MongoDB 3.2.5 is out and is ready for production deployment. This release contains only fixes since 3.2.4, and is a recommended upgrade for all 3.2 users.
Fixed in this release:
- SERVER-23274 Aggregate with out, then stepdown, out collection dropped.
- SERVER-23283 RangeDeleter does not log cursor ids correctly in deleteNow()
- SERVER-22964 IX GlobalLock being held while wating for wt cache eviction
- SERVER-22937 Retry catalog operations whenever possible
- SERVER-22831 Low query rate with heavy cache pressure and an idle collection
- SERVER-21681 In-memory storage engine not reporting index size
As always, please let us know of any issues.
– The MongoDB Team
Oxford Nanopore Technologies & MongoDB: Powering Real-Time Genetic Analysis with Docker, MongoDB, & AWS
Genetic analysis is entering the mobile age. Earlier this year scientific journal Nature published a paper showing how Ebola researchers in Guinea were able to analyse genetic material in hours, rather than the weeks it had previously taken. This increased speed meant doctors could better understand the spread of the disease. Then quickly develop strategies to stop it. The hardware that enabled the genetic analysis is the MinION , from UK-based Oxford Nanopore Technology . The stapler-sized MinION is the data-capture side of the analysis, but for the purposes of this article we’re interested in data processing and analysis. In particular how Oxford Nanopore has been able to build a fast, agile and powerful cloud-based platform that has the potential to deliver biological analyses to any scientist, at any time, anywhere in the world. The applications for this genetic analysis go far beyond the medical field and disease control. Oxford Nanopore is using technologies like MongoDB, Amazon Web Services, and Docker containers in its stated goal: “to enable the real-time analysis of any living thing, by any user, in any environment.” A Billionth of a Meter The MinION does its genetic magic through the use of nanopores. Each nanopore is just a billionth of a meter wide. The technology in the MinION threads the genetic material through the nanopores where tiny differences in each sample can be registered as electrical disruptions. If you want a more detailed explanation of nanopores, check out Oxford Nanopore Technologies’ website . DNA sequencing can be associated with predictive human questions alone, for example “what probability is there that this person will develop a specific disease?” But human genome research is just a part of the equation, and the portable nature of the MinION means it might be suitable for a more diverse range of questions: Is the soup I’m about to eat safe? What type of disease am I looking at? Where did this pathogen originate? How can we grow more resilient plants? Is this hospital ward clean? Crucially, these questions need to be answered quickly, and in a range of environments – from the science lab to the middle of the jungle. Three Billion Bases in the Cloud The cleverest sequencing tool in the world would be worthless if we were unable to process and understand the data it created. To deal with the volume and velocity of processing billions of lines of DNA, Oxford Nanopore Technologies built analysis capabilities offered by Metrichor , on powerful software that can scale seamlessly in the cloud. Richard Carter, Associate Director, Data Integration at Oxford Nanopore gave a presentation at MongoDB Days where he noted: “When we began building Metrichor services, it was clear our data would not fit in the neat rows and columns of a relational database. We needed a database that could look at our complex information in more flexible and dynamic ways. It was a straightforward decision to go with MongoDB. It’s robust, best of breed, and has the data modelling and analytics flexibility we required. We also observed the technology has an incredible community behind it, coupled with extensive documentation and training. All of which enable us to get productive with the technology much faster.” The DNA data is read locally onto the MinION and it’s then sent to an Amazon Web Services cloud. The findings are then analysed before the results are sent back to the user’s laptop or displayed in web reports. All of this is driven by, and stored in the non-relational database MongoDB. Docker containers are used to package, deploy and run the software across the cloud deployment. Carter also noted that: “The biology and hardware is the real trick, of course, but we needed power and scalability to run cloud based services as we wished.” There were other challenges the team had during development of their software. They had a technical goal and a number of ways they could reach it while keeping the focus on the biology. It was essential they had the freedom to experiment and make significant changes as they went along. “Happily, MongoDB supports an evolutionary approach to development.” explained Carter. “We were spinning up instances and working on the science almost instantly. The database got out of the way.” Carter’s team does not have a database administrator. They have found that MongoDB Cloud Manager is able to provide all the monitoring data needed to keep a deployment healthy. Features like simple, automated deployment across any cloud region, continuous backups, and telemetry visualisations also mean administration doesn’t monopolise the developers’ time. Giant Ideas Guinea is just one of the many places where researchers are using Nanopore’s data architecture for analysis. In fact, NASA will soon be using the MinION for testing biological molecules on the International Space Station. Regardless of the location, the combination of rigorous science and the power of cloud computing is ushering in a new way of understanding the world. Read more about MongoDB and its implementation on the AWS cloud platform. MongoDB on AWS: Guidelines and Best Practices About the Author - Mat Keep Mat is director of product and market analysis at MongoDB. He is responsible for building the vision, positioning and content for MongoDB’s products and services, including the analysis of market trends and customer requirements. Prior to MongoDB, Mat was director of product management at Oracle Corp. with responsibility for the MySQL database in web, telecoms, cloud and big data workloads. This followed a series of sales, business development and analyst / programmer positions with both technology vendors and end-user companies.
How the Austin Chapter of MongoDB’s Women’s Group Built Community During the Pandemic
MongoDB is on a mission to create an inclusive workplace where every single employee can thrive. With a range of established affinity groups — and new ones forming regularly — MongoDB looks for ways to amplify those groups’ efforts and help support their overall mission. When the COVID-19 pandemic forced offices to shut down and employees to work from home, our affinity groups were challenged to find creative ways to support and grow their now-remote communities. As leaders of the MongoDB Women’s Group Austin chapter, we share how we pivoted this challenge into an opportunity. First, What's the MongoDB Women's Group The MongoDB Women’s Group is a community of MongoDB employees identifying as women, nonbinary, or trans. Our mission is to create a bold, visible, and united force for gender equality. To help us get there, the MongoDB Women’s Group hosts monthly members-only meetings as well as events open to both members and allies. Relaunched in 2018, the Austin-based chapter connects women and allies in our Austin office to a community of local companies and women’s groups that can support their growth within the tech industry. Pre-COVID, we gained a lot of momentum with our events, which included a live speaker series in the office, yoga, and events focused on subjects such as fertility and imposter syndrome. When COVID-19 hit, we faced a new challenge: how do we create a sense of community for our members when everyone works completely remote? Although initially daunting, the challenge of organizing remote events was an opportunity in disguise. It enabled us to kick off a speaker series for all employees, featuring prominent women in leadership positions across the country. Enter Angie Brown, from The Home Depot. Angie was the first woman to join our remote speaker series, and we couldn’t have asked for a better person to kick it off. She began her career at The Home Depot in 1998 as an entry-level software developer and now is Vice President of Technology — Merchandising, leading a team that develops solutions to support cataloging, pricing, and assortment capabilities at the giant retail chain. She also helps to mentor aspiring leaders in a number of ways, including actively participating in Atlanta’s Women in Technology association. Here, we share some highlights from our fireside chat with Angie during which she discussed her career and provided advice on what women can do to set themselves up for success. Fireside Chat with Angie Brown MongoDB: What advice do you have for those just starting off in their careers? Angie Brown: Opportunities can look like problems and not everyone wants to run into the fire, but avoiding problems can really be a missed opportunity. That’s one important lesson I’ve learned throughout my career. Although you should have a general idea of where you want to go, you also need to be willing to flex. Things might unfold in ways you didn’t expect. If you’re too prescriptive, you might miss out on them. So, you need to find a way to strike a balance. MongoDB: You took a role in leadership fairly early. How did you change your skills and evolve as you moved up? AB: When I talk to people considering moving into management, I ask them to look at the job and determine if the required qualities and responsibilities would make them happy. It’s not just about the title and pay increase. When you pivot from being an individual contributor to being in a leadership role, servant leadership is a huge part of it. If you look at management as a way to control, you won’t be happy. If you look at it as a way to serve others and help them be successful, then you’ll find joy in that career shift. I didn’t prethink this when I first moved into management and had a little bit of an identity crisis. I was used to being the one who got things done. All of a sudden, my role and life was all about going to meetings, and I didn’t look at meetings as tangible work. I was over it. Where was the joy in this? If your joy comes from having your hands on the keyboard and needing to do things your way, then being in management would be like fitting a square peg in a round hole. At first I felt invalidated and unsure of myself because it wasn’t my hands on the keyboard. I had to work through that and do a little soul-searching. I reframed my thinking to be happy leading a team and helping them solve their problems, even if it meant I wasn’t solving them myself. I had a lightbulb moment when I moved into a director role when I realized I was still solving big problems by helping my team tackle them. There’s nothing wrong with where you find your joy and no judgement if your passion aligns as an individual contributor; we need amazing developers! Always be aware of the work itself and make sure it aligns with what you enjoy. MongoDB: How have mentors played a role in your success? AB: I wish I had invested in mentors much sooner. In the early stages of my career, I didn’t think I needed help and believed I could just figure it all out on my own. I thought asking for help was a sign of weakness. In hindsight, my mentors have absolutely formed part of who I am today. I don’t have just one mentor. Instead, I look at a topic and focus on finding a mentor for that specific topic. With that approach, I have ended up having a number of mentors. Thank you again to Angie Brown! We appreciate your insight and inspiration. If you are interested in joining MongoDB, explore our career opportunities and join an innovative team that is disrupting the database industry every day.