126,605 research outputs found
HI-FRIENDS participation in the SKA Data Challenge 2
No full textThis repository contains the workflow used to find and characterize the HI sources in the data cube of the SKA Data Challenge 2. This is developed by the HI-FRIENDS team. The execution of the workflow was conducted in the SP-SRC cluster at the IAA-CSIC. Documentation can be found in HI-FRIENDS SDC2 Documentation. The workflow is maintained in the hi-friends Github repository.
The files included are:
- HI-FRIENDS-SDC2/hi-friends-1.0.0.zip. The Github repository
- hi-friends-sdc2-workflow.tar.gz. Self-contained workflow archive produced by snakemake containing the code, the config files, and all software packages of each defined conda environment are included. Works in Linux, tried on Ubuntu 20.04.If you use this software, please cite it as below
Softshell turtle genome assemblies scaffolded with Hi-C data
No full textThis dataset, associated with our prospected publication by Kadota et al., contains softshell turtle genome assemblies based on Hi-C scaffolding. See the file "Assembly_ID.xlsx" for details of the combinations of tissue, enzyme, scaffolding program and parameters, and the number of input read pairs. Note that the scaffold IDs contained in the files are not systematically given according to their lengths. Laboratory for Phyloinformatics, RIKEN BDRhttps://www.bdr.riken.jp/en/research/labs/kuraku-s/</div
Hi-PACE/hipace: v22.03
No full textDependencies
AMReX: release 22.03
openPMD-api: release 0.14.4
What's Changed
update fixed ppc beams and a few other things in documentation by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/661
fix typo in table in documentation by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/664
Add serial compilation to CI by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/657
fix reset of initial plasma particle momentum by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/637
[mini] update doc on Spock by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/670
Fix crash in debug mode caused by missized geometry by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/672
Normalize explicit solver with nominal density rather than max density by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/673
Fix AMD small dst by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/669
Print FFT details by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/671
Fix failing CI caused by a change in AMReX by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/679
Use AMReX release 22.01 by default instead of latest development by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/681
clean documentation by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/682
Fix comm mask size after change to AMReX. by @atmyers in https://github.com/Hi-PACE/hipace/pull/684
Restore default behavior: use latest amrex development by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/685
[mini] remove a few spurious semi-colons by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/674
Fix typo in sort bin type by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/677
Pass Bins as const ref whenever possible by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/687
Add copyright header to all files by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/689
[mini] Add a few consts by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/693
fix indexing error causing crash in parallel runs by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/701
fix debug linking issue causing crash in Parser by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/702
Update release number in all files by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/704
Full Changelog: https://github.com/Hi-PACE/hipace/compare/v22.02...v22.0
Vapour reactive distillation process for hydrogen production by hi decomposition from hi-i2-h2o solutions
No full textIn this contribution, a sequential and hierarchical approach for the feasibility analysis and the preliminary design of reactive distillation columns is extended to systems involving vapour phase chemical reaction and is successfully applied to the HI vapour phase decomposition to produce H2.
The complex phase and physico chemical behaviour of the quaternary HI-H2-I2-H2O system is represented by the Neumann’s thermodynamic model and instantaneous vapour phase chemical equilibrium is assumed.
Then, from minimal information concerning the physicochemical properties of the system, three successive steps lead to the design of the unit and the specification of its operating conditions: the feasibility analysis, the synthesis and the design step. First, the analysis of reactive condensation curve map method (rCCM), assuming infinite internal liquid and vapour flow rate and infinite reflux ratio, is used to assess the feasibility of the process. It determines the column structure and estimates the attainable compositions. These results are used as inputs data for the synthesis step. Based on the boundary value design method (BVD), considering finite internal liquid and vapour flow rate and finite reflux ratio while neglecting all thermal effects and assuming a constant heat of vaporisation, the synthesis step provides more precise information about the process configuration (minimum reflux ratio, number of theoretical stages, localisation and number of reactive plates, position of the feed plate). Finally, the BVD method results are used to initialise rigorous simulations, based on an equilibrium stage model with energy balance, to estimate the reflux ratio taking into account thermal effect on the process.
The resulting design configuration consists in a single feed and entirely reactive distillation column. The column operates under a pressure of 22 bars. The feed of the reactive distillation column, coming from the Bunsen reaction section [xHI=0.10; xI2=0.39 xH2O=0.51], is at its boiling temperature. The residue consists in pure iodine. Water and produced hydrogen are recovered at the distillate. The column operates at a reflux ratio of 5 and is composed of 11 theoretical plates including the reboiler and the partial condenser with the feed at the stage 10 (counted downwards). The obtained HI dissociation yield is 99.6%
Hi-PACE/hipace: v23.07
No full textDependencies
AMReX: release 23.07
openPMD-api: release 0.15.1
What's Changed
Replace rho field with rho - jz/c by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/940
CI: apt retry and new Easyinstall link by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/930
make CI triggers consistent by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/938
Fix rocfft 5.5 by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/942
Option to symmetrize plasma by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/943
[mini] Document manip to build HiPACE++ release on corresponding AMReX release by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/944
Enable 3 MR levels by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/945
replace static with inline static for member variables by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/946
Use less than or equal for min_density by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/947
Don't use tiling in the plasma pusher by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/949
[mini] Read angularFrequency from mesh instead of from iteration by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/955
[mini] Fix plasma do_symmetrize by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/957
[mini] Fix b0 calculation in collisions by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/958
Implement OMP threading in missing functions by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/951
[mini] Fix formatting for HIPACE_PROFILE output by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/956
Gather Ez in loop over slices to gather from proper array by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/948
[mini] update documentation for Maxwell by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/960
[mini] Fix adaptive time step by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/959
Laser file reader can read from arbitrary box and domain by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/950
[mini] Remove unused variables by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/961
Reset plasma id at every call of Init by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/963
Update Beam and Plasma to Pure SoA by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/928
Laser reader in cylindrical coordinates by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/953
Fix collisions in normalized units by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/954
Enable ionization in normalized units by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/962
Add [z], [z^2], [uz], [uz^2] and [z*uz] to beam insitu diagnostics by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/964
Fix bug in intra-species Coulomb collisions by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/967
[mini] assert for normalized units when total charge is specified by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/969
fix compiler warning: use static_cast for extent by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/970
Plasma in-situ diags by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/968
add Bz component to beam pusher by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/973
Minor improvements for collision module. by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/972
Generalize external E and B fields to uniform and linear in all directions by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/965
add classical radiation reactions for beams by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/974
fix some issues with the collision module by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/976
MR with SALAME and PC by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/971
don't use managed memory by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/975
Add IntVect and RealVect overloads to queryWithParser by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/977
always use PhysConstSI in parser by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/978
Cleaning collisions and preparing UpdateMomentumPerez for beams by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/980
[mini] remove passing of ibox by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/982
Add option to allocate mpi buffers in device memory by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/979
Remove z component from plasma by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/984
[mini] clean GetInstance() and use static inline by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/981
remove OK assert by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/985
break loop over time steps for max_time by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/986
Fix output logic for insitu diags by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/987
Cut box to plasma radius in init by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/988
Refactoring documentation by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/989
Add beam-plasma collisions by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/983
[mini] document GPU-aware MPI for various clusters by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/992
[mini] reset ID incrementor before starting initializing a beam by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/994
Prepare release 23.07 by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/995
Full Changelog: https://github.com/Hi-PACE/hipace/compare/v23.05...v23.0
Hi-PACE/hipace: v22.01
No full textDependencies
AMReX: release 22.01
openPMD-api: release 0.14.3
What's Changed
Update doc on how to release by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/628
Remove 3D rendering from repo by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/629
Fix the scope of profiler for SYCL by @WeiqunZhang in https://github.com/Hi-PACE/hipace/pull/633
Zenodo: Update by @ax3l in https://github.com/Hi-PACE/hipace/pull/632
Doxygen: include static functions by @ax3l in https://github.com/Hi-PACE/hipace/pull/635
avoid amrex ref_ratio which does not exist without MR by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/636
Fix version number for release by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/638
Full Changelog: https://github.com/Hi-PACE/hipace/compare/v21.12.03...v22.0
Hi-PACE/hipace: v22.12
No full textDependencies
AMReX: release 22.12
openPMD-api: release 0.14.5
What's Changed
Update version number before release by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/812
Fix invalid CUDA device function error in HPMG by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/813
[mini] print number of iterations only for PC solver by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/816
Automatic Beam loading using a near direct SALAME algorithm by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/814
add documentation for Perlmutter by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/817
Fix errors in I/O by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/818
Use ReduceOp instead of AtomicAdd in AdaptiveTimeStep by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/820
[mini] option to not use the phase for laser envelope advance by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/821
clean up deposition using ParallelFor with compile time optimizations by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/819
Fix Juwels compile issue by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/825
[mini] Fix docstring of laser gather function by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/826
Enable multiple laser pulses by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/823
reset laser slices before DepositNeutralizingBackground by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/827
Remove spurious comments in laser handling by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/828
[mini] Enable laser transverse offset by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/830
Add derivative shape factors by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/831
Udate version number by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/832
Full Changelog: https://github.com/Hi-PACE/hipace/compare/v22.11...v22.1
Hi-PACE/hipace: v22.07
No full textDependencies
AMReX: release 22.07
openPMD-api: release 0.14.5
What's Changed
Fix debug crash from empty multifab by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/752
[mini] gpu synchronize after beam particle sort per slice by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/754
[mini] improve documentation on field_data by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/750
[mini] update link to paper by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/751
In-situ diagnostics by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/753
fix zero weight issue in insitu diagnostics by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/756
Fix documentation of Laser::InitData by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/759
[mini] make sure beam weights are >=0 by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/757
update openPMD-api to 0.14.5 by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/758
Generalize beam tilt to any function of z by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/760
use GetUStd per plasma instead of on MultiPlasma in explicit solver by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/761
Increase MPI message size limit for beam particles by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/762
add minimal plasma density, deprecate parabolic curvature by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/765
enable zmin, zmax for fixed weight beam by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/764
[mini] remove unused rp in plasma init by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/766
update version number by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/767
Full Changelog: https://github.com/Hi-PACE/hipace/compare/v22.06...v22.0
Hi-PACE/hipace: v22.11
No full textDependencies
AMReX: release 22.11
openPMD-api: release 0.14.5
What's Changed
Fix enforcePeriodic call for AMReX PR 2950 by @atmyers in https://github.com/Hi-PACE/hipace/pull/794
Multigrid smoother by @WeiqunZhang in https://github.com/Hi-PACE/hipace/pull/793
Add Array2 and Array3 to avoid unnecessary z index by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/776
Fix unwanted GPU memory access by CPU by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/798
Fix CPU depositing unnecessary currents by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/801
Don't synchronize after MFIter loops by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/797
Laser envelope solver (finally!) by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/743
reset chi in PC when using laser by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/806
Avoid spurious copies to/from GPU in laser MPI communication pattern by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/807
Fix memory access in BeamBins by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/799
Fix memory access in Fields::Copy by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/800
Use queryWithParserAlt in more places by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/796
MultiGrid Solver: More generic type of coefficients by @WeiqunZhang in https://github.com/Hi-PACE/hipace/pull/808
Option to use a more accurate discretisation for laser envelope by @MaxThevenet in https://github.com/Hi-PACE/hipace/pull/809
Directly deposit source terms for the explicit solver by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/805
add more subfolders to src/particles/ by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/810
Full Changelog: https://github.com/Hi-PACE/hipace/compare/v22.09...v22.1
Hi-PACE/hipace: v22.09
No full textDependencies
AMReX: release 22.09
openPMD-api: release 0.14.5
What's Changed
Fix adaptive time step by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/771
ensure that argument of sqrt in adaptive time step is positive by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/773
Extend MultiGrid solver to complex number system by @WeiqunZhang in https://github.com/Hi-PACE/hipace/pull/772
Clean up in-situ beam diagnostics by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/769
fix write_beam.py to use openPMD SCALAR by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/779
use modern numpy rng in write_beam.py by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/781
make arrays of explicit solver be part of Fields by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/774
change write_beam.py to LF by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/780
change Parser.cpp to LF by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/782
change write_atomic_data_cpp.py to LF by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/783
speed up deposition by 25% without shared memory by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/775
fix Hipace Profiler Wrapper by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/778
Initialize plasma properly to make deposition almost twice as fast by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/786
Fix functions using electron charge and mass by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/790
Add normalized_density_factor to in-situ data, fix doxygen for v1.9.5 by @AlexanderSinn in https://github.com/Hi-PACE/hipace/pull/791
update version tags by @SeverinDiederichs in https://github.com/Hi-PACE/hipace/pull/792
Full Changelog: https://github.com/Hi-PACE/hipace/compare/v22.07...v22.0
- …
