• Status:Closed
• Resolution: Done
• Fix Version/s:5.1.0
• Labels:
• Environment:

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  % sw_vers -productVersion && system_profiler SPSoftwareDataType
  10.6.8
  Software:
  System Software Overview:
  System Version: Mac OS X 10.6.8 (10K549)
  Kernel Version: Darwin 10.8.0
  Boot Mode: Normal
  Secure Virtual Memory: Not Enabled
  64-bit Kernel and Extensions: No
  Time since boot: 6 days 22:11
  

  Show

  % sw_vers -productVersion && system_profiler SPSoftwareDataType 10.6.8 Software: System Software Overview: System Version: Mac OS X 10.6.8 (10K549) Kernel Version: Darwin 10.8.0 Boot Mode: Normal Secure Virtual Memory: Not Enabled 64-bit Kernel and Extensions: No Time since boot: 6 days 22:11

• Memory Leak (david Estes-smargiassi) Mac Os -
• Memory Leak (david Estes-smargiassi) Mac Os Free
• Memory Leak (david Estes-smargiassi) Mac Os Free
• Memory Leak (david Estes-smargiassi) Mac Os Video

1. This will purge your Mac's inactive memory - something you might want to do after closing a particularly intensive app or game. Some features are available via the free app but there is an in-app.
2. Apr 02, 2015 When programs perform tasks on OS X and other platforms, chunks of memory are allocated for their needs, but these should be relinquished when the task is done. If not, then a memory leak may occur, where progressively more memory is reserved (sometimes at a rapid rate), until the system cannot allocate anymore and is strained for resources.
3. Jun 13, 2018 memory-test:0.1 is the name of the Docker image that we are going to run a container from, remember we gave this name above; bash -c 'cd /test/; g -o main main.cpp && valgrind -leak-check=full./main' is the actual command to change directory, build the C code and finally do memory leak check with Valgrind on the executable.

Hi David, I'm getting the same issue Core Sync is chewing up crazy amounts of memory until I run out of paging memory. Kills my machine. I'm running the lastest revision 1.8.1.451. Have signed in and signed out and done a complete reinstall removing all prefs and the OOBE folder etc.

valgrind report:

290 (96 direct, 194 indirect) bytes in 1 blocks are definitely lost in loss record 1,641 of 2,096
at 0xC283: malloc (vg_replace_malloc.c:274)
by 0x9BBF04: operator new(unsigned long) (in /usr/lib/libstdc++.6.0.9.dylib)
by 0x84296C8: QLibraryPrivate::findOrCreate(QString const&, QString const&) (in ../app.app/Contents/Frameworks/QtCore.framework/Versions/4/QtCore)
by 0x8429C87: QLibrary::setFileName(QString const&) (in ../app.app/Contents/Frameworks/QtCore.framework/Versions/4/QtCore)
by 0x8429D26: QLibrary::QLibrary(QString const&, QObject*) (in ../app.app/Contents/Frameworks/QtCore.framework/Versions/4/QtCore)
by 0x847CE86: QIconvCodec::QIconvCodec() (in ../app.app/Contents/Frameworks/QtCore.framework/Versions/4/QtCore)
by 0x8477613: setup() (in ../app.app/Contents/Frameworks/QtCore.framework/Versions/4/QtCore)
by 0x84776DA: QTextCodec::codecForLocale() (in ../app.app/Contents/Frameworks/QtCore.framework/Versions/4/QtCore)
by 0x8379C28: QString::fromLocal8Bit(char const*, int) (in ../app.app/Contents/Frameworks/QtCore.framework/Versions/4/QtCore)
by 0x840D197: QFileSystemEngine::canonicalName(QFileSystemEntry const&, QFileSystemMetaData&) (in ../app.app/Contents/Frameworks/QtCore.framework/Versions/4/QtCore)
by 0x83AA143: QDir::canonicalPath() const (in ../app.app/Contents/Frameworks/QtCore.framework/Versions/4/QtCore)

Memory Leak (david Estes-smargiassi) Mac Os -

GARLI - by Derrick J. Zwickl (zwickl@nescent.org)

(Genetic Algorithm for Rapid Likelihood Inference)

May 2008: A new GARLI version has been released (version 0.96 beta) and the download page has moved to: http://garli.nescent.org

This is a major revision that adds many new features and improvements (listed at the new download page), and users should migrate from the previous version 0.951.

Memory Leak (david Estes-smargiassi) Mac Os Free

A GARLI information and support page has been created at: http://www.nescent.org/wg/garli

Examination mac os. Note that the OS X graphical version of the program has not yet been updated, but the old graphical version 0.951 may still be downloaded below.

The old (pre-May 2008) download page:

version 0.951 (posted 10/26/06, page updated 10/31/06)

• GARLI performs heuristic phylogenetic searches under the General Time Reversible (GTR) model of nucleotide substitution and its submodels, with or without gamma distributed rate heterogeneity and a proportion of invariant sites.
• The implementation of this model is exactly equivalent to that in PAUP* (by David Swofford), so that likelihood scores obtained by each program are directly comparable.
• Besides the OS X GUI version, GARLI is not interactive. All program settings are specified in a configuration file. Examples come with the program, and the manual describes all of the options.
• The program reads non-interleaved phylip and nexus datafiles. In reality it is not currently very nexus compliant, and can be confused in various ways. It should have no problem with nexus datasets exported directly from PAUP, however.
• GARLI also implements a parallel MPI based algorithm for use on parallel computing clusters (note that the parallel version seeks to perform a more thorough tree search and does NOT reduce runtimes. It typically is only helpful on datasets with greater than about 500 sequences)
• The program is not yet published, but has been used for published analyses. A publication presenting the program and investigating its performance is forthcoming. For the moment, please mention the download URL: www.bio.utexas.edu/faculty/antisense/garli/Garli.html and cite:
  

  Zwickl, D. J., 2006. Genetic algorithm approaches for the phylogenetic analysis of large biological sequence datasets under the maximum likelihood criterion. Ph.D. dissertation, The University of Texas at Austin.

• PLEASE contact me with any problems, errors or questions you might about the program. The manual contains an FAQ, and I would be happy to add to it.
• If you would like to be notified by email about future GARLI news and updates, email me.(zwickl@nescent.org)

NEWS:

(10/16/06):-At long last, version 0.95 is released!
• This version includes constrained searches, flexible model specification, checkpointing a number of other important enhancements. It is highly recommended that all previous users upgrade to this version. See the manual for details.
• PLEASE review the differences in the config file from previous versions!! A number of new settings have been added and default settings changed. See the sample garli.conf file that comes with the program.
• The MPI parallel version of 0.95 requires more testing and is not yet available (expected release date unknown).
(10/19/06) - Mac OS X graphical version 0.95 is now available
(10/26/06) - Updated version 0.951 available
• All versions: Fixed a few minor issues that are unlikely to have any noticeable effect (small memory leak, constrained bootstrap now allowed, certain branch swaps were being avoided, minor output changes)
• Mac OSX GUI: Corrected problem when specifying model without rate heterogeneity, clarified interface for specification of starting topology, added ability to specify topological constraints, changes to default options
(10/31/06) - New postings
• Recompiled Windows executable (solves the 'application failed to start because the application configuration is incorrect' problem that some users were having)
• Multithreaded Windows executable (allows GARLI to use multiple processors on multi-core or multi-processor systems)

Known issues: PLEASE let me know of any issues that you encounter! (zwickl@nescent.org)

• Version 0.951 - (10/30/06) Changing the distanceswapbias option is not currently working as intended. Please leave it at its default value of 1.0, which effectively turns this feature off. This will be fixed in the next release.

Download GARLI version 0.951 (sample dataset and configuration file included):

GARLI version 0.95 manual: GARLIv0.95manual.pdf

Windows versions:Active doubledown casino codes.

Windows executable: GARLIv0.951.win.zip

Multithreaded Windows executable: GARLIv0.951.winMultithread.zip (for Windows machines with multiple processors or multiple cores. May require installation of the 'Microsoft Visual C++ 2005 Redistributable Package', which is available here.)

Mac OS X versions:

Graphical Mac OS X application: (universal binary, requires OS 10.3 or later, interface designed by Jim Balhoff): GARLIv0.951.osX-GUI.tar.gz

Command-line Mac OS X application (universal binary): GARLIv0.951.osX.tar.gz (this must be run from the terminal, and cannot be double clicked)

Memory Leak (david Estes-smargiassi) Mac Os Free

Source code

Source for serial unix compilation: GARLIv0.951.src.tar.gz

Memory Leak (david Estes-smargiassi) Mac Os Video

Source for most recent parallel MPI version: GARLIv0.942.src.tar.gz