{"id":490,"date":"2022-01-27T19:49:34","date_gmt":"2022-01-27T19:49:34","guid":{"rendered":"https:\/\/terrabioappdev.wpenginepowered.com\/whats-new-in-the-terraverse-in-january-2022\/"},"modified":"2023-12-27T04:55:12","modified_gmt":"2023-12-27T04:55:12","slug":"whats-new-in-the-terraverse-in-january-2022","status":"publish","type":"post","link":"https:\/\/terra.bio\/whats-new-in-the-terraverse-in-january-2022\/","title":{"rendered":"What&#8217;s new in the Terraverse in January 2022"},"content":{"rendered":"<p><span style=\"font-weight: 400;\">While many of us have been having a rough start to the year 2022, there have nonetheless been some exciting news rolling out over the past few weeks in the Terra ecosystem. Here is a quick recap of the headlines to get you all caught up.\u00a0<\/span><\/p>\n<p>&nbsp;<\/p>\n<h3><span style=\"font-weight: 400;\">Journal appearances for Terra and the AnVIL\u00a0<\/span><\/h3>\n<p><span style=\"font-weight: 400;\">To kick off the year, Terra was featured in 2022&#8217;s first issue of Nature! Technology editor Jeffrey Perkel interviewed researchers who actively use Terra and summarized the key takeaways of their experiences in an insightful article that declares <\/span><a href=\"https:\/\/www.nature.com\/articles\/d41586-021-03822-7\"><span style=\"font-weight: 400;\">&#8220;Terra takes the pain out of \u2018omics\u2019 computing in the cloud&#8221;<\/span><\/a><span style=\"font-weight: 400;\">.\u00a0<\/span><\/p>\n<p><span style=\"font-weight: 400;\">Then <\/span><a href=\"https:\/\/www.cell.com\/cell-genomics\/fulltext\/S2666-979X(21)00106-3\"><span style=\"font-weight: 400;\">the AnVIL paper<\/span><\/a><span style=\"font-weight: 400;\"> came out in Cell Genomics the very next week. Led by Michael Schatz from Johns Hopkins University and featuring a proverbial football team of contributors, this landmark open access paper describes the purpose, architecture and usage of the AnVIL project, including Terra. (See also our previous blog post, <\/span><a href=\"https:\/\/terra.bio\/how-terra-fits-within-the-anvil-ecosystem\/\"><span style=\"font-weight: 400;\">How Terra fits within the AnVIL ecosystem<\/span><\/a><span style=\"font-weight: 400;\"> for a quick primer.)<\/span><\/p>\n<p>&nbsp;<\/p>\n<h3><span style=\"font-weight: 400;\">Singular Genomics to integrate new G4 sequencer with Terra\u00a0<\/span><\/h3>\n<p><span style=\"font-weight: 400;\">The sequencing technology market has been bubbling with new developments, and it&#8217;s not just about the chemistry and instrumentation \u2014 we&#8217;re also seeing some exciting efforts from manufacturers to streamline the process of getting data off the sequencer and into the researcher&#8217;s analysis environment.\u00a0<\/span><\/p>\n<p><span style=\"font-weight: 400;\">Case in point, Singular Genomics sweetened the recent launch of their new G4 sequencer with a <\/span><a href=\"https:\/\/www.globenewswire.com\/en\/news-release\/2022\/01\/06\/2362334\/0\/en\/Singular-Genomics-and-Broad-Institute-Partner-to-Integrate-Advanced-Sequencing-Technology-with-the-Terra-Data-Platform.html\"><span style=\"font-weight: 400;\">plan to make the instrument integrate with Terra<\/span><\/a><span style=\"font-weight: 400;\">, which will empower G4 users to import their freshly sequenced data straight into Terra for analysis. We look forward to collaborating with Singular on this, and can readily envision Terra workspaces equipped with pipelines and tools preconfigured to run on the data produced by the G4 instrument.\u00a0<\/span><\/p>\n<p>&nbsp;<\/p>\n<h3><span style=\"font-weight: 400;\">Microsoft&#8217;s Cromwell on Azure 3.0 supports setting VM size per task<\/span><\/h3>\n<p><a href=\"https:\/\/github.com\/broadinstitute\/cromwell\"><span style=\"font-weight: 400;\">Cromwell<\/span><\/a><span style=\"font-weight: 400;\"> is the workflow manager that Terra uses to make it so easy to run pipelines at scale in Terra. It can be used outside of Terra as a standalone command-line program, and is in fact used by many groups around the world to run pipelines on a variety of platforms (including on-premises servers and HPCs).\u00a0<\/span><\/p>\n<p><span style=\"font-weight: 400;\">&#8220;Cromwell on Azure&#8221; is a solution developed by Microsoft to empower command-line users to run workflows through Cromwell on the Azure cloud, leveraging Azure Batch as the execution service, with minimal configuration and deployment burden. (See the <\/span><a href=\"https:\/\/github.com\/microsoft\/CromwellOnAzure#cromwell-on-azure\"><span style=\"font-weight: 400;\">Github readme<\/span><\/a><span style=\"font-weight: 400;\"> to learn more about how to use Cromwell on Azure in practice.)<\/span><\/p>\n<p><span style=\"font-weight: 400;\">The <\/span><a href=\"https:\/\/github.com\/microsoft\/CromwellOnAzure\/blob\/3.0.0\/docs\/release-notes\/3.0.0.md\"><span style=\"font-weight: 400;\">version 3.0 of Cromwell on Azure<\/span><\/a><span style=\"font-weight: 400;\"> released earlier this week provides a number of enhancements, most important of which is the ability for workflow authors to select a specific Azure VM size for each workflow task. This is a big deal because <\/span><a href=\"https:\/\/terra.bio\/reduce-computing-costs-by-tailoring-resource-allocations-in-workflows\/\"><span style=\"font-weight: 400;\">&#8220;right-sizing&#8221; VMs<\/span><\/a><span style=\"font-weight: 400;\"> \u2014 i.e. choosing VM sizes that fit each task depending on the tool and amount of data involved \u2014 is critical for optimizing workflows for speed and cost.\u00a0<\/span><\/p>\n<p><span style=\"font-weight: 400;\">What does this mean about Azure support in Terra itself, you ask? Well, you can take it as a sign that we&#8217;ve been actively working on it since <\/span><a href=\"https:\/\/news.microsoft.com\/2021\/01\/11\/broad-institute-and-verily-partner-with-microsoft-to-accelerate-the-next-generation-of-the-terra-platform-for-health-and-life-science-research\/\"><span style=\"font-weight: 400;\">Microsoft joined the Terra partnership<\/span><\/a><span style=\"font-weight: 400;\"> last year, and individual pieces are starting to materialize. We expect to have more concrete information and timelines to share on this topic in the not-too-distant future, so watch this space \u2014 and <\/span><a href=\"http:\/\/eepurl.com\/hnV3Oj\"><span style=\"font-weight: 400;\">subscribe to the Terra newsletter<\/span><\/a><span style=\"font-weight: 400;\"> so you don&#8217;t miss any of the many exciting updates on the horizon.<\/span><\/p>\n","protected":false},"excerpt":{"rendered":"<p>A quick recap of recent Terra-related headlines: Journal appearances for Terra and the AnVIL, planned integration with Singular Genomics&#8217; new G4 sequencer and a new release of Microsoft&#8217;s Cromwell on Azure.<\/p>\n","protected":false},"author":4,"featured_media":491,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"_acf_changed":false,"footnotes":""},"categories":[18,78,31,106,26,119,58,32],"tags":[],"class_list":["post-490","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-data","category-data-access","category-ecosystem","category-genomics","category-interoperability","category-most-recent","category-publications","category-workflows"],"acf":[],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v27.0 - 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