{"data":[{"id":7225,"userid":82093,"edituserid":82093,"newstypeid":1,"published":1,"template":0,"headline":"Resources down due to power event","body":"Update 3:40PM, EDT: All systems have been returned to full service and queues are accepting new jobs.\n\nUpdate: 3:00PM, EDT: Systems returning but queues are still paused on all clusters except for Bell and Hammer. Some clusters are waiting for full cooling to come fully back online. Next update at 4:00PM, EDT, or when all systems are returned to service. \n\nUpdate: 2:30PM, EDT: Systems are steadily coming back online. Queues are still paused. Next update at 3:00PM, EDT.\n\nThe Rosen Center is currently experiencing an outage on all clusters due to a widespread power outage event on the Purdue West Lafayette Campus.\n\nCurrently engineers are bringing all services back up. Scheduling on all clusters will be resumed once services have stabilized. \n\nWe expect services to back shortly. We will update on the situation at 2:30PM, EDT.","location":"","datetimenews":"2025-06-14 12:30:00","datetimenewsend":"2025-06-14 15:40:00","datetimeupdate":"2025-06-14 14:31:37","datetimecreated":"2025-06-14T18:08:39.000000Z","datetimeedited":"2025-06-14T19:42:19.000000Z","datetimemailed":null,"datetimeremoved":null,"lastmailuserid":0,"url":null,"registration_limit":null,"type":{"id":1,"tagresources":1,"location":0,"name":"Outages and Maintenance","alias":"outages-and-maintenance","ordering":4,"future":1,"ongoing":1,"tagusers":0,"calendar":0,"url":0,"parentid":0,"state":"upcoming","order_dir":"asc"},"associations":[],"updates":[],"api":"https:\/\/rcac.purdue.edu\/api\/news\/7225","uri":"https:\/\/rcac.purdue.edu\/news\/7225","formatteddate":"June 14, 2025 12:30pm - 3:40pm EDT","formattedbody":"

Update 3:40PM, EDT: All systems have been returned to full service and queues are accepting new jobs.<\/p>\n

Update: 3:00PM, EDT: Systems returning but queues are still paused on all clusters except for Bell and Hammer. Some clusters are waiting for full cooling to come fully back online. Next update at 4:00PM, EDT, or when all systems are returned to service.<\/p>\n

Update: 2:30PM, EDT: Systems are steadily coming back online. Queues are still paused. Next update at 3:00PM, EDT.<\/p>\n

The Rosen Center is currently experiencing an outage on all clusters due to a widespread power outage event on the Purdue West Lafayette Campus.<\/p>\n

Currently engineers are bringing all services back up. Scheduling on all clusters will be resumed once services have stabilized.<\/p>\n

We expect services to back shortly. We will update on the situation at 2:30PM, EDT.<\/p>\n","formattededitdate":"June 14, 2025 3:42pm EDT","formattedcreateddate":"June 14, 2025 2:08pm EDT","formattedupdatedate":"June 14, 2025 2:31pm EDT","vars":{"date":"Saturday, June 14, 2025","datetime":"Saturday, June 14, 2025 from 12:30pm - 3:40pm EDT","time":"12:30pm – 3:40pm EDT","updatedatetime":"Saturday, June 14th, 2025 at 2:31pm EDT","updatedate":"Saturday, June 14th, 2025","updatetime":"2:31pm EDT","startdatetime":"Saturday, June 14th, 2025 at 12:30pm EDT","startdate":"Saturday, June 14th, 2025","starttime":"12:30pm EDT","enddatetime":"Saturday, June 14th, 2025 at 3:40pm EDT","enddate":"Saturday, June 14th, 2025","endtime":"3:40pm EDT","resources":"Anvil, Bell, Gautschi, Geddes, Gilbreth, Hammer, Negishi, Rossmann, Rowdy, Scholar, and Weber"},"resources":[{"id":2271,"newsid":7225,"resourceid":99,"name":"Anvil"},{"id":2272,"newsid":7225,"resourceid":97,"name":"Bell"},{"id":2273,"newsid":7225,"resourceid":113,"name":"Gautschi"},{"id":2274,"newsid":7225,"resourceid":105,"name":"Geddes"},{"id":2275,"newsid":7225,"resourceid":92,"name":"Gilbreth"},{"id":2276,"newsid":7225,"resourceid":69,"name":"Hammer"},{"id":2277,"newsid":7225,"resourceid":107,"name":"Negishi"},{"id":2278,"newsid":7225,"resourceid":114,"name":"Rossmann"},{"id":2279,"newsid":7225,"resourceid":110,"name":"Rowdy"},{"id":2280,"newsid":7225,"resourceid":91,"name":"Scholar"},{"id":2281,"newsid":7225,"resourceid":94,"name":"Weber"}],"can":{"create":false,"edit":false,"delete":false,"manage":false,"admin":false}},{"id":7223,"userid":155132,"edituserid":155132,"newstypeid":6,"published":1,"template":0,"headline":"Anvil Network Interruption","body":"Beginning at 10:00 AM EST on June 10th, the Anvil cluster experience a brief network interruption to fix an issue related to network connectivity. We are continuing to work on it and expected return to service is ~~11:00 AM EST~~ the end of the day.\n\nUpdate: At 19:00 tonight, engineer team will be swapping out Anvil's skyway. The interruption is expected to last until 19:30 tonight.\n\nUpdate: At 07:30 AM on June 11th, engineer completed the repair & test. Anvil return to service.","location":"","datetimenews":"2025-06-10 10:00:00","datetimenewsend":"2025-06-11 07:30:00","datetimeupdate":null,"datetimecreated":"2025-06-10T14:38:41.000000Z","datetimeedited":"2025-06-11T13:39:50.000000Z","datetimemailed":null,"datetimeremoved":null,"lastmailuserid":0,"url":null,"registration_limit":null,"type":{"id":6,"tagresources":1,"location":0,"name":"Outages","alias":"outages","ordering":1,"future":1,"ongoing":1,"tagusers":0,"calendar":0,"url":0,"parentid":1,"state":null,"order_dir":null},"associations":[],"updates":[],"api":"https:\/\/rcac.purdue.edu\/api\/news\/7223","uri":"https:\/\/rcac.purdue.edu\/news\/7223","formatteddate":"June 10, 2025 10:00am - June 11, 2025 7:30am EDT","formattedbody":"

Beginning at 10:00 AM EST on June 10th, the Anvil cluster experience a brief network interruption to fix an issue related to network connectivity. We are continuing to work on it and expected return to service is 11:00 AM EST<\/del> the end of the day.<\/p>\n

Update: At 19:00 tonight, engineer team will be swapping out Anvil's skyway. The interruption is expected to last until 19:30 tonight.<\/p>\n

Update: At 07:30 AM on June 11th, engineer completed the repair & test. Anvil return to service.<\/p>\n","formattededitdate":"June 11, 2025 9:39am EDT","formattedcreateddate":"June 10, 2025 10:38am EDT","formattedupdatedate":"","vars":{"date":"June 10 - 11, 2025","datetime":"June 10, 2025 10:00am - June 11, 2025 7:30am EDT","time":"10:00am – 7:30am EDT","updatedatetime":"Tuesday, June 10th, 2025 at 10:38am EDT","updatedate":"Tuesday, June 10th, 2025","updatetime":"10:38am EDT","startdatetime":"Tuesday, June 10th, 2025 at 10:00am EDT","startdate":"Tuesday, June 10th, 2025","starttime":"10:00am EDT","enddatetime":"Wednesday, June 11th, 2025 at 7:30am EDT","enddate":"Wednesday, June 11th, 2025","endtime":"7:30am EDT","resources":"Anvil"},"resources":[{"id":2269,"newsid":7223,"resourceid":99,"name":"Anvil"}],"can":{"create":false,"edit":false,"delete":false,"manage":false,"admin":false}},{"id":7221,"userid":155132,"edituserid":0,"newstypeid":6,"published":1,"template":0,"headline":"Anvil network interruption","body":"Beginning at 19:00 EST, the Anvil cluster will experience a brief network interruption to fix an issue related to network connectivity. Expected return to service is 19:30 EST.","location":"","datetimenews":"2025-06-09 19:00:00","datetimenewsend":"2025-06-09 19:30:00","datetimeupdate":null,"datetimecreated":"2025-06-09T22:26:42.000000Z","datetimeedited":"2025-06-09T22:26:42.000000Z","datetimemailed":null,"datetimeremoved":null,"lastmailuserid":0,"url":null,"registration_limit":null,"type":{"id":6,"tagresources":1,"location":0,"name":"Outages","alias":"outages","ordering":1,"future":1,"ongoing":1,"tagusers":0,"calendar":0,"url":0,"parentid":1,"state":null,"order_dir":null},"associations":[],"updates":[],"api":"https:\/\/rcac.purdue.edu\/api\/news\/7221","uri":"https:\/\/rcac.purdue.edu\/news\/7221","formatteddate":"June 9, 2025 7:00pm - 7:30pm EDT","formattedbody":"

Beginning at 19:00 EST, the Anvil cluster will experience a brief network interruption to fix an issue related to network connectivity. Expected return to service is 19:30 EST.<\/p>\n","formattededitdate":"June 9, 2025 6:26pm EDT","formattedcreateddate":"June 9, 2025 6:26pm EDT","formattedupdatedate":"","vars":{"date":"Monday, June 9, 2025","datetime":"Monday, June 9, 2025 from 7:00pm - 7:30pm EDT","time":"7:00pm – 7:30pm EDT","updatedatetime":"Monday, June 9th, 2025 at 6:26pm EDT","updatedate":"Monday, June 9th, 2025","updatetime":"6:26pm EDT","startdatetime":"Monday, June 9th, 2025 at 7:00pm EDT","startdate":"Monday, June 9th, 2025","starttime":"7:00pm EDT","enddatetime":"Monday, June 9th, 2025 at 7:30pm EDT","enddate":"Monday, June 9th, 2025","endtime":"7:30pm EDT","resources":"Anvil"},"resources":[{"id":2267,"newsid":7221,"resourceid":99,"name":"Anvil"}],"can":{"create":false,"edit":false,"delete":false,"manage":false,"admin":false}},{"id":7109,"userid":138551,"edituserid":138551,"newstypeid":3,"published":1,"template":0,"headline":"CI-XP Student Presentations at the Envision Center","body":"The Rosen Center for Advanced Computing (RCAC) recently hosted its annual CI-XP Student Program Lightning Talks, giving RCAC students a chance to showcase their projects and accomplishments to peers and staff within the organization. \r\n\r\nThe CI-XP (Cyber Infrastructure-eXPerience) \"ImageStudent Program provides work opportunities and an authentic workplace experience for students with the goal of enhancing education through the development of professional skills, responsibilities, habits, attitudes, self-confidence, and self-development. The program comprises graduate and undergraduate student workers in RCAC, the Envision Center, the Scientific Solutions Group, and the **[Anvil REU programs](https:\/\/www.rcac.purdue.edu\/anvil\/reu)**. RCAC staff serve as mentors to the students. \r\n\r\nDuring the 2025 CI-XP Lightning Talks event, 36 students gave two- to four-minute presentations highlighting their projects and what they\u2019ve learned throughout the school year. Each student gave a brief overview of themselves: their background, course of study, likes and dislikes, and plans after graduation. They then moved on to their accomplishments and takeaways from working at RCAC. \r\n\r\n\u201cBeing part of the CI-XP program has been an amazing experience,\u201d says Vivek Karunai Kiri Ragavan, a CI-XP program graduate who successfully defended his Master\u2019s thesis based on his work on the Anvil supercomputer at RCAC. \u201cI got to work on exciting projects like AnvilGPT and the Purdue GenAI Studio, where we focused on building scalable AI inference systems within the Kubernetes ecosystem. Presenting at the Lightning Talks was a great chance to share my work and learn about the incredible projects my peers have been contributing to. I\u2019m thankful for the mentorship and the real-world experience I\u2019ve gained. RCAC has helped me grow so much, both technically and professionally, and I will take those lessons with me wherever I go.\u201d\r\n\r\nThe range of projects the CI-XP students worked on was impressive, with very few seeing any overlap. Some students helped to develop and improve different aspects of the Envision Center\u2019s virtual learning programs, including the newly created **[Collab XR platform](https:\/\/www.rcac.purdue.edu\/news\/6642)**. Others worked alongside our **[Research Software Engineers](https:\/\/www.rcac.purdue.edu\/rse)** and high-performance computing (HPC) experts on a variety of hardware- and software-based HPC projects. A few of the students\u2019 projects even related to Anvil, our nationally-allocated HPC resource and one of Purdue\u2019s most powerful supercomputers. But a unique characteristic that all the CI-XP projects have in common is that they are not just for show, as is often the case with \u201cpractice projects\u201d given to students. The work that the CI-XP students conduct is implemented into RCAC systems and utilized by our users. No matter which domain the students work in\u2014VR, HPC, or even communications\u2014their efforts help to advance the organization as a whole, an aspect that truly offers them an authentic workplace experience. \r\n\r\n\u201cIt\u2019s so great to see all of the different projects from students across the CI-XP program,\u201d says Laura Theademan, the Director of Center Operations and Visualization at RCAC. \u201cThe annual Lightning Talks give everyone an opportunity to learn about the amazing work these students do and helps to reaffirm why this program is special. It is definitely one of my favorite events we host each year.\u201d\r\n\r\nAfter presenting, students who are graduating this semester were recognized by their mentors. This year saw 11 total graduates from the CI-XP program. Seniors completing undergraduate degrees and students completing graduate-level programs were among the group. RCAC was thrilled to hear the impact the CI-XP program made on their educational journey and wishes these students all the best as they move forward in their lives and careers. \r\n\r\n\u201cTo all of the graduating CI-XP students, we would like to thank you for your hard work and dedication while at RCAC,\u201d says Theademan. \u201cWe have enjoyed seeing each of you learn and grow throughout your time in the program, and cannot begin to express our appreciation for the many wonderful contributions you\u2019ve made along the way. Good luck to you all\u2014we know you\u2019re going to do great!\u201d\r\n\r\nTo learn more about the CI-XP program or to apply for a student position at RCAC, please visit: https:\/\/www.rcac.purdue.edu\/ci-xp\r\n\r\n\"Image\r\n\r\n\"Image\r\n\r\n\"Image\r\n\r\n\"Image\r\n\r\n_Written by: Jonathan Poole, poole43@purdue.edu_","location":"","datetimenews":"2025-05-12 10:12:47","datetimenewsend":"2025-12-31 23:59:59","datetimeupdate":null,"datetimecreated":"2025-05-12T14:12:47.000000Z","datetimeedited":"2025-05-12T14:29:26.000000Z","datetimemailed":null,"datetimeremoved":null,"lastmailuserid":0,"url":null,"registration_limit":null,"type":{"id":3,"tagresources":1,"location":0,"name":"Science Highlights","alias":"science","ordering":5,"future":1,"ongoing":1,"tagusers":0,"calendar":0,"url":1,"parentid":0,"state":"all","order_dir":"desc"},"associations":[],"updates":[],"api":"https:\/\/rcac.purdue.edu\/api\/news\/7109","uri":"https:\/\/rcac.purdue.edu\/news\/7109","formatteddate":"May 12, 2025 10:12am - December 31, 2025 11:59pm EST","formattedbody":"

The Rosen Center for Advanced Computing (RCAC) recently hosted its annual CI-XP Student Program Lightning Talks, giving RCAC students a chance to showcase their projects and accomplishments to peers and staff within the organization.<\/p>\n

The CI-XP (Cyber Infrastructure-eXPerience) \"ImageStudent Program provides work opportunities and an authentic workplace experience for students with the goal of enhancing education through the development of professional skills, responsibilities, habits, attitudes, self-confidence, and self-development. The program comprises graduate and undergraduate student workers in RCAC, the Envision Center, the Scientific Solutions Group, and the Anvil REU programs<\/a><\/strong>. RCAC staff serve as mentors to the students.<\/p>\n

During the 2025 CI-XP Lightning Talks event, 36 students gave two- to four-minute presentations highlighting their projects and what they\u2019ve learned throughout the school year. Each student gave a brief overview of themselves: their background, course of study, likes and dislikes, and plans after graduation. They then moved on to their accomplishments and takeaways from working at RCAC.<\/p>\n

\u201cBeing part of the CI-XP program has been an amazing experience,\u201d says Vivek Karunai Kiri Ragavan, a CI-XP program graduate who successfully defended his Master\u2019s thesis based on his work on the Anvil supercomputer at RCAC. \u201cI got to work on exciting projects like AnvilGPT and the Purdue GenAI Studio, where we focused on building scalable AI inference systems within the Kubernetes ecosystem. Presenting at the Lightning Talks was a great chance to share my work and learn about the incredible projects my peers have been contributing to. I\u2019m thankful for the mentorship and the real-world experience I\u2019ve gained. RCAC has helped me grow so much, both technically and professionally, and I will take those lessons with me wherever I go.\u201d<\/p>\n

The range of projects the CI-XP students worked on was impressive, with very few seeing any overlap. Some students helped to develop and improve different aspects of the Envision Center\u2019s virtual learning programs, including the newly created Collab XR platform<\/a><\/strong>. Others worked alongside our Research Software Engineers<\/a><\/strong> and high-performance computing (HPC) experts on a variety of hardware- and software-based HPC projects. A few of the students\u2019 projects even related to Anvil, our nationally-allocated HPC resource and one of Purdue\u2019s most powerful supercomputers. But a unique characteristic that all the CI-XP projects have in common is that they are not just for show, as is often the case with \u201cpractice projects\u201d given to students. The work that the CI-XP students conduct is implemented into RCAC systems and utilized by our users. No matter which domain the students work in\u2014VR, HPC, or even communications\u2014their efforts help to advance the organization as a whole, an aspect that truly offers them an authentic workplace experience.<\/p>\n

\u201cIt\u2019s so great to see all of the different projects from students across the CI-XP program,\u201d says Laura Theademan, the Director of Center Operations and Visualization at RCAC. \u201cThe annual Lightning Talks give everyone an opportunity to learn about the amazing work these students do and helps to reaffirm why this program is special. It is definitely one of my favorite events we host each year.\u201d<\/p>\n

After presenting, students who are graduating this semester were recognized by their mentors. This year saw 11 total graduates from the CI-XP program. Seniors completing undergraduate degrees and students completing graduate-level programs were among the group. RCAC was thrilled to hear the impact the CI-XP program made on their educational journey and wishes these students all the best as they move forward in their lives and careers.<\/p>\n

\u201cTo all of the graduating CI-XP students, we would like to thank you for your hard work and dedication while at RCAC,\u201d says Theademan. \u201cWe have enjoyed seeing each of you learn and grow throughout your time in the program, and cannot begin to express our appreciation for the many wonderful contributions you\u2019ve made along the way. Good luck to you all\u2014we know you\u2019re going to do great!\u201d<\/p>\n

To learn more about the CI-XP program or to apply for a student position at RCAC, please visit: https:\/\/www.rcac.purdue.edu\/ci-xp<\/a><\/p>\n\"Image\n\"Image\n\"Image\n\"Image\n

Written by: Jonathan Poole, poole43@purdue.edu<\/em><\/p>\n","formattededitdate":"May 12, 2025 10:29am EDT","formattedcreateddate":"May 12, 2025 10:12am EDT","formattedupdatedate":"","vars":{"date":"May 12, 2025 - December 31, 2025 ","datetime":"May 12, 2025 10:12am - December 31, 2025 11:59pm EST","time":"10:12am – 11:59pm EDT","updatedatetime":"Monday, May 12th, 2025 at 10:12am EDT","updatedate":"Monday, May 12th, 2025","updatetime":"10:12am EDT","startdatetime":"Monday, May 12th, 2025 at 10:12am EDT","startdate":"Monday, May 12th, 2025","starttime":"10:12am EDT","enddatetime":"Wednesday, December 31st, 2025 at 11:59pm EST","enddate":"Wednesday, December 31st, 2025","endtime":"11:59pm EST","resources":"Anvil"},"resources":[{"id":2240,"newsid":7109,"resourceid":99,"name":"Anvil"}],"can":{"create":false,"edit":false,"delete":false,"manage":false,"admin":false}},{"id":7100,"userid":138551,"edituserid":0,"newstypeid":3,"published":1,"template":0,"headline":"Anvil supercomputer supports Cryo-EM workshop","body":"**[The Southeastern Center for Microscopy of Macromolecular Machines (SECM4)](https:\/\/www.secm4.org\/)** utilized Purdue University\u2019s Anvil supercomputer to host the 2024 SECM4 data processing workshop. The workshop focused on teaching researchers how to process data for single-particle cryogenic electron microscopy (SPA-cryo-EM) analysis.\r\n\r\nDr. Neboj\u0161a (Nash) Bogdanovi\u0107 \"Imageis a faculty member specializing in cryo-EM who co-manages the operations of the SECM4 cryo-EM service center, located at Florida State University. SECM4 is a National Institutes of Health-funded resource aiming to democratize high-end, often high-cost cryo-EM instrumentation for underrepresented research groups. It supports broader free-of-cost access across the Southeastern U.S. and other IDeA states, with much of its effort dedicated to training biomolecular researchers in the region. Dr. Bogdanovi\u0107\u2019s role at SECM4 includes designing workflows and optimizing approaches for high-resolution structure determination. He trains users in fundamental and advanced cryo-EM strategies, including vitrification of very large numbers of diverse samples, microscope operation, efficient data collection, and workflow management with data processing. To further the advancement of cryo-EM research and analysis, Dr. Bogdanovi\u0107 developed the materials for and taught the 2024 SECM4 data processing workshop, where attendees learned how to use HPC-based cryo-EM software such as Relion, CryoSPARC, and ML-based Topaz for tasks like preprocessing, particle picking, 2D and 3D reconstruction, classification, and model building. This workshop was the second in a row of hands-on training events. \r\n\r\nCryo-EM is a form of transmission electron microscopy in which delicate samples, such as proteins, viruses, DNA, RNA, or cellular structures, are cryogenically frozen into vitreous (glassy) ice before being observed and imaged. Rapidly freezing samples in this manner prevents ice crystal formation and enables higher-resolution reconstructions. Thousands of micrographs, or \u201cmovies,\u201d are captured and processed through specialized, computationally demanding workflows to generate sufficient structural data for reliable 3D models. These models offer researchers unprecedented atomic-level detail indispensable for understanding biological mechanisms and designing highly specific drugs. Although cryo-EM is revolutionizing structural biology, single-particle cryo-EM analysis is both complex and data-intensive. Researchers must be properly trained in software usage, the step-by-step analysis process, and strategies for handling large datasets. Recognizing this need led to the creation of the SECM4 cryo-EM workshops as well as a very popular, dedicated cryo-EM consultation service accessible to SECM4-approved projects.\r\n\r\nThe 2024 SECM4 data processing workshop was a big success for a growing center. It was attended by 12 researchers from internal and external institutions interested in learning more about cryo-EM workflows applicable to their projects. Dr. Bogdanovi\u0107 led the course alongside Dr. Scott Stagg, the acting Facility Administrator for SECM4. Due to the nature of cryo-EM work and the workshop\u2019s size, the instructors required a resource capable of providing large-scale computing power. They turned to Anvil for that support.\r\n\r\n\u201cWe understood that the computational resources required for this work are very intense,\u201d says Dr. Bogdanovi\u0107. \u201cSo we needed 4 to 8 GPUs, 500 GB to 1 TB of RAM (or more), as well as a large SSD allocation. What we managed to do with Anvil was to use their implementation of CryoSPARC, a software we use readily in our field, and distribute it to the 12 participants in our workshop to demonstrate how each step is carried out.\u201d\r\n\r\nThe Anvil team provided the SECM4 workshop with access to the supercomputer\u2019s advanced GPUs and granted a special dispensation to reserve a block of GPUs for the three-day course.\r\n\r\n\u201cSo we, thanks to the kindness of the Anvil team, were able to reserve up to 10 GPUs simultaneously,\u201d adds Dr. Bogdanovi\u0107, \u201cguaranteeing that our participants could run jobs during the workshop. That worked out wonderfully, and we are very grateful Anvil was able to do this.\u201d\r\n\r\nDr. Bogdanovi\u0107 was delighted with Anvil\u2019s performance. To prepare for the workshop, he gained access to Anvil months in advance through a proposal-based, NSF-funded ACCESS program, ensuring the system would fit his needs. CryoSPARC was already installed and ran flawlessly, better than his experience with the software on other HPC systems. RELION was also available, but he needed a different version for the workshop. The Anvil team was on hand to help and guided him through their specifics of installation, and RELION worked perfectly when implemented. Dr. Bogdanovi\u0107 prepared all the results for the workshop projects in advance to determine what was most suitable for inclusion and to keep backups on hand in case of any hiccups. Fortunately, everything ran smoothly, and the workshop was a huge success. Participants found it so useful that five went on to apply for and receive their own Anvil allocations. Overall, Dr. Bogdanovi\u0107 was thrilled with how the workshop turned out and hopes to host another later this year.\r\n\r\nTo learn more about the 2024 SECM4 data processing workshop, please visit: https:\/\/www.secm4.org\/2024-processing-workshop\r\n\r\nFor more information about HPC and how it can help you, please visit our \u201c**[Why HPC?](https:\/\/www.rcac.purdue.edu\/anvil\/why-hpc)**\u201d page.\r\n\r\nAnvil is one of Purdue University\u2019s most powerful supercomputers, providing researchers from diverse backgrounds with advanced computing capabilities. Built through a $10 million system acquisition grant from the **[National Science Foundation (NSF)](https:\/\/nsf.gov\/)**, Anvil supports scientific discovery by providing resources through NSF\u2019s **[Advanced Cyberinfrastructure Coordination Ecosystem: Services & Support (ACCESS)](https:\/\/access-ci.org\/)** program, which serves tens of thousands of researchers across the United States.\r\n\r\nResearchers may request access to Anvil via the **[ACCESS allocations process](https:\/\/www.rcac.purdue.edu\/knowledge\/anvil\/access\/anvil_through_access)**. More information about Anvil is available on Purdue\u2019s **[Anvil website](https:\/\/www.rcac.purdue.edu\/anvil)**. Anyone with questions should contact anvil@purdue.edu. Anvil is funded under NSF award No. 2005632.\r\n\r\n_Written by: Jonathan Poole, poole43@purdue.edu_","location":"","datetimenews":"2025-04-16 08:04:24","datetimenewsend":"2025-12-31 23:59:59","datetimeupdate":null,"datetimecreated":"2025-04-16T12:04:24.000000Z","datetimeedited":"2025-04-16T12:04:24.000000Z","datetimemailed":null,"datetimeremoved":null,"lastmailuserid":0,"url":null,"registration_limit":null,"type":{"id":3,"tagresources":1,"location":0,"name":"Science Highlights","alias":"science","ordering":5,"future":1,"ongoing":1,"tagusers":0,"calendar":0,"url":1,"parentid":0,"state":"all","order_dir":"desc"},"associations":[],"updates":[],"api":"https:\/\/rcac.purdue.edu\/api\/news\/7100","uri":"https:\/\/rcac.purdue.edu\/news\/7100","formatteddate":"April 16, 2025 8:04am - December 31, 2025 11:59pm EST","formattedbody":"

The Southeastern Center for Microscopy of Macromolecular Machines (SECM4)<\/a><\/strong> utilized Purdue University\u2019s Anvil supercomputer to host the 2024 SECM4 data processing workshop. The workshop focused on teaching researchers how to process data for single-particle cryogenic electron microscopy (SPA-cryo-EM) analysis.<\/p>\n

Dr. Neboj\u0161a (Nash) Bogdanovi\u0107 \"Imageis a faculty member specializing in cryo-EM who co-manages the operations of the SECM4 cryo-EM service center, located at Florida State University. SECM4 is a National Institutes of Health-funded resource aiming to democratize high-end, often high-cost cryo-EM instrumentation for underrepresented research groups. It supports broader free-of-cost access across the Southeastern U.S. and other IDeA states, with much of its effort dedicated to training biomolecular researchers in the region. Dr. Bogdanovi\u0107\u2019s role at SECM4 includes designing workflows and optimizing approaches for high-resolution structure determination. He trains users in fundamental and advanced cryo-EM strategies, including vitrification of very large numbers of diverse samples, microscope operation, efficient data collection, and workflow management with data processing. To further the advancement of cryo-EM research and analysis, Dr. Bogdanovi\u0107 developed the materials for and taught the 2024 SECM4 data processing workshop, where attendees learned how to use HPC-based cryo-EM software such as Relion, CryoSPARC, and ML-based Topaz for tasks like preprocessing, particle picking, 2D and 3D reconstruction, classification, and model building. This workshop was the second in a row of hands-on training events.<\/p>\n

Cryo-EM is a form of transmission electron microscopy in which delicate samples, such as proteins, viruses, DNA, RNA, or cellular structures, are cryogenically frozen into vitreous (glassy) ice before being observed and imaged. Rapidly freezing samples in this manner prevents ice crystal formation and enables higher-resolution reconstructions. Thousands of micrographs, or \u201cmovies,\u201d are captured and processed through specialized, computationally demanding workflows to generate sufficient structural data for reliable 3D models. These models offer researchers unprecedented atomic-level detail indispensable for understanding biological mechanisms and designing highly specific drugs. Although cryo-EM is revolutionizing structural biology, single-particle cryo-EM analysis is both complex and data-intensive. Researchers must be properly trained in software usage, the step-by-step analysis process, and strategies for handling large datasets. Recognizing this need led to the creation of the SECM4 cryo-EM workshops as well as a very popular, dedicated cryo-EM consultation service accessible to SECM4-approved projects.<\/p>\n

The 2024 SECM4 data processing workshop was a big success for a growing center. It was attended by 12 researchers from internal and external institutions interested in learning more about cryo-EM workflows applicable to their projects. Dr. Bogdanovi\u0107 led the course alongside Dr. Scott Stagg, the acting Facility Administrator for SECM4. Due to the nature of cryo-EM work and the workshop\u2019s size, the instructors required a resource capable of providing large-scale computing power. They turned to Anvil for that support.<\/p>\n

\u201cWe understood that the computational resources required for this work are very intense,\u201d says Dr. Bogdanovi\u0107. \u201cSo we needed 4 to 8 GPUs, 500 GB to 1 TB of RAM (or more), as well as a large SSD allocation. What we managed to do with Anvil was to use their implementation of CryoSPARC, a software we use readily in our field, and distribute it to the 12 participants in our workshop to demonstrate how each step is carried out.\u201d<\/p>\n

The Anvil team provided the SECM4 workshop with access to the supercomputer\u2019s advanced GPUs and granted a special dispensation to reserve a block of GPUs for the three-day course.<\/p>\n

\u201cSo we, thanks to the kindness of the Anvil team, were able to reserve up to 10 GPUs simultaneously,\u201d adds Dr. Bogdanovi\u0107, \u201cguaranteeing that our participants could run jobs during the workshop. That worked out wonderfully, and we are very grateful Anvil was able to do this.\u201d<\/p>\n

Dr. Bogdanovi\u0107 was delighted with Anvil\u2019s performance. To prepare for the workshop, he gained access to Anvil months in advance through a proposal-based, NSF-funded ACCESS program, ensuring the system would fit his needs. CryoSPARC was already installed and ran flawlessly, better than his experience with the software on other HPC systems. RELION was also available, but he needed a different version for the workshop. The Anvil team was on hand to help and guided him through their specifics of installation, and RELION worked perfectly when implemented. Dr. Bogdanovi\u0107 prepared all the results for the workshop projects in advance to determine what was most suitable for inclusion and to keep backups on hand in case of any hiccups. Fortunately, everything ran smoothly, and the workshop was a huge success. Participants found it so useful that five went on to apply for and receive their own Anvil allocations. Overall, Dr. Bogdanovi\u0107 was thrilled with how the workshop turned out and hopes to host another later this year.<\/p>\n

To learn more about the 2024 SECM4 data processing workshop, please visit: https:\/\/www.secm4.org\/2024-processing-workshop<\/a><\/p>\n

For more information about HPC and how it can help you, please visit our \u201cWhy HPC?<\/a><\/strong>\u201d page.<\/p>\n

Anvil is one of Purdue University\u2019s most powerful supercomputers, providing researchers from diverse backgrounds with advanced computing capabilities. Built through a $10 million system acquisition grant from the National Science Foundation (NSF)<\/a><\/strong>, Anvil supports scientific discovery by providing resources through NSF\u2019s Advanced Cyberinfrastructure Coordination Ecosystem: Services & Support (ACCESS)<\/a><\/strong> program, which serves tens of thousands of researchers across the United States.<\/p>\n

Researchers may request access to Anvil via the ACCESS allocations process<\/a><\/strong>. More information about Anvil is available on Purdue\u2019s Anvil website<\/a><\/strong>. Anyone with questions should contact anvil@purdue.edu<\/a>. Anvil is funded under NSF award No. 2005632.<\/p>\n

Written by: Jonathan Poole, poole43@purdue.edu<\/em><\/p>\n","formattededitdate":"April 16, 2025 8:04am EDT","formattedcreateddate":"April 16, 2025 8:04am EDT","formattedupdatedate":"","vars":{"date":"April 16, 2025 - December 31, 2025 ","datetime":"April 16, 2025 8:04am - December 31, 2025 11:59pm EST","time":"8:04am – 11:59pm EDT","updatedatetime":"Wednesday, April 16th, 2025 at 8:04am EDT","updatedate":"Wednesday, April 16th, 2025","updatetime":"8:04am EDT","startdatetime":"Wednesday, April 16th, 2025 at 8:04am EDT","startdate":"Wednesday, April 16th, 2025","starttime":"8:04am EDT","enddatetime":"Wednesday, December 31st, 2025 at 11:59pm EST","enddate":"Wednesday, December 31st, 2025","endtime":"11:59pm EST","resources":"Anvil"},"resources":[{"id":2236,"newsid":7100,"resourceid":99,"name":"Anvil"}],"can":{"create":false,"edit":false,"delete":false,"manage":false,"admin":false}},{"id":7098,"userid":155132,"edituserid":155132,"newstypeid":6,"published":1,"template":0,"headline":"Unscheduled Anvil outage","body":"The Anvil cluster began experiencing issues with permissions issues of project directories around noon. We are working on the fix. Job scheduling has been paused while this issue is being addressed.\n\nUpdate: the issue has been fixed by 2:20 pm today.","location":"","datetimenews":"2025-04-09 13:00:00","datetimenewsend":"2025-04-09 14:30:00","datetimeupdate":null,"datetimecreated":"2025-04-09T18:16:18.000000Z","datetimeedited":"2025-04-09T18:25:38.000000Z","datetimemailed":null,"datetimeremoved":null,"lastmailuserid":0,"url":null,"registration_limit":null,"type":{"id":6,"tagresources":1,"location":0,"name":"Outages","alias":"outages","ordering":1,"future":1,"ongoing":1,"tagusers":0,"calendar":0,"url":0,"parentid":1,"state":null,"order_dir":null},"associations":[],"updates":[],"api":"https:\/\/rcac.purdue.edu\/api\/news\/7098","uri":"https:\/\/rcac.purdue.edu\/news\/7098","formatteddate":"April 9, 2025 1:00pm - 2:30pm EDT","formattedbody":"

The Anvil cluster began experiencing issues with permissions issues of project directories around noon. We are working on the fix. Job scheduling has been paused while this issue is being addressed.<\/p>\n

Update: the issue has been fixed by 2:20 pm today.<\/p>\n","formattededitdate":"April 9, 2025 2:25pm EDT","formattedcreateddate":"April 9, 2025 2:16pm EDT","formattedupdatedate":"","vars":{"date":"Wednesday, April 9, 2025","datetime":"Wednesday, April 9, 2025 from 1:00pm - 2:30pm EDT","time":"1:00pm – 2:30pm EDT","updatedatetime":"Wednesday, April 9th, 2025 at 2:16pm EDT","updatedate":"Wednesday, April 9th, 2025","updatetime":"2:16pm EDT","startdatetime":"Wednesday, April 9th, 2025 at 1:00pm EDT","startdate":"Wednesday, April 9th, 2025","starttime":"1:00pm EDT","enddatetime":"Wednesday, April 9th, 2025 at 2:30pm EDT","enddate":"Wednesday, April 9th, 2025","endtime":"2:30pm EDT","resources":"Anvil"},"resources":[{"id":2235,"newsid":7098,"resourceid":99,"name":"Anvil"}],"can":{"create":false,"edit":false,"delete":false,"manage":false,"admin":false}},{"id":7097,"userid":138551,"edituserid":138551,"newstypeid":3,"published":1,"template":0,"headline":"Anvil REU Student presents at GOOD 2025","body":"Richie Tan, one of the participants of the Rosen Center for Advanced Computing\u2019s (RCAC) 2024 Anvil Research Experience for Undergraduates (REU) Summer program, recently presented at the **[Global Open OnDemand 2025 Conference (GOOD 2025)](https:\/\/www.conference2025.openondemand.org\/)**. Tan highlighted the web dashboard that he and another REU student, Anjali Rajesh, developed during the summer program. The web dashboard went live on the Anvil supercomputer in January of 2025 and has been an enormous hit with Anvil users since going into production. \r\n\r\nRichie Tan is an \"Imageundergraduate studying Computer Science at Purdue University. He, along with seven other students from across the nation, was accepted into the highly competitive 2024 Anvil REU summer program, where he had the opportunity to participate in an 11-week hands-on internship. During the program, the eight students learned about high-performance computing (HPC) and worked on projects related to the operations of the NSF-funded Anvil supercomputer at Purdue. Tan partnered up with Anjali Rajesh, a Computer Science major from Rutgers University, and the pair tackled Anvil REU Project 2\u2014\u201cUnlocking the Impact of Data: The Power of the Dashboard.\u201d The goal of this project was to work on breaking down barriers to data and making complex data more accessible by creating a user-friendly dashboard. Tan and Rajesh worked on this project under the supervision of their mentors, Guangzhen Jin and Rajesh Kalyanam, and Anvil Executive Team member, Carol Song. \r\n\r\nThroughout the summer, the pair developed an all-encompassing data dashboard for Anvil job usage. The dashboard has a user-friendly interface for viewing users\u2019 jobs and allocations, and makes it easy for those who do not have knowledge of the command line tools to inspect this data. This is especially true of users who primarily use interactive applications on Anvil\u2019s Open OnDemand for their research and education. The new dashboard provides detailed metrics and incorporates advanced data visualization techniques to highlight job distribution. It also assists with promoting efficient computing, alerting users of inefficient job requests, and helping them minimize resource usage and queue wait time without losing job performance. By creating this dashboard, Rajesh and Tan provided Anvil users the ability to effortlessly tap into relevant metrics that can help them understand how they are using their computational resources and how they can improve their performance without any coding or command-line confusion.\r\n\r\nThe Anvil REU Summer Program ended in August of 2024, but due to the success of the project, Tan was hired to continue improving the dashboard. He worked throughout the Fall semester fixing bugs for version 1 of the dashboard and making optimizations in the backend. This version went into production on Anvil in January, and included features such as:\r\n\r\n* **Homepage widgets** showing service units, disk usage, queued jobs, etc.\r\n* **My Jobs** page for a comprehensive view of recent jobs on Anvil.\r\n* **Performance Metrics** page for job performance summary over specific periods of time.\r\n* **In-memory caching** for API requests.\r\n\r\nTan immediately began working on version 2, which will go live on Anvil later this year. Version 2 will see enhancements such as: \r\n\r\n* **Redesigned homepage** for cleaner look with more color-coding.\r\n* **Cluster Status** page for viewing node statuses.\r\n* **Job Overview** page for information about a specific job.\r\n* **Node Overview** page for information about a specific node.\r\n* **Custom Time Frame** selection option in the Performance Metrics feature\r\n\r\n

\"AnvilPlot\"<\/div> \r\n\r\nSince the end of the Anvil REU program, Tan has not only furthered the development of the dashboard and helped usher in its successful implementation on the Anvil system, but he has also taken advantage of multiple presentation opportunities and showcased his work at nationwide meetings and conferences. In November, Tan traveled to Atlanta for The SuperComputing conference (SC24), where he and Rajesh presented their summer project during a Poster Presentation session, as well as at the RCAC booth. Tan then showcased his work on version 2 of the dashboard during an RCAC seminar in February, receiving high praise for his efforts as well as some constructive feedback on potential further improvements. In March, he presented the dashboard to the NSF\u2019s **[Advanced Cyberinfrastructure Coordination Ecosystem: Services & Support (ACCESS)](https:\/\/access-ci.org\/)** program at the ACCESS RP forum meeting. And, most recently, Tan presented at the GOOD 2025 conference in Cambridge, Massachusetts, at Harvard University. His presentation, titled \u201cOpen OnDemand Web Dashboard for User-Friendly Job Accounting and Performance Metrics\u201d discussed how he and Rajesh took the Open OnDemand portal and enhanced it to create a more detailed, user-friendly dashboard that researchers on Anvil could take advantage of. He also discussed the updates and optimizations he added after the REU program ended, and gave an overview of the most recent version of the Anvil dashboard. \r\n\r\n\u201cAfter finishing the 2024 Anvil REU program,\u201d says Tan, \u201cattending GOOD25 was an exciting and highly informative experience for me, allowing me to meet many great people who also worked on Open OnDemand. My presentation about our Anvil Open OnDemand dashboard generated a lot of fascinating ideas from other attendees for how I could improve and add to our dashboard. Getting to work on this Open OnDemand dashboard with the support of my mentors at RCAC allowed me to learn a lot about how HPC works and meet many people in the HPC community who I otherwise would not have met. I look forward to working on the next steps for the Anvil dashboard and seeing how it improves the HPC experience for our users.\u201d\r\n\r\nTan will continue to work on the Anvil web dashboard to make improvements and implement new features. Upcoming goals for the project include organizing node display by physical location (i.e., by rack) in the Cluster Status app, adding time series job data, upgrading to Open OnDemand v3.1 for use on other Purdue clusters, making it easier to port to other clusters (the dashboard currently only supports Slurm on Anvil), and, ultimately, contributing valuable features from the Anvil dashboard to the main Open OnDemand project. Tan is excited to continue his work, and looks forward to future learning experiences and opportunities stemming from his efforts. \r\n\r\nTo learn more about the 2024 Anvil REU summer program and the work of all the students who participated, please read our **[comprehensive wrap-up article](https:\/\/www.rcac.purdue.edu\/news\/6923)**. More information about the upcoming 2025 summer Anvil REU program can be found on our **[Research Experience for Undergraduates](https:\/\/www.rcac.purdue.edu\/anvil\/reu)** webpage. \r\n\r\nFor more information regarding HPC and how it can help you, please visit our \u201c**[Why HPC?](https:\/\/www.rcac.purdue.edu\/anvil\/why-hpc)**\u201d page. \r\n\r\nAnvil is one of Purdue University\u2019s most powerful supercomputers, providing researchers from diverse backgrounds with advanced computing capabilities. Built through a $10 million system acquisition grant from the **[National Science Foundation (NSF)](https:\/\/nsf.gov\/)**, Anvil supports scientific discovery by providing resources through the NSF\u2019s **[Advanced Cyberinfrastructure Coordination Ecosystem: Services & Support (ACCESS)](https:\/\/access-ci.org\/)**, a program that serves tens of thousands of researchers across the United States. Researchers may request access to Anvil via the **[ACCESS allocations process](https:\/\/www.rcac.purdue.edu\/knowledge\/anvil\/access\/anvil_through_access)**. More information about Anvil is available on Purdue\u2019s **[Anvil website](https:\/\/www.rcac.purdue.edu\/anvil)**. Anyone with questions should contact anvil@purdue.edu. Anvil is funded under NSF award No. 2005632.\r\n\r\n_Written by: Jonathan Poole, poole43@purdue.edu_","location":"","datetimenews":"2025-04-07 12:50:53","datetimenewsend":"2025-12-31 23:59:59","datetimeupdate":null,"datetimecreated":"2025-04-07T16:50:53.000000Z","datetimeedited":"2025-04-07T16:56:58.000000Z","datetimemailed":null,"datetimeremoved":null,"lastmailuserid":0,"url":null,"registration_limit":null,"type":{"id":3,"tagresources":1,"location":0,"name":"Science Highlights","alias":"science","ordering":5,"future":1,"ongoing":1,"tagusers":0,"calendar":0,"url":1,"parentid":0,"state":"all","order_dir":"desc"},"associations":[],"updates":[],"api":"https:\/\/rcac.purdue.edu\/api\/news\/7097","uri":"https:\/\/rcac.purdue.edu\/news\/7097","formatteddate":"April 7, 2025 12:50pm - December 31, 2025 11:59pm EST","formattedbody":"

Richie Tan, one of the participants of the Rosen Center for Advanced Computing\u2019s (RCAC) 2024 Anvil Research Experience for Undergraduates (REU) Summer program, recently presented at the Global Open OnDemand 2025 Conference (GOOD 2025)<\/a><\/strong>. Tan highlighted the web dashboard that he and another REU student, Anjali Rajesh, developed during the summer program. The web dashboard went live on the Anvil supercomputer in January of 2025 and has been an enormous hit with Anvil users since going into production.<\/p>\n

Richie Tan is an \"Imageundergraduate studying Computer Science at Purdue University. He, along with seven other students from across the nation, was accepted into the highly competitive 2024 Anvil REU summer program, where he had the opportunity to participate in an 11-week hands-on internship. During the program, the eight students learned about high-performance computing (HPC) and worked on projects related to the operations of the NSF-funded Anvil supercomputer at Purdue. Tan partnered up with Anjali Rajesh, a Computer Science major from Rutgers University, and the pair tackled Anvil REU Project 2\u2014\u201cUnlocking the Impact of Data: The Power of the Dashboard.\u201d The goal of this project was to work on breaking down barriers to data and making complex data more accessible by creating a user-friendly dashboard. Tan and Rajesh worked on this project under the supervision of their mentors, Guangzhen Jin and Rajesh Kalyanam, and Anvil Executive Team member, Carol Song.<\/p>\n

Throughout the summer, the pair developed an all-encompassing data dashboard for Anvil job usage. The dashboard has a user-friendly interface for viewing users\u2019 jobs and allocations, and makes it easy for those who do not have knowledge of the command line tools to inspect this data. This is especially true of users who primarily use interactive applications on Anvil\u2019s Open OnDemand for their research and education. The new dashboard provides detailed metrics and incorporates advanced data visualization techniques to highlight job distribution. It also assists with promoting efficient computing, alerting users of inefficient job requests, and helping them minimize resource usage and queue wait time without losing job performance. By creating this dashboard, Rajesh and Tan provided Anvil users the ability to effortlessly tap into relevant metrics that can help them understand how they are using their computational resources and how they can improve their performance without any coding or command-line confusion.<\/p>\n

The Anvil REU Summer Program ended in August of 2024, but due to the success of the project, Tan was hired to continue improving the dashboard. He worked throughout the Fall semester fixing bugs for version 1 of the dashboard and making optimizations in the backend. This version went into production on Anvil in January, and included features such as:<\/p>\n