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- * [http://wiki.postgresql.org/wiki/Performance_Optimization Performance Optimization] ...FAQ#How_do_I_tune_the_database_engine_for_better_performance.3F PostgreSQL performance FAQ]5 KB (774 words) - 17:57, 5 February 2014
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- ...of writing code and extending the software and less attention was given to performance. Each presenter focussed on their middleware and few side-by-side compariso ...perations but that one should test the tool in question and not assume its performance is adequate to the given task. Such a test may show an entirely different a40 KB (5,672 words) - 21:27, 15 August 2013
- * They say: “A powerful, high performance object/relational persistence and query service.”12 KB (1,477 words) - 21:16, 9 October 2012
- * [[PostgreSQL Performance Tips]]3 KB (469 words) - 18:08, 13 February 2014
- * Performance3 KB (403 words) - 17:09, 5 April 2007
- ...but it is thought that a mix of the Hibernate table prefetching and cache performance caused most of it. By this point we had to start using a disk based cache f Another possible cause of performance problems is the fact that, by default, when an object is fetched you get al9 KB (1,641 words) - 15:48, 12 September 2011
- ...top of the Apache Lucene project framework, which is an Open-source, high-performance, full-featured text search engine library written entirely in Java. It uses6 KB (792 words) - 15:09, 6 September 2010
- ...fixes to GBrowse2 that allow you to display > 1000 tracks with reasonable performance, but I've never tested in the 10,000 track range. If you combine wiggle data into subtracks, then performance in GBrowse2 should be quite good. There is also an interface that lets you11 KB (1,733 words) - 14:48, 18 May 2013
- * Performance is not as bad as you might guess Note that speed is relative: one can find bad performance using the wrong SQL and Chado::AutoDBI approach will be speedier.6 KB (795 words) - 23:33, 8 October 2012
- ===Testing Performance=== ...ime there is a new check-in to your code repository, you can track whether performance regresses beyond just noise in the measurements. To profile your code in Pe9 KB (1,495 words) - 20:05, 8 October 2012
- * Performance tweaks for Hibernate can be quite complicated to setup for bulk operations. ...RT is currently handling ~6 million features in production with only minor performance problems.5 KB (737 words) - 18:54, 9 October 2012
- * Optimised for read-only performance * Performance optimisation7 KB (796 words) - 21:16, 9 October 2012
- samples from Medline, GenBank, and others. Performance has been good,28 KB (4,338 words) - 22:06, 29 October 2010
- Performance has been improved when uploading large 3d party annotation Performance is a concern when viewing large numbers of uploaded42 KB (6,309 words) - 20:37, 30 November 2010
- * Performance7 KB (915 words) - 17:07, 14 March 2008
- ...ySQL]] or some other sort of database management system, this assures good performance even if you have very large amounts of data in GFF format. This is accompli34 KB (5,526 words) - 19:56, 7 October 2013
- ...result in poorer performance. This is one of several areas in Chado where performance64 KB (9,963 words) - 22:17, 18 December 2013
- transaction performance is also unknown. FlyBase makes a practice of4 KB (679 words) - 04:31, 18 February 2015
- ...d with the flat-file based implementation a bit and decide you need better performance.4 KB (707 words) - 15:07, 27 July 2011
- ...suitable for use on Linux and other Unix-like platforms. It also contains performance and maintenance hints useful for all systems. ...small C subroutine for nucleotide alignments. This will vastly improve the performance of the gbrowse_details script when displaying alignments. To use this featu35 KB (5,565 words) - 22:39, 8 August 2012
- #*Performance improvements:26 KB (4,096 words) - 01:17, 19 August 2009
- ...[Modware]] for the newer Chado schema, and tuning PostgreSQL to get better performance. *performance tuning.11 KB (1,683 words) - 19:54, 9 June 2010
- **Performance Strategies **Performance - See [[PostgreSQL Performance Tips]].28 KB (4,093 words) - 05:54, 5 January 2011
- ...ps and therefore the speed of the lookups can have a substantial impact on performance. If both of these parameters are set to '''false''' then the chado/JDBC ad13 KB (1,912 words) - 21:58, 15 September 2009
- == Performance tweaks ==19 KB (3,009 words) - 19:45, 15 January 2014
- * Uploading a Wig file now generates a BigWig database for improved performance and scalability. This requires Bio::DB::BigWig to be installed. * Improved performance when working with truly huge (>1000 track definition) configuration files.2 KB (346 words) - 23:10, 9 October 2012
- * High Performance Bioinformatics and Biomedicine (HiBB)1 KB (163 words) - 18:22, 4 October 2012
- ...Mine code, in particular taking responsibility for the database access and performance of the system.1 KB (188 words) - 23:12, 9 October 2012
- * major data loading and query/export performance improvements1 KB (167 words) - 23:12, 9 October 2012
- ...et to false to use hybrid disk/memory store which provides a little slower performance ...et to false to use hybrid disk/memory store which provides a little slower performance77 KB (11,812 words) - 00:39, 21 May 2014
- * [http://wiki.postgresql.org/wiki/Performance_Optimization Performance Optimization] ...FAQ#How_do_I_tune_the_database_engine_for_better_performance.3F PostgreSQL performance FAQ]5 KB (774 words) - 17:57, 5 February 2014
- ...ual table) and turning it into a real table that can be indexed for better performance. While [[PostgreSQL]] doesn't support maintenance of materialized views, w5 KB (791 words) - 05:23, 28 January 2008
- ...us more features on the other hand. With either platform you will get good performance, excellent documentation, and well-supported software. Postgres was picked2 KB (356 words) - 00:52, 18 November 2010
- I propose adding another link to this scheme as I feel it could help with performance and simplify some queries. The new relationship would be as follows:2 KB (302 words) - 20:04, 12 April 2008
- The server will cache track images for a period of time in order to speed up performance. After the time has expired, the cached version of the image will not be us79 KB (12,563 words) - 16:45, 15 August 2011
- ...>GBrowse Configuration: Changing defaults and displays, adding tracks, and performance tuning11 KB (1,550 words) - 22:11, 16 April 2014
- Some performance numbers: ....net/ Jena] / [http://jena.hpl.hp.com/wiki/TDB TDB] gives much better load performance (~15-30K tps), on 64 bit system with [http://aws.amazon.com/ebs/ Amazon EBS59 KB (8,741 words) - 19:37, 4 September 2013
- ...out GBrowse 2, the next major release of GBrowse. This release focuses on performance and stability. GBrowse 2 will be cluster aware:28 KB (4,301 words) - 18:53, 8 October 2012
- *** Include performance tips and discussion of backups.7 KB (1,015 words) - 22:30, 29 December 2010
- .... The BED format is essentially the same as GFF3 and does not give you any performance advantages over using straight GFF3. However, you are dealing with features *For the intial upload to the website, there is more of a performance hit associated with BED formatted data. After loading, access and rendered15 KB (2,251 words) - 21:22, 25 April 2013
- ...parts of [[GBrowse]]. SynBrowse2 need particular improvements in run-time performance and its alignment parsing tools. Ideally, programmers will develop SynBrow1 KB (154 words) - 23:23, 3 October 2012
- ...is release of GBrowse comes with a variety of user interface enhancements, performance improvements, bug fixes and a security fix. This release come courtesy of * Caching of individual tracks for better performance; use "cache time" option to control.2 KB (283 words) - 21:25, 24 January 2011
- ...gration keys and priorities are configured and validated, a BioPax parser, performance enhancements and some webapp fixes.799 B (111 words) - 23:12, 9 October 2012
- === High Performance ===16 KB (2,412 words) - 18:11, 9 October 2012
- ...rce-specific files to be shorter and more concise. This also increases the performance for sites that use hundreds of configuration files to display annotations o ...ses and machines via a series of "slave" renderers. This greatly increases performance.101 KB (15,507 words) - 04:44, 9 January 2014
- ...y data in which a feature might extend from one chromosome to another. For performance reasons, you may not wish to read the entire chromosome-length feature into3 KB (463 words) - 06:09, 25 September 2009
- ...pread out the work of generating GBrowse pages, thereby achieving improved performance. A slave can be attached to a particular track, a particular set of tracks, ...rocess; however it is possible to launch multiple processes for a possible performance boost. The three databases are located on a single NFS-mounted volume, so t16 KB (2,473 words) - 12:08, 12 October 2011
- Those who want to obtain the best performance should consider the mod_perl, or FastCGI Apache modules:8 KB (1,147 words) - 21:20, 15 January 2017
- * Please rank the relative performance of the Help Desk in each of 5 areas.14 KB (1,816 words) - 21:33, 5 October 2009
- ...n a 1000 features or so, GBrowse will begin to slow down. You can increase performance by using the BerkeleyDB backend. In exactly the way that you did with the i ==Performance==10 KB (1,607 words) - 17:16, 23 April 2013
- ...ck data is purged from the system. Caching for up to a few hours increases performance because users frequently reload the same region. Caching for longer periods3 KB (513 words) - 14:13, 2 November 2009
- ===Comparison of Algorithm Performance on Model vs. Emerging Genomes=== If you have looked at a comparison of gene predictor performance on classic model organisms such as ''C. elegans'' you might conclude that '80 KB (12,961 words) - 23:47, 29 July 2013
- ...though I haven't used [[:Category:GBrowse 2|GBrowse 2]] it sounds like the performance element is being addressed.26 KB (3,948 words) - 17:18, 6 October 2009
- Apache's [http://httpd.apache.org/mod_fcgid/ mod_fcgid] has many feature and performance advantages over the older mod_fastcgi, but has one major gotcha. Many peopl2 KB (303 words) - 03:47, 16 February 2011
- ====Comparison of Algorithm Performance on Model vs. Emerging Genomes==== If you have ever looked at comparisons of gene predictor performance on classic model organisms such as ''C. elegans'' you would conclude that '34 KB (5,308 words) - 22:03, 3 October 2012
- * significant performance improvements100 KB (14,725 words) - 17:31, 30 November 2012
- For advanced topics, such as accelerating GBrowse performance by running it under a persistent environment, configuring the user login an14 KB (2,116 words) - 20:00, 22 February 2012
- ...anced installation topics''' for GBrowse 2.0, such as accelerating GBrowse performance by running it under a persistent environment, configuring the user login an ...are all done. Fetch URL ''http://localhost/fgb2/gbrowse'' and compare the performance to GBrowse running as a CGI script.23 KB (3,672 words) - 14:44, 10 July 2013
- * High Performance Computing (HPC) support: Optionally, it can utilise the Condor job manageme3 KB (539 words) - 01:55, 16 February 2011
- sophisticated caching for improved performance of applications that use Chado db<br>7 KB (1,041 words) - 22:20, 28 March 2014
- ...cs::Browser2::DataBase) - Maintains a cache of database handles to improve performance on in-memory databases and other databases that have a relatively slow star10 KB (1,464 words) - 18:13, 24 December 2010
- ...rts: (1) data filtering and intermediate data structure creation, (2) high performance analysis tool with a RESTFul Service API to allow programmatic access.16 KB (2,455 words) - 09:10, 23 February 2015
- ** Needs to discuss performance issues with Gregg.1 KB (167 words) - 22:18, 21 March 2011
- 19:47 <@rbuels> performance is going to be a big deal here ... your typical assembly runs into12 KB (1,905 words) - 20:08, 5 April 2011
- * Gregg is curious about performance of the range queries. Jay will let him know.7 KB (1,290 words) - 20:40, 12 April 2011
- ...ch/ lab's current interests]: The [[Galaxy]] project; distributed and high-performance computing for data intensive science; vertebrate functional genomics; and g2 KB (325 words) - 23:11, 9 October 2012
- ...le to complete. If you find the loader is taking too long you can improve performance by using the Perl-based Chado loaders to load your GFF file.92 KB (14,708 words) - 23:27, 5 September 2012
- ...nalysts/administrators with experience in building and maintaining complex performance compute environments. The areas of immediate need include: ...search/ lab's current interests]: The Galaxy project; distributed and high-performance computing for data intensive science; vertebrate functional genomics; and g3 KB (387 words) - 01:39, 15 September 2012
- ...le to complete. If you find the loader is taking too long you can improve performance by using the Perl-based Chado loaders to load your GFF file.99 KB (16,007 words) - 17:43, 12 July 2013
- * Site Configuration → Performance58 KB (8,529 words) - 18:12, 9 October 2012
- ...erested in working with this thriving community on a rapidly evolving high performance platform that is [http://bit.ly/gxystats used by thousands of researchers a1 KB (153 words) - 19:20, 25 January 2013
- ...ch/ lab's current interests]: The [[Galaxy]] project; distributed and high-performance computing for data intensive science; vertebrate functional genomics; and g3 KB (407 words) - 23:14, 9 October 2012
- A conceptually new computational cloud paradigm of High performance Integrated Virtual Environment (HIVE) is being developed at Food and Drug A2 KB (279 words) - 15:40, 25 April 2012
- ...r experience by constantly monitoring and improving backend data retrieval performance (as determined by benchmarking) and front-end usability (as determined by u6 KB (822 words) - 19:16, 16 May 2012
- ...le for managing a staff of 3-6 developers, carrying out activities such as performance management, staffing, procurement, budgeting and overseeing daily operation4 KB (523 words) - 00:27, 21 August 2012
- ...er to run GBrowse from these VMs than by installing from source or binary. Performance of either type of VM is excellent, and they provide added benefits in flexi ...High-CPU and high I/O performance instance types generally provide better performance than high-memory instances.18 KB (2,956 words) - 20:37, 13 February 2013
- Not doing this for very dense data (like BAM) is probably the number one performance killers for GBrowse; asking GBrowse to draw a track that has thousands of g For other tracks, when zoomed way out (100kb or 1MB), performance can similarly suffer, with a decreasing "information" content. Newer versi8 KB (1,132 words) - 20:52, 27 August 2013
- ====Comparison of Algorithm Performance on Model vs. Emerging Genomes==== If you have ever looked at comparisons of gene predictor performance on classic model organisms such as ''C. elegans'' you would conclude that '62 KB (9,933 words) - 22:41, 14 February 2013
- <div class="emphasisbox">See {{GalaxyWikiLink|Admin/Config/Performance/Production%20Server|Production Server}}</div> # Log all database transactions, can be useful for debugging and performance18 KB (2,654 words) - 22:18, 11 September 2012
- ===Comparison of Algorithm Performance on Model vs. Emerging Genomes=== If you have looked at a comparison of gene predictor performance on classic model organisms such as ''C. elegans'' you might conclude that '80 KB (12,923 words) - 20:52, 27 August 2013
- instance_type = m1.large # pretty nice performance, might also try medium ...he boundary. You may wish to tune the values in this table to maximize the performance of your GBrowse installation.21 KB (3,083 words) - 20:20, 10 January 2013
- ...et to false to use hybrid disk/memory store which provides a little slower performance ...et to false to use hybrid disk/memory store which provides a little slower performance88 KB (13,531 words) - 19:06, 20 March 2017
- <div class="emphasisbox">See {{GalaxyWikiLink|Admin/Config/Performance/Production%20Server|Production Server}}</div>23 KB (3,328 words) - 23:33, 10 June 2014
- Not doing this for very dense data (like BAM) is probably the number one performance killers for GBrowse; asking GBrowse to draw a track that has thousands of g For other tracks, when zoomed way out (100kb or 1MB), performance can similarly suffer, with a decreasing "information" content. Newer versi7 KB (932 words) - 22:50, 13 February 2013
- # Log all database transactions, can be useful for debugging and performance38 KB (5,631 words) - 23:56, 13 February 2013
- ===Comparison of Algorithm Performance on Model vs. Emerging Genomes=== If you have ever looked at comparisons of gene predictor performance on classic model organisms such as ''C. elegans'' you would conclude that '69 KB (11,026 words) - 20:52, 27 August 2013
- ...d use much less memory than the pure memory store (with a small degrade in performance) - useful for genomes with many annotations (you can configure which one to3 KB (411 words) - 19:24, 26 November 2013
- Comparing performance (retrieval of several Kbp of data profiles...61 KB (1,369 words) - 22:29, 6 April 2018
- ===Comparison of Algorithm Performance on Model vs. Emerging Genomes=== If you have looked at a comparison of gene predictor performance on classic model organisms such as ''C. elegans'' you might conclude that '85 KB (13,463 words) - 00:56, 27 February 2014
- ...et to false to use hybrid disk/memory store which provides a little slower performance ...et to false to use hybrid disk/memory store which provides a little slower performance86 KB (13,281 words) - 00:37, 19 November 2014
- ===Comparison of Algorithm Performance on Model vs. Emerging Genomes=== If you have looked at a comparison of gene predictor performance on classic model organisms such as ''C. elegans'' you might conclude that '80 KB (12,952 words) - 03:53, 19 May 2014
- ...d with the possibility of conversion to career based upon satisfactory job performance, continuing availability of funds, and ongoing operational needs. Work will ...d with the possibility of conversion to career based upon satisfactory job performance, continuing availability of funds, and ongoing operational needs. Work will10 KB (1,399 words) - 19:51, 16 February 2021
- ...editing more accessible to non-experts. Afra is one of a kind project and performance and making annotation editing accessible to less experienced users (e.g., u ...rowse 1.12, including making use of new JBrowse features that will improve performance (test suite should be used for migration), b) propose and implement already18 KB (2,646 words) - 05:18, 16 March 2017
- == Data Table functionality and performance (WormBase) == ...mmon name and metadata) is handled by a tool, called the Name Service. The performance of the Name Service is currently hindered by the slowness of the autocomple20 KB (3,057 words) - 02:14, 19 March 2020
- This [http://tripal.info Tripal] release includes major performance improvements including an improved and blazing fast GFF3 loader. Follow st # Performance improvements to the Cross References, Relationships, and References.747 B (103 words) - 19:57, 16 February 2021
- == JBrowse 2 performance optimization == ...to improve JBrowse performance on a topic of interest. See issues tagged "performance" https://github.com/GMOD/jbrowse-components/issues?q=is%3Aissue+is%3Aopen+l9 KB (1,387 words) - 18:23, 16 March 2023
