Developing a compiler for the XeonPhi (TR-2014-341)

The XeonPhi is a highly parallel x86 architecture chip made by Intel. It has a number of novel features which make it a particularly challenging target for the compiler writer. This paper describes the techniques used to port the Glasgow Vector Pascal Compiler (VPC) to this architecture and assess its performance by comparisons of the XeonPhi with 3 other machines running the same algorithms

Ecology of mountain sheep: effects of mining and precipitation

Thesis (M.S.) University of Alaska Fairbanks, 1999We examined effects of mining on mountain sheep (Ovis canadensis nelsoni) in California. Size of home range, forage quality, and diet did not differ between populations in mined and nonmined areas. During summer, we observed the greatest disparity in time spent feeding and diet quality. Because of their dependence on a spring adjacent to the mine, sheep may have spent more time vigilant, and less time feeding. Reducing mining during summer may benefit sheep. We also compared ecology of two female mountain sheep populations from different areas (xeric vs. mesic) in the Mojave Desert. The more xeric Panamint Range was typified by more bare ground, less shrubs, less grass, and larger home ranges than at Old Dad Peak. Females from Old Dad foraged on grasses, whereas those from the Panamints consumed shrubs. We concluded that sheep from the Panamints required larger home ranges because of lower-quantity and quality of forage

Advanced Prototype Fan Operating Experience, Post Test Evaluation, and Refurbishment for PLSS 2.0 Test Use

NASA s plans for Extravehicular Activity (EVA) portable life support systems for future exploration missions result in different design requirements than those which led to the combined fan / pump / separator in the current ISS Extravehicular Mobility Unit (EMU). To meet these new requirements, NASA contracted with Hamilton Sundstrand to provide two new prototype fans designed to meet anticipated future system requirements. Based on design trade studies, a high speed fan with mechanical bearing support of the rotating elements and a novel non-metallic barrier canned motor design was developed and implemented in the deliverable prototypes. The prototypes, which used two different bearing lubricants, have been extensively tested in both stand-alone and integrated system tests in NASA laboratories and proven to meet the anticipated performance requirements. Subsequently, they have been subjected to post test inspection and analysis in Hamilton Sundstrand laboratories to assess the effects of integrated operation and resultant exposure to vent loop contaminants. Results have confirmed expectations that one of the lubricants would be superior in this application and the prototype fans have been reassembled with new bearings with the superior lubricant. They have now been returned to the Johnson Space Center for further testing and maturation as part of NASA s PLSS 2.0 integrated test effort. This paper will discuss the test history of these units, resulting test data, the results of post test evaluation, and plans for further testing in the near future

Optimizing information flow in small genetic networks. I

In order to survive, reproduce and (in multicellular organisms) differentiate, cells must control the concentrations of the myriad different proteins that are encoded in the genome. The precision of this control is limited by the inevitable randomness of individual molecular events. Here we explore how cells can maximize their control power in the presence of these physical limits; formally, we solve the theoretical problem of maximizing the information transferred from inputs to outputs when the number of available molecules is held fixed. We start with the simplest version of the problem, in which a single transcription factor protein controls the readout of one or more genes by binding to DNA. We further simplify by assuming that this regulatory network operates in steady state, that the noise is small relative to the available dynamic range, and that the target genes do not interact. Even in this simple limit, we find a surprisingly rich set of optimal solutions. Importantly, for each locally optimal regulatory network, all parameters are determined once the physical constraints on the number of available molecules are specified. Although we are solving an over--simplified version of the problem facing real cells, we see parallels between the structure of these optimal solutions and the behavior of actual genetic regulatory networks. Subsequent papers will discuss more complete versions of the problem

Endoscopic identification and removal of an unusual symptomatic colonic foreign body

The discovery and removal of a life-threatening colonic wire suture using the flexible fiberoptic colonoscope has been described. Such reports demonstrate the versatility and usefulness of diagnostic and therapeutic endoscopic procedures.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/44387/1/10620_2005_Article_BF01308437.pd

Centimeter to decimeter hollow concretions and voids in Gale Crater sediments, Mars

Voids and hollow spheroids between ∼1 and 23 cm in diameter occur at several locations along the traverse of the Curiosity rover in Gale crater, Mars. These hollow spherical features are significantly different from anything observed in previous landed missions. The voids appear in dark-toned, rough-textured outcrops, most notably at Point Lake (sols 302-305) and Twin Cairns Island (sol 343). Point Lake displays both voids and cemented spheroids in close proximity; other locations show one or the other form. The spheroids have 1-4 mm thick walls and appear relatively dark-toned in all cases, some with a reddish hue. Only one hollow spheroid (Winnipesaukee, sol 653) was analyzed for composition, appearing mafic (Fe-rich), in contrast to the relatively felsic host rock. The interior surface of the spheroid appears to have a similar composition to the exterior with the possible exceptions of being more hydrated and slightly depleted in Fe and K. Origins of the spheroids as Martian tektites or volcanic bombs appear unlikely due to their hollow and relatively fragile nature and the absence of in-place clearly igneous rocks. A more likely explanation to both the voids and the hollow spheroids is reaction of reduced iron with oxidizing groundwater followed by some re-precipitation as cemented rind concretions at a chemical reaction front. Although some terrestrial concretion analogs are produced from a precursor siderite or pyrite, diagenetic minerals could also be direct precipitates for other terrestrial concretions. The Gale sediments differ from terrestrial sandstones in their high initial iron content, perhaps facilitating a higher occurrence of such diagenetic reactions

A dynamical model reveals gene co-localizations in nucleus

Co-localization of networks of genes in the nucleus is thought to play an important role in determining gene expression patterns. Based upon experimental data, we built a dynamical model to test whether pure diffusion could account for the observed co-localization of genes within a defined subnuclear region. A simple standard Brownian motion model in two and three dimensions shows that preferential co-localization is possible for co-regulated genes without any direct interaction, and suggests the occurrence may be due to a limitation in the number of available transcription factors. Experimental data of chromatin movements demonstrates that fractional rather than standard Brownian motion is more appropriate to model gene mobilizations, and we tested our dynamical model against recent static experimental data, using a sub-diffusion process by which the genes tend to colocalize more easily. Moreover, in order to compare our model with recently obtained experimental data, we studied the association level between genes and factors, and presented data supporting the validation of this dynamic model. As further applications of our model, we applied it to test against more biological observations. We found that increasing transcription factor number, rather than factory number and nucleus size, might be the reason for decreasing gene co-localization. In the scenario of frequency-or amplitude-modulation of transcription factors, our model predicted that frequency-modulation may increase the co-localization between its targeted genes

Fluvial to Lacustrine Facies Transitions in Gale Crater, Mars

NASA's Curiosity rover has documented predominantly fluvial sedimentary rocks along its path from the landing site to the toe of the Peace Vallis alluvial fan (0.5 km to the east) and then along its 8 km traverse across Aeolis Palus to the base of Aeolis Mons (Mount Sharp). Lacustrine facies have been identified at the toe of the Peace Vallis fan and in the lowermost geological unit exposed on Aeolis Mons. These two depositional systems provide end members for martian fluvial/alluvial-lacustrine facies models. The Peace Vallis system consisted of an 80 square kilometers alluvial fan with decimeter-thick, laterally continuous fluvial sandstones with few sedimentary structures. The thin lacustrine unit associated with the fan is interpreted as deposited in a small lake associated with fan runoff. In contrast, fluvial facies exposed over most of Curiosity's traverse to Aeolis Mons consist of sandstones with common dune-scale cross stratification (including trough cross stratification), interbedded conglomerates, and rare paleochannels. Along the southwest portion of the traverse, sandstone facies include south-dipping meter-scale clinoforms that are interbedded with finer-grained mudstone facies, interpreted as lacustrine. Sedimentary structures in these deposits are consistent with deltaic deposits. Deltaic deposition is also suggested by the scale of fluvial to lacustrine facies transitions, which occur over greater than 100 m laterally and greater than 10 m vertically. The large scale of the transitions and the predicted thickness of lacustrine deposits based on orbital mapping require deposition in a substantial river-lake system over an extended interval of time. Thus, the lowermost, and oldest, sedimentary rocks in Gale Crater suggest the presence of substantial fluvial flow into a long-lived lake. In contrast, the Peace Vallis alluvial fan onlaps these older deposits and overlies a major unconformity. It is one of the youngest deposits in the crater, and requires only short-lived, transient flows

The paleobiological record of photosynthesis

Fossil evidence of photosynthesis, documented in Precambrian sediments by microbially laminated stromatolites, cyanobacterial microscopic fossils, and carbon isotopic data consistent with the presence of Rubisco-mediated CO2-fixation, extends from the present to ~3,500 million years ago. Such data, however, do not resolve time of origin of O2-producing photoautotrophy from its anoxygenic, bacterial, evolutionary precursor. Though it is well established that Earth’s ecosystem has been based on autotrophy since its very early stages, the time of origin of oxygenic photosynthesis, more than 2,450 million years ago, has yet to be established