https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999 en-us https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/04cd7956502c8e28a39aa308c4a42063db9b7f04 changed note about the session file. Dougal Cowan 2011-02-23 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/3c24cbe4a4aaaba91bc0526edf028e20c77f9fee Updated MATLAB to be a bit neater. Also, to only generate one time variable for session file. Also, to include a comment for the random seed used, the mean and standard deviation. Used MATLAB file to generate a fresh version of butera_ten_cell_1999.cellml. Updated session file to use updated name for time variable. Randall Britten 2011-02-22 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/0ee3337d0ae24df4e2c21f7ee8479292f0ec6a94 added a note about how to get the session file working. dcowan 2011-02-21 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/686cd90b0f9baf035a342dec8c4d674929d67d44 fixed relative link to MATLAB file dcowan 2011-02-21 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/f1b5231b9a6e70a85f9496150a8de4b7210fd4bf added documentation details dcowan 2011-02-21 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/ac635e386e94c5196340aee53094b9e282778435 Preferred version of session file, plots all 10 voltages on same graph, uses same "timeDuplicate" for all traces. Randall Britten 2011-02-18 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/0bde97124e27253d714c78bac2442ccf283522a9 Fixed path: removed reference to lacal drive path. Randall Britten 2011-02-18 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/f962579da539c7ea2c646852351fa484290f39c5 Prettify XML. Randall Britten 2011-02-18 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/c4663e961940ddab47a6452cccca6d243d15fe9e Remove original five cell model. Shorojeet Dasgupta 2011-02-18 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/dee9040d5b948a3c59f38980322aaaa44124ef0a Removed five and ten cell models as both had g_syn_e_s values all at 0.1 nS. Added ten cell model which has random values for g_syn_e_s and is used to build the session file, which is also added. Shorojeet Dasgupta 2011-02-18 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/4427ab24bdba0d1ae597b7ab7b9b20ccbe5f0409 Changed single cell model to allow session file creation: Added 'time' variable to 'single_neuron_model' component. Added metadata ID for 'time' variable in 'environment' component, and same for voltage variable in 'membrane' component. Pair programmed with Randall Britten. Shorojeet Dasgupta 2011-02-18 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/12dae49d5db6605e0c558406f03c22ca61525623 Changes to MATLAB program: Added ability to repeat a random generation using seeds. Changed ouput file from XML to CellML format. Added code to allow session file creation from output file. Made code neater. Shorojeet Dasgupta 2011-02-18 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/bfb5f8ff3119fda5eaf1bd83ce07b5535a52f090 Moved XML for connections that was at end of file to now be alongside other connections. Randall Britten 2011-02-16 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/291b2c2b7d249a7237080854077fb79a5ba9b772 Prettified the XML. Randall Britten 2011-02-16 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/1526c6b69982ddf9432f5f520518943902b29adb "Funneling" membrane variable out to top level so that importing file can have a "local" reference to it so that session files will work. This is progress towards working around a bug in OpenCell (see https://tracker.physiomeproject.org/show_bug.cgi?id=2840), where session files can only refer to variables in the "top level" cellml file (i.e. can't refer to variables in imported components from session file). Pair-programmed with Shorojeet Dasgupta. Randall Britten 2011-02-16 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/9440efdfc111145340f96a796f3c288e275daa45 Fixed problem with indices used for summation: Terms in sum were using same indices as paper, but sum was over j, whereas in paper, sum was over i. Now code sums over i. Pair programmed with Shorojeet Dasgupta. Randall Britten 2011-02-16 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/0521aa56965b216e589dfbd38e2455f82ef9769c Adding MATLAB file to workspace. When run, asks for number of neurons to be modelled, and also asks for mean and standard deviation for the normal distribution from where g_syn_e values are randomly picked. Then creates an XML file which can be run on CellML. Note: To run XML file on CellML, must have single cell model in same folder with same name. Shorojeet Dasgupta 2011-02-14 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/1b92abc2c5c5024afdbcbf71d27c14f40e45c28f Corrected calculation for synapic input by making the s calculation a ds/dt calculation. Shorojeet Dasgupta 2011-02-14 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/7a23bdd99d39a189f2e8964b7342ac851d3d18e7 Corrected sum_g_syn_e_s calculation: each cell has its own such calculation now, as required by the model. Previously, there was only one such calculation for all cells. Shorojeet Dasgupta 2011-02-14 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/2e289e2a63b8d335568be79fabfeb664668a6711 Corrected sum_g_syn_e_s calculation: each cell has its own such calculation now, as required by the model. Previously, there was only one such calculation for all cells. Shorojeet Dasgupta 2011-02-14 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/5ffca16220b34b235d271bf3a227ab64102f9284 Merge Randall Britten 2010-12-17 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/da7a7e20f84d6ffff56012063607f31e1b4059f2 Backed out changeset: 49fc5b545042 Randall Britten 2010-12-17 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/fc9201847bde4492666f1f348c0e104ca971113c Backed out changeset: 9994717694dd Randall Britten 2010-12-17 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/14434e0e65659db10dd9a49c89ddb27e8dc5499b Added a dummy component ("synaptic_coupling") to allow the single cell version of the model to be work independently. Previously, it had to be used as an import for the 5 and 10 cell models. synaptic_coupling component adds 4 values that represent 4 imaginary neighbouring neurons to set the value of sum_g_syn_e_s. Shorojeet Dasgupta 2010-12-17 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/2f29945d2eb4d11c09a12fbfa48864239646d7aa Added a dummy component ("synaptic_coupling") to allow the single cell version of the model to be work independently. Previously, it had to be used as an import for the 5 and 10 cell models. synaptic_coupling component adds 4 values that represent 4 imaginary neighbouring neurons to set the value of sum_g_syn_e_s. Shorojeet Dasgupta 2010-12-17 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/60eb23ecb64792b85fa4db06a6bbd15099ffea7a Added a dummy component ("synaptic_coupling") to allow the single cell version of the model to be used independently, previously, it was only usable indirectly, by being imported from the 5 and 10 cell models. Planning to change synaptic_coupling so that it just sets the value of sum_g_syn_e_s directly, rather than adding 4 values that represent 4 imaginary neighbouring neurons. Shorojeet Dasgupta 2010-12-15 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/f27dca51f30f35a206a7ae73bdb77419177a0763 Added metadata to the single cell model. Catherine Lloyd 2010-08-07 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/263f827f246b45a3ce6dfe45acfbc38c5a9f737c Added documentation to the single cell model. Catherine Lloyd 2010-07-17 https://staging.physiomeproject.org/workspace/butera_rinzel_smith_II_1999/@@file/9de8d1f6d9e860e5b62211a0f5f20b70611074da Adding models and images to the workspace. Catherine Lloyd 2010-07-17