Sustainable Software Ecosystems: Software Engineers, Domain Scientists, and Engineers Collaborating for Science

The development of scientific software is often a partnership between domain scientists and scientific software engineers. It is especially important to embrace these collaborations when developing advanced scientific software, where sustainability, reproducibility, and extensibility are important. In the ideal case, as discussed in this manuscript, this brings together teams composed of the world's foremost scientific experts in a given field with seasoned software developers experienced in forming highly collaborative teams working on software to further scientific research.Comment: 4 pages, submission for WSSSPE

Sustainable Software Ecosystems for Open Science

Sustainable software ecosystems are difficult to build, and require concerted effort, community norms and collaborations. In science it is especially important to establish communities in which faculty, staff, students and open-source professionals work together and treat software as a first-class product of scientific investigation-just as mathematics is treated in the physical sciences. Kitware has a rich history of establishing collaborative projects in the science, engineering and medical research fields, and continues to work on improving that model as new technologies and approaches become available. This approach closely follows and is enhanced by the movement towards practicing open, reproducible research in the sciences where data, source code, methodology and approach are all available so that complex experiments can be independently reproduced and verified.Comment: Workshop on Sustainable Software: Practices and Experiences, 4 pages, 3 figure

Building Near-Real-Time Processing Pipelines with the Spark-MPI Platform

Advances in detectors and computational technologies provide new opportunities for applied research and the fundamental sciences. Concurrently, dramatic increases in the three Vs (Volume, Velocity, and Variety) of experimental data and the scale of computational tasks produced the demand for new real-time processing systems at experimental facilities. Recently, this demand was addressed by the Spark-MPI approach connecting the Spark data-intensive platform with the MPI high-performance framework. In contrast with existing data management and analytics systems, Spark introduced a new middleware based on resilient distributed datasets (RDDs), which decoupled various data sources from high-level processing algorithms. The RDD middleware significantly advanced the scope of data-intensive applications, spreading from SQL queries to machine learning to graph processing. Spark-MPI further extended the Spark ecosystem with the MPI applications using the Process Management Interface. The paper explores this integrated platform within the context of online ptychographic and tomographic reconstruction pipelines.Comment: New York Scientific Data Summit, August 6-9, 201

Linking Hydro-Geophysics and Remote Sensing Technology for Sustainable Water and Agricultural Catchment Management

PosterThe acquisition of sub-surface data for agricultural purposes is traditionally achieved by in situ point sampling in the top 2m over limited target areas (farm scale ~ km2) and time periods. This approach is inadequate for integrated regional (water catchment ~ 100 km2) scale management strategies which require an understanding of processes varying over decadal time scales in the transition zone (~ 10’s m) from surface to bedrock. With global food demand expected to increase by 100% by 2050, there are worldwide concerns that achievement of production targets will be at the expense of water quality. In order to overcome the limitations of the traditional approach, this research programme will combine airborne and ground geophysics with remote sensing technologies to access hydrogeological and soil structure information on Irish Soils at multiple spatial scales. It will address this problem in the context of providing tools for the sustainable management of agricultural intensification envisioned in Food Harvest 2020 and Food Wise 2025 and considering the EU Habitats and Water Framework Directives (WFD), Clean Air Policy and Soil Thematic Strategies. The work will use existing ground based geophysical and hydrogeological data from Teagasc Agricultural Catchment Programme (ACP) and Heavy Soil sites co-located ground and airborne electromagnetic data. Neural Networks training and Machine learning approaches will supplement traditional geophysical workflows. Work will then focus on upscaling results from ACP to WFD catchment scale. This upscaling will require modification of traditional satellite remote sensing conceptual frameworks to analyse heterogeneous, multi-temporal data streams

Integrated responses to domestic violence: legally mandated intervention programmes for male perpetrators

International surveys have suggested that around one-third of all adult women will, at some point in their lifetime, experience abuse perpetrated by an intimate male partner. Domestic violence is considered to be one of the major risk factors affecting women’s health in Australia and there is a need for the community to respond in ways that reduce the likelihood of further violence occurring. One way of doing this is to deliver programs that aim to reduce the risk of known perpetrators committing further offences. This paper describes the outcomes of a Gold Coast program delivered to men who perpetrate domestic violence and who are legally obliged to participate. The data show that this type of program can produce positive changes in participants. However, the extent to which such changes lead to direct behavioural change is less clear and further research and evaluation is required to develop the evidence base that is needed to ensure that programs for perpetrators produce significant and enduring improvements to community safety.<br/

Combined Type II Odontoid Fracture with Jefferson's Fracture Treated with Temporary Internal Fixation

An 18-year-old male presented after a motor vehicle rollover accident. Computed tomography (CT) scan confirmed the diagnosis of Type II odontoid fracture. Considering the patient's young age and the limitations of C1-C2 fusion including significant loss of cervical rotation, temporary internal fixation with a lateral mass fixation of C1 and pedicle fixation of C2 without fusion was done. CT scan done at 6-month follow-up visit showed healed odontoid fracture and excellent C1-C2 alignment. At ninth postoperative month, internal fixation was removed. Patient had normal movements of cervical spine at 1-year follow-up. Temporary internal fixation can be an important tool in the armamentarium of the surgeon in treating type II odontoid fractures in young adults and children. This strategy avoids the complications halo fixation and immobilizes the unstable C1-C2 segment without fusion. Removal of the internal fixation after healing allows restoration of the rotational motion

Flight Testing of Guidance, Navigation and Control Systems on the Mighty Eagle Robotic Lander Testbed

During 2011 a series of progressively more challenging flight tests of the Mighty Eagle autonomous terrestrial lander testbed were conducted primarily to validate the GNC system for a proposed lunar lander. With the successful completion of this GNC validation objective the opportunity existed to utilize the Mighty Eagle as a flying testbed for a variety of technologies. In 2012 an Autonomous Rendezvous and Capture (AR&C) algorithm was implemented in flight software and demonstrated in a series of flight tests. In 2012 a hazard avoidance system was developed and flight tested on the Mighty Eagle. Additionally, GNC algorithms from Moon Express and a MEMs IMU were tested in 2012. All of the testing described herein was above and beyond the original charter for the Mighty Eagle. In addition to being an excellent testbed for a wide variety of systems the Mighty Eagle also provided a great learning opportunity for many engineers and technicians to work a flight program

Intraoperative transesophageal echocardiography during surgery for congenital heart defects

AbstractObjective: This study was undertaken to further define the impact of intraoperative transesophageal echocardiography during surgery for congenital heart disease and to determine appropriate indications. Methods: The impact of transesophageal echocardiography on patient care was assessed in 1002 patients who underwent this procedure during surgery for congenital heart defects. It had major impact when new information altered the planned procedure or led to a revision of the initial repair. The safety of intraoperative transesophageal echocardiography was evaluated by review of the prospective data sheets and the medical record. A simple relative cost analysis was also performed. Results: Patient median age was 9.9 years (range 2 days to 85 years). Transesophageal echocardiography had prebypass or postbypass major impact in 13.8% of cases (n = 138/1002). Major impact was more frequent during reoperations (P <.03). Procedures that benefited most from the additional information were valve repairs (aortic or atrioventricular) and complex outflow tract reconstructions. Partial anomalous pulmonary venous connection, tricuspid valve repair (other than of Ebstein anomaly), simple atrioventricular discordance, aortic arch anomalies, and secundum atrial septal defects had major impact rates less than 5%. No major complications occurred. Minor complications occurred in 1% of patients and were most often observed in infants smaller than 4 kg. Routine use of transesophageal echocardiography for all patients with congenital heart defects proved cost-effective. Conclusions: On the combined basis of the observed rates of major impact, the minimal complications, and the relative cost advantage, we believe that routine use of transesophageal echocardiography during most intracardiac repairs of congenital heart defects is justified, particularly for patients undergoing repeat operations for congenital cardiac malformations.J Thorac Cardiovasc Surg 2002;124:1176-8

A study of the norcaradiene-cycloheptatriene equilibrium in a series of azulenones by NMR spectroscopy; the impact of substitution on the position of equilibrium

A systematic investigation of the influence of substitution at positions C-2 and C-3 on the azulenone skeleton, based on NMR characterisation, is discussed with particular focus on the impact of the steric and electronic characteristics of substituents on the position of the norcaradiene-cycloheptatriene (NCD-CHT) equilibrium. Variable temperature (VT) NMR studies, undertaken to enable the resolution of signals for the equilibrating valence tautomers revealed, in addition, interesting shifts in the equilibrium