molpopgen/fwdpy11 issues and pull requests

#1235 - Warn when prune_selected = True can be a problem

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1234 - Merge dev into main

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1233 - Add stderr_output: error to doc/config.yml

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1232 - warnings for `prune_selected`

Issue - State: closed - Opened by molpopgen 11 months ago
Labels: UI

#1231 - Deprecated behavior being used in manual

Issue - State: closed - Opened by molpopgen 11 months ago - 1 comment
Labels: documentation

#1230 - Need a simpler example of different optima in different demes.

Issue - State: closed - Opened by molpopgen 11 months ago
Labels: documentation

#1229 - Genetic value API

Issue - State: open - Opened by molpopgen 11 months ago - 2 comments
Labels: C++ back end, UI

#1228 - Refine branch choice in add_mutation.

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1227 - merge dev

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1226 - Fix changelog version

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1225 - merge dev

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1224 - update change log

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1223 - Add manual section on invoking python with -Wd or -We

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1222 - Fix link to demes specification.

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1221 - Need a manual section on invoking Python

Issue - State: closed - Opened by molpopgen 11 months ago
Labels: documentation

#1220 - Broken link in manual

Issue - State: closed - Opened by molpopgen 11 months ago
Labels: documentation

#1219 - Deprecate use of None for a demographic model.

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1218 - use tskit.NODE_IS_SAMPLE instead of numerical value

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1217 - Moving optimum models and complex demography

Issue - State: closed - Opened by molpopgen 11 months ago - 8 comments
Labels: UI

#1216 - bump demesdraw in requirements/development.txt

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1215 - merge dev

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1214 - Update changelog to reflect v0.21.2 changes

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1213 - update change log

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1212 - merge dev

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1211 - re-enable login to Docker for all Docker workflow runs

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1210 - Add test of 2 demes w/divergent optima.

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1209 - Run divergent optima example in CI.

Pull Request - State: closed - Opened by molpopgen 11 months ago

#1208 - Bump styfle/cancel-workflow-action from 0.11.0 to 0.12.0

Pull Request - State: closed - Opened by dependabot[bot] 11 months ago - 1 comment
Labels: dependencies

#1207 - Error in examples/

Issue - State: closed - Opened by molpopgen 11 months ago - 2 comments
Labels: documentation

#1206 - bump tskit to >= 0.5.6

Pull Request - State: closed - Opened by molpopgen 12 months ago

#1205 - Fix "vexing parse".

Pull Request - State: closed - Opened by molpopgen almost 1 year ago

#1204 - update dev

Pull Request - State: closed - Opened by molpopgen almost 1 year ago

#1203 - Merge main into dev

Pull Request - State: closed - Opened by molpopgen almost 1 year ago

#1202 - Docker action authentication issue

Issue - State: closed - Opened by molpopgen almost 1 year ago - 2 comments
Labels: testing, deployment

#1201 - Bump docker/login-action from 2 to 3

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 2 comments
Labels: dependencies

#1200 - Bump docker/setup-buildx-action from 2 to 3

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 1 comment
Labels: dependencies

#1199 - Bump docker/build-push-action from 4 to 5

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 1 comment
Labels: dependencies

#1198 - Bump actions/checkout from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 1 comment
Labels: dependencies

#1197 - Bump docker/setup-qemu-action from 2 to 3

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 1 comment
Labels: dependencies

#1196 - refactor wheels workflow

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1195 - Refactor requirements files

Issue - State: closed - Opened by molpopgen about 1 year ago
Labels: Contiuous integration, deployment, dependencies

#1194 - Update deployment/linux_wheels

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1193 - Wheel work flow suddenly failing

Issue - State: closed - Opened by molpopgen about 1 year ago - 2 comments
Labels: deployment

#1192 - "Unify" wheel work flows

Issue - State: closed - Opened by molpopgen about 1 year ago
Labels: testing, deployment

#1191 - cbindgen install for "local" wheel work flow

Issue - State: closed - Opened by molpopgen about 1 year ago
Labels: deployment

#1190 - Updates to wheel building work flow

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1189 - pin jsonschema for wheel builds

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1188 - Merge dev into main

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1187 - merge dev

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1186 - Bump cbindgen version in CI

Pull Request - State: closed - Opened by molpopgen about 1 year ago - 1 comment

#1185 - pin setuptools_scm to < version 8

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1184 - C++ vexing parse warning

Issue - State: closed - Opened by molpopgen about 1 year ago
Labels: C++ back end

#1183 - Pin max version of jsonschema to work around tskit issue.

Pull Request - State: closed - Opened by molpopgen about 1 year ago - 1 comment

#1182 - bump demes-forward-capi version

Pull Request - State: closed - Opened by molpopgen about 1 year ago - 1 comment

#1181 - bump demes-forward-capi version

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1180 - Behavior of DiploidPopulation.add_mutation

Issue - State: closed - Opened by molpopgen about 1 year ago - 1 comment
Labels: C++ back end

#1179 - Fix Linux wheel builds

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1178 - merge dev

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1177 - fix docker image builds

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1176 - Docker image failing to build

Issue - State: closed - Opened by molpopgen about 1 year ago

#1175 - merge dev

Pull Request - State: closed - Opened by molpopgen about 1 year ago - 1 comment

#1174 - merge dev

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1173 - Bump Ubuntu docker image to 22.04 for CI.

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1172 - bump pybind11 to 2.11.1

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1171 - merge dev

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1170 - Remove more workflow runs on push

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1169 - Restore Py 3.8/3.9 for macOS/x86 CI

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1168 - Update change log

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1167 - Change DiploidMetadata to incorporate a unique individual ID

Pull Request - State: closed - Opened by molpopgen about 1 year ago - 1 comment

#1166 - Streamline Python API for Gaussian stabilizing selection

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1165 - Add test of tree iterator with two sample lists.

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1164 - Streamline when CI checks are run.

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1163 - Improve behavior of conditional models when pruning selected fixations from simulation.

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1162 - Add new macOS work flow that doesn't use conda

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1161 - Refactor conditional models API.

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1160 - Conditional models and "pruning" selected fixations.

Issue - State: closed - Opened by molpopgen about 1 year ago

#1159 - Remove C++ source file whose contents are not used.

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1158 - Compiler warning

Issue - State: closed - Opened by molpopgen about 1 year ago

#1157 - Restore individual metadata

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1156 - add Cargo.lock

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1155 - Improve recombination interval validation in _evolvets

Pull Request - State: closed - Opened by molpopgen about 1 year ago

#1154 - Need a Cargo.lock file for the rust libs.

Issue - State: closed - Opened by molpopgen about 1 year ago
Labels: build system

#1153 - BinomialPoint has missing attributes

Issue - State: closed - Opened by hanbin973 about 1 year ago - 7 comments
Labels: bug

#1152 - Recapitation section of vignette needs updating

Issue - State: closed - Opened by molpopgen over 1 year ago
Labels: documentation

#1151 - JSON schema validation

Issue - State: closed - Opened by molpopgen over 1 year ago - 1 comment

#1150 - Update change log

Pull Request - State: closed - Opened by molpopgen over 1 year ago

#1149 - Fixes to docs on user environments.

Pull Request - State: closed - Opened by molpopgen over 1 year ago

#1148 - Environment docs need update.

Issue - State: closed - Opened by molpopgen over 1 year ago
Labels: documentation

#1147 - disable link-time optimization in CI

Pull Request - State: closed - Opened by molpopgen over 1 year ago

#1146 - Improve handling of rust in GitHub workflows

Pull Request - State: closed - Opened by molpopgen over 1 year ago

#1145 - bump to demes-forward-capi 0.4.0

Pull Request - State: closed - Opened by molpopgen over 1 year ago

#1144 - update demes-spec submodule

Pull Request - State: closed - Opened by molpopgen over 1 year ago

#1143 - pin pydata-sphinx-theme

Pull Request - State: closed - Opened by molpopgen over 1 year ago

#1142 - Add BinomialCrossoverMap

Pull Request - State: closed - Opened by molpopgen over 1 year ago

#1141 - Bernoulli crossovers plus a lookup table

Issue - State: closed - Opened by molpopgen over 1 year ago

#1140 - lint a few python files

Pull Request - State: closed - Opened by molpopgen over 1 year ago

#1139 - Refactor evolvets fixtures

Pull Request - State: closed - Opened by molpopgen over 1 year ago

#1138 - fix docs

Pull Request - State: closed - Opened by molpopgen over 1 year ago

#1137 - Issue on page /short_vignettes/initpops_vignette.html

Issue - State: closed - Opened by hyanwong over 1 year ago - 2 comments
Labels: documentation

#1136 - Improve test suite run times

Pull Request - State: closed - Opened by molpopgen over 1 year ago

GitHub / molpopgen/fwdpy11 issues and pull requests