Automatic code generation for ATLAS communications drivers

ATLAS is a software development platform created in our Department. Among other benefits, it provides support to easily distribute applications over a network. In these applications, communications issues among the different processes should be faced. Pursuing to isolate application developers from the intricacies of these issues, communication drivers are automatically generated from an interface declaration of each process. This automatic code generation --not unlike the generation of stubs in CORBA from the IDL specification-- is the main topic of this report.Postprint (published version

Photography-based taxonomy is inadequate, unnecessary, and potentially harmful for biological sciences

The question whether taxonomic descriptions naming new animal species without type specimen(s) deposited in collections should be accepted for publication by scientific journals and allowed by the Code has already been discussed in Zootaxa (Dubois & Nemésio 2007; Donegan 2008, 2009; Nemésio 2009a–b; Dubois 2009; Gentile & Snell 2009; Minelli 2009; Cianferoni & Bartolozzi 2016; Amorim et al. 2016). This question was again raised in a letter supported by 35 signatories published in the journal Nature (Pape et al. 2016) on 15 September 2016. On 25 September 2016, the following rebuttal (strictly limited to 300 words as per the editorial rules of Nature) was submitted to Nature, which on 18 October 2016 refused to publish it. As we think this problem is a very important one for zoological taxonomy, this text is published here exactly as submitted to Nature, followed by the list of the 493 taxonomists and collection-based researchers who signed it in the short time span from 20 September to 6 October 2016

SARS-CoV-2 susceptibility and COVID-19 disease severity are associated with genetic variants affecting gene expression in a variety of tissues

Variability in SARS-CoV-2 susceptibility and COVID-19 disease severity between individuals is partly due to genetic factors. Here, we identify 4 genomic loci with suggestive associations for SARS-CoV-2 susceptibility and 19 for COVID-19 disease severity. Four of these 23 loci likely have an ethnicity-specific component. Genome-wide association study (GWAS) signals in 11 loci colocalize with expression quantitative trait loci (eQTLs) associated with the expression of 20 genes in 62 tissues/cell types (range: 1:43 tissues/gene), including lung, brain, heart, muscle, and skin as well as the digestive system and immune system. We perform genetic fine mapping to compute 99% credible SNP sets, which identify 10 GWAS loci that have eight or fewer SNPs in the credible set, including three loci with one single likely causal SNP. Our study suggests that the diverse symptoms and disease severity of COVID-19 observed between individuals is associated with variants across the genome, affecting gene expression levels in a wide variety of tissue types

A first update on mapping the human genetic architecture of COVID-19

peer reviewe

A Survey on curve and surface fairing

Sculptured or free-form surface design is a broadly used tool in industry. This report studies the existing automatic fairing methods for curves and surfaces. A classification is established and advantages and drawbacks of the methods are commented.Postprint (published version

Polylines, tubes and inflections. Some definitions, results and algorithms

In this paper we discuss on planar polylines and their inflections. This work derives from our interest in the problem of the fairing modification of a polyline curve whose movement is constrained by some tolerance requirements. We are interested in finding out the minimum number of inflections in a polyline satisfying those requirements. We introduce some new definitions and provide some results on the subject.Postprint (published version

A Survey on curve and surface fairing

Sculptured or free-form surface design is a broadly used tool in industry. This report studies the existing automatic fairing methods for curves and surfaces. A classification is established and advantages and drawbacks of the methods are commented

Polylines, tubes and inflections. Some definitions, results and algorithms

In this paper we discuss on planar polylines and their inflections. This work derives from our interest in the problem of the fairing modification of a polyline curve whose movement is constrained by some tolerance requirements. We are interested in finding out the minimum number of inflections in a polyline satisfying those requirements. We introduce some new definitions and provide some results on the subject

Automatic code generation for ATLAS communications drivers

ATLAS is a software development platform created in our Department. Among other benefits, it provides support to easily distribute applications over a network. In these applications, communications issues among the different processes should be faced. Pursuing to isolate application developers from the intricacies of these issues, communication drivers are automatically generated from an interface declaration of each process. This automatic code generation --not unlike the generation of stubs in CORBA from the IDL specification-- is the main topic of this report