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GMACS version 2.01.M.09

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@MatthVeron MatthVeron released this 23 Feb 00:25
· 11 commits to main since this release
V2.01.M.09
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Learn about vigilant mode.

This new version incorporates implementations made since the GMACS version 2.01.M.02 (#9)

Changes include:

  • Updates in the .TPL file:
  1. Corrected a bug with labels for selectivity; Tag emphasis can be real; merged Cody changes wrt time-varying molt probability and functional maturity (GMACS version 2.01.M.03)
  2. Added output for the weight units; moved where last functional call, last phase and calculate reference points occurs (GMACS version 2.01.M.04)
  3. Fixed indexing for matrix-based weight-at-length; maturity-specific length-weight; formatted output for gmacsall.out; added OFLs by fleet to gmacsall.out (GMACS version 2.01.M.05)
  4. Modified to output projected catches; calculated historical mortality for projections (GMACS version 2.01.M.06)
  5. Updated the _in files to match the latest version of GMACS; producted inputs files with estimated parameters and expected data (GMACS version 2.01.M.07)
  6. Fixed time-varying growth increment and added a trap for negative growth increments in fn calls 0 and 1 (GMACS version 2.01.M.08)
  7. Added alternative format for inputting size comps data (GMACS version 2.01.M.09)
  8. Renamed BOTHSEX, BOTHMATURE to UNDET_SEX, UNDET_MATURE. Added MALES(=1) macro. Need to refactor MALESANDCOMBINED functionality; removed MALESANDCOMBINED (duplicated MALES); Refactored selectivity assignments and recruitment (no need to loop over h, so cleaner not to); Reformatted some code to add parentheses, replace tabs with spaces, and correctly indent blocks; Replaced o == 1/2 with o == NEW_SHELL/OLD_SHELL, similar for m (GMACS version 2.01.M.09)
  9. Reverted selectivity assignaments--needed to loop over h if slx_isex(k) was 0. Added alternative input format for fishery catch data (Update GMACS version 2.01.M.09)
  • Changes in the stock assessment input files
    All the input files (gmacs.dat, .ctl, .dat, .prj) have been written using the gmr package (version 1.3.6).

What's Changed

Full Changelog: V2.01.M.02...V2.01.M.09

Contributors

MatthVeron
Assets 2
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