Recent Releases of circuitscape.jl
circuitscape.jl - v5.15.0
Circuitscape v5.15.0
Merged pull requests: - Bump codecov/codecov-action from 4 to 5 (#426) (@dependabot[bot]) - Update to AlgebraicMultigrid 1.x (#430) (@ViralBShah)
- Julia
Published by github-actions[bot] about 1 year ago
circuitscape.jl - v5.14.0
Circuitscape v5.14.0
Merged pull requests: - Bump julia-actions/setup-julia from 1 to 2 (#413) (@dependabot[bot]) - CHOLMOD can now solve matrices with float32 values (Julia 1.11) (#418) (@ViralBShah) - Update ci.yml (#420) (@ViralBShah) - Support flags: useunitcurrents and usedirectgrounds (#421) (@ranjanan) - Fix accumulator bug in network pairwise parallel mode (#422) (@ranjanan) - Update Project.toml (#425) (@ViralBShah)
Closed issues: - Loading Circuitscape in R (via Julia) (#381) - Use Pkg extensions for CircuitscapeMKLPardiso (#389) - type GraphProblem has no field cumnodecurr when parallelize=True (#398) - Circuitscape not running in container (#401) - Is there a QGIS version of the Circuitscape Tool in ArcGIS? (#402) - different outputs from Circuitscape Python and Julia in advanced mode (#414) - UndefRefError: access to undefined reference (#417) - Included pairs file throw no method isless() (#423)
- Julia
Published by github-actions[bot] over 1 year ago
circuitscape.jl - v5.13.3
Circuitscape v5.13.3
Merged pull requests: - Increase error tolerance for advanced mode (#410) (@vlandau)
- Julia
Published by github-actions[bot] over 2 years ago
circuitscape.jl - v5.13.2
Circuitscape v5.13.2
Merged pull requests: - Bump actions/checkout from 3 to 4 (#395) (@dependabot[bot]) - CompatHelper: bump compat for AlgebraicMultigrid to 0.6, (keep existing compat) (#396) (@github-actions[bot]) - Bump actions/cache from 3 to 4 (#404) (@dependabot[bot]) - increase solve error tolerance from 1e-6 to 1e-4 (#407) (@vlandau) - Bump codecov/codecov-action from 3 to 4 (#409) (@dependabot[bot])
Closed issues: - pkg test failed (#364) - Precompilation warning for a missing type (#403) - Increase tolerance of assert check for solve accuracy, or add option to allow failure. (#406)
- Julia
Published by github-actions[bot] over 2 years ago
circuitscape.jl - v5.13.1
Circuitscape v5.13.1
Closed issues: - "KeyError: key ([#],[#]) not found" (#260) - Julia states my habitat file is empty (#366) - Circuitscape stop working in advanced and one-to-all mode (#382)
Merged pull requests: - CompatHelper: add new compat entry for DelimitedFiles at version 1, (keep existing compat) (#391) (@github-actions[bot]) - CompatHelper: bump compat for GZip to 0.6, (keep existing compat) (#392) (@github-actions[bot]) - In advanced mode, write current maps if any of the current map flags are true (#393) (@ranjanan) - Release 5.13.1 (#394) (@ranjanan)
- Julia
Published by github-actions[bot] almost 3 years ago
circuitscape.jl - v5.13.0
Circuitscape v5.13.0
Merged pull requests: - Update Julia version compat to 1.9 (#384) (@ranjanan)
- Julia
Published by github-actions[bot] almost 3 years ago
circuitscape.jl - v5.12.3
Circuitscape v5.12.3
Merged pull requests: - Fix indexing while reading source and ground files (#378) (@ranjanan)
- Julia
Published by github-actions[bot] over 3 years ago
circuitscape.jl - v5.12.2
Circuitscape v5.12.2
Closed issues: - .out file not correct (#159) - ERROR: DimensionMismatch (#199) - Include pairs not implemented in the polygon focal point case (#278) - ncol warning (#285) - Included pairs file ignored (#341) - Short circuit regions not recognized (#353) - Assertion error: linear solve did not converge in single precision (#362) - Nothing happens after first round of calculations in all-to-one mode (#367) - AssertionError: norm(G * v .- curr) / norm(curr) - multiple failures (#370)
Merged pull requests: - add include pairs logic when polygons in point files (#374) (@ranjanan) - write correct solver in output file (#375) (@ranjanan) - network: check if nodes start from zero (#376) (@ranjanan)
- Julia
Published by github-actions[bot] over 3 years ago
circuitscape.jl - v5.12.1
Circuitscape v5.12.1
Closed issues: - Error happens in Julia. "At least one focal node location falls outside of habitat map" (#360) - Invalid index Error, but model runs fine on GUI (#368) - Advanced run not completing (see also #131) (#369)
Merged pull requests: - While making current maps, check for both (node1,node2) and (node2,node1) (#372) (@ranjanan) - Speedup a common advanced mode calc (#373) (@ranjanan)
- Julia
Published by github-actions[bot] over 3 years ago
circuitscape.jl - v5.12.0
Circuitscape v5.12.0
Closed issues: - ERROR: LoadError: InitError: could not load library "libproj.so" libcurl.so: version `CURL_4' not found (#352) - Error issue question (#356)
Merged pull requests: - CompatHelper: bump compat for ArchGDAL to 0.9, (keep existing compat) (#361) (@github-actions[bot]) - Move Pardiso solver to lib (#371) (@ranjanan)
- Julia
Published by github-actions[bot] over 3 years ago
circuitscape.jl - v5.11.2
Circuitscape v5.11.2
Closed issues: - ERROR: ArgumentError: column indices J[k] must satisfy 1 <= J[k] <= n (#333) - ArgumentError: dense matrix construction failed for unknown reasons (#334)
Merged pull requests: - fix sparse mat constrcution (#357) (@ranjanan)
- Julia
Published by github-actions[bot] about 4 years ago
circuitscape.jl - v5.11.1
Circuitscape v5.11.1
Closed issues: - AssertionError: norm(G * v .- curr, Inf) / norm(v, Inf) < 1.0e-5 (#345) - Core Mapper not reading .xlsx file (#347) - ERROR: SuiteSparse.CHOLMOD.CHOLMODException("") (#351)
Merged pull requests: - Make assertion check consistent with iterativesolvers.jl (#348) (@ranjanan)
- Julia
Published by github-actions[bot] over 4 years ago
circuitscape.jl - v5.11.0
Circuitscape v5.11.0
Merged pull requests: - CompatHelper: bump compat for AlgebraicMultigrid to 0.5, (keep existing compat) (#343) (@github-actions[bot]) - Bump deps versions. Disable Pardiso tests (#346) (@ViralBShah)
- Julia
Published by github-actions[bot] over 4 years ago
circuitscape.jl - v5.10.2
Circuitscape v5.10.2
Closed issues: - Ground files need to take in txt files (advanced mode) (#338)
Merged pull requests: - Some txt file reading logic for advanced mode (#339) (@ranjanan)
- Julia
Published by github-actions[bot] over 4 years ago
circuitscape.jl - v5.10.1
Circuitscape v5.10.1
Closed issues: - Install Error due to GDAL: libgdal-28.dll module could not be found (#329) - CS tries to solve thousands of pairs (#332)
- Julia
Published by github-actions[bot] over 4 years ago
circuitscape.jl - v5.10.0
Circuitscape v5.10.0
Closed issues: - Issue branchcurrent output in network mode (#282) - memory error (#292) - ERROR: MethodError: no method matching connectedcomponents(::SimpleWeightedGraphs.SimpleWeightedGraph{Int64,Float64}) (#325) - Empty output file (#327) - Current file not written? Circuitscape runs, but has no output (#328)
Merged pull requests: - Fix some cumulative current map logic (#330) (@ranjanan)
- Julia
Published by github-actions[bot] over 4 years ago
circuitscape.jl - v5.9.1
Circuitscape v5.9.1
Merged pull requests: - Add internal function to use in Omniscape (#326) (@vlandau)
- Julia
Published by github-actions[bot] over 4 years ago
circuitscape.jl - v5.9.0
Circuitscape v5.9.0
Closed issues: - Create cumulative branch and node currents in network mode (#119) - ERROR: ArgumentError: column indices J[k] must satisfy 1<= J[k] <= n (#281) - Error with networks consisting of multiple components (#283) - Circuitscape 5 is not writing cumulative branch and node current files for network mode (#303) - ERROR: SuiteSparse.CHOLMOD.CHOLMODException("") (#316) - Test failed on Debian : no method matching connected_components(::SimpleWeightedGraphs.SimpleWeightedGraph{Int64, Float64}) (#321)
Merged pull requests: - Currents and cumulative currents in network mode (#318) (@ranjanan) - Move to Graphs from LightGraphs (#319) (@ranjanan) - Network advanced - connected components (#320) (@ranjanan) - CompatHelper: add new compat entry for SimpleWeightedGraphs at version 1, (keep existing compat) (#322) (@github-actions[bot]) - CompatHelper: add new compat entry for Graphs at version 1, (keep existing compat) (#323) (@github-actions[bot]) - Add info about 0 vs 1 based indexing, throw error if not 0 or 1 (#324) (@ranjanan)
- Julia
Published by github-actions[bot] over 4 years ago
circuitscape.jl - v5.8.4
Circuitscape v5.8.4
Closed issues: - Compress grids has no effect (#168) - Blank screen on GUI after running main executable (#192) - Convert circuitscape manual to Julia Documenter format (#242) - Get CI to pass (#245) - Pemission denied and paralell processes number (#284) - Docs point to non-existent "examples" folder for examples (#286) - Cumulative current map all NODATA in circuitscape.jl, but show currents in circuitscape GUI (#289) - CHOLMOD solver error (#300) - AssertErrors for several users -- norm(G * v - curr) < 1e-6 check failing (#305) - MethodError: no method matching Circuitscape.RasterData(::Matrix{Float64}, ::Matrix{Int64}, ::Matrix{Float64}, ::Matrix{Float64}, ::Tuple{Vector{Int64}, Vector{Int64}, Vector{Int64}}, ::Matrix{Float64}, ::Nothing, ::Circuitscape.RasterMeta) (#306) - What wrong by "output/mgNetworkVerify1.out" (#307) - Circuitscape 5.0.0 with INIBuilder: habitatmapisresistance = resistance incorrectly treats habitat map as conductance. (#312) - GDALError (CEFailure, code 1): write failed, disk full? (#314) - resistance_3columns file (#315)
Merged pull requests: - Add better error message when include pairs file is incorrect (#310) (@ranjanan) - builder passed incorrect value to habitatmapis_resistances, (#313) (@vlandau) - remove references to examples directory from docs (#317) (@vlandau)
- Julia
Published by github-actions[bot] over 4 years ago
circuitscape.jl - v5.8.3
Circuitscape v5.8.3
Closed issues: - Pkg.test("Circuitscape") fail in double precision, raster pairwise and advanced (Ubuntu) (#302)
Merged pull requests: - Ask for > 5 digits of precision when solving linear system (#309) (@ranjanan)
- Julia
Published by github-actions[bot] almost 5 years ago
circuitscape.jl - v5.8.2
Circuitscape v5.8.2
Closed issues: - Make new release with AMG 0.4.0 (#276) - AssertionError: norm(asolve * volt .- sources) < 1.0e-5 in "all-to-one" mode using the latest development version of Circuiscape. v5.7.1 (#288)
Merged pull requests: - CompatHelper: bump compat for "ArchGDAL" to "0.7" (#301) (@github-actions[bot]) - Update Pardiso deps, julia deps (#304) (@ranjanan) - Update issue templates (#308) (@ranjanan)
- Julia
Published by github-actions[bot] almost 5 years ago
circuitscape.jl - v5.8.1
Circuitscape v5.8.1
Closed issues: - Cholmod for advanced mode (#136)
Merged pull requests: - Pass the suppress_messages arg to some functions new to 5.8.0 (#296) (@vlandau) - Reduce error tolerance for matrix norms when using single precision (#297) (@vlandau) - Revert "Reduce error tolerance for matrix norms when using single pre… (#298) (@ranjanan) - Redo of assert tolerance after accidental revert of previous PR (#299) (@vlandau)
- Julia
Published by github-actions[bot] about 5 years ago
circuitscape.jl - v5.8.0
Circuitscape v5.8.0
Closed issues: - disable logging during tests (#222) - Fix or remove codecov badge (#250) - effective resistance for one-to-all (#252) - Denied access to folder (#261) - Pkg.test("Circuitscape") fail on new installation (#266) - trouble with variable source strengths (#268) - "Error: syntax: invalid escape sequence" (#271) - ValueError: could not broadcast input array fro, shape (3,1) into shape (3) (#272) - ERROR: KeyError: key "Zlib_jll" not found (#274) - Move CI/docs building to GitHub Actions (#275) - BoundsError (#287) - Tests fail with ArchGDAL 0.6.0 (#290)
Merged pull requests: - Add option to use MKL Pardiso, reduce number of tests (#225) (@ranjanan) - Use ArchGDAL.write() to persist rasters to disk. (#263) (@yeesian) - Use do-blocks for managing rasters via ArchGDAL (#264) (@yeesian) - Move documentation to Documenter (#265) (@ranjanan) - Disable logging during tests (#267) (@ranjanan) - Rework alltoone mode with and without var strengths (#270) (@ranjanan) - CompatHelper: bump compat for "IterativeSolvers" to "0.9" (#279) (@github-actions[bot]) - CompatHelper: bump compat for "AlgebraicMultigrid" to "0.4" (#280) (@github-actions[bot]) - Fix ASCII header in some test files (#291) (@vlandau) - tol -> reltol (#293) (@ranjanan) - CompatHelper: add new compat entry for "AlgebraicMultigrid" at version "0.4" (#294) (@github-actions[bot])
- Julia
Published by github-actions[bot] about 5 years ago
circuitscape.jl - v5.7.1
Circuitscape v5.7.1
Closed issues: - InexactError: Int64 (#257) - Add warning when there are non-integers in node file (#258) - Error when using Circuitscape from R (#262)
Merged pull requests: - add informative error throw if node file (point_file) contains non-integers (#259) (@vlandau)
- Julia
Published by github-actions[bot] over 5 years ago
circuitscape.jl - v5.7.0
Circuitscape v5.7.0
Closed issues:
- julia version and Circuitscape (#251)
- Installing master branch of Circuitscape fails (#254)
Merged pull requests: - add option to suppress @info (#255) (@vlandau)
- Julia
Published by github-actions[bot] almost 6 years ago
circuitscape.jl - v5.6.0
Circuitscape v5.6.0
Closed issues:
- New CHOLMOD memory errors (#150)
- Pkg.test("Circuitscape"): Single test failure - Raster Pairwise (#178)
- Make 64-bit indexing default. Was ERROR: LoadError: InexactError: trunc(Int32, 2147483653) (#200)
- ERROR: BoundsError: attempt to access 0-element Array{SharedArrays.SharedArray{Float64,2},1} at index 1
- Failing tests in Raster one to all in Julia 1.4-dev (#202)
- JSExpr: Unsupported string expression, "$(e)"JSExpr: Unsupported string expression, "$(e)" 64-bit Windows installer (#208)
- Bounds error (#209)
- Error: zero resistance values are not currently supported for habitat maps. Use a shor circuit region file instead (#210)
- ERROR: LinearAlgebra.LAPACKException(2) (#211)
- Test failure on mac due to too many open shm segments (#212)
- Experiment with METIS ordering in cholesky (#213)
- Trouble executing script with specified library location (#214)
- Please reopen if the issue persists. (#215)
- No output with completed script (#216)
- Experiment with PARDISO solvers from MKL (#218)
- Add possibility to save as .tif with compression (#220)
- New GUI using Gtk? (#228)
- Circuitscape in Julia unable to process a 1.4 Billion pixel landscape (#232)
- GZip requirement 0.5.1 can't be met (#234)
- Maximum amount of pairs and batch processing (#235)
- InexactError while parsing nodata values (#239)
- More issues with opened files on Mac (#241)
- ArchGDAL version dependency error (#244)
- writeastif options only works if value is true, not True (#246)
Merged pull requests: - Make 64 bit indexing default (#206) (@ranjanan) - Fix a bug where max curr was not being initialized properly (#207) (@ranjanan) - Install TagBot as a GitHub Action (#219) (@JuliaTagBot) - Vl/travis - dependency stuff (#221) (@vlandau) - Add a few closes for filehandles. (#223) (@ViralBShah) - add tif/asc read and write support (#229) (@vlandau) - Pkg.checkout not supported anymore (#237) (@VLucet) - Fix InexactError in Read Raster (#240) (@vlandau) - Modify default call to pmap when paralellizing (#243) (@VLucet) - Check for writeastif to be in TRUELIST (#247) (@VLucet)
- Julia
Published by github-actions[bot] almost 6 years ago
circuitscape.jl - v5.5.5
v5.5.5 (2019-11-29)
Closed issues:
- GZip broken for Windows in Julia 1.3, so Circuitscape (and Omniscape) also broken (#203)
- ERROR: Failed to read habitat map. There may be errors in your file. (#198)
- Error : UndefVarError : warn not defined (#193)
- Two Issues: Memory Error and Not working on my desktop (#191)
- Very Slow Processing (#190)
- Potential speedups (#174)
Merged pull requests:
- update GZip version in MANIFEST (#205) (vlandau)
- updated GZip dep (#204) (vlandau)
- Some bug squashing for INIBuilder (#195) (ranjanan)
- Add new UI (#194) (ranjanan)
- Julia
Published by julia-tagbot[bot] over 6 years ago
circuitscape.jl - v5.5.4
v5.5.4 (2019-08-06)
Closed issues:
- Documentation Clarification (#186)
- Questions from your “average user” (#179)
- how to cite circuitscape.jl? (#173)
- Warn() deprecated (#171)
- Julia
Published by julia-tagbot[bot] almost 7 years ago
circuitscape.jl -
- Parallelism in one to all and all to one modes
- Fix long standing include pairs bugs
- Julia
Published by ranjanan over 7 years ago
circuitscape.jl -
- Upgrades to Memento v0.7.0
- Stabilises the solver with some simple regularisation
- Fix a performance bug in advanced mode that stalls voltages being assigned to cells
- Fix a bug in shortcut mode while using the CHOLMOD solver which makes it do extra work
- Introduce a flag that lets you bump indexing to Int64
- Julia
Published by ranjanan almost 8 years ago
circuitscape.jl -
Bug fix for: - not entering shortcut mode when we want cumulative maps and no other voltage or current maps
- Julia
Published by ranjanan about 8 years ago
circuitscape.jl -
Includes the following fixes: 1. Parallel cumulative maps for raster mode (#123) 2. Batch mode for CHOLMOD (#126)
- Julia
Published by ranjanan about 8 years ago
circuitscape.jl -
Fixes the following bugs:
* Improves logging for shortcut calculation mode (#109)
* Adds 1 as a way of specifying true (#112)
* Improves logging for when point files have polygons (#117)
* Fixes the 3 column resistance file bug (#120)
* Adds utils for reading and writing cum and max current maps (#115)
- Julia
Published by ranjanan about 8 years ago