Ecosyste.ms: Issues

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GitHub / ss3sim/ss3sim issues and pull requests

#225 - Dependencies stringi and Rcurl failed to install

Issue - State: closed - Opened by colemonnahan over 9 years ago - 2 comments

#224 - Update required R version

Issue - State: closed - Opened by colemonnahan over 9 years ago - 1 comment

#223 - Incrementing the package version

Issue - State: closed - Opened by colemonnahan over 9 years ago - 2 comments
Labels: type: enhancement

#222 - Error in system call with spaces in path on Windows

Issue - State: closed - Opened by colemonnahan over 9 years ago - 1 comment
Labels: scary: bug :lady_beetle:

#221 - Turn off console output as default

Issue - State: closed - Opened by colemonnahan over 9 years ago - 8 comments
Labels: type: enhancement

#220 - add ESS as argument to sample comp functions

Pull Request - State: closed - Opened by colemonnahan over 9 years ago

#219 - Standardize use of replicate and iteration

Issue - State: closed - Opened by colemonnahan over 9 years ago - 2 comments
Labels: type: enhancement, topic: vignette

#218 - The number of years in the models

Issue - State: closed - Opened by colemonnahan over 9 years ago - 2 comments
Labels: type: enhancement

#217 - Test integrated executable on Windows

Issue - State: closed - Opened by seananderson over 9 years ago - 5 comments

#216 - use r4ss in change_e

Pull Request - State: closed - Opened by kellijohnson-NOAA over 9 years ago

#215 - Do not delete CompReport.sso

Issue - State: closed - Opened by ElizabethCouncill over 9 years ago - 2 comments

#214 - Include SS3 binaries in the package

Issue - State: closed - Opened by seananderson over 9 years ago

#213 - To do before submitting next version to CRAN

Issue - State: closed - Opened by seananderson over 9 years ago - 5 comments

#212 - Addbounds

Pull Request - State: closed - Opened by cstawitz almost 10 years ago

#211 - delete the CompReport.sso files since can be huge and not needed

Pull Request - State: closed - Opened by colemonnahan almost 10 years ago - 4 comments

#210 - calcomp sampling failing with overdispersed length data

Issue - State: open - Opened by colemonnahan almost 10 years ago - 5 comments
Labels: scary: bug :lady_beetle:, status: on hold :zzz:, type: development :building_construction:, topic: sampling

#209 - parsing species with "-age" suffix in get_results_all

Issue - State: closed - Opened by peterkuriyama almost 10 years ago - 3 comments
Labels: scary: CRAN

#208 - Error reading .dat file after extract_expected_data()

Issue - State: closed - Opened by seananderson almost 10 years ago - 1 comment

#207 - user_recdevs and parallel w/ bias_adjust

Issue - State: closed - Opened by kellijohnson-NOAA almost 10 years ago - 2 comments

#206 - Turning off bootstrapping

Issue - State: closed - Opened by colemonnahan almost 10 years ago - 6 comments

#205 - Add re-binning within the EM of CAL data

Pull Request - State: closed - Opened by seananderson about 10 years ago

#203 - Add function that checks validity of .dat file

Issue - State: closed - Opened by colemonnahan about 10 years ago - 6 comments
Labels: type: enhancement

#202 - Revert "Standardize"

Pull Request - State: closed - Opened by kellijohnson-NOAA about 10 years ago

#201 - EM re-binning of conditional age-at-length data

Issue - State: closed - Opened by seananderson about 10 years ago - 14 comments

#200 - Remove E as a required case

Issue - State: closed - Opened by colemonnahan about 10 years ago - 9 comments
Labels: type: :grey_question:

#199 - Internal bins

Pull Request - State: closed - Opened by seananderson about 10 years ago

#198 - Standardize

Pull Request - State: closed - Opened by cstawitz about 10 years ago - 19 comments

#197 - Externalgrowth

Pull Request - State: closed - Opened by kellijohnson-NOAA about 10 years ago - 2 comments

#196 - change_e datfile

Issue - State: closed - Opened by kellijohnson-NOAA about 10 years ago - 6 comments
Labels: scary: CRAN

#195 - Remaining tasks for change_data()

Issue - State: closed - Opened by seananderson about 10 years ago - 5 comments

#194 - Switch vignette to RMarkdown and HTML

Pull Request - State: closed - Opened by seananderson about 10 years ago

#193 - Unit tests and assorted fixes

Pull Request - State: closed - Opened by seananderson about 10 years ago

#192 - Changeyear

Pull Request - State: closed - Opened by kellijohnson-NOAA about 10 years ago - 1 comment

#191 - Pmatch

Pull Request - State: closed - Opened by kellijohnson-NOAA about 10 years ago - 4 comments

#190 - Standardize

Pull Request - State: closed - Opened by cstawitz about 10 years ago - 5 comments

#189 - Develop kfj

Pull Request - State: closed - Opened by kellijohnson-NOAA about 10 years ago

#188 - partial matching with dollar sign

Issue - State: closed - Opened by kellijohnson-NOAA about 10 years ago - 13 comments

#187 - Fix calculate_re.R for situations when column names do not match.

Pull Request - State: closed - Opened by kellijohnson-NOAA about 10 years ago

#186 - Add check and informative error if SS3 is not in path

Issue - State: closed - Opened by seananderson about 10 years ago - 1 comment

#185 - Update change bin implementation

Pull Request - State: closed - Opened by colemonnahan about 10 years ago

#184 - How to pass SS data files to our functions

Issue - State: closed - Opened by colemonnahan about 10 years ago - 3 comments
Labels: type: enhancement, type: :grey_question:

#183 - Add SS3 models for more species

Issue - State: closed - Opened by seananderson about 10 years ago - 1 comment

#182 - Refactor how change_bin is called within ss3sim_base

Issue - State: closed - Opened by seananderson about 10 years ago - 18 comments

#181 - Verify the order of the sampling functions

Issue - State: closed - Opened by seananderson about 10 years ago - 23 comments

#180 - feature/data has been merged into master

Issue - State: closed - Opened by seananderson over 10 years ago

#179 - Making ss3sim get_results_all robust to iterations that didn't converge

Issue - State: closed - Opened by cstawitz over 10 years ago - 3 comments
Labels: type: enhancement, type: :grey_question:

#178 - Feature/mwacomp

Pull Request - State: closed - Opened by kellijohnson-NOAA over 10 years ago - 6 comments

#177 - Clean up sampling function roxygen2 templates

Issue - State: closed - Opened by seananderson over 10 years ago - 3 comments

#176 - sampling functions and change_bin

Issue - State: closed - Opened by kellijohnson-NOAA over 10 years ago - 8 comments

#175 - profile_fmsy

Issue - State: closed - Opened by kellijohnson-NOAA over 10 years ago - 1 comment

#174 - Update get_results_all - parallel option

Pull Request - State: closed - Opened by merrillrudd over 10 years ago

#173 - Feature/fmsy

Pull Request - State: closed - Opened by kellijohnson-NOAA over 10 years ago
Labels: type: enhancement

#172 - Added model and few case files for cod and flatfish with age_based selectivity

Issue - State: closed - Opened by Kotkot over 10 years ago - 2 comments

#171 - Update get results

Pull Request - State: closed - Opened by merrillrudd over 10 years ago - 1 comment

#170 - Update get results

Pull Request - State: closed - Opened by merrillrudd over 10 years ago - 4 comments

#169 - Calculate relative error function

Issue - State: closed - Opened by seananderson over 10 years ago

#168 - Refactoring run_ss3sim(), parallel iterations, and making case names intuitive

Issue - State: closed - Opened by seananderson over 10 years ago - 2 comments

#167 - Updates on what's happening in the feature/data branch

Issue - State: closed - Opened by seananderson over 10 years ago - 9 comments

#166 - Write a function to switch the `maturity_option` in the .ctl file

Issue - State: closed - Opened by seananderson over 10 years ago - 2 comments

#165 - outside estimation of parameters

Issue - State: closed - Opened by kellijohnson-NOAA over 10 years ago - 7 comments
Labels: type: enhancement, type: :grey_question:

#164 - Update get results

Pull Request - State: closed - Opened by merrillrudd over 10 years ago

#163 - wtatage.ss_new from OM to EM

Issue - State: closed - Opened by kellijohnson-NOAA over 10 years ago - 1 comment

#162 - Bug in parsing arguments that are characters matching function names

Issue - State: closed - Opened by colemonnahan over 10 years ago - 5 comments
Labels: scary: bug :lady_beetle:

#161 - Flag argument values in documentation that get passed to ss3sim_base

Issue - State: closed - Opened by seananderson over 10 years ago
Labels: type: enhancement

#160 - improved method of pulling in all possible likelihood components

Pull Request - State: closed - Opened by merrillrudd over 10 years ago

#159 - Feature/update get results

Pull Request - State: closed - Opened by merrillrudd over 10 years ago

#158 - Feature/change lcomp constant

Pull Request - State: closed - Opened by colemonnahan over 10 years ago

#157 - Numeric values expressed as scentific notation parsed incorrectly

Issue - State: closed - Opened by colemonnahan over 10 years ago - 1 comment
Labels: scary: bug :lady_beetle:

#155 - get_results_all

Issue - State: closed - Opened by merrillrudd over 10 years ago - 4 comments
Labels: scary: bug :lady_beetle:

#154 - Making an ss3sim class

Issue - State: closed - Opened by colemonnahan over 10 years ago - 1 comment

#153 - Feature/tail compression

Pull Request - State: closed - Opened by colemonnahan over 10 years ago

#152 - Sinking output to cleanup the console

Issue - State: closed - Opened by colemonnahan over 10 years ago - 8 comments
Labels: scary: bug :lady_beetle:, type: enhancement

#151 - Getting the correct version of r4ss

Issue - State: closed - Opened by colemonnahan over 10 years ago - 7 comments
Labels: type: :grey_question:, topic: vignette

#150 - devtools::check

Issue - State: closed - Opened by kellijohnson-NOAA over 10 years ago - 3 comments

#149 - Adding instructions to create new case functions

Issue - State: closed - Opened by seananderson over 10 years ago - 8 comments
Labels: topic: vignette

#148 - change_f bug

Issue - State: closed - Opened by kellijohnson-NOAA over 10 years ago - 10 comments
Labels: scary: bug :lady_beetle:

#147 - Rename SS3 binary to be version specific

Pull Request - State: closed - Opened by seananderson over 10 years ago

#146 - Rename sampling functions; depreciate old names

Pull Request - State: closed - Opened by seananderson over 10 years ago

#145 - Renaming the "change" functions

Issue - State: closed - Opened by colemonnahan over 10 years ago - 6 comments

#144 - Effective Sample Size Rec

Issue - State: closed - Opened by murad17 over 10 years ago - 2 comments

#143 - consider creating functions to change binning/data in OM data files

Issue - State: closed - Opened by iantaylor-NOAA over 10 years ago - 14 comments
Labels: type: enhancement

#142 - add conditional age-at-length data to OMs?

Issue - State: closed - Opened by iantaylor-NOAA over 10 years ago - 6 comments
Labels: type: enhancement

#141 - Add finest resolution possible for comp data

Issue - State: closed - Opened by colemonnahan over 10 years ago - 2 comments

#140 - Add completed ss3sim papers in README.md

Issue - State: closed - Opened by seananderson over 10 years ago - 1 comment

#139 - EM parameter bounds

Issue - State: open - Opened by kellijohnson-NOAA over 10 years ago - 6 comments
Labels: topic --- EM, status --- high priority, type --- feature

#138 - Rename the ss3.exe file to ss3sim.exe

Issue - State: closed - Opened by colemonnahan over 10 years ago - 26 comments
Labels: type: enhancement

#137 - Years in the example models

Issue - State: closed - Opened by colemonnahan over 10 years ago - 1 comment

#136 - minor fix to change_rec_dev function

Pull Request - State: closed - Opened by colemonnahan over 10 years ago

#135 - ran devtools::document, updated all the Rd files

Pull Request - State: closed - Opened by colemonnahan over 10 years ago

#134 - Add plot functions

Pull Request - State: closed - Opened by colemonnahan over 10 years ago

#133 - Update example data in package

Issue - State: closed - Opened by colemonnahan over 10 years ago - 1 comment

#132 - Standardize function arguments

Issue - State: closed - Opened by colemonnahan almost 11 years ago - 20 comments
Labels: scary: CRAN

#131 - Fix example code in manuscript before publication

Issue - State: closed - Opened by seananderson almost 11 years ago
Labels: scary: bug :lady_beetle:, topic: manuscript

#130 - user_recdevs dimension checks

Issue - State: closed - Opened by colemonnahan almost 11 years ago - 3 comments
Labels: type: enhancement

#129 - Allow retrospective runs to start at values from previous run

Issue - State: closed - Opened by colemonnahan almost 11 years ago - 3 comments
Labels: type: enhancement

#128 - Output files for massive simulations

Issue - State: closed - Opened by colemonnahan almost 11 years ago - 6 comments
Labels: type: enhancement

#127 - Parallel processing

Issue - State: closed - Opened by colemonnahan almost 11 years ago
Labels: type: enhancement

#126 - rda files mentioned in the vignette

Issue - State: closed - Opened by colemonnahan almost 11 years ago - 2 comments
Labels: scary: bug :lady_beetle:, topic: vignette