Technical note : TRACKFlow, a new versatile microscope system forfission track analysis

We here present TRACKFlow, a new system with dedicated modules for the fission track (FT) laboratory. It is based on the motorised Nikon Eclipse Ni-E upright microscope with the Nikon DS-Ri2 full frame camera and is embedded within the Nikon NIS-Elements Advanced Research software package. TRACKFlow decouples image acquisition from analysis to decrease schedule stress of the microscope. The system further has the aim of being versatile, adaptable to multiple preparation protocols and analysis approaches. It is both suited for small-scale laboratories and is also ready for upscaling to high-throughput imaging. The versatility of the system, based on the operators’ full access to the NIS-Elements package, exceeds that of other systems for FT and further expands to stepping away from the dedicated FT microscope towards a general microscope for Earth Sciences, including dedicated modules for FT research. TRACKFlow consists of a number of user-friendly protocols which are based on the well plate design that allows sequential scanning of multiple samples without the need of replacing the slide on the stage. All protocols include a sub-protocol to scan a map of the mount for easy navigation through the samples on the stage. Two protocols are designed for the External Detector Method (EDM) and the LA–ICP–MS apatite fission track (LAFT) approach, with tools for repositioning and calibration to the external detector. Two other tools are designed for large crystals, such as the Durango age standard and U-doped glass external detectors. These protocols generate a regular grid of points and inspect if each point is suitable for analysis. Both protocols also include an option to image each withheld point. One more protocol is included for the measurement of etch pit diameters and one last protocol prepares a list of coordinates for correlative microscopy. In a following phase of development TRACKFlow can be expanded towards fully autonomous calibration, grain detection and imaging

A Model-Based Approach To Requirements Analysis

A major task in designing embedded systems is the systematic elaboration of functional system requirements and their integration into the environment of the complete technical system. The main challenge is to handle the versatile tasks of coordinating a definition of behavior, which is appropriate to the problem. The problem- and design-specifications of the customer related product definition have to be adjusted with and integrated into the manifold requirements of the technical system design. Accordingly, the model-based requirements analysis and system-definition presented here defines a well-structured modeling approach, which systematically aids the goal-oriented formulation and adjustment of the different stakeholder-requirements with the aid of views onto the system and descriptive specification techniques. Thus it allows a clear specification of a consistent and complete system design. The central steps of this approach are implemented in a requirements management (RM) tool prototype called AutoRAI

Self-correcting multi-channel Bussgang blind deconvolution using expectation maximization (EM) algorithm and feedback

A Bussgang based blind deconvolution algorithm called self-correcting multi-channel Bussgang (SCMB) blind deconvolution algorithm was proposed. Unlike the original Bussgang blind deconvolution algorithm where the probability density function (pdf) of the signal being recovered is assumed to be completely known, the proposed SCMB blind deconvolution algorithm relaxes this restriction by parameterized the pdf with a Gaussian mixture model and expectation maximization (EM) algorithm, an iterative maximum likelihood approach, is employed to estimate the parameter side by side with the estimation of the equalization filters of the original Bussgang blind deconvolution algorithm. A feedback loop is also designed to compensate the effect of the parameter estimation error on the estimation of the equalization filters. Application of the SCMB blind deconvolution framework for binary image restoration, multi-pass synthetic aperture radar (SAR) autofocus and inverse synthetic aperture radar (ISAR) autofocus are exploited with great results.Ph.D.Committee Chair: Dr. Russell Mersereau; Committee Member: Dr. Doug Willams; Committee Member: Dr. Mark Richards; Committee Member: Dr. Xiaoming Huo; Committee Member: Dr. Ye (Geoffrey) L

The cooperative effects of channel length-bias, width asymmetry, gradient steepness, and contact-guidance on fibroblasts’ directional decision making

Cell migration in complex micro-environments, that are similar to tissue pores, is important for predicting locations of tissue nucleation and optimizing scaffold architectures. Firstly, how fibroblast cells - relevant to tissue engineering, affect each other’s directional decisions when encountered with a bifurcation of different channel lengths was investigated. It was found that cell sequence and cell mitosis influence the directional choices that the cells made while chemotaxing. Specifically, the fibroblasts chose to alternate between two possible paths - one longer and the other shorter - at a bifurcation. This finding was counter-intuitive given that the shorter path had a steeper chemoattractant gradient, and would thus be expected to be the preferred path, according to classical chemotaxis theory. Hence, a multiscale image-based modeling was performed in order to explain this behavior. It showed that consumption of the chemotactic signals by the neighboring cells led to the sequence-dependent directional decisions. Furthermore, it was also found that cellular division led to daughter cells making opposite directional choices from each other; even it meant that one of the daughter cells had to move against the chemotactic gradient, and overcome oncoming traffic of other cells. Secondly, a comparison of the effects of the various directional cues on the migration of individual fibroblast cells: including the chemoattractant concentration gradient, the channel width, and the contact-guidance was provided. Simple bifurcated mazes with two branches of different widths were created and fibroblasts were allowed to travel across these geometries by introducing a gradient of PDGF-BB at the ‘exit’ of the device. By incorporating image-based modeling methodology into the experimental approach, an insight into (i) how individual cells make directional decisions in the presence of complex migration cues and (ii) how the cell-cell interaction influences it was provided. It was found that a larger width ratio between the two bifurcated branches outdoes a gradient difference in attracting the cells. Also, when cells encounter a symmetric bifurcation (i.e., no difference between the branch widths), the gradient is predominant in deciding which path the cell will take. Then, in a symmetrical gradient field (i.e., inside a bifurcation of similar branch widths, and in the absence of any leading cells), the contact guidance is important for guiding the cells in making directional choices. Finally, these directional cues were ranked according to the order from the most importance to the least: vast gradient difference between the two branches, channel width bias, mild gradient difference, and contact-guidance

Uvođenje tehnika zasnovanih na modelu u razvoj aplikacija za ugradbene sustave s vremenskim ograničenjima

This paper investigates the feasibility of integrating legacy software processes and tools into the paradigm of model-based development of industrial real-time embedded systems. Research has been conducted on the example of using legacy assembly code for automatic code generation scheme inside MATLAB/Simulink environment. A sample Simulink model has been presented, code has been generated from it and its correctness has been validated by back-to-back comparison with the simulation results.Ovaj rad ispituje mogućnost integriranja naslije.enih procesa i alata za razvoj programske podrške namijenjene industrijskim ugradbenim računalnim sustavima s nametnutim vremenskim ograničenjima u paradigmu razvoja zasnovanog na modelu. Istraživanje je provedeno na primjeru korištenja naslijeđenog asemblerskog programskog koda pri automatskoj generaciji izvršnog koda unutar MATLAB/Simulink okruženja. Prikazan je primjer Simulink modela iz kojega je generiran kod čija je ispravnost utvrđena usporedbom s rezultatima simulacije

Focal position-controlled processing head for a laser pattern generator (LPG) for flexible micro-structuring

In micro-structuring processes a direct structuring of the substrate is, in most cases, not possible and therefore the profile is first obtained in photo resist and then, in a second step, transferred into the substrate. The resist structuring can be performed using the flexible characteristics of a laser pattern generator (LPG). In these processes, there is a beneficial relationship between the apparatus/equipment expense and the obtainable processing results. For a reproduceable processing result in all micro structuring tasks, good reproducibility of all process relevant parameters is required. In the application of a laser pattern generator, precise control of the focal position of the strongly focussed laser beam relative to the processing surface must be maintained. [Continues.