It's come to my attention (one helpful email, plus some snarky subtweets) that the --cpu flag of HMMER3 search programs may have a bad interaction with some cluster management software. The --cpu n argument is documented as the "number of parallel CPU workers to use for multithreads". Typically, you want to set n to the number … Continue reading Thread count in HMMER3
We have two new open positions in the group. We are looking for a bioinformatics analyst and a scientific software engineer to join the teams that develop the HMMER and Infernal software packages for biological sequence analysis. The teams are growing, with a key new team member Nick Carter, who joined us from high performance … Continue reading New open positions
hmmer.org is moving off of Janelia tonight, into the great cloud. You may see some flakiness as DNS nameservers update.
HMMER web servers were officially launched today at the EMBL European Bioinformatics Institute (EBI) in Cambridge UK. You can read an EBI press release here. This marks the completion of the pilot HMMER server project at Janelia Farm and its transition to the EBI. All of this has been led by Rob Finn, now the … Continue reading HMMER mission control: we are go for launch vehicle separation(s)
The HMMER dev team is happy to announce a bugfix release of HMMER3.1, release 3.1 beta 2, aka 3.1b2. Following Google's ineffable lead in having perpetual beta test periods, 3.1 has been in beta test now for two years. When we said before that 3.1 will be released reasonably soon... "reasonably soon" continues to be … Continue reading HMMER 3.1 beta test 2 released
The HMMER dev team is happy to announce an upgrade release of HMMER3, release 3.1. A beta test version of the code is publicly available as a tarball available for download, or from hmmer.org, where you'll also find precompiled binary releases for Mac and Linux. HMMER 3.1 includes nhmmer and nhmmscan, programs for DNA/DNA homology … Continue reading HMMER3.1 beta test 1 released
Rob Finn's HMMER web services team is expanding. We're looking for people to apply to two new positions to help Rob and Jody push forward on some important ideas for our services. We're pushing in the direction of using more phylogenetic information (species trees) as we compute database homology searches and deliver the results -- … Continue reading Join Rob’s HMMER team