Tag: viennaRNA

Installing and importing viennaRNA to python in windows 1 Hello, I’ve tried to install and import viennaRNA python package on a windows computer in many different ways, but none of them succeeded. (eventually I always get to ‘no module named ‘RNA” message). Do anyone know what will be the right…

Quesada A, Vincent WF. Strategies of adaptation by antarctic cyanobacteria to ultraviolet radiation. Eur J Phycol. 1997;32:335–42. Article  Google Scholar  Genuário DB, Corrêa DM, Komárek J, Fiore MF. Characterization of freshwater benthic biofilm-forming Hydrocoryne (Cyanobacteria) isolates from Antarctica. J Phycol. 2013;49:1142–53. Article  PubMed  Google Scholar  Makhalanyane TP, Valverde A, Gunnigle…

You are receiving this mail as a port that you maintain is failing to build on the FreeBSD package build server. Please investigate the failure and submit a PR to fix build. Maintainer: y…@freebsd.org Log URL: pkg-status.freebsd.org/ampere2/data/main-armv7-default/p08943441f26e_s6e92fc9309/logs/viennarna-2.6.3.log Build URL: pkg-status.freebsd.org/ampere2/build.html?mastername=main-armv7-default&build=p08943441f26e_s6e92fc9309 Log: =>> Building biology/viennarna build started at Mon Oct 16…

You are receiving this mail as a port that you maintain is failing to build on the FreeBSD package build server. Please investigate the failure and submit a PR to fix build. Maintainer: y…@freebsd.org Log URL: pkg-status.freebsd.org/ampere2/data/main-arm64-default/p85ccf094713a_sc584bb9cac1/logs/viennarna-2.6.3.log Build URL: pkg-status.freebsd.org/ampere2/build.html?mastername=main-arm64-default&build=p85ccf094713a_sc584bb9cac1 Log: =>> Building biology/viennarna build started at Sat Sep 23…

The model of [20] considers loops as freely jointed charged chains and helices as parallel rods interacting via Debye-Hückel potentials and uses Manning’s framework to model counter-ions condensation. This results in distinct types of correction terms from loops and helices, which we describe separately in the following. In either case…

You are receiving this mail as a port that you maintain is failing to build on the FreeBSD package build server. Please investigate the failure and submit a PR to fix build. Maintainer: y…@freebsd.org Log URL: pkg-status.freebsd.org/beefy18/data/main-amd64-default/p8fb94260154e_s510fd83138/logs/viennarna-2.5.1.log Build URL: pkg-status.freebsd.org/beefy18/build.html?mastername=main-amd64-default&build=p8fb94260154e_s510fd83138 Log: =>> Building biology/viennarna build started at Sat Jul 15…

Gaucherand, L. & Gaglia, M. M. The role of viral RNA degrading factors in shutoff of host gene expression. Annu. Rev. Virol. 9, 213–238 (2022). Article  PubMed  Google Scholar  Bercovich-Kinori, A. et al. A systematic view on influenza induced host shutoff. eLife 5, e18311 (2016). Article  PubMed  PubMed Central  Google…

Before figuring out #12, an easier thing to implement would be a PyPI package that does not include NUPACK or ViennaRNA. This would slightly simplify the instructions for installation, even though it would remain necessary to install NUPACK and ViennaRNA to use most pre-packaged constraints. I recall that NUPACK has…

Mirdeep2 Installation (Error In Make_Html.Pl) 1 Hi, I am trying to install mirdeep2. At the last step, I tested make_html.pl and error appeared as following: [liran@ip14-mp2 tools]$ make_html.pl Can’t locate PDF/API2.pm in @INC (@INC contains: /home/liran/tools/mirdeep2/lib64/perl5 /home/liran/tools/ViennaRNA-2.1.2/install_dir/lib64/perl5 /usr/local/lib64/perl5 /usr/local/share/perl5 /usr/lib64/perl5/vendor_perl /usr/share/perl5/vendor_perl /usr/lib64/perl5 /usr/share/perl5 .) at /home/liran/tools/mirdeep2/make_html.pl line 9. BEGIN failed–compilation…

R for genes and sequences, using viennaRNA package (fold) Bioconductor version: 2.5 Package manipulating sequences with fold routines Author: Y. d’Aubenton-Carafa, A. Lucas & C. Thermes Maintainer: Antoine Lucas <lucas at cgm.cnrs-gif.fr> To install this package, start R and enter: source(“http://bioconductor.org/biocLite.R”) biocLite(“GeneRfold”) To cite this package in a publication, start…