1.

scape 2.0-1 (2010-09-14)

• Improved package help page.

scape 2.0-0 (2010-09-13)

• Added suite of functions to diagnose sigmas and sample sizes: estN(), estN.int(), estSigmaI(), estSigmaR(), getN(), getSigmaI(), getSigmaR(), and iterate().

• Fixed missing error bars in plotIndex, by reestablishing Hmisc dependency.

scape 1.1-5 (2010-09-05)

• Improved handling of character/factor/integer in plotting functions.

• Improved importCol() so that Year column is integer, not double.

scape 1.1-4 (2010-09-02)

• Minor improvements in help pages.

scape 1.1-2 (2010-09-01)

• Added argument '...' to importCol(), e.g. to pass stringsAsFactors=FALSE.

• Example objects x.cod, x.ling, x.oreo, and x.sbw have character instead of factor columns.

scape 1.1-0 (2010-08-31)

• Changed default value of 'what' in plotIndex() to "s" (survey biomass index).

• Added argument 'col.strip' to plotCA(), plotCL(), plotIndex(), plotLA(), plotN(), and plotSel(), with gray as default.

• Reduced clutter during startup, by importing Hmisc and suggesting gdata.

• Added three vignettes: dsc-vignette.pdf, gallery.pdf, and mymodel.pdf.

scape 1.0-8 (2007-09-30)

• Added argument 'col.points' to plotN().

scape 1.0-7 (2005-10-25)

• Fixed plotIndex() so it returns trellis object or data frame, as documented.

scape 1.0-6 (2005-10-19)

• Improved help pages.

scape 1.0-5

• Added help page for scape-package.

• Renamed importRes() to importCol().

• Renamed plot*() arguments: 'log.transform'->'log', 'base.log'->'base', and 'plot.it'->'plot'.

• 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 (2005-09-04)

• Fixed documentation for plotN() argument 'axes'.

scape 1.0-3 (2005-09-01)

• Fixed importRes() example.

scape 1.0-2 (2005-08-30)

• Fixed discrepancy between default argument values in functions and help pages.

scape 1.0-1

• Removed redundant argument 'fitted.also' from plotIndex(). User can pass lty.lines=0 to suppress fitted lines.

• Renamed argument 'fitted.also' to 'fit' in plotCA() and plotCL().

scape 1.0-0

• Standardized and vectorized graphical arguments further.

• Submitted to CRAN.

scape 0.2-2

• Added help pages for all functions.

• Improved importRes() so both survey and commercial selectivity are imported.

• Renamed Survey and Gear columns to Series, in scape elements CAc, CAs, CLc, CLs, and Sel.

• Changed plotCA() and plotCL() so they assume what="s" was intended if what="c" failed.

• Added argument 'together' to plotSel() to plot gears in one panel.

• Standardized graphical arguments further between plot functions.

scape 0.2-1

• Added argument 'cex.legend' to plotB() to set legend text size.

• Added argument 'ratio.bars' to plotN() to set bar width in barplots.

• Improved tutorial by adding DSC proceedings paper.

scape 0.2-0

• Added function plotB() to plot biomass trajectories, landings, and stock recruitment.

• Changed plotCA(), plotCL(), and plotIndex() so first series is plotted by default.

• Added argument 'together' to plotLA() to plot both sexes in one panel.

• Changed importRes() so imported Coleraine models have attributes call=[call] and scape.version=[version]. The info attribute is now empty quotes.

• Changed importRes() to CPUE data are imported without a Gear column. Series name can contain the gear name if the user wishes.

• Renamed scape element B column Years to Year.

• Changed graphical arguments in all plot functions, to simplify and standardize.

• Updated x.ling and ling.res to a newer version of Coleraine.

scape 0.1-7

• Added function plotIndex(), making plotCPUE() and plotSurvey() obsolete.

• Improved importRes() to support gear-specific vulnerable biomass, and label annual Dev elements with years instead of cohorts.

• 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

• Renamed plotSelMat() to plotSel(), and added support for gear-specific plots.

• Renamed scape element SelMat to Sel, with a new Gear column.

• Improved importRes() so CPUE element will not contain empty Gear:Series combinations.

• Added example object x.ling and example Coleraine file ling.res.

scape 0.1-5

• Updated tutorial.

• Improved plotCPUE() and plotSurvey() multipanel layout control, using 'as.table' instead of 'rev.series'.

• Improved plotCPUE() and plotSurvey() grid lines at low values.

scape 0.1-4

• Renamed argument 'div' to 'q' in plotCPUE() and plotSurvey() to clarify its purpose.

• Improved plotCPUE() and plotSurvey() so internal arguments 'yobs' and 'yfit' do not cause a conflict with top-level argument abbreviation 'fit'.

• Changed plotSelMat() so default cex.points=1.

• Improved importRes() so needless warnings are suppressed.

• Improved plotCPUE() and plotSurvey() so strip labels are more informative.

• Added argument 'fitted.also' to plotCPUE(), plotLA(), and plotSurvey().

• Improved importRes() so it looks for correctly spelled Number_of_survey_C@A flag.

• Improved x.cod so it contains CAs element.

• Updated tutorial.

• Improved importRes() so maturity is calculated without NaN values.

scape 0.1-3

• Updated tutorial.

scape 0.1-2

• Added tutorial.

• Added example Coleraine files cod.res, l_at_age.txt, oreo.res, oreo.txt, and sbw.res.

• Improved plotN() to draw smarter y axis.

• Changed importRes() so imported Coleraine models have attributes class="scape" and info=[path].

• Removed functions importCor(), plotB(), and plotPearsonCLc().

scape 0.1-1

• Added example objects x.cod, x.oreo, and x.sbw.

scape 0.1-0

• Added functions importCor(), importRes(), plotB(), plotCA(), plotCL(), plotCPUE(), plotLA(), plotN(), plotPearsonCLc(), plotSelMat(), and plotSurvey().