Ecosyste.ms: Issues

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

GitHub / ICB-DCM/pyABC issues and pull requests

#645 - Module import errors while using Redis sampler

Issue - State: open - Opened by PrachetaBA 15 days ago

#644 - Develop

Pull Request - State: closed - Opened by stephanmg 4 months ago - 1 comment

#643 - Update deploy.yml

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

#642 - Update deploy.yml

Pull Request - State: closed - Opened by stephanmg 4 months ago - 1 comment

#641 - How to deal with "covariance is not symmetric positive-semidefinite" ?

Issue - State: closed - Opened by Ookra 4 months ago - 4 comments

#640 - Base Test

Pull Request - State: closed - Opened by PaulJonasJost 4 months ago - 1 comment

#639 - Minor bug fixes

Pull Request - State: closed - Opened by arrjon 4 months ago - 7 comments

#624 - A few questions about pyABC

Issue - State: closed - Opened by Gabriel-p about 1 year ago - 2 comments
Labels: question

#623 - RuntimeWarning: divide by zero encountered in double_scalars

Issue - State: closed - Opened by jack-pan-ai over 1 year ago - 7 comments
Labels: bug

#622 - Downgrade sqlalchemy

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

#621 - AttributeError: 'OptionEngine' object has no attribute 'execute'

Issue - State: closed - Opened by jack-pan-ai over 1 year ago - 2 comments
Labels: bug

#620 - Fix more extra dependencies.

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

#619 - Fix extra dependencies

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

#618 - Names containing underscores in extra_options in setup.cfg are broken

Issue - State: closed - Opened by omsai over 1 year ago - 6 comments
Labels: bug

#617 - Merge develop into main for new release 0.12.14.

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

#616 - Fix assets for pyabc visserver.

Pull Request - State: closed - Opened by stephanmg over 1 year ago - 2 comments

#615 - abc-server-dash FileNotFoundError: [Errno 2] No such file or directory: '.../pyabc/visserver/assets/square_v2.png'

Issue - State: closed - Opened by omsai over 1 year ago - 15 comments
Labels: bug, fixed but not released

#614 - AssertionError: The population total weight nan is not normalized.

Issue - State: closed - Opened by MJKampmann over 1 year ago - 3 comments
Labels: bug

#613 - Release 0.12.12

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

#610 - Create plotly versions of selected matplotlib visualizations

Pull Request - State: closed - Opened by yannikschaelte over 1 year ago - 1 comment
Labels: enhancement

#609 - Release 0.12.11

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

#608 - Fix PEtab test suite

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

#607 - PEtab test suite failing

Issue - State: closed - Opened by yannikschaelte over 1 year ago
Labels: bug

#604 - Various fixes

Pull Request - State: closed - Opened by yannikschaelte almost 2 years ago - 1 comment

#603 - `meta_info` in `pyabc.ABCSMC.new()` is not actually saved to the db

Issue - State: closed - Opened by lm1909 almost 2 years ago - 2 comments
Labels: bug

#601 - fix C416 unnecessary dict comprehension

Pull Request - State: closed - Opened by yannikschaelte almost 2 years ago - 1 comment

#600 - Web server 3 ys

Pull Request - State: closed - Opened by yannikschaelte almost 2 years ago

#599 - Change entry points to pyabc-...

Issue - State: closed - Opened by yannikschaelte almost 2 years ago
Labels: wontfix

#598 - Release 0.12.10

Pull Request - State: closed - Opened by yannikschaelte almost 2 years ago - 1 comment

#597 - Contour plots as a direct alternative to kernel density heat maps

Pull Request - State: closed - Opened by yannikschaelte almost 2 years ago

#596 - Fix sqlalchemy + pre-commit

Pull Request - State: closed - Opened by yannikschaelte about 2 years ago

#595 - Problem using multiple cores with pyABC and PyJulia

Issue - State: closed - Opened by freddie090 about 2 years ago - 6 comments
Labels: invalid

#594 - Epsilon not taken from old database when continuing a run with abc.load()

Issue - State: closed - Opened by anetzl about 2 years ago - 7 comments

#593 - Release 0.12.9

Pull Request - State: closed - Opened by yannikschaelte about 2 years ago - 1 comment

#592 - Is this description wrong in the documention?

Issue - State: closed - Opened by xieduo7 about 2 years ago - 1 comment
Labels: bug

#591 - Release 0.12.8

Pull Request - State: closed - Opened by yannikschaelte over 2 years ago

#589 - Minor fixes

Pull Request - State: closed - Opened by yannikschaelte over 2 years ago - 1 comment

#588 - Release 0.12.7

Pull Request - State: closed - Opened by yannikschaelte over 2 years ago - 2 comments

#587 - Ignore B027 empty method in an abstract base class

Pull Request - State: closed - Opened by yannikschaelte over 2 years ago - 3 comments

#586 - Fix look-ahead implementation in case of biased proposals

Pull Request - State: closed - Opened by EmadAlamoudi over 2 years ago - 1 comment
Labels: bug

#585 - Conda installation

Issue - State: closed - Opened by JulianoGianlupi over 2 years ago - 2 comments
Labels: enhancement

#584 - fix abc hierarchy for flake8

Pull Request - State: closed - Opened by yannikschaelte over 2 years ago - 1 comment

#583 - Remove jinja2 fixing; update doc build requirements

Pull Request - State: closed - Opened by yannikschaelte over 2 years ago - 1 comment

#582 - Release 0.12.6

Pull Request - State: closed - Opened by yannikschaelte over 2 years ago - 1 comment

#581 - Web server 2

Pull Request - State: closed - Opened by EmadAlamoudi over 2 years ago - 2 comments

#580 - PyJulia example works on single-core but not multi-core

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

#579 - Release 0.12.5

Pull Request - State: closed - Opened by yannikschaelte over 2 years ago - 1 comment

#578 - address reviewer comments #570

Pull Request - State: closed - Opened by yannikschaelte over 2 years ago

#577 - Address review comment "state of field" #566

Pull Request - State: closed - Opened by yannikschaelte over 2 years ago - 1 comment

#576 - Language configration from Sphinx

Issue - State: closed - Opened by EmadAlamoudi over 2 years ago - 1 comment

#575 - Update informative.ipynb

Pull Request - State: closed - Opened by EmadAlamoudi over 2 years ago - 1 comment
Labels: documentation

#574 - Explanation Warning message

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

#573 - Saving particles upon acceptance; allow resuming from partially finished generations

Issue - State: closed - Opened by cheekolegend over 2 years ago - 3 comments
Labels: enhancement

#572 - Can we assign different distance method to different models?

Issue - State: closed - Opened by xieduo7 almost 3 years ago - 2 comments

#571 - Error occurred when exporting database to other formats

Issue - State: closed - Opened by xieduo7 almost 3 years ago - 6 comments
Labels: bug

#570 - JOSS Review - comment on the Software paper

Issue - State: closed - Opened by hpesonen almost 3 years ago - 1 comment

#569 - PendingRollbackError reported when using pyabc

Issue - State: closed - Opened by xieduo7 almost 3 years ago - 4 comments

#568 - Release 0.12.4

Pull Request - State: closed - Opened by yannikschaelte almost 3 years ago - 1 comment

#566 - JOSS Review - comment on Software paper: State of the field

Issue - State: closed - Opened by blakeaw almost 3 years ago - 2 comments

#565 - JOSS Review - Error when running automated tests

Issue - State: closed - Opened by blakeaw almost 3 years ago - 1 comment

#564 - How to get the estimated parameter?

Issue - State: closed - Opened by xieduo7 almost 3 years ago - 3 comments

#563 - Move near-zero population weight to warning

Pull Request - State: closed - Opened by yannikschaelte almost 3 years ago - 1 comment

#562 - Release 0.12.3

Pull Request - State: closed - Opened by yannikschaelte almost 3 years ago - 1 comment

#561 - update installation guide

Pull Request - State: closed - Opened by yannikschaelte almost 3 years ago - 1 comment

#560 - AssertionError: The total population weight is zero

Issue - State: closed - Opened by sgrzegorz almost 3 years ago - 4 comments

#559 - Add example documenting custom priors

Pull Request - State: closed - Opened by yannikschaelte almost 3 years ago

#558 - How can I set constraints between model parameters?

Issue - State: closed - Opened by xieduo7 almost 3 years ago - 4 comments

#557 - Update to codecov token v2 due to deprecation

Pull Request - State: closed - Opened by yannikschaelte almost 3 years ago - 1 comment

#556 - Error (multiprocessing.context.ProcessError) reported when I ran the example script

Issue - State: closed - Opened by xieduo7 almost 3 years ago - 5 comments

#555 - Release 0.12.2

Pull Request - State: closed - Opened by yannikschaelte almost 3 years ago - 1 comment

#554 - Update citation hint; add logo license

Pull Request - State: closed - Opened by yannikschaelte almost 3 years ago - 1 comment

#553 - Uniform prior and posterior

Issue - State: closed - Opened by aakhmetz almost 3 years ago - 2 comments

#552 - Build/Extend test problem set

Issue - State: open - Opened by yannikschaelte almost 3 years ago
Labels: enhancement

#551 - Implement Adaptive Approximate Bayesian Computation Tolerance Selection

Issue - State: open - Opened by yannikschaelte almost 3 years ago
Labels: enhancement

#550 - Release 0.12.1

Pull Request - State: closed - Opened by yannikschaelte almost 3 years ago - 1 comment

#549 - Pink logo

Pull Request - State: closed - Opened by yannikschaelte almost 3 years ago - 4 comments

#548 - Release 0.12.0

Pull Request - State: closed - Opened by yannikschaelte almost 3 years ago - 1 comment

#547 - Model selection with PEtab models

Issue - State: closed - Opened by shoepfl about 3 years ago - 7 comments

#546 - Drop support of python <= 3.7

Issue - State: closed - Opened by yannikschaelte about 3 years ago - 1 comment

#545 - pyabc.visualization.plot_kde_2d on log scale

Issue - State: closed - Opened by HounerX about 3 years ago - 2 comments
Labels: visualization

#544 - Apply nbqa black and isort to notebooks

Pull Request - State: closed - Opened by yannikschaelte about 3 years ago - 1 comment

#543 - Require python>=3.8

Pull Request - State: closed - Opened by yannikschaelte about 3 years ago - 1 comment

#542 - Fix julia in tests

Pull Request - State: closed - Opened by yannikschaelte about 3 years ago

#541 - Release 0.11.12

Pull Request - State: closed - Opened by yannikschaelte about 3 years ago - 1 comment

#540 - Overview of algorithms in docs

Issue - State: open - Opened by yannikschaelte about 3 years ago
Labels: enhancement, documentation

#539 - Optimal thresholds

Pull Request - State: closed - Opened by yannikschaelte about 3 years ago - 1 comment

#538 - How to use adaptive distance with external simulator option ?

Issue - State: closed - Opened by HounerX about 3 years ago - 4 comments

#537 - Release 0.11.11 (KARNEVAL)

Pull Request - State: closed - Opened by yannikschaelte about 3 years ago - 1 comment

#536 - implement color grouping for sankey

Pull Request - State: closed - Opened by yannikschaelte about 3 years ago - 1 comment

#535 - AttributeError: module 'pyabc' has no attribute 'sge'

Issue - State: closed - Opened by Gabriel-p about 3 years ago - 2 comments
Labels: bug

#534 - AssertionError: The total population weight is zero

Issue - State: closed - Opened by Gabriel-p about 3 years ago - 12 comments

#533 - Run amici without sensis

Pull Request - State: closed - Opened by yannikschaelte about 3 years ago

#532 - Release 0.11.10

Pull Request - State: closed - Opened by yannikschaelte about 3 years ago - 1 comment

#531 - Add basico-copasi model interface

Pull Request - State: closed - Opened by yannikschaelte about 3 years ago - 1 comment

#530 - Timeout external

Pull Request - State: closed - Opened by yannikschaelte about 3 years ago - 1 comment

#529 - Remove external handler cleanup as not used + correctly implemented

Pull Request - State: closed - Opened by yannikschaelte about 3 years ago - 1 comment

#528 - Release 0.11.9

Pull Request - State: closed - Opened by yannikschaelte about 3 years ago - 1 comment

#527 - Allow pickling of AMICI models

Pull Request - State: closed - Opened by yannikschaelte about 3 years ago - 1 comment