NEWS

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cesr 1.0.5

• 19012021 - bugfix in productivity models to include sites where ads were caught but no juvs (if no ads caught no info on productivity)

cesr 1.0.4

• 09102023 - some small bugfixes and improvements to ces.table()
• 14102023 - can now get overall change for trend models from ces.table()

cesr 1.0.3

• 25092023 - add winter= argument to readces()
• 18082023 - bugfix: ces.table now prints the estimates on the right scale

cesr 1.0.2

• 07062023 - bugfix: remove sites with no inds of an age-class caught ever
• 13052023 - implemented the min.visits argument in extract.coverage()
• 06052023 - bugfix: mark.ces() should now exit the markfiles folder
• 06052023 - streamline argument definitions in plot_trend()
• 03052023 - add ces.table() function to automate some of the models
• 03052023 - add rankings for each year to the output dataframe

cesr 1.0.1

• 10012023 - readces() now combines scheme and ring number for unique identifier

cesr 1.0.0

• 04012023 - readces() now rounds coordinates to 3 d.p. (~0.1 km)
• 28122022 - renamed plot.trend() as plot_trend()
• 28122022 - added fitting of random effects in index()
• 20122022 - added fitting of smoothed trends in index()
• 16122022 - major bug fixed in productivity trend
• 16122022 - add a fix= argument to readces() to correct some errors
• 16122022 - add error log to readces() to facilitate review of errors

cesr 0.51.1

• 09052022 - readces() will cope with decimal degrees in the coordinates column
• 30032022 - readces() removes (with a warning) unrecognised columns
• 10032022 - readces() removes (with a warning) records where species=0
• 10032022 - Change the default of readces() to group.race=TRUE and add a warning on this
• 10032022 - Allow readces() to read lat-longs as well as Euring format coordinates
• 08032022 - Add spp_check() to report rings used on multiple species

cesr 0.51.0

• 31052020: add some interpretation for trend survival models to summary()
• 31052020: Add C++ code to speedup (~2x) extract.data/extract.ch
• 31052020: Add min.yrs to extract.ch(), and exclude sites with <3 years coverage
• 26052020: Add min.yrs to extract.data(), and exclude sites with only one years coverage
• 08052020: Add better checking of all.visits to extract.coverage()
• 11022020: Change the default in readces() to keep races separate
• 11022020: Bugfix - don't delete 2's (e.g. for A. caudatus)

cesr 0.41.2

• 01012020: Fix bug introduced by changes in data.table that screwed things up big time
• 01012020: Add vignette
• 01012020: Add some extra checking to readces and creates column for julian days
• 01012020: Add plotting method for the 'raw' ces data objects
• 01012020: changed the default for silent= in summary.ces.data()
• 14122018: Introduce fuzzy-matching of variable names in readces()
• 14122018: Remove warning for age-codes 3J, 5, 6 in readces()

cesr 0.41.1

• 30122017: Add check for numeric dates and net lengths in readces() and updated help file
• 09042018: Make summary.ces() do something sensible when given a species summary object
• 15052018: Bugfix - readces() not reading alphabetic visits correctly
• 17052018: Bugfix - missed the visit column from missing.visits[] in extract.counts
• 14062018: Add ability for siteplot() to summarise catches per visit

cesr 0.41.0

• 02102017: Alter model functions to cope with single sites

cesr 0.40.2

• 27092017: Add ';' as a column separator to readces()
• 27092017: Bugfix - added na.rm=TRUE to the error checking for coordinates
• 27032016: Fixed major bug that meant extract.ch() didn't extract data for individual species
• 27032016: Tidy up the documentation a lot with the help of R CMD check
• 27032016: Added trend and compare arguments to mark.ces()
• 27032016: Bugfix - in mark.ces() - return to original directory from 'markfiles'
• 18042016: Bugfix - added family=quasipoisson in annt.model.counts()
• 26042016: Bugfix - plot.ces.plots() threw an error
• 04052016: Bugfix - in summary.ces.plots() to calculate length of site operation correctly
• 09122016: Bugfix - in extract.ch() cope with years with no captures (with a warning)
• 11042017: Bugfix - force species codes to integer (with warning) in readces() to avoid a later problem in extract.ch()

cesr 0.40.1

• 17032016: Fix major bug that meant included sites with zero captures weren't counted in extract.data()

cesr 0.30.33

• 04032016: Bugfix - in extract.coverage() to to cope with overlapping periods
• 04032016: Bugfix - in summary.ces.plots() years were being counted twice (I think following previous changes)