June 2016 - GCC2016-Participants - lists.galaxyproject.org

GCC2016 Last Day!
by Dave Clements 29 Jun '16

29 Jun '16

Hello GCC2016 Participants! There’s only one day of GCC2016 remaining. (How did that happen so fast?) Here’s what you’ll need to know to thrive during the last 24 hours of GCC2016. Conference dinner The GCC2016 conference dinner is Wednesday evening from 7-10 in the IMU Tudor Room. We look forward to seeing you at the GCC2016 finale! Call for ... lightning! Send an abstract to gcc2016-sci(a)lists.galaxyproject.org by 11am today. *Wednesday BoFs* Here’s what’s been scheduled for Wednesday as of this writing: 1. Arts & Crafts <http://sched.co/7YbT> Wednesday, June 28, back of Alumni Hall, 12:40-1:40pm GCC sure can be overwhelming sometimes! This is a quiet place to do some stress free, science related, arts and crafts. Sign up now <http://sched.co/7YbT>. 2. *Bioinformatics education at undergraduate level <http://sched.co/7a8s>* Wednesday, June 28, west end of Solarium, 12:40-1:40pm What are the list of qualifications you wish to see from your incoming graduate students? Sign up now <http://sched.co/7a8s>. Sponsors Conference sponsors are key partners in the Galaxy community and are absolutely vital in making event registration affordable. We are highlighting different sponsors in each email. The Globus Genomics <https://www.globus.org/genomics> solution addresses the challenges that researchers face when dealing with NGS analysis on a large scale. It combines state-of-the-art algorithms with sophisticated data management tools, a powerful graphical workflow environment, and a cloud-based elastic computational infrastructure. Globus Genomics is software-as-a-service, delivered as a yearly subscription with the appropriate level of resources to meet your specific needs. Globus Genomics integrates latest Galaxy with Globus <https://www.globus.org/> data management services and Amazon Web Services. For more details on Globus Genomics and see if you qualify for a free pilot, please contact at support(a)globus.org. Thanks for a most excellent GCC and see you on Wednesday! The GCC2016 Exec Carrie Ganote, Chris Hemmerich, Dave Clements, Marilyne Summo, and Robert Ping -- http://galaxyproject.org/ http://getgalaxy.org/ http://usegalaxy.org/ https://wiki.galaxyproject.org/

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June 27 Update
by Dave Clements 27 Jun '16

27 Jun '16

Hello GCC2016 Participants, GCC2016 training is done! 31 training sessions covering the spectrum of data intensive biology are now history (but don’t worry if you missed it, slides and video are coming). The opening reception is this evening and the conference starts tomorrow morning. See below for details. - Opening reception Monday, 7-9pm - Conference check-in - Call for … lightning! - Monday evening and Tuesday BoFs - Submit a BoF now! - Sponsors Welcome to Bloomington! The GCC2016 Exec Carrie Ganote, Chris Hemmerich, Dave Clements, Marilyne Summo, and Robert Ping Opening reception Monday 7-9pm Jetstream <http://jetstream-cloud.org/>, IU's newest National Science Foundation-funded project, and the National Center for Genome Analysis Support <http://ncgas.org/> at IU, will sponsor a reception at the IU CyberInfrastructure Building with local wine/beer, morsels from local eateries, and demonstrations of the 15 million+ pixel IQ-Wall, IU's Data Center, Science on a Sphere, and other IU-centric IT. Meet at the sidewalk by the stop sign near the guard gate on 7th street at the entrance to the IMU Hotel circle drive at ~6:25 and ~7:25pm or at Wilkie North Tower circle drive at ~6:45pm or ~7:45pm for transport or have a walk west out 10th street. See map <https://www.google.com/maps/d/u/0/viewer?mid=1eC2hIqhNdnTRWVEL7fRrs2x8Qb4> (CIB is two purple balloons on far right of map) Please bring the your two drink tickets (inside your badge holder). Conference check-in If you are just arriving, please stop by the conference desk to pick up your badge, program, and other conference materials. The conference desk will be open these times today and tomorrow: Mon Now–6pm, Conference Lounge, main level, IMU 6:45-9pm, CyberInfrastructure Building (during opening reception) Tue 8am-6pm, Alumni Hall, First floor, IMU See the online map <http://bit.ly/gcc2016map> for building locations. Call for ... lightning! There are two lightning talk sessions: one on Tuesday at 4:45pm, and one on Wednesday at 4:30pm. If you wish to give a lightning talk, please send an abstract to gcc2016-sci(a)lists.galaxyproject.org before the start of session 2 on Tuesday or the start of session 6 on Wednesday. Proposals should be short, just like the talks. Reviewers will let you know no later than the end of lunch on each day if the proposal has been accepted for that day. The slides for all lightning talks will be made available online, and the talks will be recorded and posted online for later viewing. Monday evening & Tuesday BoFs BoFs have started! Here’s what’s been scheduled for Monday evening and Tuesday as of this writing: 1. GalaxyScientists Revival <https://gcc16.sched.org/event/7YSs/galaxyscientists-revival-birds-of-a-feat…> Monday, June 27, Oak Room, 9pm-10:30pm GalaxyScientists represents the scientific community among Galaxy users. If you would like to contribute to the Galaxy scientific community, please join us. Sign up now <http://sched.co/7UVB>. 2. Arts & Crafts <http://sched.co/7Yad> Tuesday, June 28, back of Alumni Hall, 12:40-1:40pm GCC sure can be overwhelming sometimes! This is a quiet place to do some stress free, science related, arts and crafts. Sign up now <http://sched.co/7Yad>. 3. GalaxyAdmins <http://sched.co/7KLn> Tuesday, June 28, west end of Alumni Hall, 12:40-1:40pm If you administer a Galaxy instance, please help shape the future direction of this group and to set action items for the coming year. Sign up now <http://sched.co/7KLn>. 4. Gene Annotation <http://sched.co/7Yfb> Tuesday, June 28, southwest corner of Alumni Hall, 12:40-1:40pm We are interested in a general discussion of Genome Annotation problems and solutions.. Sign up now <http://sched.co/7KLn>. See something that interests you? Plan to attend. You don’t have to register for a BoF on sched.org to attend a BoF. Just show up. Let’s say that again: Really, just show up. See the complete list of BoFs <https://gcc16.sched.org/type/E.6+Birds-of-a-feather> for what’s coming during the rest of the week. More BoFs will be added as they are submitted. We’ll announce them on Twitter, in the daily mails, and during the meeting. Call for BoFs Birds-of-a-feather meetups (BoFs) <https://gcc16.sched.org/overview/type/E.6+Birds-of-a-feather> are informal gatherings at GCC where attendees with a shared interest meet to discuss their interests and challenges. If you have an idea for a BoF, post it here <https://docs.google.com/forms/d/1aikQugTW_VlY5K0TQ3cI9E2NVIk443gkzK6EqP8gsr…>. The conference will provide space and make sure that attendees get the word. BoFs will be added to the conference schedule website <https://gcc16.sched.org/overview/type/E.6+Birds-of-a-feather> as they come in, and BoF meeting times will be assigned in the coming weeks. Last year's BoFs <https://wiki.galaxyproject.org/Events/GCC2015/BoFs> spanned a wide range of topics and were highly recommended in the conference evaluations. Let’s outdo ourselves again this year. Sponsors Conference sponsors <https://gcc2016.iu.edu/sponsors/index.php> are key partners in the Galaxy community and are absolutely vital in making event registration affordable. We are highlighting different sponsors in each email. Lenovo <http://lenovo.com/> is proud to be the Gold Sponsor of GCC2016 and we look forward to seeing everyone at the IU conference center. Brian Finley <https://www.linkedin.com/in/brian-finley-105188> of Lenovo will give a short talk <https://gcc16.sched.org/event/7Jc3/infinite-galaxy> on technology trends in Big Data / Analytics, and several of us will be at the conference and exhibit area. If you would like any information from Lenovo, please feel free to send me an email <rerdelen(a)lenovo.com> or call (734) 331-0676. Of course, please stop by our exhibit table at the conference and say hello. Thank you -- Bob Erdelen Lenovo Data Center Group. x86 Servers, Networks & Storage Information: www.lenovo.com/us Connect: www.linkedin.com/in/erdelen -- http://galaxyproject.org/ http://getgalaxy.org/ http://usegalaxy.org/ https://wiki.galaxyproject.org/

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June 26 Update
by Dave Clements 26 Jun '16

26 Jun '16

Hello GCC2016 Participants, GCC2016 training is halfway done: We had 15 sessions today (plus 1 more tonight), and have 15 more on Monday. The code and data hackathons officially wind down this evening (but will continue in smaller groups during the rest of the week). Here’s the news to use for the next 36 hours: - Conference check-in - Training office hour - Dinner options tonight - Opening reception Monday, 7-9pm - Call for … lightning! - Monday BoFs - Submit a BoF now! - Sponsors See you, um, here! The GCC2016 Exec Carrie Ganote, Chris Hemmerich, Dave Clements, Marilyne Summo, and Robert Ping Conference check-in If you are just arriving, please stop by the conference desk to pick up your badge, program, and other conference materials. You’ll need that badge to attend GCC2016 The conference desk will be open these times today and tomorrow: Sun 8am–9pm, Conference Room, main level, IMU Mon 8am–6pm, Conference Room, main level, IMU 6:45-9pm, CyberInfrastructure Building (during opening reception See the online map <http://bit.ly/gcc2016map> for building locations. Training: Office hour To help people get set up in advance, there will be a training office hour session tonight. Drop by if you require help installing and configuring required software, or just to check that everything is working. The training office hour tonight is: Sunday, 8:30–9:30pm, Hoosier Room, main level of the IMU. Our goal is to have everyone ready to go when the first training session starts each morning. And, if you are VM, VirtualBox, Docker, or generally systems proficient, think about stopping by and lending a hand. Dinner options tonight You are on your own for dinner this evening (Sunday). See the bottom of the conference location page <https://gcc2016.iu.edu/location/index.php> for links to nearby options. Or, if you just want to wander, see the online map <http://bit.ly/gcc2016map> for restaurant-enriched neighborhoods. Fourth street from Indiana Avenue to Walnut St. and Fifth Street (Kirkwood Avenue) from Indiana Avenue to Rogers St. both have an array of amazing options. The square downtown is a great find as well. Lunch on Monday Will be in the IMU East Lounge. This will get people through the lunch lines much quicker than today. Opening reception Monday 7-9pm Jetstream <http://jetstream-cloud.org/>, IU's newest National Science Foundation-funded project, and the National Center for Genome Analysis Support <http://ncgas.org/> at IU, will sponsor a reception at the IU CyberInfrastructure Building with local wine/beer, morsels from local eateries, and demonstrations of the 15 million+ pixel IQ-Wall, IU's Data Center, Science on a Sphere, and other IU-centric IT. Meet at the sidewalk by the stop sign near the guard gate on 7th street at the entrance to the IMU Hotel circle drive at ~6:25 and ~7:25pm or at Wilkie North Tower circle drive at ~6:45pm or ~7:45pm for transport or have a walk west out 10th street. See map <https://www.google.com/maps/d/u/0/viewer?mid=1eC2hIqhNdnTRWVEL7fRrs2x8Qb4> (CIB is two purple balloons on far right of map) Please bring the your two drink tickets (inside your badge holder). Call for ... lightning! There are two lightning talk sessions: one on Tuesday at 4:45pm, and one on Wednesday at 4:30pm. If you wish to give a lightning talk, please send an abstract to gcc2016-sci(a)lists.galaxyproject.org before the start of session 2 on Tuesday or the start of session 6 on Wednesday. Proposals should be short, just like the talks. Reviewers will let you know no later than the end of lunch on each day if the proposal has been accepted for that day. The slides for all lightning talks will be made available online, and the talks will be recorded and posted online for later viewing. Monday BoFs BoFs start tomorrow! Here’s what’s been scheduled for Monday as of this writing: 1. European Galaxy developer school <http://sched.co/7Vi5> Monday, June 27, IMU Oak Room, 11:30am-12:30pm What should be covered in a developer school being held in January 2017, in Strasbourg (France). Sign up now <http://sched.co/7Vi5>. 2. Application containers for the win! <http://sched.co/7UVB> Monday, June 27, IMU, Walnut Room, 11:30am-12:30pm Application portability conundrum of Galactic proportions. Sign up now <http://sched.co/7UVB>. 3. GalaxyScientists Revival <https://gcc16.sched.org/event/7YSs/galaxyscientists-revival-birds-of-a-feat…> (Newly added) Monday, June 27, Oak Room, 9pm-10:30pm GalaxyScientists represents the scientific community among Galaxy users. If you would like to contribute to the Galaxy scientific community, please join us. Sign up now <http://sched.co/7UVB>. See something that interests you? Plan to attend. You don’t have to register for a BoF on sched.org to attend a BoF. Just show up. Let’s say that again: Really, just show up. See the complete list of BoFs <https://gcc16.sched.org/type/E.6+Birds-of-a-feather> for what’s coming during the rest of the week. More BoFs will be added as they are submitted. We’ll announce them on Twitter, in the daily mails, and during the meeting. Submit a BoF now! Submit your BoF here <https://docs.google.com/forms/d/1aikQugTW_VlY5K0TQ3cI9E2NVIk443gkzK6EqP8gsr…>, right now. Birds-of-a-feather meetups (BoFs) <https://gcc16.sched.org/overview/type/E.6+Birds-of-a-feather> are informal gatherings at GCC where attendees with a shared interest meet to discuss their interests and challenges. If you have an idea for a BoF, post it here <https://docs.google.com/forms/d/1aikQugTW_VlY5K0TQ3cI9E2NVIk443gkzK6EqP8gsr…>. There is ample space for more BoFs throughout the rest of the conference. Sponsors Conference sponsors <https://gcc2016.iu.edu/sponsors/index.php> are key partners in the Galaxy community and are absolutely vital in making event registration affordable. We are highlighting different sponsors in each email. DDN <http://www.ddn.com/> is the leading provider of high-performance storage solutions, including parallel file systems for fast analytics, as well as cloud solutions for secure collaborative research and active archival. By delivering a single, end-to-end platform for the entire research data lifecycle, DDN solutions are proven to reduce time to discovery in the most demanding environments. For variant calling workflows, for instance, our customers are seeing an order of magnitude better throughput than on traditional NAS storage. As a result, DDN customers include over a third of top sequencing centers, and a growing number of clinical research and pharmaceutical companies as well. Stop by the DDN booth to meet with their experts and learn more! *BIOTEAM APPLIANCE GALAXY EDITION: GALAXY MADE EASY* The *BioTeam Appliance Galaxy Edition* <http://www.bioteam.net/products/galaxy-appliance/> is a push-button solution that let’s researchers get up and running quickly with Galaxy. The Galaxy Appliance comes preinstalled with a production instance of Galaxy, bioinformatics tools, and reference datasets. This powerful system is specifically configured for computationally intensive scientific workloads. The Galaxy Appliance also provides researchers with the flexibility to install additional applications they need, independent of Galaxy, in order to effectively conduct their research on one central system. BioTeam provides ongoing support for the Galaxy Appliance, enabling researchers to minimize their IT burden. The Galaxy Appliance is used by researchers around the world for metagenomic, ChIP-Seq, RNA-Seq analysis and more. Contact tom(a)bioteam.net -- http://galaxyproject.org/ http://getgalaxy.org/ http://usegalaxy.org/ https://wiki.galaxyproject.org/

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Training office hours moved, Lighting, BoFs, and more
by Dave Clements 25 Jun '16

25 Jun '16

Hello GCC2016 Participants, GCC2016 has started! The code and data hackathons kicked off this morning, each with a record number of participants. Things expand even further tomorrow–the first day of training. Here are the relevant bits for the next day or so: - Conference check-in - Training office hours - Call for ... lightning! - Submit a BoF now! - Announced BoFs - Training and meeting to be streamed! - Sponsors - Training: Required software - Lodging check-in Welcome to Bloomington! The GCC2016 Exec Carrie Ganote, Chris Hemmerich, Dave Clements, Marilyne Summo, and Robert Ping *Conference check-in* If you are just arriving, please stop by the conference desk to pick up your badge, program, and other conference materials. You’ll need that badge to attend GCC2016 events. Over the weekend, the conference desk will be open: Saturday, 9am–9pm, Lobby, Wells Library <http://sched.co/72a8> Sunday, 8am–9pm, Conference Room, main level, IMU <http://sched.co/72Zd> See the online map <http://bit.ly/gcc2016map> for building locations. *Training: Office hours* *Note: Tonight’s training office hours <http://sched.co/5Yax> have been moved to the Wells Library.* To help people get set up in advance, there will be a training office hour session the night before each day of training. Drop by if you require help installing and configuring required software, or just to check that everything is working. The two training office hours sessions will be Saturday, 7–10pm, *Wells Library* <http://sched.co/5Yax> Sunday, 8:30–9:30pm, Hoosier Room, main level of the IMU <http://sched.co/5Yan> Our goal is to have everyone ready to go when the first training session starts each morning. And, if you are VM, VirtualBox, Docker, or generally systems proficient, think about stopping by and lending a hand. *Call for ... lightning!* Lightning talks are a highlight of every GCC, and this year we’ve allocated more time for them at GCC2016 than ever before. Lightning talks are short, sharp talks about something you’ve been working on, a resource, a question, or anything else of interest to GCC2016 participants. Talks are 7 minutes long with 5 minutes for presentation and 2 minutes for Q&A. There are two lightning talk sessions: one on Tuesday at 4:45pm, and one on Wednesday at 4:30pm. *If you wish to give a lightning talk, please send an abstract to gcc2016-sci(a)lists.galaxyproject.org <gcc2016-sci(a)lists.galaxyproject.org> before the start of session 2 on Tuesday or the start of session 6 on Wednesday.* Proposals should be short, just like the talks. Reviewers will let you know no later than the end of lunch on each day if the proposal has been accepted for that day. The slides for all lightning talks will be made available online, and the talks will be recorded and posted online for later viewing. *Submit a BoF now!* Got an idea for a birds-of-a-feather? Submit your BoF here <https://docs.google.com/forms/d/1aikQugTW_VlY5K0TQ3cI9E2NVIk443gkzK6EqP8gsr…>, right now. Birds-of-a-feather meetups (BoFs) <https://gcc16.sched.org/overview/type/E.6+Birds-of-a-feather> are informal gatherings at GCC where attendees with a shared interest meet to discuss their interests and challenges. There is ample space for more BoFs throughout the rest of the conference. *Announced BoFs* 1. European Galaxy developer school <http://sched.co/7Vi5> Monday, June 27, 11:30am-12:30pm What should be covered in a developer school being held in January 2017, in Strasbourg (France). Sign up now <http://sched.co/7Vi5>. 2. Application containers for the win! <http://sched.co/7UVB> Monday, June 27, 11:30am-12:30pm Application portability conundrum of Galactic proportions. Sign up now <http://sched.co/7UVB>. 3. GalaxyAdmins <http://sched.co/7KLn> Tuesday, June 28, 12:40pm-1:40pm The GalaxyAdmins community <https://wiki.galaxyproject.org/Community/GalaxyAdmins> meets in person Sign up now <http://sched.co/7KLn>. *Training and meeting to be streamed!* GCC talks have often been recorded and then posted online afterward. We’ll do that again this year, but Indiana University is making it possible to go one step further: All GCC2016 training sessions and conference talks will be streamed live during the events. Know someone who couldn’t make it? URLs for streaming are in the conference FAQ <https://gcc2016.iu.edu/faq/index.php>. *Sponsors* Conference sponsors <https://gcc2016.iu.edu/sponsors/index.php> are key partners in the Galaxy community and are absolutely vital in making event registration affordable. We are highlighting different sponsors in each email. Indiana University is home to the *IU Pervasive Technology Institute* <https://pti.iu.edu/>, platinum sponsor of GCC2016. IU PTI seeks to improve the quality of life in the state of Indiana and the world through novel research and innovation and service delivery in the broad domain of information technology and informatics. Affiliate partners of PTI include: - Center for Applied Cybersecurity Research <https://cacr.iu.edu/>, providing the nation with leadership in applied cybersecurity technology, education, and policy. - Data to Insight Center <http://d2i.indiana.edu/>, focusing on data management, big data, data and text analytics, advanced cyberinfrastructure, tools for automated metadata and provenance capture, and the management and preservation of scientific data. - Digital Science Center <http://www.dsc.soic.indiana.edu/>, exploring new applications related to the most cutting-edge grid and cloud technologies and working to define some of the most powerful new computational techniques available. - Research Technologies <https://rt.uits.iu.edu/index.php>, developing, delivering, and supporting advanced technology solutions that improve productivity of and enable new possibilities in research, scholarly endeavors, and creative activity at Indiana University and beyond. National Science Foundation-funded partners of IU PTI include: - National Center for Genome Analysis Support, enabling the U.S. biological research community to analyze, understand, and make use of the vast amount of genomic information now available. - Jetstream <http://jetstream-cloud.org/>, a cloud system on which you can run Galaxy. IU PTI also acknowledges the leadership and research capabilities of two entities at IU who have helped in the planning of GCC2016 and who work with IU PTI: - Center for Genomics and Bioinformatics <https://cgb.indiana.edu/about/index.html>, a service facility that provides IU faculty access to genome technologies and bioinformatics support. - IU Bioinformatics <http://www.soic.indiana.edu/graduate/degrees/informatics/bioinformatics/ind…> program. IU’s School of Informatics and Computing offers an extensive graduate program, combining several disciplines and using massive amounts of data. On behalf of IU PTI and all our affiliates and partners, we welcome you to Bloomington, Indiana. Please reach out to us by contacting pti(a)iu.edu or visiting our website for more information: pti.iu.edu *GenomeWeb* <https://www.genomeweb.com/> is a proud sponsor of the 2016 Galaxy Community Conference. Did you know that academic and non-profit researchers have free access to GenomeWeb’s premium news? Just register with your .edu, .org, .gov, or equivalent email address and you’ll have access to the entire site! Premium subscribers can opt into our weekly topical news bulletins, including our weekly roundup of informatics news. Register at www.genomeweb.com/user/register or email customerservice(a)genomeweb.com with any questions. *Training: Required software* *See Thursday’s email.* And, all the VMs we know about are now located on Jetstream <http://jetstream-iu0.galaxyproject.org/planemo/>, here at IU. Feel free to download them from there, especially if you are already in Bloomington *Lodging check-in* *See Thursday’s email.* -- http://galaxyproject.org/ http://getgalaxy.org/ http://usegalaxy.org/ https://wiki.galaxyproject.org/

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Events start this weekend
by Dave Clements 23 Jun '16

23 Jun '16

Hello GCC2016 Participants! This email contains what you need to know between now and the start of GCC2016 events this weekend: - Conference check-in - Getting to Bloomington - Lodging check-in - Training: Required software - Training: Office hours - Call for BoFs - Announced BoFs - Hackathons - Sponsors See you in Bloomington! The GCC2016 Exec Carrie Ganote, Chris Hemmerich, Dave Clements, Marilyne Summo, and Robert Ping *Before you leave* Be prepared and pack for temperatures as high as 92F (33C) and as low as 58F (14C). Expect a mix of sunshine and rain in the next week. *Getting to Bloomington*If you are flying into Indianapolis International Airport, there are two shuttle companies that provide transport to Bloomington: 1. GO Express Travel <http://goexpresstravel.com/airport_shuttle_schedule#schedule> This service stops at the IMU and the Wilkie Residence Hall. The last shuttle leaves the airport at 10:40pm. 2. Star of America Shuttle <http://www.soashuttle.com/locations/bloomington-to-indianapolis/> This service stops at the IMU. If you are staying at the Wilkie Residence Hall, the closest stop is Read Hall. The last shuttle leaves the airport at 10:20pm. See the online map <http://bit.ly/gcc2016map> for building locations. *Conference check-in* Please stop by the conference desk to pick up your badge, program, and other conference materials. You’ll need that badge to attend GCC2016 events. The conference desk will be open at these times: Fri 6–9:00pm, East Lounge, main level, Indiana Memorial Union (IMU) Sat 9am–9pm, Lobby, Wells Library Sun 8am–9pm, Conference Room, main level, IMU Mon 8am–6pm, Conference Room, main level, IMU 6:45–9pm, Lobby, Cyberinfrastructure Building, during opening reception Tue 8am–6pm, Alumni Hall, first floor, IMU Wed 8am–6pm, Alumni Hall, first floor, IMU See the online map <http://bit.ly/gcc2016map> for building locations. *Lodging check-in* The Indiana Memorial Union Biddle Hotel and Conference Center desk is open 24 hours. The Wilkie Residence Hall center desk is located in the North Building and is open 8am–midnight on weekdays and 10am–midnight on weekends. If you arrive after hours, please push the black button on the phone outside the residence hall. Punch in 6-4804 (will be posted by the phone) and the staff member on duty will come right down to help. Upon check-in at either facility, you will receive a welcome letter that includes the conference/registration desk schedule and a few other details. For those arriving before Saturday, see the special Friday conference desk hours above, they are not listed in your welcome letter. Parking is free at both the IMU (in designated parking lots) and at Wilkie in designated parking lots (request a parking pass for CH spots at the Wilkie center desk). *Be kind to your fellow attendees:* If you are staying at the IMU and don’t have a car, please ask for a parking permit anyway. Bring this permit with you to the conference check-in desk. We’ll offer the permits up to attendees who need parking but aren’t staying at the IMU. *Training: Required software* GCC2016 training <https://gcc16.sched.org/overview/type/D.1+Training+-+Using> starts on Sunday and continues on Monday. There are 31 sessions offered over the two days. See your registration confirmation email for the training sessions you signed up for. Many of the training sessions require specific software installed on your laptop to fully participate in them. *Practically every session requires a Wi-Fi enabled laptop with either Chrome <https://www.google.com/chrome/browser/desktop/> or Firefox <https://www.mozilla.org/en-US/firefox/new/> installed.* If you don’t have either of these web browsers installed, please install at least one of them before training starts. These Deploy and Develop sessions <https://gcc16.sched.org/overview/type/D.3+Training+-+Deploy+%26+Develop> require that you have a running copy of the conference virtual machine (VM) <https://images.galaxyproject.org/planemo/latest.ova>: - Writing and publishing Galaxy tools <http://sched.co/5Y5Z> - Introduction to Galaxy interactive environments <http://sched.co/5Y5e> - Advanced topics in Galaxy tool development <http://sched.co/5Yg5> - Advanced topics in Galaxy interactive environments <http://sched.co/5Yvk> - Scripting Galaxy using the API and BioBlend <http://sched.co/5Yzl> - BioinforMagic: Marrying Galaxy and Bioconductor <http://sched.co/5VsB> If you are participating in any of these sessions, please follow these directions <http://planemo.readthedocs.io/en/latest/appliance.html#launching-the-applia…> to download and install the VM in VirtualBox <http://planemo.readthedocs.io/en/latest/appliance.html#launching-the-applia…>. If you don’t already have VirtualBox on your laptop, you will need to install that too. *Note that the VM is large (over 3GB). We encourage you to download the image <https://images.galaxyproject.org/planemo/latest.ova> before leaving for the conference, if at all possible.* A few other sessions also require some installed software. The instructors for these sessions will contact participants directly. *Training: Office hours* To help people get set up in advance, there will be a training office hour session the night before each day of training. Drop by if you want help installing and configuring required software, or just to check that everything is working. The two training office hours sessions will be Saturday, 7–10pm Sunday, 8:30–9:30pm Both sessions will be in the Hoosier room on the main level of the IMU, which is just down the hall from where the training sessions will be held the following day. Our goal is to have everyone ready to go when the first training session starts each morning. And, if you are VM, VirtualBox, Docker, or generally systems proficient, think about stopping by and lending a hand. *Call for BoFs* Birds-of-a-feather (BoF) meetups <https://gcc16.sched.org/overview/type/E.6+Birds-of-a-feather> are informal gatherings at GCC where attendees with a shared interest meet to discuss their interests and challenges. *If you have an idea for a BoF, post it here <https://docs.google.com/forms/d/1aikQugTW_VlY5K0TQ3cI9E2NVIk443gkzK6EqP8gsr…>*. The conference will provide space and make sure that attendees get the word. BoFs will be added to the conference schedule website <https://gcc16.sched.org/overview/type/E.6+Birds-of-a-feather> as they come in, and BoF meeting times will be assigned in the coming weeks. Last year's BoFs spanned a wide range of topics and were highly recommended in the conference evaluations. Let’s outdo ourselves again this year. *Announced BoFs* Three BoFs have already been added to the conference. Locations and times for these three will be set before training starts on Sunday. 1. European Galaxy developer school <http://sched.co/7Vi5> TBA A developer school is planned to open in January 2017, in Strasbourg (France), organized by Elixir (European bioinformatics HUB) and the French Institute of Bioinformatics (the Elixir French national node). This BoF is a discussion on which training modules to propose. Sign up now <http://sched.co/7Vi5>. 2. Application containers for the win! <http://sched.co/7UVB> Monday, June 27, 11:30am-12:30pm *Application portability conundrum of Galactic proportions.* Using application containers for portability, especially overcoming Toolshed build issues. The wonderful, but checkered history of Toolshed distribution of galaxy tools has had its share of delights and frustrations, the latter often attributed to Linux distribution issues, but nevertheless big time sinks. While a lot of work in the Galaxy ecosystem is being done towards Dockerizing everything some sites have no opportunity to run Docker. Let's talk about some other possibilities focused on the application portability to try to make toolshed tool distribution as painless as possible. Sign up now <http://sched.co/7UVB>. 3. GalaxyAdmins <http://sched.co/7KLn> Tuesday, June 28, 12:40pm-1:40pm The GalaxyAdmins community <https://wiki.galaxyproject.org/Community/GalaxyAdmins> meets in person every year at GCC and online every other month during the rest of the year. If you administer a Galaxy instance, please help shape the future direction of the group and to set action items for the coming year. Sign up now <http://sched.co/7KLn>. *Hackathons* Coding and data hackathons <https://gcc2016.iu.edu/hacks/index.php> start on Saturday morning. Hackathon organizers will be in direct contact with you on Saturday and Sunday morning to let you know what to do in preparation for these events. *Sponsors* Conference sponsors <https://gcc2016.iu.edu/sponsors/index.php> are key partners in the Galaxy community and are absolutely vital in making event registration affordable. In acknowledgement, we are highlighting different sponsors in each email. *Developing versatile storage solutions for Life Sciences* *EMC*’s Emerging Technologies Division (ETD) is a global leader and trusted partner in Life Science storage solutions. We deliver powerful yet versatile solutions for healthcare and Life Science organizations that want to efficiently manage clinical and genomics data. EMC storage solutions are simple to install, manage, and scale, at any size, across the R&D data lifecycle. As a leader and trusted partner of Life Science organizations worldwide, EMC storage solutions provide the security, ease of management, resilience, and scalability needed to manage Life Science workflows today and in the future. For more information, please visit our Life Sciences information page <http://www.emergingtechsolutions.com/life-science>. The *Bloomington Life Sciences Partnership (BLSP) <http://www.bloomingtonedc.com/>* is an economic development initiative that is part of a larger effort to attract innovation, cultivate entrepreneurship, and support business growth in the greater Bloomington region. The BLSP program, part of the Bloomington Economic Development Corporation (BEDC), is a non-profit initiative dedicated to improving the economic vitality of the region and fostering creativity, job growth, and better opportunities for all. If you have a startup idea, own a business, or are interested in supporting the growth of these things in Bloomington, please visit www.bloomingtonedc.com or call (812) 340-9058 to see how we can help. -- http://galaxyproject.org/ http://getgalaxy.org/ http://usegalaxy.org/ https://wiki.galaxyproject.org/

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GCC2016 News you can use: Training prep, BoFs, Posters, and more
by Dave Clements 16 Jun '16

16 Jun '16

Hello everyone, GCC2016 events <https://gcc16.sched.org/> start in just over one week. Here’s some last-minute info you’ll need to make the most out of GCC2016: - Training preparation - Call for BoFs - Lightning talks - Submit a poster - Sponsors - GMOD 2016 GCC2016 is promising to be great one! Looking forward to seeing you in Bloomington, The GCC2016 Exec Carrie Ganote, Chris Hemmerich, Dave Clements, Marilyne Summo, and Robert Ping *Training preparation* Attending GCC2016 training? All sessions <https://gcc16.sched.org/overview/type/D.x+Training+-+All> list prerequisites, and any laptop or software requirements. Almost all sessions require a Wi-Fi enabled laptop with either Chrome, Firefox, or Safari installed. For the use <https://gcc16.sched.org/type/D.1+Training+-+Using> and general <https://gcc16.sched.org/type/D.2+Training+-+General> training sessions all you’ll need is that laptop. For some of the deploy and develop sessions <https://gcc16.sched.org/overview/type/D.3+Training+-+Deploy+%26+Develop> you’ll need to have additional software installed ahead of time. Most often this will be virtual machines or Docker images. We will provide specific details on what is required and where to get the machine images and any needed software in the coming week. We’ll also provide help with installation and setup at two training office hours sessions <https://gcc16.sched.org/type/A.+Help> on Saturday and Sunday evening. (And if you would like to help during those sessions, please let the exec committee know.) *Call for BoFs* We still have lots of space for birds-of-a-feather meetups (BoFs) <https://gcc16.sched.org/overview/type/E.6+Birds-of-a-feather>. These are informal meetups where attendees with a shared interest meet to discuss their interests and challenges. *If you have an idea for a BoF topic, post it here <https://docs.google.com/forms/d/1aikQugTW_VlY5K0TQ3cI9E2NVIk443gkzK6EqP8gsr…>*. BoFs are a terrific way to find others and discuss common challenges. See the list of BoFs for what gatherings have already been established. *Lightning talks* Lightning talks are a dynamic part of every GCC and this year’s conference will feature more lightning talks than ever before. Lightning talks are short (7 minutes long) and can be about anything of interest to conference participants: prototype ideas, useful resources, open questions, interesting communities, novel approaches to challenges, and anything else you can think of. The call for lightning talks will go out once GCC2016 events have started. Please start thinking about what you would like to present! *Submit a poster* Have a poster presentation idea? There are still a few spaces left <http://bit.ly/gcc2016abssub> for additional posters <https://gcc16.sched.org/overview/type/E.2+Conference+-+Posters>. All accepted presentations are eligible for consideration for publication in *GigaScience's <http://gigascience.biomedcentral.com/>* Galaxy series <http://www.gigasciencejournal.com/series/Galaxy>. Published papers will receive a 15% discount on the article-processing fee <https://gigascience.biomedcentral.com/submission-guidelines/fees-and-funding> if you flag GCC2016 on submission. Submit your poster *now* <http://bit.ly/gcc2016abssub>. *Sponsors* Conference sponsors <https://gcc2016.iu.edu/sponsors/index.php> are key partners in the Galaxy community and are absolutely vital in making event registration affordable. We’ll highlight different sponsors in emails over the coming month. We’re also still looking for additional meeting sponsors <https://gcc2016.iu.edu/sponsors/index.php>, so please let us know of any organizations that may be a good fit. The rapid innovation in genome sequencing technology is generating data faster than costs declines in data storage, with petabyte-scale being the new norm in data intensive biomedical research. Chris Dagdigian of BioTeam has stated "corresponding advances need to be made with respect to data storage, and object storage is a transformative force-multiplier in the field of life sciences.” *SwiftStack <https://www.swiftstack.com/>* is happy to be a sponsor of GCC and to discuss how object storage can provide a cost structure that aligns with research while also allowing use of arbitrary tags and metadata to advance discoverability and leverage of data in research. *GMOD 2016*There is still space to register for the GMOD 2016 Community Meeting <https://www.eventbrite.com/e/gmod-2016-community-meeting-tickets-22224544210> being held at Indiana University immediately after GCC2016. GMOD <http://gmod.org/> is a consortium of open-source software projects (including Galaxy) that address common challenges with organizing, visualizing, annotating, and analyzing biological data. Registration <https://gmod2016.eventbrite.com/> is $110 for both days, with the same housing options as for GCC2016. For those who would like to present a talk or poster at GMOD, the meeting registration form includes a section for submitting the presentation title and abstract. -- http://galaxyproject.org/ http://getgalaxy.org/ http://usegalaxy.org/ https://wiki.galaxyproject.org/

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GCC2016 Events start Saturday, June 25
by Dave Clements 08 Jun '16

08 Jun '16

Dear GCC2016 participants, Welcome to the Galaxy Community Conference 2016 conference-wide email list. We’ll use this list to communicate useful conference information to all attendees. Emails will go out once a week until GCC2016 nears, and then once a day just before and during the conference. This email highlights: - Conference resources - Opening reception - Poster submission - Call for BoFs - Sponsors - GMOD 2016 GCC2016 is offering more this year than ever: 31 training sessions covering 27 topics, presented by 34 expert instructors, a new opening reception, two hackathons, lots of posters and accepted talks, and a new computer visualization and software demo track. We look forward to seeing you in Bloomington in less than 3 weeks! The GCC2016 Exec Carrie Ganote, Chris Hemmerich, Dave Clements, Marilyne Summo, and Robert Ping *#usegalaxy* *Conference resources* *gcc16.sched.org <http://gcc16.sched.org/>* Here you’ll find the full conference schedule, as well as information on all conference events, instructors, speakers, presenters, and abstracts. If you don’t already have a login, you can create one and then build your schedule online. There is even a mobile site <https://gcc16.sched.org/mobile/> you can use to navigate with from your phone. *gcc2016.iu.edu <http://gcc2016.iu.edu/>* The conference website has information on local logistics <https://gcc2016.iu.edu/location/index.php>, hackathons <https://gcc2016.iu.edu/hacks/index.php>, sponsors <https://gcc2016.iu.edu/sponsors/index.php>, organizers <https://gcc2016.iu.edu/organizers/index.php>, and a list offrequently asked questions <https://gcc2016.iu.edu/faq/index.php> as well. *Mailing lists* This list will be used for conference-wide communication. There are also lists for hackathon participants, speakers, and poster and demo presenters. If you aren’t on a list that you think you should be on, please contact the exec team. *Training office hours* This year a training help desk will be open the evening before each day of training. Participants can find help here with initial setup. *Opening reception* Jetstream <http://jetstream-cloud.org/>, IU's newest National Science Foundation-funded project (of which Galaxy is a partner), and theNational Center for Genome Analysis Support <http://ncgas.org/> at IU are sponsoring an opening reception <http://sched.co/72bN> on Monday evening at the Cyberinfrastructure Building. The first-ever GCC opening reception will feature local wine/beer, morsels from local eateries, and demonstrations on the 15 million+ pixel IQ-Wall, IU's Data Center, Science on a Sphere, and other IU-centric IT. Make plans now to attend. *Submit a poster* Have a poster presentation idea? There are still a few spaces left <https://gcc16.sched.org/overview/type/E.2+Conference+-+Posters> for additional posters <http://bit.ly/gcc2016abssub>. All accepted presentations are eligible for consideration for publication in *GigaScience's <http://gigascience.biomedcentral.com/>* Galaxy series <http://www.gigasciencejournal.com/series/Galaxy>. Published papers will receive a 15% discount on the article-processing fee <https://gigascience.biomedcentral.com/submission-guidelines/fees-and-funding> if you flag GCC2016 on submission. *Call for BoFs*Birds-of-a-feather meetups (BoFs) <https://gcc16.sched.org/overview/type/E.6+Birds-of-a-feather> are informal gatherings at GCC where attendees with a shared interest meet to discuss their interests and challenges. If you have an idea for a BoF, post it here <https://docs.google.com/forms/d/1aikQugTW_VlY5K0TQ3cI9E2NVIk443gkzK6EqP8gsr…>. The conference will provide space and make sure that attendees get the word. BoFs will be added to the conference schedule website <https://gcc16.sched.org/overview/type/E.6+Birds-of-a-feather> as they come in, and BoF meeting times will be assigned in the coming weeks. Last year's BoFs <https://wiki.galaxyproject.org/Events/GCC2015/BoFs> spanned a wide range of topics and were highly recommended in the conference evaluations. Let’s outdo ourselves again this year. *Sponsors* Conference sponsors are key partners in the Galaxy community and are absolutely vital in making event registration affordable. We’ll highlight different sponsors in emails over the coming month. We’re also still looking for additional meeting sponsors <https://gcc2016.iu.edu/sponsors/index.php>, so please let us know of any organizations that may be a good fit. [image: GigaScience] *GigaScience <http://gigascience.biomedcentral.com/>* aims to revolutionize data dissemination, organization, understanding, and use to facilitate the reproducibility of science. As an online, open-access, and open-data journal, we publish all research objects (open data, tools, workflows, and pipelines) from big data studies from the entire spectrum of life and biomedical sciences. The journal links standard manuscript publication with an extensive database that hosts all associated data, providing data analysis tools and cloud-computing resources. GigaDB <http://gigadb.org/site/index> provides a direct link between the published manuscript and the relevant supporting data. Coupled with this we have also built GigaGalaxy <http://gigagalaxy.net/>, a Galaxy-based data analysis platform to host computational methods and workflows, maximizing use of the data, tools, and workflows in our papers in a more accessible and reproducible environment. *GMOD 2016*The GMOD 2016 Community Meeting <https://www.eventbrite.com/e/gmod-2016-community-meeting-tickets-22224544210> will be held at Indiana University immediately after GCC2016. GMOD <http://gmod.org/> is a consortium of open-source software projects (including Galaxy) that address common challenges with organizing, visualizing, annotating, and analyzing biological data. GMOD meetings <http://gmod.org/wiki/Meetings> are a mix of user and developer presentations. They’re a great place to find out what is happening in the project, what's coming up, and what others are doing. Registration <https://gmod2016.eventbrite.com/> is still open at $110 for both days. For those who would like to present a talk or poster, the meeting registration form includes a section for submitting the presentation title and abstract. Galaxy is a part of the GMOD project and there are several presentations at GCC2016 that cover Galaxy integration with other GMOD components, including *Apollo* <https://gcc16.sched.org/?s=apollo> for genome annotation, *JBrowse* <https://gcc16.sched.org/?s=jbrowse> for genome visualization, and *Chado and Tripal* <https://gcc16.sched.org/?s=chado> for online biological databases. -- http://galaxyproject.org/ http://getgalaxy.org/ http://usegalaxy.org/ https://wiki.galaxyproject.org/

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