00b1c80d0e2772c9b35c7537de4db04d9799c269 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/37564a3c23a9ba4eed7c5cb9c196e90a5d56224c 37564a3c23a9ba4eed7c5cb9c196e90a5d56224c 2009-08-12T06:56:13-07:00 2009-08-12T06:56:13-07:00 Slice#fetch_all now takes the coord_system with that name which is tagged as 'default' 0f2635587a2032099aa178fd9bc5bdccb4e688af Jan Aerts jan.aerts@gmail.com 6d2e4df4adf22826042dcfbf1745a3243840777f Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/00b1c80d0e2772c9b35c7537de4db04d9799c269 00b1c80d0e2772c9b35c7537de4db04d9799c269 2009-03-19T03:06:29-07:00 2009-03-19T03:06:29-07:00 Made soft link from TUTORIAL to README fe2dc43a74872ab0f7b3453be73154d591eefd7f Jan Aerts jan.aerts@gmail.com d31d364b839b85ee1ab64bc94d9070c62684df62 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/6d2e4df4adf22826042dcfbf1745a3243840777f 6d2e4df4adf22826042dcfbf1745a3243840777f 2009-03-19T02:57:58-07:00 2009-03-19T02:57:58-07:00 Changed name of TUTORIAL to TUTORIAL.rd d83155254433d3cd90f963afa0cc554ec9d2459e Jan Aerts jan.aerts@gmail.com beba3f21ba9523a1eb335e80967279a74bfc0657 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/d31d364b839b85ee1ab64bc94d9070c62684df62 d31d364b839b85ee1ab64bc94d9070c62684df62 2009-02-19T06:14:55-08:00 2009-02-19T06:14:55-08:00 Using cache for seq_region when projecting between coord_systems 485fa027cdae8cc2d3c6f15052b7174a2b3c32f8 Jan Aerts jan.aerts@gmail.com 13bcb2f56eb620ae09b943d8f54981d31a86b30c Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/beba3f21ba9523a1eb335e80967279a74bfc0657 beba3f21ba9523a1eb335e80967279a74bfc0657 2009-02-17T11:49:53-08:00 2009-02-17T11:49:53-08:00 Default release set to 52 instead of 50 89946e653b008d4258fe8f052f4d95a384492ff8 Jan Aerts jan.aerts@gmail.com 24f0be54c6a296117bf87656111d174a48c787ea Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/13bcb2f56eb620ae09b943d8f54981d31a86b30c 13bcb2f56eb620ae09b943d8f54981d31a86b30c 2009-02-16T03:29:14-08:00 2009-02-16T03:29:14-08:00 Sanitized cache handling a bit in project.rb 23ca806c80f3e8386344dfaa9a7db673e48bd6a5 Jan Aerts jan.aerts@gmail.com 9113e595f0a5dfdc1b8754feee2e7fce82591551 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/24f0be54c6a296117bf87656111d174a48c787ea 24f0be54c6a296117bf87656111d174a48c787ea 2009-02-16T01:43:57-08:00 2009-02-16T01:43:57-08:00 Fixed bug in projecting assembly exceptions. Removed printing messages to STDERR. dc141b72357bef9e8e6c6c9c6820e15911b77ed5 Jan Aerts jan.aerts@gmail.com 6035f04da6d4e21cecfa0253dfa36405ba940e09 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/9113e595f0a5dfdc1b8754feee2e7fce82591551 9113e595f0a5dfdc1b8754feee2e7fce82591551 2009-02-13T15:46:01-08:00 2009-02-13T15:46:01-08:00 Speeding up things by caching coord_system and seq_region. Untested ffea1eef9b22f955ecb2a5a2426bca410e7880ac Jan Aerts jan.aerts@gmail.com eca871344f24d4af50ffae2914adf5f366bebc90 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/6035f04da6d4e21cecfa0253dfa36405ba940e09 6035f04da6d4e21cecfa0253dfa36405ba940e09 2009-02-13T09:15:16-08:00 2009-02-13T09:15:16-08:00 Speeded up getting exons from transcript 5160fcc528f24d63970a40ab4af582012e9264b1 Jan Aerts jan.aerts@gmail.com aa09fc0b7b01c5d445e2a5423e4193c2dc9b9807 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/eca871344f24d4af50ffae2914adf5f366bebc90 eca871344f24d4af50ffae2914adf5f366bebc90 2009-02-09T11:33:41-08:00 2009-02-09T11:33:41-08:00 Added link between Gene and Analysis [noticed by Shiran Pasternak] 0ffb975ce94c7d094e095e67b0f71e7bbafb1f88 Jan Aerts jan.aerts@gmail.com 4c6adef8abd6fde2b76718a6967056b53f5cca7e Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/aa09fc0b7b01c5d445e2a5423e4193c2dc9b9807 aa09fc0b7b01c5d445e2a5423e4193c2dc9b9807 2009-01-30T09:05:22-08:00 2009-01-30T09:05:22-08:00 Replaced email in copyright line to OpenID 42e289e5733062496e4c4c9030f876a8f0e2b9cc Jan Aerts jan.aerts@gmail.com 519feb9816c84a75990a7ebeef6cf0eb9f564da7 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/4c6adef8abd6fde2b76718a6967056b53f5cca7e 4c6adef8abd6fde2b76718a6967056b53f5cca7e 2009-01-22T08:49:23-08:00 2009-01-22T08:49:23-08:00 Changed contact email from BBSRC to Sanger 90ad7e3e9f627514056b9375d0f24df1f1bf4c10 Jan Aerts jan.aerts@gmail.com a37218fd5e17203dd9c76344b23ec1e535ced5a6 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/519feb9816c84a75990a7ebeef6cf0eb9f564da7 519feb9816c84a75990a7ebeef6cf0eb9f564da7 2009-01-22T08:38:23-08:00 2009-01-22T08:38:23-08:00 Added test for excise and repeat_features f68596821ef1f0025d8f998130801fcc415c575b Jan Aerts jan.aerts@gmail.com f58ecb2c6c84c6a4823276a720b88b4d0d44dc2b Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/a37218fd5e17203dd9c76344b23ec1e535ced5a6 a37218fd5e17203dd9c76344b23ec1e535ced5a6 2008-10-21T01:45:49-07:00 2008-10-21T01:45:49-07:00 Slice#excise: - changed documentation; - added tests 0ea292953b2b44b7fa5141d5c51bca46e9a8ad34 Jan Aerts jan.aerts@gmail.com e4a2b08f91b820b4556843780eac9250d4b03274 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/f58ecb2c6c84c6a4823276a720b88b4d0d44dc2b f58ecb2c6c84c6a4823276a720b88b4d0d44dc2b 2008-10-20T05:51:06-07:00 2008-10-20T05:51:06-07:00 Added Transcript#introns and Intron class de4d382ebef643fb77fc38ee356981d91ab282ab Jan Aerts jan.aerts@gmail.com e4f3f6190c7c7ef331d6bbc760f6be0fbec6d91f Matt Wood matt.wood@sanger.ac.uk http://github.com/jandot/ruby-ensembl-api/commit/e4a2b08f91b820b4556843780eac9250d4b03274 e4a2b08f91b820b4556843780eac9250d4b03274 2008-10-10T07:50:18-07:00 2008-10-10T07:50:18-07:00 Fixed up syntax error in tutorial. b45822730284bd122a8bbe10368f4e9b66a7c95e Matt Wood matt.wood@sanger.ac.uk 1cb90244d49cd9b2fd2fa5e584be302bf77ca43d Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/e4f3f6190c7c7ef331d6bbc760f6be0fbec6d91f e4f3f6190c7c7ef331d6bbc760f6be0fbec6d91f 2008-10-03T09:51:31-07:00 2008-10-03T09:51:31-07:00 Added gem v0.9.2 e4a97ddc3797a891c0c60e19024285c648e6560a Jan Aerts jan.aerts@gmail.com 62958f4e8ade7dc6e4556db16fc45dde10809209 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/1cb90244d49cd9b2fd2fa5e584be302bf77ca43d 1cb90244d49cd9b2fd2fa5e584be302bf77ca43d 2008-10-03T09:44:11-07:00 2008-10-03T09:44:11-07:00 New gemspec 6b70cf847609d64b0c208a37b455a3a64f63ad2b Jan Aerts jan.aerts@gmail.com fd41a93b23154dfe791e5b45269b43dca5746b02 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/62958f4e8ade7dc6e4556db16fc45dde10809209 62958f4e8ade7dc6e4556db16fc45dde10809209 2008-10-03T07:42:50-07:00 2008-10-03T07:42:50-07:00 Removed empty lines between class documentation and class itself. 439cdeed59089dd26b04eff467b932d1bc3a92c9 Jan Aerts jan.aerts@gmail.com 0f91729b0a2e78a248fbd11ac0ee90446356b5e0 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/fd41a93b23154dfe791e5b45269b43dca5746b02 fd41a93b23154dfe791e5b45269b43dca5746b02 2008-10-03T07:42:26-07:00 2008-10-03T07:42:26-07:00 Created tests for variation 75e3c42b443672b47118767e6b9436323b87e4e4 Jan Aerts jan.aerts@gmail.com 79e9b691fa8f06072eac8d596adebb5c29900504 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/0f91729b0a2e78a248fbd11ac0ee90446356b5e0 0f91729b0a2e78a248fbd11ac0ee90446356b5e0 2008-10-03T07:40:47-07:00 2008-10-03T07:40:47-07:00 Changed Rakefile to gem version 0.9.2 9b2b1bdc5e88e7df31dc1575249f6296ba7169e2 Jan Aerts jan.aerts@gmail.com 43f62cfe5336c5fd91e916c8f89f71a1fb508cc4 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/79e9b691fa8f06072eac8d596adebb5c29900504 79e9b691fa8f06072eac8d596adebb5c29900504 2008-10-03T07:40:28-07:00 2008-10-03T07:40:28-07:00 Minor change in TUTORIAL 437f6bc57643d63bf86d990725846de0e8fa284a Jan Aerts jan.aerts@gmail.com 86388a38d3f777c756e9d6372b4691efe22afa3c Francesco Strozzi francesco.strozzi@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/43f62cfe5336c5fd91e916c8f89f71a1fb508cc4 43f62cfe5336c5fd91e916c8f89f71a1fb508cc4 2008-10-03T07:02:55-07:00 2008-10-03T03:07:02-07:00 added comments and descriptions for a number of classes 9c081ebfedb8780fe90ee6b9c32fb155b727d182 Jan Aerts jan.aerts@gmail.com 05ef87c91ce97971dcb87e96e3aae5661a53c650 Francesco Strozzi francesco.strozzi@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/86388a38d3f777c756e9d6372b4691efe22afa3c 86388a38d3f777c756e9d6372b4691efe22afa3c 2008-10-03T06:45:05-07:00 2008-10-03T01:47:51-07:00 created classes and associations according to Variation DB schema db96690bcfc54efb760d66481d1bfbeeb63c9d91 Jan Aerts jan.aerts@gmail.com b507be346c89000e304bf60858d18f9f637a457f Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/05ef87c91ce97971dcb87e96e3aae5661a53c650 05ef87c91ce97971dcb87e96e3aae5661a53c650 2008-10-01T08:09:47-07:00 2008-10-01T08:09:47-07:00 Bug fixed in libpath bef34918e48640b91169fb0e97572fa6556fed61 Jan Aerts jan.aerts@gmail.com 7aba287346d56410e98a2ff3332872dc414accfe Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/b507be346c89000e304bf60858d18f9f637a457f b507be346c89000e304bf60858d18f9f637a457f 2008-10-01T07:58:24-07:00 2008-10-01T07:58:24-07:00 Minor change to require d9f7e91155de6bd57968b9b5c9b550c9f6825dc2 Jan Aerts jan.aerts@gmail.com f47600950ced619afaa971f6075012f48e58d0cb Francesco Strozzi francesco.strozzi@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/7aba287346d56410e98a2ff3332872dc414accfe 7aba287346d56410e98a2ff3332872dc414accfe 2008-10-01T06:30:24-07:00 2008-10-01T06:09:32-07:00 created a test class for the connection 2b55c7c2d9ec935ada12039e224d4d5296abe86f Jan Aerts jan.aerts@gmail.com 7235da5319878562587a162c51822ea45ceb27ac Francesco Strozzi francesco.strozzi@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/f47600950ced619afaa971f6075012f48e58d0cb f47600950ced619afaa971f6075012f48e58d0cb 2008-10-01T06:30:24-07:00 2008-10-01T06:09:12-07:00 included a check for the db connection 46590d6c59c532902455cb3080ad96bdf2805e13 Jan Aerts jan.aerts@gmail.com 2ba6d09bdc46b169f69fe572e92f3aa6944bfed9 Francesco Strozzi francesco.strozzi@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/7235da5319878562587a162c51822ea45ceb27ac 7235da5319878562587a162c51822ea45ceb27ac 2008-10-01T06:30:24-07:00 2008-10-01T06:06:01-07:00 added the possibility to specify the parameters for a connection with a server different from official ensembldb.ensembl.org 30c1ae9f5be32baf81e443d4318d8f088c2a9bfb Jan Aerts jan.aerts@gmail.com 2e8951dacd586b7fb5c938a15e44c6ed36aa79f4 Jan Aerts jan.aerts@gmail.com http://github.com/jandot/ruby-ensembl-api/commit/2ba6d09bdc46b169f69fe572e92f3aa6944bfed9 2ba6d09bdc46b169f69fe572e92f3aa6944bfed9 2008-09-23T06:07:43-07:00 2008-09-23T06:07:43-07:00 Added require rubygems to ensembl.rb because throws LoadError otherwise 980049d68f2ee6ec6ee9663e1e5701ad656c3542 Jan Aerts jan.aerts@gmail.com