Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / sizespectrum/mizer issues and pull requests

#195 - `initialN()` should also work on MizerSim object

Issue - State: closed - Opened by gustavdelius over 3 years ago
Labels: enhancement, minor effort

#194 - New way to visually compare two plots

Issue - State: open - Opened by gustavdelius over 3 years ago - 1 comment
Labels: enhancement, plots

#193 - Update start of multispecies model vignette

Issue - State: closed - Opened by gustavdelius over 3 years ago - 1 comment
Labels: documentation

#191 - return_data argument

Pull Request - State: closed - Opened by baldrech over 3 years ago - 1 comment

#190 - Proposal: a unified treatment of the extrinsic density dependencies

Issue - State: open - Opened by gustavdelius over 3 years ago
Labels: enhancement, setting parameters, discussion

#189 - Write a vignette explaining the calculation of the default parameter values

Issue - State: open - Opened by gustavdelius over 3 years ago
Labels: enhancement, setting parameters, documentation

#188 - Implement `gamma` argument in `newTraitParams()`

Issue - State: closed - Opened by gustavdelius over 3 years ago
Labels: bug

#187 - Return data argument

Pull Request - State: closed - Opened by baldrech over 3 years ago - 4 comments

#186 - `version` argument for functions that choose defaults

Issue - State: closed - Opened by gustavdelius over 3 years ago - 2 comments
Labels: enhancement, setting parameters, discussion, minor effort

#185 - Change default for resource parameters

Issue - State: closed - Opened by gustavdelius over 3 years ago - 4 comments
Labels: enhancement, setting parameters, discussion

#184 - newMultispeciesParams

Issue - State: closed - Opened by yuxinch over 3 years ago - 2 comments
Labels: question

#183 - Reduce discretisation effects in calculation of growth curves

Issue - State: closed - Opened by gustavdelius over 3 years ago - 4 comments
Labels: enhancement

#182 - PlotGrowthCurves() Panel edition

Pull Request - State: closed - Opened by baldrech over 3 years ago

#181 - 'getFMort()' is not passing time argument correctly

Issue - State: closed - Opened by gustavdelius over 3 years ago
Labels: bug

#180 - Adding panel plots to plotGrowthCurves()

Pull Request - State: closed - Opened by baldrech over 3 years ago - 3 comments

#179 - adding the all.sizes arg to plotPredMort and plotFMort

Pull Request - State: closed - Opened by baldrech over 3 years ago - 3 comments

#178 - Rounding 'w_inf' to fit grid points changes 'eta'

Issue - State: open - Opened by baldrech over 3 years ago - 2 comments
Labels: enhancement, setting parameters

#177 - Set comments on modified MizerParams slots

Issue - State: closed - Opened by gustavdelius over 3 years ago

#176 - Cheatsheet for analysis and plotting functions

Issue - State: open - Opened by gustavdelius over 3 years ago
Labels: enhancement, plots, documentation, major effort, help wanted

#175 - Document 'plotDiet()'

Issue - State: closed - Opened by gustavdelius over 3 years ago
Labels: plots, documentation

#174 - the calibration sequence for Rmax and kappa

Issue - State: closed - Opened by QinqinLin over 3 years ago - 2 comments
Labels: question

#173 - getYield() error when using effort as an array

Issue - State: closed - Opened by jpwrobinson almost 4 years ago - 2 comments
Labels: bug

#172 - Selectivity and catchability by defining their values directly

Issue - State: closed - Opened by michaelspence almost 4 years ago - 3 comments

#171 - Save user-defined functions along with MizerParams object

Issue - State: closed - Opened by gustavdelius about 4 years ago - 3 comments
Labels: enhancement, minor effort

#170 - Consistent treatment of `species` arguments

Issue - State: closed - Opened by gustavdelius about 4 years ago
Labels: minor effort, code improvement

#169 - Rate functions should be more consistent in their arguments

Issue - State: open - Opened by gustavdelius about 4 years ago - 1 comment
Labels: enhancement, minor effort, code improvement

#168 - Rate functions should set the dimnames

Issue - State: closed - Opened by gustavdelius about 4 years ago
Labels: enhancement, minor effort, code improvement

#167 - `setRateFunction()` should test the registered function

Issue - State: open - Opened by gustavdelius about 4 years ago
Labels: enhancement, minor effort, code improvement

#166 - Rename README.md to README.sayani

Pull Request - State: closed - Opened by sdm1828 over 4 years ago - 2 comments

#165 - Integration with FLR project?

Issue - State: open - Opened by gustavdelius over 4 years ago - 4 comments
Labels: discussion

#164 - Pass name of component to component dynamics function

Issue - State: closed - Opened by gustavdelius over 4 years ago - 11 comments
Labels: enhancement, minor effort

#163 - Upgrade old params objects automatically

Issue - State: closed - Opened by gustavdelius over 4 years ago
Labels: enhancement, minor effort

#162 - Better legend in `plotFeedingLevel()` when `include_critical = TRUE`

Issue - State: open - Opened by gustavdelius over 4 years ago - 2 comments
Labels: enhancement, plots

#161 - `setInitialValues()` fails when used in a model with a single species

Issue - State: closed - Opened by gustavdelius over 4 years ago
Labels: bug

#159 - `summary()` currently only works with lognormal feeding kernel

Issue - State: closed - Opened by gustavdelius over 4 years ago
Labels: bug

#157 - In `setInitialValues()` set also `initial_effort`

Issue - State: closed - Opened by gustavdelius over 4 years ago
Labels: enhancement, minor effort

#156 - Strange naming choices

Issue - State: closed - Opened by gustavdelius over 4 years ago - 2 comments

#155 - `resource_params<-` is broken

Issue - State: closed - Opened by gustavdelius over 4 years ago
Labels: bug, fixed

#154 - Test backwards compatibility

Issue - State: closed - Opened by gustavdelius over 4 years ago

#153 - Remove `sex_ratio` arguments

Issue - State: closed - Opened by gustavdelius over 4 years ago - 1 comment
Labels: core, minor effort

#150 - Include critical feeding level in plotFeedingLevel()

Pull Request - State: closed - Opened by gustavdelius over 4 years ago

#149 - Remove `animateSpectra()`

Pull Request - State: closed - Opened by gustavdelius over 4 years ago

#148 - Move immature features out of core mizer into an extension package

Issue - State: closed - Opened by gustavdelius over 4 years ago - 1 comment

#147 - Show critical feeding level in plotFeedingLevel()

Issue - State: closed - Opened by gustavdelius over 4 years ago - 1 comment
Labels: plots, minor effort

#145 - Accessor functions for slots in MizerParams and MizerSim objects

Issue - State: closed - Opened by gustavdelius over 4 years ago - 3 comments

#144 - Add "comment" arguments to setter functions

Issue - State: closed - Opened by gustavdelius over 4 years ago - 1 comment
Labels: enhancement, setting parameters, minor effort

#143 - Stop referring to relationship between reproduction and eggs as stock-recruitment relationship

Issue - State: closed - Opened by gustavdelius over 4 years ago - 13 comments
Labels: discussion, documentation, minor effort

#142 - Make allometric exponents species-specific

Pull Request - State: closed - Opened by gustavdelius over 4 years ago

#140 - Integrate multi-fleet in Mizer (cami's multi-fleet branch)

Pull Request - State: closed - Opened by camillanovaglio over 4 years ago - 2 comments
Labels: enhancement, setting parameters

#139 - Update vignettes and add examples for starvation mortality

Issue - State: closed - Opened by gustavdelius over 4 years ago - 1 comment

#137 - Protect commented slots

Pull Request - State: closed - Opened by gustavdelius over 4 years ago

#136 - Improve error message when user has mistakes in species parameters

Issue - State: closed - Opened by gustavdelius over 4 years ago - 3 comments
Labels: enhancement, setting parameters, help wanted

#135 - New function animateSpectra() and some fixes

Pull Request - State: closed - Opened by gustavdelius over 4 years ago

#134 - New wrapper function newSheldonParams()

Pull Request - State: closed - Opened by gustavdelius over 4 years ago

#133 - The carrying capacity of resource spectrum

Issue - State: closed - Opened by QinqinLin almost 5 years ago - 5 comments
Labels: question, setting parameters

#132 - Now using the vdiffr package to test plots.

Pull Request - State: closed - Opened by gustavdelius almost 5 years ago

#131 - Small improvements to documentation and messages. Reexporting melt()

Pull Request - State: closed - Opened by gustavdelius almost 5 years ago

#130 - Use save version 2 for backwards compatibility with R < 3.5

Pull Request - State: closed - Opened by gustavdelius almost 5 years ago

#129 - New wrapper functions with new defaults

Pull Request - State: closed - Opened by gustavdelius almost 5 years ago

#128 - Set good default for gamma for any feeding kernel

Pull Request - State: closed - Opened by gustavdelius almost 5 years ago

#127 - Minor updates to worksheet for estimating feeding kernels

Pull Request - State: closed - Opened by gustavdelius almost 5 years ago

#126 - Minor additions to examples and error messages

Pull Request - State: closed - Opened by gustavdelius almost 5 years ago

#125 - For backwards compatibility, accept also r_max as variable name

Pull Request - State: closed - Opened by gustavdelius almost 5 years ago

#124 - Use function name in plankton_dynamics slot

Pull Request - State: closed - Opened by gustavdelius almost 5 years ago

#123 - A "Working with git" section in the developer vignette

Pull Request - State: closed - Opened by gustavdelius almost 5 years ago

#122 - Empty pull request

Pull Request - State: closed - Opened by gustavdelius almost 5 years ago

#121 - Pass time

Pull Request - State: closed - Opened by gustavdelius almost 5 years ago

#120 - Several bug fixes

Pull Request - State: closed - Opened by gustavdelius almost 5 years ago

#119 - Animate plots with plotly

Issue - State: closed - Opened by gustavdelius almost 5 years ago - 1 comment
Labels: enhancement, plots, minor effort, extension

#118 - Adding starvation mortality

Pull Request - State: closed - Opened by astaaudzi almost 5 years ago - 4 comments

#117 - Summary of MizerParams returns number of non-empty plankton bins

Pull Request - State: closed - Opened by patricksykes almost 5 years ago

#115 - Small typo fixes in documentation

Pull Request - State: closed - Opened by patricksykes almost 5 years ago

#114 - Fixing a couple of small typos in the tutorial vignettes.

Pull Request - State: closed - Opened by patricksykes almost 5 years ago - 1 comment

#113 - Adding some diagnostics to steady()

Pull Request - State: closed - Opened by gustavdelius about 5 years ago

#112 - tuneParams() now handles plankton growth rate correctly

Pull Request - State: closed - Opened by gustavdelius about 5 years ago

#111 - Change how plankton dynamics is set

Issue - State: closed - Opened by gustavdelius about 5 years ago
Labels: bug, core, minor effort

#110 - Improved default for metabolic rate

Pull Request - State: closed - Opened by gustavdelius about 5 years ago

#109 - How to keep backwards compatibility for wrapper functions

Issue - State: closed - Opened by gustavdelius about 5 years ago - 5 comments
Labels: setting parameters

#108 - Default value for exponent in allocation to reproduction

Issue - State: open - Opened by gustavdelius about 5 years ago - 1 comment
Labels: enhancement, setting parameters, discussion, minor effort

#107 - tuneParams() now correctly takes the plankton growth rate

Pull Request - State: closed - Opened by gustavdelius about 5 years ago

#106 - Correct some checks for positivity to check for non-negativity.

Pull Request - State: closed - Opened by gustavdelius about 5 years ago
Labels: bug, core, minor effort

#105 - How to combine plots for different simulations

Issue - State: closed - Opened by gustavdelius about 5 years ago - 7 comments
Labels: enhancement, discussion, plots, extension

#104 - Improve consistency between code documentation and vignettes

Issue - State: closed - Opened by gustavdelius about 5 years ago - 2 comments
Labels: website, documentation, help wanted

#103 - Which vignettes to include in package and how

Issue - State: closed - Opened by gustavdelius about 5 years ago - 2 comments
Labels: discussion, documentation

#102 - Saving initial effort in MizerParams object

Pull Request - State: closed - Opened by gustavdelius about 5 years ago

#101 - Improve default for metabolic rate

Issue - State: closed - Opened by gustavdelius about 5 years ago - 9 comments
Labels: enhancement, question, setting parameters

#99 - Take unstructured resources out of mizer

Issue - State: closed - Opened by gustavdelius about 5 years ago
Labels: core

#97 - Saving initial effort in MizerParams object

Pull Request - State: closed - Opened by gustavdelius about 5 years ago - 1 comment

#96 - Rename r max

Pull Request - State: closed - Opened by gustavdelius about 5 years ago

#95 - Make plots faster by including fewer points

Issue - State: closed - Opened by gustavdelius about 5 years ago - 1 comment
Labels: enhancement, plots, help wanted

#94 - Improve and document handling of linecolour and linetype

Issue - State: open - Opened by gustavdelius about 5 years ago - 1 comment
Labels: enhancement, plots, help wanted

#93 - Set good default for gamma for any predation kernel

Issue - State: closed - Opened by gustavdelius about 5 years ago
Labels: enhancement, setting parameters, minor effort

#92 - Make allometric exponents species-specific

Issue - State: closed - Opened by gustavdelius about 5 years ago - 2 comments
Labels: enhancement, setting parameters, discussion, minor effort

#91 - Problem with srr slot when sharing saved params objects

Issue - State: closed - Opened by gustavdelius about 5 years ago - 2 comments
Labels: bug, discussion, core