Ecosyste.ms: Issues

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

GitHub / tskit-dev/msprime issues and pull requests

#2285 - MacOS ARM wheels packages broken

Issue - State: open - Opened by jeromekelleher about 1 month ago - 2 comments
Labels: bug

#2284 - stat verification gc smck

Pull Request - State: closed - Opened by GertjanBisschop about 2 months ago - 2 comments

#2283 - update installation docs

Pull Request - State: closed - Opened by GertjanBisschop about 2 months ago - 1 comment

#2282 - Smc(k) gene conversion

Pull Request - State: closed - Opened by GertjanBisschop about 2 months ago - 3 comments

#2281 - merge

Pull Request - State: closed - Opened by agushin101 about 2 months ago

#2280 - Enable gene conversion for SMC_K model

Issue - State: closed - Opened by GertjanBisschop 2 months ago - 1 comment

#2277 - Fix OSX tests

Pull Request - State: closed - Opened by benjeffery 2 months ago - 7 comments

#2276 - add tree fixation using newick string and TreeSequence object

Pull Request - State: open - Opened by not-a-feature 3 months ago - 5 comments

#2275 - Fix codecov

Pull Request - State: closed - Opened by benjeffery 3 months ago - 1 comment

#2273 - add record_provenance argument to sim_mutations; closes #2272

Pull Request - State: open - Opened by petrelharp 3 months ago - 1 comment

#2272 - no `record_provenance` argument to sim_mutations

Issue - State: open - Opened by petrelharp 3 months ago

#2271 - Clarify the meaning of the mutation rate when a matrix is used

Pull Request - State: open - Opened by hyanwong 3 months ago - 3 comments

#2270 - Hulls

Pull Request - State: closed - Opened by GertjanBisschop 4 months ago - 2 comments

#2269 - AFS folding (polarised=False)

Issue - State: open - Opened by sunyatin 4 months ago - 6 comments

#2267 - Disallow unstable beta coalescents

Pull Request - State: closed - Opened by JereKoskela 4 months ago - 5 comments

#2266 - multiallelic sites within the VCF

Issue - State: open - Opened by LuisGFdez 5 months ago - 1 comment

#2265 - Verification kdeplot

Pull Request - State: closed - Opened by daikitag 5 months ago - 1 comment

#2264 - Docs versioning no longer working

Issue - State: open - Opened by jeromekelleher 5 months ago - 2 comments
Labels: documentation

#2263 - Update docs copyright year

Issue - State: closed - Opened by jeromekelleher 5 months ago
Labels: documentation

#2262 - Update installation docs for minimum python version

Issue - State: closed - Opened by jeromekelleher 5 months ago
Labels: documentation

#2261 - Document no pip install on Windows

Issue - State: closed - Opened by daikitag 5 months ago - 1 comment
Labels: documentation

#2258 - update changelog

Pull Request - State: closed - Opened by GertjanBisschop 5 months ago - 1 comment

#2257 - Numerical stability of beta model

Pull Request - State: closed - Opened by JereKoskela 5 months ago - 6 comments

#2249 - issue with replicates using "num_replicates"

Issue - State: closed - Opened by yzliu01 6 months ago - 4 comments

#2248 - global stop condition

Pull Request - State: open - Opened by GertjanBisschop 7 months ago - 1 comment

#2247 - Syncing sweeps implementation in algorithms.py

Pull Request - State: open - Opened by GertjanBisschop 7 months ago - 1 comment

#2246 - Update pypi release package

Pull Request - State: closed - Opened by benjeffery 7 months ago

#2245 - Update changelog date

Pull Request - State: closed - Opened by benjeffery 7 months ago

#2244 - Remove research notice

Pull Request - State: closed - Opened by jeromekelleher 7 months ago - 1 comment

#2243 - Save information about sweep in SweepGenicSelection model

Issue - State: open - Opened by jeromekelleher 7 months ago - 6 comments
Labels: enhancement

#2242 - Illogical Lineage Counts in algorithms.py

Issue - State: open - Opened by agushin101 7 months ago - 7 comments

#2241 - Additional stats tests microsats

Pull Request - State: closed - Opened by GertjanBisschop 7 months ago - 1 comment

#2240 - Update demography tests to stdpopsim 0.2

Issue - State: open - Opened by GertjanBisschop 7 months ago - 1 comment
Labels: Infrastructure and tools

#2239 - pin stdpopsim

Pull Request - State: closed - Opened by GertjanBisschop 7 months ago - 2 comments

#2238 - avoid negative probs, closes #2237

Pull Request - State: closed - Opened by petrelharp 7 months ago - 1 comment

#2237 - TPM microsats model transition matrix error

Issue - State: closed - Opened by GertjanBisschop 7 months ago - 6 comments

#2236 - verification.py updates

Pull Request - State: closed - Opened by GertjanBisschop 7 months ago - 1 comment

#2235 - Computing likelihood for decapitated ARGs.

Issue - State: open - Opened by GertjanBisschop 7 months ago
Labels: enhancement

#2234 - make verfication.py compatible with latest pyslim

Pull Request - State: closed - Opened by GertjanBisschop 7 months ago - 1 comment

#2233 - Tests fail with stdpopsim 0.2.0

Issue - State: open - Opened by benjeffery 7 months ago - 7 comments
Labels: Infrastructure and tools

#2232 - modify checks arg lik

Pull Request - State: closed - Opened by GertjanBisschop 7 months ago - 8 comments

#2231 - remove ll_representation argument

Pull Request - State: open - Opened by GertjanBisschop 7 months ago - 2 comments

#2230 - fix msmssweeps verification

Pull Request - State: closed - Opened by GertjanBisschop 7 months ago - 1 comment

#2229 - AttributeErrors in verification.py: MsmsSweeps

Issue - State: closed - Opened by GertjanBisschop 7 months ago - 5 comments

#2228 - remove tests/data folder

Pull Request - State: closed - Opened by GertjanBisschop 7 months ago - 3 comments

#2227 - update changelog

Pull Request - State: closed - Opened by GertjanBisschop 7 months ago - 1 comment

#2226 - 1.3.0 Release

Issue - State: closed - Opened by jeromekelleher 7 months ago - 2 comments

#2225 - dtwf/ped stats tests

Pull Request - State: closed - Opened by GertjanBisschop 7 months ago - 1 comment

#2224 - fix sorting bug pedigrees

Pull Request - State: closed - Opened by GertjanBisschop 7 months ago - 1 comment

#2223 - Island model - migration rate definition

Issue - State: closed - Opened by JaneeshBansal 8 months ago - 1 comment

#2222 - Update development.md

Pull Request - State: closed - Opened by daikitag 8 months ago - 1 comment

#2221 - CpG mutation models

Issue - State: open - Opened by hyanwong 8 months ago - 3 comments

#2220 - Update DOI msprime 1.0 paper CITATION.md

Pull Request - State: closed - Opened by GertjanBisschop 8 months ago - 1 comment

#2218 - No Sweep Model for Spatially Structured Populations

Issue - State: open - Opened by YuanboSong 8 months ago - 1 comment

#2217 - Inconsistencies between algorithm.c and algorithm.py

Issue - State: open - Opened by YuanboSong 8 months ago - 1 comment

#2216 - Fix docs build warning

Pull Request - State: closed - Opened by benjeffery 8 months ago - 1 comment

#2214 - Update pedigree doc

Pull Request - State: closed - Opened by daikitag 8 months ago - 4 comments

#2212 - Clarify the population size is diploid (by default)

Pull Request - State: closed - Opened by hyanwong 8 months ago - 4 comments

#2211 - draw_pedigree documentation

Issue - State: closed - Opened by daikitag 8 months ago - 3 comments

#2210 - Documentation for replicate_index

Issue - State: open - Opened by daikitag 8 months ago - 3 comments

#2208 - Update PyPI auth method

Pull Request - State: closed - Opened by benjeffery 9 months ago - 1 comment

#2207 - Update pre commit

Pull Request - State: closed - Opened by benjeffery 9 months ago - 3 comments

#2206 - Update deps, remove py37 and fix test warnings

Pull Request - State: closed - Opened by benjeffery 9 months ago - 1 comment

#2205 - Update docs build

Pull Request - State: closed - Opened by benjeffery 9 months ago - 1 comment

#2204 - Problem with Demography Debugger output

Issue - State: closed - Opened by helmutsimon 9 months ago - 2 comments

#2202 - Set favicon

Pull Request - State: closed - Opened by jeromekelleher 10 months ago - 5 comments

#2201 - Clean up config and get version working

Pull Request - State: closed - Opened by jeromekelleher 10 months ago - 3 comments

#2200 - Publish pip wheels for Windows

Issue - State: open - Opened by tomwhite 10 months ago - 1 comment

#2199 - raise error when recording migrants

Pull Request - State: closed - Opened by GertjanBisschop 10 months ago - 1 comment

#2198 - The error for importing msprime

Issue - State: closed - Opened by frezaei98 10 months ago - 1 comment

#2197 - Change docs theme to sphinx-book-theme

Pull Request - State: closed - Opened by benjeffery 11 months ago - 1 comment

#2195 - parent node having a time value <= to its child

Issue - State: closed - Opened by connor-french 11 months ago - 8 comments

#2194 - update docs

Pull Request - State: closed - Opened by GertjanBisschop 11 months ago - 4 comments

#2193 - Update docs config

Pull Request - State: closed - Opened by benjeffery 11 months ago - 1 comment

#2192 - Update docs deps

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

#2190 - recording migrants with sweep model

Issue - State: closed - Opened by GertjanBisschop 12 months ago - 3 comments

#2189 - Update intro.md to add tutorial links

Pull Request - State: closed - Opened by hyanwong 12 months ago - 1 comment

#2187 - problems with gsl version in pyslim 1.0.3

Issue - State: closed - Opened by ShyamieG 12 months ago - 6 comments

#2186 - Recording recombination events

Issue - State: closed - Opened by GertjanBisschop about 1 year ago - 1 comment

#2185 - additional_nodes docs

Pull Request - State: closed - Opened by GertjanBisschop about 1 year ago - 2 comments

#2183 - auto_flush_edges

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

#2182 - Autoflush edges in the simulator

Issue - State: closed - Opened by jeromekelleher about 1 year ago - 1 comment

#2181 - Prototype

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

#2180 - Test and build wheels on 3.11

Pull Request - State: closed - Opened by benjeffery about 1 year ago - 5 comments

#2177 - Python 3.11 wheels

Issue - State: closed - Opened by tomwhite about 1 year ago - 1 comment

#2176 - Additional_nodes DTWF/FIXED_PEDIGREE

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

#2175 - doi for msprime 1.0 is not correct

Issue - State: closed - Opened by xin-huang about 1 year ago - 2 comments
Labels: documentation

#2174 - modified stats test unary nodes

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

#2173 - clarification to migration documentation

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

#2170 - Fix codecov with token

Pull Request - State: closed - Opened by benjeffery about 1 year ago - 5 comments

#2169 - Fix codecov

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

#2168 - Update verification.py to use coalescent_segments_only flag

Issue - State: closed - Opened by GertjanBisschop about 1 year ago - 1 comment

#2166 - Fix lint action

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

#2165 - Update mergify config

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