219 research outputs found
Large-scale DAQ tests for the LHCb upgrade
No full textThe Data Acquisition (DAQ) of the LHCb experiment[1] will be upgraded in 2020 to a high-bandwidth trigger-less readout system. In the new DAQ event fragments will be forwarded to the to the Event Builder (EB) computing farm at 40 MHz. Therefore the front-end boards will be connected directly to the EB farm through optical links and PCI Express based interface cards. The EB is requested to provide a total network capacity of 32Tb/s, exploiting about 500 nodes. In order to get the required network capacity we are testing various technology and network protocols on large scale clusters. We developed on this purpose an Event Builder implementation designed for an InfiniBand interconnect infrastructure. We present the results of the measurements performed to evaluate throughput and scalability measurements on HPC scale facilities
Salida de campo a La Tour du Valat y La Capeliére (La Camarga, Francia) el 21 de mayo de 1954
No full textSalida de campo a La Tour du Valat y La Capeliére (La Camarga, Francia) el 21 de mayo de 1954, de la que se anotaron observaciones sobre ranas, los siguientes peces: Anguilla anguilla (Anguila), "Carp. sol", Cyprinus carpio (Carpa) y Gambusia holbrooki (Gambusia), el reptil Natrix natrix (Culebra de collar, llamada Tropidonotus natrix por el autor), los siguientes mamíferos: Mus spicilegus (Ratón), Mustela nivalis (Comadreja) y Rattus norvegicus (Rata parda, llamada E.norvegicus por el autor), y las siguientes aves: Acrocephalus arundinaceus (Carricero tordal), Acrocephalus scirpaceus (Carricero común), Alauda arvensis (Alondra común), Anas platyrhynchos (Ánade azulón, también llamado Pato bravío por el autor), Anas strepera (Ánade friso), Apus sp. (Vencejo), Ardea purpurea (Garza imperial), Botaurus stellaris (Avetoro común), Burhinus oedicnemus (Alcaraván común), Carduelis sp. (seguramente, el Jilguero, C.carduelis), Chlidonias hybrida (Fumarel cariblanco), Circus aeruginosus (Aguilucho lagunero occidental), Corvus monedula (Grajilla, llamada Coloeus por el autor), Cuculus canorus (Cuco común), Delichon urbica (Avión común, llamado Chelidon urbica por el autor), Egretta garzetta (Garceta común), Emberiza schoeniclus (Escribano palustre), Falco biarmicus (Halcón Borni), Falco peregrinus (Halcón peregrino, también llamado Alcotán palomero), Falco tinnunculus (Cernícalo vulgar), Fulica sp. (Focha), Galerida cristata (Cogujada común), Glareola pratincola (Canastera común), Himantopus himantopus (Cigüeñuela común), Hirundo sp. (Golondrina), Ixobrychus minutus (Avetorillo común), Lanius senator (Alcaudón común), Larus argentatus (Gaviota argéntea), Larus ridibundus (Gaviota reidora), Locustella luscinioides (Buscarla unicolor), Luscinia megarhynchos (Ruiseñor común), Luscinia sp. (Ruiseñor o Pechiazul), "Lusciniola", Merops apiaster (Abejaruco europeo), Miliaria calandra (Triguero, llamada Emberiza calandra por el autor), Motacilla flava (Lavandera boyera), Netta rufina (Pato colorado), Nycticorax nycticorax (Martinete común), Oenanthe oenanthe (Collalba gris), Parus major (Carbonero común, también conocido como Chapin), Passer domesticus (Gorrión domestico), Perdiz (Alectoris sp. o Perdix sp.), Phoenicurus ochruros (Colirrojo tizón), Phylloscopus bonelli (Mosquitero papialbo), Pica pica (Urraca, llamada "marica" y "picarza" por el autor), Picus viridis (Pito real), Porzana parva (Polluela bastarda), Rallus aquaticus (Rascón europeo), Riparia riparia (Avión zapador), Saxicola rubetra (Tarabilla norteña), Sterna sp. (Charrán), Sternula sp., Streptopelia sp. (Tórtola), Sylvia atricapilla (Curruca capirotada), Sylvia communis (Curruca zarcera), Sylvia conspicillata (Curruca tomillera), Upupa epops (Abubilla, también llamada Bubillo por el autor) y Vanellus vanellus (Avefría europea). Incluye un taxiado de aves y datos de contenidos estomacales.Field trip to La Tour du Valat and La Capeliére (The Camargue, France) the 21st of May of 1954, of which there were noted observations about frogs, the following fishes: Anguilla anguilla (European Eel), "Carp. sol", Cyprinus carpio (Common Carp) and Gambusia holbrooki (Eastern Mosquitofish), the reptil Natrix natrix (Grass Snake, refered as Tropidonotus natrix by the author), the following mammals: Mus spicilegus (Mound-Building Mouse), Mustela nivalis (Least Weasel) and Rattus norvegicus (Brown Rat, refered as E.norvegicus by the author), and the following birds: Acrocephalus arundinaceus (Great Reed-warbler), Acrocephalus scirpaceus (Reed Warbler), Alauda arvensis (Eurasian Skylark), Anas platyrhynchos (Mallard), Anas strepera (Gadwall), Apus sp. (Swift), Ardea purpurea (Purple Heron), Botaurus stellaris (Great Bittern), Burhinus oedicnemus (Eurasian Thick-Knee), Carduelis cannabina (Pardillo común, llamada Colorín y Acanthis cannabina por el autor), Carduelis sp. (probably, the European Goldfinch, C.carduelis), Chlidonias hybrida (Whiskered Tern), Circus aeruginosus (Western Marsh-Harrier), Corvus monedula (Eurasian Jackdaw, refered as Coloeus by the author), Cuculus canorus (Common Cuckoo), Delichon urbica (House Martin, refered as Chelidon urbica by the author), Egretta garzetta (Little Egret), Emberiza schoeniclus (Reed Bunting), Falco biarmicus (Lanner Falcon), Falco peregrinus (Peregrine Falcon), Falco tinnunculus (Common Kestrel), Fulica sp. (Coot), Galerida cristata (Crested Lark), Glareola pratincola (Collared Pratincole), Himantopus himantopus (Black-winged Stilt), Hirundo sp. (Swallow), Ixobrychus minutus (Little Bittern), Lanius senator (Woodchat Shrike), Larus argentatus (Herring Gull), Larus ridibundus (Common Black-headed Gull), Locustella luscinioides (Savi´s Warbler), Luscinia megarhynchos (Common Nightingale) Luscinia sp. (Nightingale or Bluethroat), "Lusciniola", Merops apiaster (European Bee-eater), Miliaria calandra (Corn Bunting, refered as Emberiza calandra by the author), Motacilla flava (Yellow Wagtail), Netta rufina (Red-crested Pochard), Nycticorax nycticorax (Black-crowned Night Heron), Oenanthe oenanthe (Northern Wheatear), Partridge (Alectoris sp. or Perdix sp.), Parus major (Great Tit), Passer domesticus (House Sparrow), Phoenicurus ochruros (Black Redstart), Phylloscopus collybita (Common Chiffchaff), Pica pica (Black-billed Magpie), Picus viridis (Eurasian Green Woodpecker), Porzana parva (Little Crake), Rallus aquaticus (Water Rail), Riparia riparia (Sand Martin), Saxicola rubetra (Whinchat), Sterna sp. (Tern), Sternula sp., Streptopelia sp. (Turtle-dove), Sylvia atricapilla (Blackcap), Sylvia communis (Common Whitethroat), Sylvia conspicillata (Spectacled Warbler), Upupa epops (Eurasian Hoopoe) and Vanellus vanellus (Northern Lapwing). A birds census and data from stomach contents are included
Salida de campo por La Camarga (Provenza, Francia) el 12 de mayo de 1954
No full textSalida de campo por la reserva natural de La Camarga (Provenza, Francia), recorriendo Le Sambuc, La Tour du Valat, Villaneuve y La Capeliére, el 12 de mayo de 1954, de la que se anotaron observaciones sobre el pez Gambusia holbrooki (Gambusia), el reptil Rhinechis scalaris (Culebra de escalera, llamada Elaphe scalaris o Coluber scalaris por el autor), y las siguientes aves: Anas platyrhynchos (Ánade azulón, también llamado Pato bravío por el autor), Ardea sp. (Garza), Corvus monedula (Grajilla, llamada Coloeus por el autor), Cuculus canorus (Cuco común) , Egretta garzetta (Garceta común), Hippolais sp. (Zarcero), Lanius senator (Alcaudón común), Larus ridibundus (Gaviota reidora), Miliaria calandra (Triguero, llamada Emberiza calandra por el autor), Pica pica (Urraca, llamada "marica" y "picarza" por el autor) y Porzana porzana (Polluela pintoja).Field trip through the nature reserve of The Camargue (Provenza, Francia), travelling through Le Sambuc, La Tour du Valat, Villaneuve and La Capeliére, the 12th of May of 1954, of which there were noted observations about the fish Gambusia holbrooki (Eastern Mosquitofish), the reptil Rhinechis scalaris (Ladder Snake, refered as Elaphe scalaris by the author), and the following birds: Anas platyrhynchos (Mallard), Ardea sp. (Heron), Corvus monedula (Eurasian Jackdaw, refered as Coloeus by the author), Cuculus canorus (Common Cuckoo), Egretta garzetta (Little Egret), Hippolais sp. (Warbler), Lanius senator (Woodchat Shrike), Larus ridibundus (Common Black-headed Gull), Miliaria calandra (Corn Bunting, refered as Emberiza calandra by the author), Pica pica (Black-billed Magpie) and Porzana porzana (Spotted Crake)
Improvement of a Memory Profiling Tool, MALT
No full textProject Specification
This project focuses on improving the web-based user interface for the MALT memory profiling tool. In particular, it introduces a new and improved source code viewer which shows annotations for memory statistics on memory allocating lines on the source code. Also, it adds a new call-tree viewer to the interface which allows the user to browse through the function calls in the profiled program to see where memory is being allocated and freed and exactly how much.
Abstract
MALT is a memory profiling tool designed for profiling programs on the Linux platform. MALT generated profile data can be viewed in the MALT GUI which is a web-based program for visualizing data and exploring code.
To further the development of MALT GUI, we improved its Source Code Viewer by redesigning the page and replacing the code editor. We compare several syntax highlighters and code editors and describe why we used Prism.js library for syntax highlighting plus its advantages such as being faster, leaner and easier to extend. We also discuss the performance gains and reduction in page load time gained by these changes.
Also, we discuss the addition of a new feature to the MALT GUI called a Call Tree Viewer to generate and view Call Graphs with memory statistics. We compare several graphing libraries for their suitability to make a call graph and why we selected Graphviz for MALT GUI. We discuss the implementation of call tree for transforming and filtering the data before it is rendered and shown to the user
Ethernet for High-Throughput Computing at CERN
No full textWhen high throughput and utilization of fabric at close-to-the-link capacity are most needed in a cluster, Ethernet is a potential candidate, rivaling traditional HPC interconnects. The distributed real-time data acquisition at particle physics experiments presents an interesting use case. This article evaluates possible Ethernet-based solutions for aggregating data from hundreds of data sources at a throughput of dozens of Tb/s. This leads us to many-to-one data exchanges where we strive for a cost-optimized setup sustaining more than 80 % of the theoretical link-load. We investigate possible Ethernet-based traffic patterns to handle data acquisition on large multi-source apparatuses. Different numbers of producers and receivers and different link speeds are allowed in a large-scale network. Performance tests were conducted using customized benchmarks and evaluation test benches. The article presents tested scenarios and problems encountered in practice. We describe how our findings influenced the design of a large production system at CERN. We also present relevant general conclusions for a broader range of applications of Ethernet in HPC
Feasibility tests of RoCE for the cluster-based event building in LHCb
No full textThis paper evaluates the utilization of RDMA over Converged Ethernet (RoCE) for the Run3 LHCb event building at CERN. The acquisition system of the detector will collect partial data from approximately 1000 separate detector streams. Total estimated throughput equals 40 terabits per second. Full events will be assembled for subsequent processing and data selection in the filtering farm of the online trigger. As a result, inter-node large-throughput transmissions with a combination of 100 and 25 Gigabit-per-second will be essential features of the system. Therefore, the data exchange mechanism of the cluster must utilize memory-lightweight data transmission protocols. In this work, the RoCE high-throughput kernel bypass Ethernet-based protocol is benchmarked as an applicable technology for the event building network. CPU and memory bandwidth utilization for RoCE-based data transmissions is investigated and discussed. A comparison of RoCE with InfiniBand protocol is presented. Preliminary performance results are discussed with the selected network hardware supporting the protocol. Relevant utilization and interoperability issues are detailed along with lessons learned along the road
Author response image 1.
No full textBiomarkers for patient selection are essential for the successful and rapid development of emerging targeted anti-cancer therapeutics. In this study, we report the discovery of a novel patient selection strategy for the p53–HDM2 inhibitor NVP-CGM097, currently under evaluation in clinical trials. By intersecting high-throughput cell line sensitivity data with genomic data, we have identified a gene expression signature consisting of 13 up-regulated genes that predicts for sensitivity to NVP-CGM097 in both cell lines and in patientderived xenograft models. Interestingly, these 13 genes are known p53 downstream target genes, suggesting that the identified gene signature reflects the presence of at least a partially activated p53 pathway in NVP-CGM097-sensitive tumors. Together, our findings provide evidence for the use of this newly identified predictive gene signature to refine the selection of patients with wild-type p53 tumors and increase the likelihood of response to treatment with p53–HDM2 inhibitors, such as NVP-CGM097
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