A Customized PSO Model for Large-Scale Many-Objective Software Package Restructuring Problem

Author(s):  
Amarjeet Prajapati
Keyword(s):  
1997 ◽  
Vol 08 (05) ◽  
pp. 1131-1140 ◽  
Author(s):  
J. Stadler ◽  
R. Mikulla ◽  
H.-R. Trebin

We report on implementation and performance of the program IMD, designed for short range molecular dynamics simulations on massively parallel computers. After a short explanation of the cell-based algorithm, its extension to parallel computers as well as two variants of the communication scheme are discussed. We provide performance numbers for simulations of different sizes and compare them with values found in the literature. Finally we describe two applications, namely a very large scale simulation with more than 1.23×109 atoms, to our knowledge the largest published MD simulation up to this day and a simulation of a crack propagating in a two-dimensional quasicrystal.


2019 ◽  
Vol 627 ◽  
pp. A175 ◽  
Author(s):  
S.-N. X. Medina ◽  
J. S. Urquhart ◽  
S. A. Dzib ◽  
A. Brunthaler ◽  
B. Cotton ◽  
...  

Context. Radio continuum surveys of the Galactic plane are an excellent way to identify different source populations such as planetary nebulae, H II regions, and radio stars and characterize their statistical properties. The Global View of Star Formation in the Milky Way (GLOSTAR) survey will study the star formation in the Galactic plane between −2° < ℓ < 85° and |b| < 1° with unprecedented sensitivity in both flux density (∼40 μJy beam−1) and range ofangular scales (∼1".5 to the largest radio structures in the Galaxy). Aims. In this paper we present the first results obtained from a radio continuum map of a 16-square-degree-sized region of the Galactic plane centered on ℓ = 32° and b = 0° (28° < ℓ < 36° and |b| < 1°). This map has a resolution of 18″ and a sensitivity of ∼60−150 μJy beam−1. Methods. We present data acquired in 40 h of observations with the VLA in D-configuration. Two 1 GHz wide sub-bands were observed simultaneously and they were centered at 4.7 and 6.9 GHz. These data were calibrated and imaged using the Obit software package. The source extraction was performed using the BLOBCAT software package and verified through a combination of visual inspection and cross-matching with other radio and mid-infrared surveys. Results. The final catalog consists of 1575 discrete radio sources and 27 large scale structures (including W43 and W44). By cross-matching with other catalogs and calculating the spectral indices (S(ν) ∝ να), we have classified 231 continuum sources as H II regions, 37 as ionization fronts, and 46 as planetary nebulae. The longitude and latitude distribution and negative spectral indices are all consistent with the vast majority of the unclassified sources being extragalactic background sources. Conclusions. We present a catalog of 1575 radio continuum sources and discuss their physical properties, emission nature, and relation to previously reported data. These first GLOSTAR results have increased the number of reliable H II regions in this part of the Galaxy by a factor of four.


Author(s):  
R. Qin

Large-scale Digital Surface Models (DSM) are very useful for many geoscience and urban applications. Recently developed dense image matching methods have popularized the use of image-based very high resolution DSM. Many commercial/public tools that implement matching methods are available for perspective images, but there are rare handy tools for satellite stereo images. In this paper, a software package, RPC (rational polynomial coefficient) stereo processor (RSP), is introduced for this purpose. RSP implements a full pipeline of DSM and orthophoto generation based on RPC modelled satellite imagery (level 1+), including level 2 rectification, geo-referencing, point cloud generation, pan-sharpen, DSM resampling and ortho-rectification. A modified hierarchical semi-global matching method is used as the current matching strategy. Due to its high memory efficiency and optimized implementation, RSP can be used in normal PC to produce large format DSM and orthophotos. This tool was developed for internal use, and may be acquired by researchers for academic and non-commercial purpose to promote the 3D remote sensing applications.


2019 ◽  
Author(s):  
N. Tessa Pierce ◽  
Luiz Irber ◽  
Taylor Reiter ◽  
Phillip Brooks ◽  
C. Titus Brown

The sourmash software package uses MinHash-based sketching to create “signatures”, compressed representations of DNA, RNA, and protein sequences, that can be stored, searched, explored, and taxonomically annotated. sourmash signatures can be used to estimate sequence similarity between very large data sets quickly and in low memory, and can be used to search large databases of genomes for matches to query genomes and metagenomes. sourmash is implemented in C++, Rust, and Python, and is freely available under the BSD license at http://github.com/dib-lab/sourmash.


2021 ◽  
Author(s):  
Markus D. Petters

Abstract. Tikhonov regularization is a tool for reducing noise amplification during data inversion. This work introduces RegularizationTools.jl, a general-purpose software package to apply Tikhonov regularization to data. The package implements well-established numerical algorithms and is suitable for systems of up to ~1000 equations. Included is an abstraction to systematically categorize specific inversion configurations and their associated hyperparameters. A generic interface translates arbitrary linear forward models defined by a computer function into the corresponding design matrix. This obviates the need to explicitly write out and discretize the Fredholm integral equation, thus facilitating fast prototyping of new regularization schemes associated with measurement techniques. Example applications include the inversion involving data from scanning mobility particle sizers (SMPS) and humidified tandem differential mobility analyzers (HTDMA). Inversion of SMPS size distributions reported in this work builds upon the freely-available software DifferentialMobilityAnalyzers.jl. The speed of inversion is improved by a factor of ~200, now requiring between 2 and 5 ms per SMPS scan when using 120 size bins. Previously reported occasional failure to converge to a valid solution is reduced by switching from the L-curve method to generalized cross-validation as the metric to search for the optimal regularization parameter. Higher-order inversions resulting in smooth, denoised reconstructions of size distributions are now included in DifferentialMobilityAnalyzers.jl. This work also demonstrates that an SMPS-style matrix-based inversion can be applied to find the growth factor frequency distribution from raw HTDMA data, while also accounting for multiply-charged particles. The outcome of the aerosol-related inversion methods is showcased by inverting multi-week SMPS and HTDMA datasets from ground-based observations, including SMPS data obtained at Bodega Bay Marine Laboratory during the Calwater 2/ACAPEX campaign, and co-located SMPS and HTDMA data collected at the U.S. Department of Energy observatory located at the Southern Great Plains site in Oklahoma, U.S.A. Results show that the proposed approaches are suitable for unsupervised, nonparametric inversion of large-scale datasets as well as inversion in real-time during data acquisition on low-cost reduced-instruction-set architectures used in single-board computers. The included software implementation of Tikhonov regularization is freely-available, general, and domain-independent, and thus can be applied to many other inverse problems arising in atmospheric measurement techniques and beyond.


2022 ◽  
Vol 254 ◽  
pp. 115217
Author(s):  
A.M. Moradi Sizkouhi ◽  
S.M. Esmailifar ◽  
M. Aghaei ◽  
M. Karimkhani

F1000Research ◽  
2019 ◽  
Vol 8 ◽  
pp. 1006 ◽  
Author(s):  
N. Tessa Pierce ◽  
Luiz Irber ◽  
Taylor Reiter ◽  
Phillip Brooks ◽  
C. Titus Brown

The sourmash software package uses MinHash-based sketching to create “signatures”, compressed representations of DNA, RNA, and protein sequences, that can be stored, searched, explored, and taxonomically annotated. sourmash signatures can be used to estimate sequence similarity between very large data sets quickly and in low memory, and can be used to search large databases of genomes for matches to query genomes and metagenomes. sourmash is implemented in C++, Rust, and Python, and is freely available under the BSD license at http://github.com/dib-lab/sourmash.


Author(s):  
Taghreed Justinia

This chapter introduces a guide to transcribing qualitative research interviews assisted by digital transcription software. It also provides practical advice on transcribing methods, conventions, and options. It is useful in its exploration of the challenges involved with transcribing, while it offers detailed solutions and advice for the novice researcher. The chapter also addresses key concerns, like the time it takes to transcribe, transcription tools, and digital versus analogue recordings. As a method chapter based on experiences from a case, it takes on a practical approach by demonstrating the benefits of data analysis software packages with examples and screenshots on how to specifically use the software package Express Scribe. The pros and cons of using a transcriptionist are also discussed. A real transcript is presented in the chapter, and the steps involved with developing and formatting it are offered in detail. The guidelines suggested in this chapter are concentrated on the pragmatic hands-on experience of a researcher with examples from a real life large-scale qualitative study based on in-depth interviews. The significance of transcribing within the analytical process and the methodological insights of using Express Scribe eventually emerge as a developing concept from this work.


2010 ◽  
Vol 11 (1) ◽  
pp. 574 ◽  
Author(s):  
Ruchi Chaudhary ◽  
Mukul S Bansal ◽  
André Wehe ◽  
David Fernández-Baca ◽  
Oliver Eulenstein

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