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Abstract At present, there are two approaches that aim at explaining on physical grounds the psychoacoustic perception of consonance and dissonance for dyads, whose pioneers have been, respectively, Galilei and Helmholtz: One is based on the “compactness” of the waveform of the combined signal, while the other on the absence of “roughness” due to possible beats. We perform a detailed study of each approach and find that none of the associated model versions, not even the more refined ones, is fully satisfactory when faced to perceptual data on dyads. We show that combining the two approaches results instead in a surprisingly successful agreement with perceptual data: This demonstrates that compactness and roughness are both necessary ingredients for a phenomenological description of consonance and dissonance. Graphical abstract

Diffuse correlation spectroscopy (DCS) is an emerging diffuse optical technique that quantifies microvascular blood flow. In spite of the wide range of clinical/research applications, DCS instrumentation is not yet standardized. In this study, we have analyzed the effect of experimental parameters as the measurement duration time and the number of detectors, at different photon count-rates, on the precision of a DCS experiment. This provides a recipe for finding device and experimental settings that optimize the precision while balancing cost and temporal resolution.

Performance assessment and standardization are indispensable for instruments of clinical relevance in general and clinical instrumentation based on photon migration/diffuse optics in particular. In this direction, a multi-laboratory exercise was initiated with the aim of assessing and comparing their performances. 29 diffuse optical instruments belonging to 11 partner institutions of a European level Marie Curie Consortium BitMap1 were considered for this exercise. The enrolled instruments covered different approaches (continuous wave, CW; frequency domain, FD; time domain, TD and spatial frequency domain imaging, SFDI) and applications (e.g. mammography, oximetry, functional imaging, tissue spectroscopy). 10 different tests from 3 well-accepted protocols, namely, the MEDPHOT2 , the BIP3 , and the nEUROPt4 protocols were chosen for the exercise and the necessary phantoms kits were circulated across labs and institutions enrolled in the study. A brief outline of the methodology of the exercise is presented here. Mainly, the design of some of the synthetic descriptors, (single numeric values used to summarize the result of a test and facilitate comparison between instruments) for some of the tests will be discussed.. Future actions of the exercise aim at deploying these measurements onto an open data repository and investigating common analysis tools for the whole dataset.

This paper presents the experience in providing CERN users with direct online access to their EOS/CERNBox-powered user storage from Windows. In production for about 15 months, a High-Available Samba cluster is regularly used by a significant fraction of the CERN user base, following the migration of their central home folders from Microsoft DFS in the context of CERN’s strategy to move to open source solutions. We describe the configuration of the cluster, which is based on standard components: the EOS-backed CERNBox storage is mounted via FUSE, and an additional mount provided by CephFS is used to share the cluster’s state. Further, we describe some typical shortcomings of such a setup and how they were tackled. Finally, we show how such an additional access method fits in the bigger picture, where the storage is seamlessly accessed by user jobs, sync clients, FUSE/Samba mounts as well as the web UI, whilst aiming at a consistent view and user experience.

Over the recent years, a typical implementation of diffuse correlation spectroscopy (DCS) instrumentation has been adapted widely. However, there are no detailed and accepted recipes for designing such instrumentation to meet pre-defined signal-to-noise ratio (SNR) and precision targets. These require specific attention due to the subtleties of the DCS signals. Here, DCS experiments have been performed using liquid tissue simulating phantoms to study the effect of the detected photon count-rate, the number of parallel detection channels and the measurement duration on the precision and SNR to suggest scaling relations to be utilized for device design.

We present the LUCA device, a multi-modal platform combining eight-wavelength near infrared time resolved spectroscopy, sixteen-channel diffuse correlation spectroscopy and a clinical ultrasound in a single device. By simultaneously measuring the tissue hemodynamics and performing ultrasound imaging, this platform aims to tackle the low specificity and sensitivity of the current thyroid cancer diagnosis techniques, improving the screening of thyroid nodules. Here, we show a detailed description of the device, components and modules. Furthermore, we show the device tests performed through well established protocols for phantom validation, and the performance assessment for in vivo. The characterization tests demonstrate that LUCA device is capable of performing high quality measurements, with a precision in determining in vivo tissue optical and dynamic properties of better than 3%, and a reproducibility of better than 10% after ultrasound-guided probe repositioning, even with low photon count-rates, making it suitable for a wide variety of clinical applications.

CERNBox is the CERN cloud storage hub for more than 25,000 users at CERN. It allows synchronising and sharing files on all major desktop and mobile platforms (Linux, Windows, MacOSX, Android, iOS) providing universal, ubiquitous, online- and offline access to any data stored in the CERN EOS infrastructure. CERNBox also provides integration with other CERN services for big science: visualisation tools, interactive data analysis and real-time collaborative editing.Over the last two years, CERNBox has evolved from a pure cloud sync and share platform into a collaborative service, to support new applications such as DrawIO for diagrams and organigrams sketching, OnlyOffice and Collabora Online for documents editing, and DXHTML Gantt for project management, as alternatives to traditional desktop applications. Moving to open source applications has the advantage to reduce licensing costs and enables easier integration within the CERN infrastructure. This move from commercial software to open source solutions is part of the MALT project, led by the IT department at CERN to reduce the dependencies on commercial solutions.As part of the MALT project, CERNBox is the chosen solution to replace Home directories of the Windows DFS file system. Access to storage from Windows managed devices for end-users is largely covered by synchronization clients. However, online access using standard CIFS/SMB protocol is required for shared use-cases, such as central login services (Terminal Services) and visitor desktop computers. We present recent work to introduce a set of Samba gateways running in High Availability cluster mode to enable direct access to the CERNBox backend storage (EOS).

We present the current status of the LUCA project whose aim is to develop an innovative device combining ultrasound and diffuse optics for an improved screening of the thyroid cancer.

The CERN IT Storage group operates multiple distributed storage systems and is responsible for the support of the infrastructure to accommodate all CERN storage requirements, from the physics data generated by LHC and non-LHC experiments to the personnel users' files. EOS is now the key component of the CERN Storage strategy. It allows to operate at high incoming throughput for experiment data-taking while running concurrent complex production work-loads. This high-performance distributed storage provides now more than 250PB of raw disks and it is the key component behind the success of CERNBox, the CERN cloud synchronisation service which allows syncing and sharing files on all major mobile and desktop platforms to provide offline availability to any data stored in the EOS infrastructure. CERNBox recorded an exponential growth in the last couple of year in terms of files and data stored thanks to its increasing popularity inside CERN users community and thanks to its integration with a multitude of other CERN services (Batch, SWAN, Microsoft Office). In parallel CASTOR is being simplified and transitioning from an HSM into an archival system, focusing mainly in the long-term data recording of the primary data from the detectors, preparing the road to the next-generation tape archival system, CTA. The storage services at CERN cover as well the needs of the rest of our community: Ceph as data back-end for the CERN OpenStack infrastructure, NFS services and S3 functionality; AFS for legacy home directory filesystem services and its ongoing phase-out and CVMFS for software distribution. In this paper we will summarise our experience in supporting all our distributed storage system and the ongoing work in evolving our infrastructure, testing very-dense storage building block (nodes with more than 1PB of raw space) for the challenges waiting ahead.

Recently, multimodal imaging has gained an increasing interest in medical applications thanks to the inherent combination of strengths of the different techniques. For example, diffuse optics is used to probe both the composition and the microstructure of highly diffusive media down to a depth of few centimeters, but its spatial resolution is intrinsically low. On the other hand, ultrasound imaging exhibits the higher spatial resolution of morphological imaging, but without providing solid constitutional information. Thus, the combination of diffuse optical imaging and ultrasound may improve the effectiveness of medical examinations, e.g. for screening or diagnosis of tumors. However, the presence of an ultrasound coupling gel between probe and tissue can impair diffuse optical measurements like diffuse optical spectroscopy and diffuse correlation spectroscopy, since it may provide a direct path for photons between source and detector. A systematic study on the effect of different ultrasound coupling fluids was performed on tissue-mimicking phantoms, confirming that a water-clear gel can produce detrimental effects on optical measurements when recovering absorption/reduced scattering coefficients from time-domain spectroscopy acquisitions as well as particle Brownian diffusion coefficient from diffuse correlation spectroscopy ones. On the other hand, we show the suitability for optical measurements of other types of diffusive fluids, also compatible with ultrasound imaging.

Computing and software for big science 3(1), 7 (2019). doi:10.1007/s41781-018-0018-8, Particle physics has an ambitious and broad experimental programme for the coming decades. This programme requires large investments in detector hardware, either to build new facilities and experiments, or to upgrade existing ones. Similarly, it requires commensurate investment in the R&D of software to acquire, manage, process, and analyse the shear amounts of data to be recorded. In planning for the HL-LHC in particular, it is critical that all of the collaborating stakeholders agree on the software goals and priorities, and that the efforts complement each other. In this spirit, this white paper describes the R&D activities required to prepare for this software upgrade., Published by Springer International Publishing, Cham, Switzerland

Variations of cerebral blood flow during acute ischemia and total hemoglobin concentration were monitored in rabbit fetuses using a hybrid device based on diffuse correlation spectroscopy and near infrared diffuse optical spectroscopy

The CERN IT Storage group operates multiple distributed storage systems to support all CERN data storage requirements: the physics data generated by LHC and non-LHC experiments; object and file storage for infrastructure services; block storage for the CERN cloud system; filesystems for general use and specialized HPC clusters; content distribution filesystem for software distribution and condition databases; and sync&share cloud storage for end-user files. The total integrated capacity of these systems exceeds 0.6 Exabyte.Large-scale experiment data taking has been supported by EOS and CASTOR for the last 10+ years. Particular highlights for 2018 include the special HeavyIon run which was the last part of the LHC Run2 Programme: the IT storage systems sustained over 10GB/s to flawlessly collect and archive more than 13 PB of data in a single month. While the tape archival continues to be handled by CASTOR, the effort to migrate the current experiment workflows to the new CERN Tape Archive system (CTA) is underway.Ceph infrastructure has operated for more than 5 years to provide block storage to CERN IT private OpenStack cloud, a shared filesystem (CephFS) to HPC clusters and NFS storage to replace commercial Filers. S3 service was introduced in 2018, following increased user requirements for S3-compatible object storage from physics experiments and IT use-cases.Since its introduction in 2014N, CERNBox has become a ubiquitous cloud storage interface for all CERN user groups: physicists, engineers and administration. CERNBox provides easy access to multi-petabyte data stores from a multitude of mobile and desktop devices and all mainstream, modern operating systems (Linux, Windows, macOS, Android, iOS). CERNBox provides synchronized storage for end-user’s devices as well as easy sharing for individual users and e-groups. CERNBox has also become a storage platform to host online applications to process the data such as SWAN (Service for Web-based Analysis) as well as file editors such as Collabora Online, Only Office, Draw.IO and more. An increasing number of online applications in the Windows infrastructure uses CIFS/SMB access to CERNBox files.CVMFS provides software repositories for all experiments across the WLCG infrastructure and has recently been optimized to efficiently handle nightlybuilds. While AFS continues to provide general-purpose filesystem for internal CERN users, especially as $HOME login area on central computing infrastructure, the migration of project and web spaces has significantly advanced.In this paper, we report on the experiences from the last year of LHC RUN2 data taking and evolution of our services in the past year.. We will highlight upcoming changes and future improvements and challenges.

CERNBox is the CERN cloud storage hub. It allows synchronizing and sharing files on all major desktop and mobile platforms (Linux, Windows, MacOSX, Android, iOS) aiming to provide universal access and offline availability to any data stored in the CERN EOS infrastructure. With more than 16000 users registered in the system, CERNBox has responded to the high demand in our diverse community to an easily and accessible cloud storage solution that also provides integration with other CERN services for big science: visualization tools, interactive data analysis and real-time collaborative editing. Collaborative authoring of documents is now becoming standard practice with public cloud services, and within CERNBox we are looking into several options: from the collaborative editing of shared office documents with different solutions (Microsoft, OnlyOffice, Collabora) to integrating mark-down as well as LaTeX editors, to exploring the evolution of Jupyter Notebooks towards collaborative editing, where the latter leverages on the existing SWAN Physics analysis service. We report on our experience managing this technology and applicable use-cases, also in a broader scientific and research context and its future evolution with highlights on the current development status and future road map. In particular we will highlight the future move to an architecture based on micro services to easily adapt and evolve the service to the technology and usage evolution, notably to unify CERN home directory services.

Patient-specific 3D models obtained by the segmentation of volumetric diagnostic images play an increasingly important role in surgical planning. Surgeons use the virtual models reconstructed through segmentation to plan challenging surgeries. Many solutions exist for the different anatomical districts and surgical interventions. The possibility to bring the 3D virtual reconstructions with native radiological images in the operating room is essential for fostering the use of intraoperative planning. To the best of our knowledge, current DICOM viewers are not able to simultaneously connect to the picture archiving and communication system (PACS) and import 3D models generated by external platforms to allow a straight integration in the operating room. A total of 26 DICOM viewers were evaluated: 22 open source and four commercial. Two DICOM viewers can connect to PACS and import segmentations achieved by other applications: Synapse 3D® by Fujifilm and OsiriX by University of Geneva. We developed a software network that converts diffuse visual tool kit (VTK) format 3D model segmentations, obtained by any software platform, to a DICOM format that can be displayed using OsiriX or Synapse 3D. Both OsiriX and Synapse 3D were suitable for our purposes and had comparable performance. Although Synapse 3D loads native images and segmentations faster, the main benefits of OsiriX are its user-friendly loading of elaborated images and it being both free of charge and open source.

Troglostrongylus brevior is a neglected feline lungworm species, which has been increasingly reported in the Mediterranean area, although scant data are available on the respiratory alterations it causes in cats. Therefore, we describe the gross and histological lesions of a 20-week old kitten that succumbed due to the onset of a fulminant respiratory failure. At necropsy, a catarrhal exudate was observed in the airways, along with nematodes in the trachea and bronchi. The lungs were processed for histological examination and serial pulmonary sections were performed. A total of 14 nematodes were collected, being all morphologically and molecularly identified as T. brevior. Lungworms were histologically localized within the bronchial lumen, surrounded by an eosinophilic infiltrate. The presence of T. brevior in the airways has been histologically documented for the first time and its life-threatening potential is discussed.

Associating liver partition and portal vein ligation for staged hepatectomy (ALPPS) is a new procedure aimed at promoting the overgrowth of small future liver remnants (FLR). The role of ALPPS in hilar cholangiocarcinoma (h-CCA) is currently considered marginal because liver split in the presence of bile duct obstruction increases postoperative morbidity and mortality (Schadde et al. in Ann Surg 260:829-836,2014; Nadalin et al. in Z Gastroenterol 52:35-42,2014). Virtual liver split (Gall et al. in Ann Surg 261:e45-e46,2015) could improve the outcome of ALPPS in h-CCA.A 64-year-old woman with a type IIIA h-CCA without evidence of vascular involvement had a small FLR (FLR/body weight: 0.47 cmThe patient recovered promptly from step 1, with a 68 % increase in the volume of FLR by postoperative day (POD) 10 (FLR/body weight of 0.79 cmLaparoscopic ALPPS (Machado et al. in Ann Surg 256:e13,2012) and MWA on the intended split line (Gringeri and Boetto in Ann Surg 261:e42-e43,2015) have been recently described. The combination of these techniques with PBD allowed successful ALPPS in a patient with h-CCA.

Canine cutaneous mast cell tumor (MCT) is very common disease in dogs, this is more aggressive than in other species. The biologic behavior of MCT is highly variable and a more accurate prognosis for these tumors needs to performed. The proto-oncogene c-kit is known to play a critical role in development and function of mast cells (MC). The aim of this study was to evaluate the expression of immunohistochemical pattern of c-kit in MCTs and to correlate these results with MC density (MCD) and intratumoral microvessel density (MVD). Our results confirm that a more aggressive biologic behavior of canine MCT is associated with the increased c-kit expression, further suggesting a new role for c-kit, as a useful marker, in diagnostic pathology and in tumor progression.

The Tit-for-Tat strategy implemented in BitTorrent (BT) clients is generally considered robust to selfish behaviours. The authors of [1] support this belief studying how Tit-for-Tat can affect selfish peers who are able to set their upload bandwidth. They show that there is a "good" Nash Equilibrium at which each peer uploads at the maximum rate. In this paper we consider a different game where BT clients can change the number of connections to open in order to improve their performance. We study this game using the analytical framework of network formation games [2]. In particular we characterize the set of pairwise stable networks the peers can form and how the peers can dynamically reach such configurations.We also evaluate the loss of efficiency peers experience because of their lack of coordination: we find that the loss of efficiency is in general unbounded despite the utilization of the Tit-for-Tat strategy.

In the gLite grid model a site will typically have a Storage Element (SE) that has no direct mechanism for updating any central or experiment-specific catalogues. This loose coupling was a deliberate decision that simplifies SE design; however, a consequence of this is that the catalogues may provide an incorrect view of what is stored on a SE. In this paper, we present SynCat: a mechanism to allow catalogues to re-synchronise with SEs. The paper describes how catalogues can be sure, within certain tolerance, that files believed to be stored at various SEs are really stored there. SynCat also allows catalogues to be aware of transitory file metadata (such as whether a file normally stored on tape is currently available from disk) with low latency.

Storage Services are crucial components of the Worldwide LHC Computing Grid Infrastructure spanning more than 200 sites and serving computing and storage resources to the High Energy Physics LHC communities. Up to tens of Petabytes of data are collected every year by the four LHC experiments at CERN. To process these large data volumes it is important to establish a protocol and a very efficient interface to the various storage solutions adopted by the WLCG sites. In this work we report on the experience acquired during the definition of the Storage Resource Manager v2.2 protocol. In particular, we focus on the study performed to enhance the interface and make it suitable for use by the WLCG communities. At the moment 5 different storage solutions implement the SRM v2.2 interface: BeStMan (LBNL), CASTOR (CERN and RAL), dCache (DESY and FNAL), DPM (CERN), and StoRM (INFN and ICTP). After a detailed inside review of the protocol, various test suites have been written identifying the most effective set of tests: the S2 test suite from CERN and the SRM- Tester test suite from LBNL. Such test suites have helped verifying the consistency and coherence of the proposed protocol and validating existing implementations. We conclude our work describing the results achieved.

Holmium Laser Enucleation of the Prostate (HoLEP) is an endoscopic transurethral surgical technique for Benign Prostatic Hyperplasia (BPH) treatment that carries significant benefits compared with the traditional Trans-Urethral Resection of the Prostate (TURP). In HoLEP procedure the portion of the prostate with hyperplasia (adenoma) is cut under endoscopic view. Only a few experts in the world perform HoLEP, since the adenoma borders are not clearly visible in the 2D endoscopic images and consequently the clinicians have difficulties to orientate the laser.

Extensions of the randomized tournaments techniques introduced in [6,7] to approximate solutions of 1-median and diameter computation of finite subsets of general metric spaces are proposed. In the linear algorithms proposed in [6] (resp.[7]) randomized tournaments are played among the elements of an input subset S of a metric space. At each turn the residual set of winners is randomly partitioned in nonempty disjoint subsets of fixed size. The 1-median (resp. diameter) of each subset goes to the next turn whereas the residual elements are discarded. The algorithm proceeds recursively until a residual set of cardinality less than a given threshold is generated. The 1-median (resp. diameter) of such residual set is the approximate 1-median (resp. diameter) of the input set S. The ${\mathcal O}$(n log n) extensions proposed in this paper replace local single-winner tournaments by multiple-winners ones. Moreover consensus is introduced as multiple runs of the same tournament. Experiments on both synthetic and real data show that these new proposed versions give significantly better approximations of the exact solutions of the corresponding optimization problems.

We present the recipe and characterization for preparing liquid phantoms that are suitable for both near-infrared spectroscopy and diffuse correlation spectroscopy. The phantoms have well-defined and tunable optical and dynamic properties, and consist of a solution of water and glycerol with fat emulsion as the scattering element. The recipe takes into account the effect of bulk refractive index changes due to the addition of glycerol, which is commonly used to alter the sample viscosity. (c) 2018 Optical Society of America under the terms of the OSA Open Access Publishing Agreement

This paper focuses on improving computer network management by the adoption of artificial intelligence techniques. A logical inference system has being devised to enable automated isolation, diagnosis, and even repair of network problems, thus enhancing the reliability, performance, and security of networks. We propose a distributed multi-agent architecture for network management, where a logical reasoner acts as an external managing entity capable of directing, coordinating, and stimulating actions in an active management architecture. The active networks technology represents the lower level layer which makes possible the deployment of code which implement teleo-reactive agents, distributed across the whole network. We adopt the Situation Calculus to define a network model and the Reactive Golog language to implement the logical reasoner. An active network management architecture is used by the reasoner to inject and execute operational tasks in the network. The integrated system collects the advantages coming from logical reasoning and network programmability, and provides a powerful system capable of performing high-level management tasks in order to deal with network fault situations.