Commits June 2016

commits@lists.einsteintoolkit.org

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129 discussions

[svn:einsteintoolkit] www/about/maintainers/ (Rev. 1587)
by knarf＠cct.lsu.edu 15 Jun '16

15 Jun '16

User: knarf Date: 2016/06/15 07:24 AM Removed: /about/maintainers/ tanja.jpg Modified: /about/maintainers/ index.php Log: remove Tanja from maintainers - but this whole page needs to be updated File Changes: Directory: /about/maintainers/ ============================== File [modified]: index.php Delta lines: +0 -5 =================================================================== --- about/maintainers/index.php 2016-06-15 11:26:11 UTC (rev 1586) +++ about/maintainers/index.php 2016-06-15 12:24:41 UTC (rev 1587) @@ -23,11 +23,6 @@ </tr> <tr valign="top"> - <td><img width="150" src="tanja.jpg" /></td> - <td >Tanja Bode is a postdoc at the Center for Relativistic Astrophysics at Georgia Institute of Technology. Tanja's interests are in exploring relativistic astrophysical phenomena in general relativity's strong regime through numerical studies of binary compact object systems and highly dynamical single black hole systems.</td> - </tr> - - <tr valign="top"> <td><img width="150" src="diener.jpg" /></td> <td >Peter Diener is an assistant research professor at the Center for Computation & Technology and the Department of Physics & Astronomy at Louisiana State University. He is interested in relativistic astrophysics and specializes in binary black hole simulations.</td> </tr> File [removed]: tanja.jpg Delta lines: +0 -0 =================================================================== (Binary files differ)

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[svn:einsteintoolkit] www/documentation/ThornDoc/ (Rev. 1586)
by knarf＠cct.lsu.edu 15 Jun '16

15 Jun '16

User: knarf Date: 2016/06/15 06:26 AM Removed: /documentation/ThornDoc/AEIThorns/ /documentation/ThornDoc/CactusArchive/ /documentation/ThornDoc/CactusTest/TestLocalReduce/ /documentation/ThornDoc/Carpet/CarpetIOStreamedHDF5/ /documentation/ThornDoc/CarpetExtra/ /documentation/ThornDoc/EinsteinAnalysis/ADMConstraints/ /documentation/ThornDoc/EinsteinEvolve/LegoExcision/ /documentation/ThornDoc/EinsteinInitialData/GRHydro_InitData/ /documentation/ThornDoc/LSUThorns/ /documentation/ThornDoc/TAT/ Log: remove old, left-over documentation

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[svn:einsteintoolkit] www/documentation/ThornDoc/ (Rev. 1585)
by knarf＠cct.lsu.edu 15 Jun '16

15 Jun '16

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[svn:einsteintoolkit] www/about/releases/ (Rev. 1584)
by knarf＠cct.lsu.edu 15 Jun '16

15 Jun '16

User: knarf Date: 2016/06/15 04:58 AM Modified: /about/releases/ ET_2016_05_announcement.php, ET_2016_05_announcement.txt Log: more text, spell check File Changes: Directory: /about/releases/ =========================== File [modified]: ET_2016_05_announcement.php Delta lines: +3 -3 =================================================================== --- about/releases/ET_2016_05_announcement.php 2016-06-15 09:50:04 UTC (rev 1583) +++ about/releases/ET_2016_05_announcement.php 2016-06-15 09:58:25 UTC (rev 1584) @@ -5,9 +5,9 @@ "<a href="https://en.wikipedia.org/wiki/Tycho_Brahe">Brahe</a>") of the Einstein Toolkit, an open, community developed software infrastructure for relativistic astrophysics. This release includes, among other things, +updates to the IllinoisGRMHD code, updated requirements concerning C++, +and updates examples in the gallery. -... - In addition, bug fixes accumulated since the previous release in November 2015 have been included. @@ -65,7 +65,7 @@ cvs, was unused and untested for a long time.</li> </ul></li> <li>IllinoisGRMHD/Convert_to_HydroBase: major update</li> - <li>SetMask_SphericalSurface: modify criterion for setting the mask to avoid problems with intermittant apparent horizon finder failures + <li>SetMask_SphericalSurface: modify criterion for setting the mask to avoid problems with intermittent apparent horizon finder failures <li>More examples in the <a href="http://einsteintoolkit.org/about/gallery/">Einstein Toolkit Gallery</a></li> <li> Simfactory File [modified]: ET_2016_05_announcement.txt Delta lines: +4 -4 =================================================================== --- about/releases/ET_2016_05_announcement.txt 2016-06-15 09:50:04 UTC (rev 1583) +++ about/releases/ET_2016_05_announcement.txt 2016-06-15 09:58:25 UTC (rev 1584) @@ -1,10 +1,10 @@ We are pleased to announce the twelfth release (code name "<a href="https://en.wikipedia.org/wiki/Tycho_Brahe">Brahe</a>") of the Einstein Toolkit, an open, community developed software infrastructure for -relativistic astrophysics. This release includes, among other things, +relativistic astrophysics. This release includes, among other things, updates +to the IllinoisGRMHD code, updated requirements concerning C++, and updates +examples in the gallery. -... - In addition, bug fixes accumulated since the previous release in November 2015 have been included. @@ -58,7 +58,7 @@ was unused and untested for a long time. * IllinoisGRMHD/Convert_to_HydroBase: major update * SetMask_SphericalSurface: modify criterion for setting the mask to avoid - problems with intermittant apparent horizon finder failures More examples in + problems with intermittent apparent horizon finder failures More examples in the Einstein Toolkit Gallery (http://einsteintoolkit.org/about/gallery/) * Simfactory - New configurations: acrcluster, centos, cori, minerva, sunnyvale

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[svn:einsteintoolkit] www/about/releases/ (Rev. 1583)
by knarf＠cct.lsu.edu 15 Jun '16

15 Jun '16

User: knarf Date: 2016/06/15 04:50 AM Modified: /about/releases/ ET_2016_05_announcement.txt Log: line wrap changes File Changes: Directory: /about/releases/ =========================== File [modified]: ET_2016_05_announcement.txt Delta lines: +4 -4 =================================================================== --- about/releases/ET_2016_05_announcement.txt 2016-06-15 09:49:27 UTC (rev 1582) +++ about/releases/ET_2016_05_announcement.txt 2016-06-15 09:50:04 UTC (rev 1583) @@ -56,10 +56,10 @@ (only) added as include path for Fortran. - The 'checkout' target of 'make' has been removed, as it only supported cvs, was unused and untested for a long time. -* IllinoisGRMHD/Convert_to_HydroBase: major update SetMask_SphericalSurface: - modify criterion for setting the mask to avoid problems with intermittant - apparent horizon finder failures More examples in the Einstein Toolkit - Gallery (http://einsteintoolkit.org/about/gallery/) +* IllinoisGRMHD/Convert_to_HydroBase: major update +* SetMask_SphericalSurface: modify criterion for setting the mask to avoid + problems with intermittant apparent horizon finder failures More examples in + the Einstein Toolkit Gallery (http://einsteintoolkit.org/about/gallery/) * Simfactory - New configurations: acrcluster, centos, cori, minerva, sunnyvale - Updates to several machines (too many to list)

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[svn:einsteintoolkit] www/about/releases/ (Rev. 1582)
by knarf＠cct.lsu.edu 15 Jun '16

15 Jun '16

User: knarf Date: 2016/06/15 04:49 AM Modified: /about/releases/ ET_2016_05_announcement.txt Log: line wrap changes File Changes: Directory: /about/releases/ =========================== File [modified]: ET_2016_05_announcement.txt Delta lines: +10 -9 =================================================================== --- about/releases/ET_2016_05_announcement.txt 2016-06-15 09:47:48 UTC (rev 1581) +++ about/releases/ET_2016_05_announcement.txt 2016-06-15 09:49:27 UTC (rev 1582) @@ -50,15 +50,16 @@ === Larger changes since last release === - * Cactus Flesh - - Enable C++11 by default, and require it to be supported - Support bibtex in LaTeX thorn documentation - External libraries can specify additional paths (only) added as include path for Fortran. - - The 'checkout' target of 'make' has been removed, as it only supported - cvs, was unused and untested for a long time. -* IllinoisGRMHD/Convert_to_HydroBase: major update - SetMask_SphericalSurface: modify criterion for setting the mask to avoid problems with intermittant apparent horizon finder failures - More examples in the Einstein Toolkit Gallery (http://einsteintoolkit.org/about/gallery/) +* Cactus Flesh + - Enable C++11 by default, and require it to be supported Support bibtex in + LaTeX thorn documentation External libraries can specify additional paths + (only) added as include path for Fortran. + - The 'checkout' target of 'make' has been removed, as it only supported cvs, + was unused and untested for a long time. +* IllinoisGRMHD/Convert_to_HydroBase: major update SetMask_SphericalSurface: + modify criterion for setting the mask to avoid problems with intermittant + apparent horizon finder failures More examples in the Einstein Toolkit + Gallery (http://einsteintoolkit.org/about/gallery/) * Simfactory - New configurations: acrcluster, centos, cori, minerva, sunnyvale - Updates to several machines (too many to list)

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[svn:einsteintoolkit] www/about/releases/ (Rev. 1581)
by knarf＠cct.lsu.edu 15 Jun '16

15 Jun '16

User: knarf Date: 2016/06/15 04:47 AM Added: /about/releases/ ET_2016_05_announcement.txt Log: text version of release notes - need to be kept consistent with html version File Changes: Directory: /about/releases/ =========================== File [added]: ET_2016_05_announcement.txt Delta lines: +139 -0 =================================================================== --- about/releases/ET_2016_05_announcement.txt (rev 0) +++ about/releases/ET_2016_05_announcement.txt 2016-06-15 09:47:48 UTC (rev 1581) @@ -0,0 +1,139 @@ +We are pleased to announce the twelfth release (code name +"<a href="https://en.wikipedia.org/wiki/Tycho_Brahe">Brahe</a>") of the +Einstein Toolkit, an open, community developed software infrastructure for +relativistic astrophysics. This release includes, among other things, + +... + +In addition, bug fixes accumulated since the previous +release in November 2015 have been included. + +The Einstein Toolkit is a collection of software components and tools for +simulating and analyzing general relativistic astrophysical systems that builds +on numerous software efforts in the numerical relativity community including +CactusEinstein, the Carpet AMR infrastructure and the relativistic +magneto-hydrodynamics code GRHydro. For parts of the toolkit, the Cactus +Framework is used as the underlying computational infrastructure providing +large-scale parallelization, general computational components, and a model for +collaborative, portable code development. The toolkit includes modules to build +complete codes for simulating black hole spacetimes as well as systems governed +by relativistic magneto-hydrodynamics. + +The Einstein Toolkit uses a distributed software model and its different +modules are developed, distributed, and supported either by the core team of +Einstein Toolkit Maintainers, or by individual groups. Where modules are +provided by external groups, the Einstein Toolkit Maintainers provide quality +control for modules for inclusion in the toolkit and help coordinate support. +The Einstein Toolkit Maintainers currently involve postdocs and faculty from +six different institutions, and host weekly meetings that are open for anyone +to join in. + +Guiding principles for the design and implementation of the toolkit include: +open, community-driven software development; well thought out and stable +interfaces; separation of physics software from computational science +infrastructure; provision of complete working production code; training and +education for a new generation of researchers. + +For more information about using or contributing to the Einstein Toolkit, or to +join the Einstein Toolkit Consortium, please visit our web pages at +http://einsteintoolkit.org. + +The Einstein Toolkit is primarily supported by NSF +1212401/1212426/1212433/1212460 (Einstein Toolkit), and also by 0905046/0941653 +(PetaCactus) and 0710874 (LONI Grid). + +The Einstein Toolkit contains about 200 regression test cases. On a large +portion of the tested machines, almost all of these test suites pass, using both +MPI and OpenMP parallelization. + +The changes between this and the previous release include: + +=== Larger changes since last release === + + * Cactus Flesh + - Enable C++11 by default, and require it to be supported + Support bibtex in LaTeX thorn documentation + External libraries can specify additional paths (only) added as include path for Fortran. + - The 'checkout' target of 'make' has been removed, as it only supported + cvs, was unused and untested for a long time. +* IllinoisGRMHD/Convert_to_HydroBase: major update + SetMask_SphericalSurface: modify criterion for setting the mask to avoid problems with intermittant apparent horizon finder failures + More examples in the Einstein Toolkit Gallery (http://einsteintoolkit.org/about/gallery/) +* Simfactory + - New configurations: acrcluster, centos, cori, minerva, sunnyvale + - Updates to several machines (too many to list) + - stampede: fix core affinity settings + + +* New thorns or tools + - New thorn WatchDog: a thorn that terminates jobs that do not make progress + over a user-defined time frame, defined as time in between ANALYSIS steps. + +=== How to upgrade from Somerville (ET_2015_11) === + +To upgrade from the previous release, use GetComponents with the new thornlist +to check out the new version. Switching to the new branch is not possible for +most repositories due to repository moves. + +See the [http://einsteintoolkit.org/download Download] page on the Einstein +Toolkit website for download instructions. + +=== Remaining issues with this release === + +* Certain machines need to be configured specially in Simfactory because the + remote directories cannot be determined automatically just from the user + name. See the Machine notes below. + +* Recovering with Carpet: Carpet stores metadata (such as the simulation time) + only for Carpet::max_timelevels time levels, although it is possible to + allocate more time levels. These additional time levels then cannot be + recovered; the symptom is an assertion failure during recovery. The solution + is to either increase Carpet::max_timelevels, or to decrease the number of + active time levels. + +=== Machine notes === + +Supported (tested) machines include: + +- Default Debian, Ubuntu, Fedora, CentOS, and MacOS installations +- Bethe +- Bluewaters +- Comet +- Datura +- Fionn +- Gordon +- GPC +- Gullimin +- MP2 +- Nvidia +- Queenbee 2 +- Shelob +- Supermike II +- Stampede (CPU) +- Titan +- Zwicky + + +* Stampede: defs.local.ini needs to have sourcebasedir = $WORK and basedir = + $SCRATCH/simulations configured for this machine. You need to determine + $WORK and $SCRATCH by logging in to the machine. + + +All repositories participating in this release carry a branch ET_2016_05 +marking this release. These release branches will be updated if severe +errors are found. + +The "Brahe" Release Team on behalf of the Einstein Toolkit Consortium +(2016-06-15) + +Steven R. Brandt +Peter Diener +Roland Haas +Ian Hinder +Frank LÃ¶ffler +Bruno C. Mundim +Erik Schnetter +Barry Wardell + +June 15, 2016 +

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[svn:einsteintoolkit] www/about/releases/ (Rev. 1580)
by knarf＠cct.lsu.edu 15 Jun '16

15 Jun '16

User: knarf Date: 2016/06/15 04:32 AM Modified: /about/releases/ ET_2016_05_announcement.php Log: fix html File Changes: Directory: /about/releases/ =========================== File [modified]: ET_2016_05_announcement.php Delta lines: +2 -1 =================================================================== --- about/releases/ET_2016_05_announcement.php 2016-06-15 09:29:53 UTC (rev 1579) +++ about/releases/ET_2016_05_announcement.php 2016-06-15 09:32:20 UTC (rev 1580) @@ -72,7 +72,8 @@ <ul> <li>New configurations: acrcluster, centos, cori, minerva, sunnyvale</li> <li>Updates to several machines (too many to list)</li> - </ul>stampede: fix core affinity settings + <li>stampede: fix core affinity settings</li> + </ul> </li> <li> New thorns or tools

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[svn:einsteintoolkit] www/about/releases/ (Rev. 1579)
by knarf＠cct.lsu.edu 15 Jun '16

15 Jun '16

User: knarf Date: 2016/06/15 04:29 AM Modified: /about/releases/ ET_2016_05_announcement.php Log: make link a link File Changes: Directory: /about/releases/ =========================== File [modified]: ET_2016_05_announcement.php Delta lines: +1 -1 =================================================================== --- about/releases/ET_2016_05_announcement.php 2016-06-15 09:28:34 UTC (rev 1578) +++ about/releases/ET_2016_05_announcement.php 2016-06-15 09:29:53 UTC (rev 1579) @@ -66,7 +66,7 @@ </ul></li> <li>IllinoisGRMHD/Convert_to_HydroBase: major update</li> <li>SetMask_SphericalSurface: modify criterion for setting the mask to avoid problems with intermittant apparent horizon finder failures - <li>More examples in the Einstein Toolkit Gallery http://einsteintoolkit.org/about/gallery/</li> + <li>More examples in the <a href="http://einsteintoolkit.org/about/gallery/">Einstein Toolkit Gallery</a></li> <li> Simfactory <ul>

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[svn:einsteintoolkit] www/about/releases/ (Rev. 1578)
by knarf＠cct.lsu.edu 15 Jun '16

15 Jun '16

User: knarf Date: 2016/06/15 04:28 AM Modified: /about/releases/ ET_2016_05_announcement.php Log: remove old repo move announcement File Changes: Directory: /about/releases/ =========================== File [modified]: ET_2016_05_announcement.php Delta lines: +0 -6 =================================================================== --- about/releases/ET_2016_05_announcement.php 2016-06-15 09:26:07 UTC (rev 1577) +++ about/releases/ET_2016_05_announcement.php 2016-06-15 09:28:34 UTC (rev 1578) @@ -55,12 +55,6 @@ <ul> <li> - Almost all repositories moved from the Einstein Toolkit subversion server - to bitbucket, with the ExternalLibraries being the only exception. Taking - this move as opportunity, some already existing thorns were moved to more - appropriate arrangements.</li> - - <li> Cactus Flesh <ul> <li>Enable C++11 by default, and require it to be supported</li>

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