pbs-assess/pacific-cod-2018 issues and pull requests

#128 - Ref points tables when there is only one model

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

#127 - Look at CSAS issues in French doc

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

#126 - Look at CSAS issues in English Doc

Issue - State: closed - Opened by robynforrest over 4 years ago - 7 comments

#125 - Correct reporting of projection years in decision table section in French version

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

#124 - Put 2018 catch back into Tables 1 and 2

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

#123 - Check the citation_other_language has the correct page numbers

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

#122 - Move references to after acknowledgments

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

#121 - Fix some references

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

#120 - Add dashes to table A.2.

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

#119 - Reduce white space in priors figs

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

#118 - Check page breaks between tables

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

#117 - Bullet indent spacing #2

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

#116 - Bullet indent spacing

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

#114 - Add French citation to p. ii

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

#113 - Add period after last name under Correct citation for this publication

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

#112 - Add period after last name in "Correct citation for this publication"

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

#111 - Table A.2 (NMFS number of tows table) is truncated

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

#110 - Make tables accessible

Issue - State: closed - Opened by robynforrest over 4 years ago - 10 comments

#109 - Table D1 not rendering properly in pdf

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

#108 - Get model description table translated

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

#107 - Get Table 6 translated

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

#106 - Decide best approach for translating some tables colnames

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

#105 - Correct prior for logM in Tables 7 and 14

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

#104 - Decide on a translation strategy

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

#103 - Translate all the figure text

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

#102 - Building document quitting in chunk cpue-quantile-residuals

Issue - State: closed - Opened by robynforrest over 5 years ago - 7 comments

#101 - Font size on some tables will have to be reduced

Issue - State: closed - Opened by seananderson over 5 years ago - 3 comments

#100 - Issue 100! Add Model Averaged Biomass and Recruitment plots to Res Doc

Issue - State: closed - Opened by robynforrest almost 6 years ago - 1 comment

#99 - Extend x axes of priors plots to show shape of prior for M and q

Issue - State: closed - Opened by robynforrest almost 6 years ago - 1 comment

#98 - Robyn: Write up Sc 8a and 8b

Issue - State: closed - Opened by robynforrest almost 6 years ago

#97 - Robyn : don't forget to finish write-up for Sc 7c

Issue - State: closed - Opened by robynforrest almost 6 years ago

#96 - Check length weight pars in Table D.1

Issue - State: closed - Opened by robynforrest almost 6 years ago - 1 comment

#95 - Add research recommendations

Issue - State: closed - Opened by robynforrest almost 6 years ago

#94 - Change text in growth section of Appendix B to reflect combined sexes

Issue - State: closed - Opened by robynforrest almost 6 years ago

#93 - Changes to res doc from Proceedings (with notes)

Issue - State: closed - Opened by robynforrest almost 6 years ago - 2 comments

#92 - Make sure reference case is included in the model averaged decision table code

Issue - State: closed - Opened by robynforrest about 6 years ago

#91 - Include reference case in model averaged biomass and recruitment plots

Issue - State: closed - Opened by robynforrest about 6 years ago - 3 comments

#90 - Remove 2018 catch from Tables 1 and 2 in res doc

Issue - State: closed - Opened by robynforrest about 6 years ago

#89 - Make model-averaged biomass and recruitment plots

Issue - State: closed - Opened by cgrandin over 6 years ago - 1 comment

#88 - Add kobe plots to document

Issue - State: closed - Opened by cgrandin over 6 years ago - 1 comment

#87 - no MCMC output in the folder 0_7c_5ABCD_noHistMeanWt

Issue - State: closed - Opened by cgrandin over 6 years ago

#86 - Change definition of LRP throughout document

Issue - State: closed - Opened by cgrandin over 6 years ago

#85 - Remove uniform q from priors plots (type = 0 in control file)

Issue - State: closed - Opened by cgrandin over 6 years ago

#84 - Add table with uncertainties that we could include via sensitivity cases

Issue - State: closed - Opened by seananderson over 6 years ago - 2 comments

#83 - Consider adding HBLL OUT indices graphically

Issue - State: closed - Opened by seananderson over 6 years ago - 2 comments

#82 - Address Rowan’s comments

Issue - State: closed - Opened by seananderson over 6 years ago - 4 comments

#81 - Add survey-CPUE comparisons as figures

Issue - State: closed - Opened by seananderson over 6 years ago - 3 comments

#80 - Add (model averaged?) status to table 9

Issue - State: closed - Opened by seananderson over 6 years ago - 3 comments

#79 - Catch table totals are wrong

Issue - State: closed - Opened by cgrandin over 6 years ago

#78 - No Catch plots in data presentation

Issue - State: closed - Opened by robynforrest over 6 years ago - 1 comment

#77 - Add new sensitivity runs to list of folders to be read into project

Issue - State: closed - Opened by robynforrest over 6 years ago - 3 comments

#76 - Make new decision tables

Issue - State: closed - Opened by robynforrest over 6 years ago - 2 comments

#75 - Run retrospectives for new 1a scenarios - both areas

Issue - State: closed - Opened by robynforrest over 6 years ago - 1 comment

#74 - AFTER review. Update reference case CPUE for historical period

Issue - State: closed - Opened by robynforrest over 6 years ago - 1 comment

#73 - Make survey index plots without fits

Issue - State: closed - Opened by cgrandin over 6 years ago - 1 comment

#72 - Fix catch plot so there are more years shown on x-axis

Issue - State: closed - Opened by cgrandin over 6 years ago

#71 - Fit growth to combined sexes

Issue - State: closed - Opened by seananderson over 6 years ago - 1 comment

#71 - Fit growth to combined sexes

Issue - State: closed - Opened by seananderson over 6 years ago - 1 comment

#70 - Fix y-axis labels in index plots (e.g., Figs 14 and 26)

Issue - State: closed - Opened by robynforrest over 6 years ago

#69 - Add uncertainty in ref points to biomass plots (sean or chris)

Issue - State: closed - Opened by robynforrest over 6 years ago - 1 comment

#68 - Expand x-axis for priors-posts plot

Issue - State: closed - Opened by robynforrest over 6 years ago - 1 comment

#67 - Make 1:1 plot for obs and estimated annual mean weight

Issue - State: closed - Opened by robynforrest over 6 years ago - 1 comment

#66 - Check neff in tables (and make sure all converged)

Issue - State: closed - Opened by robynforrest over 6 years ago - 1 comment

#65 - Correct reference to 3CD decision table

Issue - State: closed - Opened by robynforrest over 6 years ago - 1 comment

#64 - Text replacement in decision tables

Issue - State: closed - Opened by robynforrest over 6 years ago

#63 - Fix double period in Section references

Issue - State: closed - Opened by robynforrest over 6 years ago - 7 comments

#62 - Editorial changes as per Stewart review

Issue - State: closed - Opened by robynforrest over 6 years ago - 2 comments

#61 - Add fixed parameters to priors table (NOT URGENT)

Issue - State: closed - Opened by robynforrest over 6 years ago

#60 - Clarify text that decision tables are based on posterior samples

Issue - State: closed - Opened by robynforrest over 6 years ago

#59 - Look into longline catch

Issue - State: closed - Opened by robynforrest over 6 years ago - 1 comment

#58 - Re-run models and rebuild decision tables

Issue - State: closed - Opened by robynforrest over 6 years ago

#57 - Set up new sensitivity runs

Issue - State: closed - Opened by robynforrest over 6 years ago - 1 comment

#56 - Update data files

Issue - State: closed - Opened by robynforrest over 6 years ago - 1 comment

#55 - Prepare powerpoints for CSAP meeting

Issue - State: closed - Opened by robynforrest over 6 years ago

#54 - Consider showing projections as a ratio to the reference points

Issue - State: closed - Opened by seananderson over 6 years ago - 2 comments

#53 - Don't show lag 0 ACF values

Issue - State: closed - Opened by seananderson over 6 years ago

#52 - Add something in the text about the benefit of exploring spatiotemporal indices

Issue - State: closed - Opened by seananderson over 6 years ago - 1 comment

#51 - Adjust how error is shown in i.plot()

Issue - State: closed - Opened by seananderson over 6 years ago - 1 comment

#50 - Check the following issue from Herring that may be happening in this assessment also

Issue - State: closed - Opened by cgrandin over 6 years ago - 1 comment

#49 - Appendix C needs a section before the subsections to avoid 0's

Issue - State: closed - Opened by cgrandin over 6 years ago - 1 comment

#48 - Re-calculate FW parameters

Issue - State: closed - Opened by cgrandin over 6 years ago

#47 - Section references have weird output

Issue - State: closed - Opened by cgrandin over 6 years ago - 1 comment

#46 - Citations not clickable

Issue - State: closed - Opened by cgrandin over 6 years ago - 1 comment

#45 - Appendix refs are not clickable

Issue - State: closed - Opened by cgrandin over 6 years ago - 1 comment

#44 - TODO before CSAP meeting

Issue - State: closed - Opened by cgrandin over 6 years ago

#43 - Text about projections means missing columns in decision table

Issue - State: closed - Opened by cgrandin over 6 years ago - 2 comments

#42 - Add back effective sample size

Issue - State: closed - Opened by seananderson over 6 years ago

#41 - Table of Contents?

Issue - State: closed - Opened by robynforrest over 6 years ago

#40 - Where is Rhat result reported?

Issue - State: closed - Opened by robynforrest over 6 years ago - 1 comment

#39 - Error in age-vb-pars chunk

Issue - State: closed - Opened by cgrandin over 6 years ago - 1 comment

#38 - Add map of localities

Issue - State: closed - Opened by seananderson over 6 years ago

GitHub / pbs-assess/pacific-cod-2018 issues and pull requests