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commit cbaae05 Author: jakob-fritz <37077134+jakob-fritz@users.noreply.github.com> Date: Wed Apr 24 10:34:09 2024 +0200 Make create_gitlab_ci branch up-to-date before merging into master (Parallel-in-Time#418) * first working SDC version (M and Minv) * Update playground.py * cleaning up * Added some hyphens in plots (Parallel-in-Time#389) * Removed seperate file for GPU Dahlquist implementation (Parallel-in-Time#391) Co-authored-by: Thomas <t.baumann@fz-juelich.de> * Review (Parallel-in-Time#388) * Bug is fixed and added new code * new code for the table * Edits in markdown file * some edits in test * Bugs fix * Codecov * I cleaned up my code and separated classes to make it easier to work with. It is not ready yet; if Codecov fails, I will include more tests. * forgot black * flake8 * bug fix * Edits codes according to the comments * Edited codes according to the comments in the GitHub * Defined new function in stability_simulation.py to check stability for given points and excluded codecov function that generates a table. * small edits for codecov * removed no cover * NCCL communicators (Parallel-in-Time#392) * Added wrapper for MPI communicator to use NCCL under the hood * Small fix * Moved NCCL communicator wrapper to helpers --------- Co-authored-by: Thomas <t.baumann@fz-juelich.de> * Version bump for new release * proper readme and link * Started playground for machine learning generated initial guesses for (Parallel-in-Time#394) SDC * playing with FEniCS * blackening * Bug fix (Parallel-in-Time#395) * readme file changes * fixed bugs for stability plots and some edits in README file * some edits * typo in citation * Bump version * Bug fix (Parallel-in-Time#396) * Clear documentation and some edits in the code * forgot black * some changes * bump version * Cosmetic changes (Parallel-in-Time#398) * Parallel SDC (Reloaded) project (Parallel-in-Time#397) TL: Added efficient diagonal preconditioners and associated project. Coauthored by @caklovicka * Generic multi-component mesh (Parallel-in-Time#400) * Generic multicomponent mesh * new try * Added a test for MultiComponentMesh * Test that the type is conserved also after numpy operations * Added documentation for how to use `MultiComponentMesh` * Changed formatting of the documentation * Update ci_pipeline.yml * version freak show * version freak show II * version freak show III * version freak show IV * Update ci_pipeline.yml * version freak show V * 2D Brusselator problem (Parallel-in-Time#401) * Added 2D Brusselator problem from Hairer-Wanner II. Thanks @grosilho for the suggestion! * Added forgotten pytest marker * Fix brain afk error * Added work counter for right hand side evaluations * Removed file for running Brusselator from project * Retry at removing the file * I need to go to git school * Datatype `DAEMesh` for DAEs (Parallel-in-Time#384) * Added DAE mesh * Updated all DAE problems and the SDC-DAE sweeper * Updated playgrounds with new DAE datatype * Adapted tests * Minor changes * Black.. :o * Added DAEMesh only to semi-explicit DAEs + update for FI-SDC and ProblemDAE.py * Black :D * Removed unnecessary approx_solution hook + replaced by LogSolution hook * Update WSCC9 problem class * Removed unnecessary comments * Removed test_misc.py * Removed registering of newton_tol from child classes * Update test_problems.py * Rename error hook class for logging global error in differential variable(s) * Added MultiComponentMesh - @brownbaerchen + @tlunet + @pancetta Thank ugit add pySDC/implementations/datatype_classes/MultiComponentMesh.py * Updated stuff with new version of DAE data type * (Hopefully) faster test for WSCC9 * Test for DAEMesh * Renaming * ..for DAEMesh.py * Bug fix * Another bug fix.. * Preparation for PDAE stuff (?) * Changes + adapted first test for PDAE stuff * Commented out test_WSCC9_SDC_detection() - too long runtime * Minor changes for test_DAEMesh.py * Extended test for DAEMesh - credits for @brownbaerchen * Test for HookClass_DAE.py * Update for DAEMesh + tests * 🎉 - speed up test a bit (at least locally..) * Forgot to enable other tests again * Removed if-else-statements for mesh type * View for unknowns in implSysFlatten * Fix for RK sweeper - changed nodes in BackwardEuler class (Parallel-in-Time#403) * Made aborting the step at growing residual optional (Parallel-in-Time#405) * `pySDC`-build-in `LagrangeApproximation` class in `SwitchEstimator` (Parallel-in-Time#406) * SE now uses LagrangeApproximation class + removed Lagrange class in SE * Removed log message again (not corresponding to PR) * version bump * Added hook for logging to file (Parallel-in-Time#410) * Monodomain project (Parallel-in-Time#407) * addded some classes from oldexplicit_stabilized branch. Mainly, the problems description, datatype classes, explicit stabilized classes. Tested for IMEX on simple problems * added implicit,explicit,exponential integrator (in electrophysiology aka Rush-Larsen) * added exponential imex and mES, added parabolic_system in vec format * added new stabilized integrators using multirate, splitting and exponential approaches * before adding exponential_runge_kutta as underlying method, instead of the traditional collocation methods * added first order exponential runge kutta as underlying collocation method. To be generalized to higher order * generalized exponential runge kutta to higher order. Added exponential multirate stabilized method using exponential RK but must tbe checked properly * fixed a few things * optimized a few things * renamed project ExplicitStabilized to Monodomain * removed deprecated problems * fixed some renaming issues * did refactoring of code and put in Monodomain_NEW * removed old code and renamed new code * added finite difference discretization * added many things, cant remember * old convergence_controller * addded some classes from oldexplicit_stabilized branch. Mainly, the problems description, datatype classes, explicit stabilized classes. Tested for IMEX on simple problems * added implicit,explicit,exponential integrator (in electrophysiology aka Rush-Larsen) * added exponential imex and mES, added parabolic_system in vec format * added new stabilized integrators using multirate, splitting and exponential approaches * before adding exponential_runge_kutta as underlying method, instead of the traditional collocation methods * added first order exponential runge kutta as underlying collocation method. To be generalized to higher order * generalized exponential runge kutta to higher order. Added exponential multirate stabilized method using exponential RK but must tbe checked properly * fixed a few things * optimized a few things * renamed project ExplicitStabilized to Monodomain * removed deprecated problems * fixed some renaming issues * did refactoring of code and put in Monodomain_NEW * removed old code and renamed new code * added finite difference discretization * added many things, cant remember * added smooth TTP model for conv test, added DCT for 2D and 3D problems * added plot stuff and run scripts * fixed controller to original * removed explicit stabilized files * fixed other files * removed obsolete splittings from ionic models * removed old sbatch scripts * removed mass transfer and sweeper * fixed something * removed my base transfer * removed hook class pde * removed FD files * fixed some calls to FD stuff * removed FEM FEniCSx files * renamed FD_Vector to DCT_Vector * added hook for output and visualization script * removed plot scripts * removed run scripts, except convergence * removed convergence experiments script * fixed TestODE * added stability test in run_TestODE * added stability test in run_TestODE * added stability test in run_TestODE * removed obsolete stuff in TestODE * removed unneeded stuff from run_MonodomainODE * cleaned a bit run_MonodomainODE * removed utils/ * added few comments, cleaned a bit * removed schedule from workflow * restored tutorial step 7 A which I has modified time ago * run black on monodomain project * fixed a formatting thing * reformatted everything with black * Revert "revert formatted with black" This reverts commit 82c82e9. * added environment file for monodomain project, started to add stuff in workflow * added first test * added package tqdm to monodomain environment * added new TestODE using DCT_vectors instead of myfloat, moved phi_eval_lists from MonodomainODE to the sweeper * deleted old TestODE and myfloat stuff * renamed TestODEnew to TestODE * cleaned a bit * added stability, convergence and iterations tests. Changed a bit other scripts as needed * reactivated other tests in workflow * removed my tests temporarly * added monodomain marker to project pyproject.toml * changed files and function names for tests * fixed convergence test * made one test a bit shorter * added test for SDC on HH and fixed missing feature in SDC imex sweeper for monodomain * reformatted with correct black options * fixed a lint error * another lint error * adding tests with plot * modified convergence test * added test iterations in parallel * removed plot from tests * added plots without writing to file * added write to file * simplified plot * new plot * fixed plot in iterations parallel * added back all tests and plots * cleaned a bit * added README * fixed readme * modified comments in controllers * try to compute phi every step * removed my controllers, check u changed before comuting phis * enabled postprocessing in pipeline * added comments to data_type classes, removed unnecessary methods * added comments to hooks * added comments to the problem classes * added comments to the run scripts * added comments to sweepers and transfer classes * fixed the readme * decommented if in pipeline * removed recv_mprobe option * changed back some stuff outiside of monodomain project * same * again * fixed Thomas hints * removed old unneeded move coverage folders * fixed previously missed Thomas comments * begin change datatype * changed run_Monodomain * added prints * fixed prints * mod print * mod print * mod print * mod print * rading init val * rading init val * removed prints * removed prints * checking longer time * checking longer time * fixed call phi eval * trying 2D * trying 2D * new_data type passing tests * removed coverage folders * optmized phi eval lists * before changing phi type * changed eval phi lists * polished a bit * before switch indeces * reformatted phi computaiton to its traspose * before changing Q * optimized integral of exp terms * changed interfate to c++ code * moved definition of dtype u f * tests passed after code refactoring * Generic MPI FFT class (Parallel-in-Time#408) * Added generic MPIFFT problem class * Fixes * Generalized to `xp` in preparation for GPUs * Fixes * Ported Allen-Cahn to generic MPI FFT implementation * Ported Gray-Scott to generic MPI FFT (Parallel-in-Time#412) * Ported Gray-Scott to generic MPI FFT class * `np` -> `xp` * Reverted poor changes * Update README.md (Parallel-in-Time#413) Added the ExaOcean grant identified and the "Supported by the European Union - NextGenerationEU." clause that they would like us to display. * TIME-X Test Hackathon @ TUD: Test for `SwitchEstimator` (Parallel-in-Time#404) * Added piecewise linear interpolation to SwitchEstimator * Started with test for SwitchEstimator [WIP] * Test to proof sum_restarts when event occuring at boundary * Started with test to check adapt_interpolation_info [WIP] * Added test for SE.adapt_interpolation_info() * Update linear interpolation + logging + changing tolerances * Test for linear interpolation + update of other test * Correction for finite difference + adaption tolerance * Added test for DAE case for SE * Choice of FD seems to be important for performance of SE * Removed attributes from dummy probs (since the parent classes have it) * Test for dummy problems + using functions from battery_model.py * Moved standard params for test to function * Updated hardcoded solutions for battery models * Updated hardcoded solutions for DiscontinuousTestODE * Updated docu in SE for FDs * Lagrange Interpolation works better with baclward FD and alpha=0.9 * Added test for state function + global error * Updated LogEvent hooks * Updated hardcoded solutions again * Adapted test_problems.py * Minor changes * Updated tests * Speed-up test for buck converter * Black.. * Use msg about convergence info in Newton in SE * Moved dummy problem to file * Speed up loop using mask * Removed loop * SDC-DAE sweeper for semi-explicit DAEs (Parallel-in-Time#414) * Added SI-SDC-DAE sweeper * Starte with test for SemiImplicitDAE * Test for SI-SDC sweeper * Clean-up * Removed parameter from function * Removed test + changed range of loop in SI-sweeper --------- Co-authored-by: Robert Speck <pancetta@users.noreply.github.com> Co-authored-by: Thomas Baumann <39156931+brownbaerchen@users.noreply.github.com> Co-authored-by: Thomas <t.baumann@fz-juelich.de> Co-authored-by: Ikrom Akramov <96234984+ikrom96git@users.noreply.github.com> Co-authored-by: Thibaut Lunet <thibaut.lunet@tuhh.de> Co-authored-by: Lisa Wimmer <68507897+lisawim@users.noreply.github.com> Co-authored-by: Giacomo Rosilho de Souza <jackrosilho@gmail.com> Co-authored-by: Daniel Ruprecht <danielru@users.noreply.github.com> commit 24cdf05 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Wed Apr 24 09:11:38 2024 +0200 Split installation and running into two jobs As one of the two jobs often failed during installation, while the other one succeeded. So it might be a race condition. Therefore, splitting installation and usage into separate jobs commit 488e7a4 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Wed Apr 24 08:34:59 2024 +0200 ci_pipeline.yml now more similar to upstream commit 9ab9b63 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Tue Apr 23 15:36:39 2024 +0200 Reduced diff to master commit cdb77d4 Author: jakob-fritz <37077134+jakob-fritz@users.noreply.github.com> Date: Mon Apr 22 16:46:44 2024 +0200 WIP: Use HPC for CI (Parallel-in-Time#386) Works on Parallel-in-Time#415 Added sync with Gitlab, now also for pull requests --------- Co-authored-by: Robert Speck <pancetta@users.noreply.github.com> and Thomas Baumann <brownbaerchen@users.noreply.github.com> commit fb4b745 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Mon Apr 22 16:02:49 2024 +0200 Moved development of action into main branch and added version-tag commit 7de7187 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Mon Apr 22 11:19:53 2024 +0200 Added triggers for workflows again commit 5f45785 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Thu Apr 18 14:22:13 2024 +0900 Updated name of step, as merge is not ff-only anymore commit 2e9930f Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Wed Apr 17 13:36:44 2024 +0900 Wrong syntax for if else commit e33a611 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Wed Apr 17 13:33:40 2024 +0900 Unshallow repo if needed commit c7db47a Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Wed Apr 17 13:18:26 2024 +0900 Add name and email for merge-commit commit f34de9c Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Wed Apr 17 12:09:20 2024 +0900 Also allow non-fast-forward merges commit 82d9233 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Wed Apr 17 11:49:56 2024 +0900 Don't run mirror on push now (as gitlab-file is incorrect in this branch) commit d1b7250 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Wed Apr 17 11:49:02 2024 +0900 Make unshallow before merging to properly compare history commit 9cfeea3 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Wed Apr 17 11:17:48 2024 +0900 Changed way to use variables (set locally and later in github_env) commit 6961ef3 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Tue Apr 16 16:31:51 2024 +0900 Reverted and changed way to store variable commit d906604 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Tue Apr 16 16:21:54 2024 +0900 Redone storing of var again commit faec097 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Tue Apr 16 14:50:56 2024 +0900 Corrected querying of a variable commit cbf0b5d Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Tue Apr 16 13:57:31 2024 +0900 Added more reporting for better debugging commit efdaa05 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Tue Apr 16 13:23:08 2024 +0900 Don't run main CI during development commit ccd646a Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Tue Apr 16 13:22:44 2024 +0900 First fetch, to be able to checkout branch commit 2712998 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Tue Apr 16 12:15:13 2024 +0900 Don't rerun CI on every push during this development commit 8a316e2 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Tue Apr 16 12:14:31 2024 +0900 Moved the check of condition from shell to yaml commit d347bd3 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Tue Apr 16 11:52:02 2024 +0900 Try to merge code (from PR) first So that merged state is tested in Gitlab-CI commit bcd64a5 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Mon Feb 5 11:25:43 2024 +0100 Use specific version of github2lab action commit 28472dc Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Mon Jan 29 15:10:38 2024 +0100 Uses newer checkout-action to use new node-version (20) Version 16 is deprecated commit fefe88b Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Mon Jan 29 14:53:18 2024 +0100 Minor formatting updates in README to trigger CI commit 3de1b56 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Fri Jan 26 16:13:53 2024 +0100 Formatted md-file to trigger CI commit ef6a866 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Thu Jan 18 15:48:25 2024 +0100 Set sha for checkout properly commit be3aef7 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Mon Jan 15 16:14:41 2024 +0100 Using default shallow checkout Otherwise, other own action complains commit f38f0e5 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Mon Jan 15 16:11:05 2024 +0100 Updated ref to use lastest code from PR; not merge Previously, a version of the code was used that was how a merge could look like. Now, the code is used as it is in the PR commit 249741b Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Mon Jan 15 08:47:45 2024 +0100 Updated workflow for mirroring commit d8604b7 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Mon Jan 8 16:39:49 2024 +0100 Try exapnding the predefined variable commit c49accd Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Mon Jan 8 16:37:10 2024 +0100 Another attempt to get the action to work commit 5e0118a Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Mon Jan 8 16:28:51 2024 +0100 Hopefully now, variable is expanded instead using the name commit 832e7e5 Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Mon Jan 8 16:07:29 2024 +0100 Exit instead of return needed Because exiting the shell instead of a function commit 5a5de4a Author: Jakob Fritz <j.fritz@fz-juelich.de> Date: Mon Jan 8 12:00:55 2024 +0100 First version of CI to mirror pull_requests to Gitlab If someone with write-permissions triggered the workflow
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