| 2a27a67 | David Galloway | 14 October 2021, 14:02:10 UTC | Update README | 14 October 2021, 14:02:10 UTC |
| bb9c2a3 | David Galloway | 28 May 2021, 18:19:41 UTC | Public Site Update Initial Checkin of FREDv5.0.0 | 28 May 2021, 18:19:41 UTC |
| 501ed82 | David Galloway | 04 March 2021, 18:16:39 UTC | Update README.md | 04 March 2021, 18:16:39 UTC |
| 8d70bb9 | David Galloway | 03 March 2021, 20:46:46 UTC | Delete .gitignore | 03 March 2021, 20:46:46 UTC |
| 621747b | David Galloway | 03 March 2021, 20:45:30 UTC | Create .gitignore | 03 March 2021, 20:45:30 UTC |
| 899c7b7 | sinclairdavid | 23 July 2020, 15:09:14 UTC | U.S. Synthetic Population 2010 Version 1.0 guide The epimodels website which hosts this guide is currently down. Uploading a copy here for reference. | 23 July 2020, 15:09:14 UTC |
| 96616f5 | David Galloway | 13 April 2020, 16:54:59 UTC | Bug fix Comparison between pointer (array without an index) and int should have been caught by the compiler | 13 April 2020, 16:54:59 UTC |
| 365907b | David Galloway | 16 November 2016, 15:15:31 UTC | Fixed a bug for Sick Leave Sick Leave quick fix | 16 November 2016, 15:15:31 UTC |
| 6a2d60c | John Grefenstette | 16 January 2016, 15:40:15 UTC | Memory reduction in Markov_Epidemic | 16 January 2016, 15:40:15 UTC |
| 6d54027 | John Grefenstette | 15 January 2016, 22:41:31 UTC | Markov transitions updated when changing age group. | 15 January 2016, 22:41:31 UTC |
| 7323733 | John Grefenstette | 15 January 2016, 22:20:45 UTC | Added interaction between markov models and population dynamics | 15 January 2016, 22:20:45 UTC |
| 2695f28 | John Grefenstette | 15 January 2016, 16:13:28 UTC | Reformatted markov model parameters | 15 January 2016, 16:13:28 UTC |
| 6637756 | John Grefenstette | 15 January 2016, 16:02:35 UTC | Age-specific Markov Models Markov models now have age-specific initial state distributions and transition probabilities. | 15 January 2016, 16:02:35 UTC |
| 60a7524 | John Grefenstette | 15 January 2016, 14:36:31 UTC | Visualization code tweaks | 15 January 2016, 14:36:31 UTC |
| d1294a6 | John Grefenstette | 14 January 2016, 21:28:56 UTC | visualization code cleanup | 14 January 2016, 21:28:56 UTC |
| a92a5c3 | John Grefenstette | 14 January 2016, 16:15:12 UTC | Added bin/README.txt | 14 January 2016, 16:15:12 UTC |
| 8456ff8 | John Grefenstette | 13 January 2016, 22:28:16 UTC | Code cleanup | 13 January 2016, 22:28:16 UTC |
| b580212 | John Grefenstette | 13 January 2016, 22:10:05 UTC | Updated fred_get_googlemap Eliminates FRED dependency on R, | 13 January 2016, 22:10:05 UTC |
| 37750d1 | John Grefenstette | 12 January 2016, 22:38:28 UTC | Visualization upgrades | 12 January 2016, 22:38:28 UTC |
| 968b7ad | John Grefenstette | 12 January 2016, 21:48:13 UTC | Visualization support for case_fatalities | 12 January 2016, 21:48:13 UTC |
| d072a54 | John Grefenstette | 12 January 2016, 17:45:45 UTC | Add total case fatalities TD to output. No change to rt. | 12 January 2016, 17:45:45 UTC |
| ceba2d7 | John Grefenstette | 12 January 2016, 16:27:31 UTC | BUG FIX: Infections terminated properly when agent dies. No change to rt. | 12 January 2016, 16:27:31 UTC |
| 787b779 | David Galloway | 11 January 2016, 18:48:25 UTC | Incremental Ages & Stages Check in of some fixes / coding standardization for Age & Stages. The rt works, but more work is needed on long-term Dynamic Population. | 11 January 2016, 18:48:25 UTC |
| f378dd7 | John Grefenstette | 11 January 2016, 01:40:01 UTC | markov_epidemic update | 11 January 2016, 01:40:01 UTC |
| bfd47fe | John Grefenstette | 10 January 2016, 19:46:20 UTC | Updated regression tests after last bug fix. | 10 January 2016, 19:46:20 UTC |
| 8517155 | John Grefenstette | 08 January 2016, 20:36:56 UTC | minor code cleanup | 08 January 2016, 20:36:56 UTC |
| 27ead63 | John Grefenstette | 08 January 2016, 19:57:32 UTC | fixed recovery bug A person only recovers when both the symptoms period and the infectious period have expired. | 08 January 2016, 19:57:32 UTC |
| f52f85e | John Grefenstette | 08 January 2016, 19:05:20 UTC | updates to markov models | 08 January 2016, 19:05:20 UTC |
| dcc0872 | John Grefenstette | 07 January 2016, 21:34:21 UTC | reduced required parameters for markov natural history | 07 January 2016, 21:34:21 UTC |
| a45e04a | John Grefenstette | 07 January 2016, 16:32:02 UTC | working markov epidemic model | 07 January 2016, 16:32:02 UTC |
| 9bc2dce | John Grefenstette | 06 January 2016, 21:16:56 UTC | bug fixes to fred_job | 06 January 2016, 21:16:56 UTC |
| 99f1e30 | John Grefenstette | 06 January 2016, 17:36:16 UTC | fred_job supports recursive includes | 06 January 2016, 17:36:16 UTC |
| 1f840a8 | John Grefenstette | 06 January 2016, 16:37:08 UTC | fred_job now handles all file parameters correctly | 06 January 2016, 16:37:09 UTC |
| 6a125d7 | David Galloway | 06 January 2016, 14:18:37 UTC | County Demographics Reporting Initial Check-in of County Demographics Reporting | 06 January 2016, 14:18:46 UTC |
| 1ab8a8f | JohnGrefenstette | 05 January 2016, 21:37:35 UTC | support for markov disease process | 05 January 2016, 21:37:35 UTC |
| 820574b | JohnGrefenstette | 05 January 2016, 20:17:02 UTC | Support for Markov models | 05 January 2016, 20:17:02 UTC |
| 64875d7 | JohnGrefenstette | 05 January 2016, 19:54:28 UTC | Initial support for Markov health processes | 05 January 2016, 19:54:28 UTC |
| 92a31fb | John Grefenstette | 22 December 2015, 02:26:50 UTC | Updated support for Markov Epidemics | 22 December 2015, 02:26:50 UTC |
| aee8009 | John Grefenstette | 18 December 2015, 14:33:41 UTC | Support for Markov Infections | 18 December 2015, 14:33:41 UTC |
| 57a18cc | David Galloway | 17 December 2015, 19:26:51 UTC | Merge pull request #40 from FRED-PITT/synch_sl_county Synch up Sick Leave and County demo | 17 December 2015, 19:26:51 UTC |
| c6b9514 | David Galloway | 17 December 2015, 19:24:56 UTC | Synch up Sick Leave and County demo Just want to synch up my branch so I am not too far from main branch … Changed the way sick leave is distributed to workplaces Added some code for counties to track demographics Removed unnecessary Self pointers in Activity (it already has a pointer to the agent) | 17 December 2015, 19:24:56 UTC |
| c32dcb8 | JohnGrefenstette | 16 December 2015, 20:12:03 UTC | fixed typo | 16 December 2015, 20:12:03 UTC |
| 2adfa29 | JohnGrefenstette | 16 December 2015, 20:11:07 UTC | support for overdose deaths | 16 December 2015, 20:11:07 UTC |
| 4556ce8 | JohnGrefenstette | 16 December 2015, 19:57:56 UTC | Fixed initialization. | 16 December 2015, 19:57:56 UTC |
| 5936f54 | John Grefenstette | 15 December 2015, 22:24:06 UTC | Merge pull request #39 from FRED-PITT/visualization_update updated visualization counters | 15 December 2015, 22:24:06 UTC |
| 816a888 | JohnGrefenstette | 15 December 2015, 22:23:17 UTC | updated visualization counters | 15 December 2015, 22:23:17 UTC |
| b213cd5 | John Grefenstette | 15 December 2015, 14:17:49 UTC | added drug_use input file | 15 December 2015, 14:17:49 UTC |
| 8541080 | John Grefenstette | 11 December 2015, 22:08:48 UTC | Merge pull request #38 from FRED-PITT/drug-use-model Drug use model | 11 December 2015, 22:08:48 UTC |
| a399635 | John Grefenstette | 11 December 2015, 22:05:34 UTC | Update Markov_Epidemic.cc | 11 December 2015, 22:05:34 UTC |
| 6df88af | John Grefenstette | 11 December 2015, 19:59:51 UTC | Markov drug use model | 11 December 2015, 19:59:51 UTC |
| 383f8c4 | JohnGrefenstette | 09 December 2015, 19:25:05 UTC | markov transition model | 09 December 2015, 19:25:05 UTC |
| 74212f8 | JohnGrefenstette | 09 December 2015, 17:24:31 UTC | initial check in | 09 December 2015, 17:24:31 UTC |
| 8014ac0 | JohnGrefenstette | 07 December 2015, 20:06:28 UTC | Initial check in | 07 December 2015, 20:06:28 UTC |
| 62cf6f9 | John Grefenstette | 04 December 2015, 14:23:04 UTC | update comments | 04 December 2015, 14:23:04 UTC |
| fce26dd | John Grefenstette | 04 December 2015, 14:20:27 UTC | Initial check-in of alternative influenza disease model | 04 December 2015, 14:20:27 UTC |
| 3434e06 | John Grefenstette | 04 December 2015, 14:12:43 UTC | update comment in defaults file | 04 December 2015, 14:12:43 UTC |
| 1559dec | John Grefenstette | 03 December 2015, 18:03:30 UTC | Bug fix: incorrect asymptomatic infectivity. Also: - better support for time-varying infectivity and symptoms. - made binary symptoms and infectivity the default - recalibrate - new RT | 03 December 2015, 18:03:30 UTC |
| bd76766 | JohnGrefenstette | 19 November 2015, 17:46:11 UTC | Merged guido-vector-branch into master. No change in rt. | 19 November 2015, 17:46:11 UTC |
| 39b7479 | John Grefenstette | 19 November 2015, 14:54:07 UTC | Optional health charts Optional parameter: enable_health_charts = 0 No change to rt. | 19 November 2015, 14:54:07 UTC |
| a63a7f3 | JohnGrefenstette | 18 November 2015, 16:37:45 UTC | fixed bug in disease fatality code. No change to rt. | 18 November 2015, 16:37:45 UTC |
| 981cd39 | John Grefenstette | 12 November 2015, 01:42:05 UTC | Add <disease>_make_all_susceptible parameter If true, make everyone susceptible by default. Otherwise everyone is unsusceptible by default. Default is true. No change to rt. | 12 November 2015, 01:42:05 UTC |
| facb59e | John Grefenstette | 12 November 2015, 01:03:16 UTC | renamed variable Health::infected_in_mixing_group No change in rt. | 12 November 2015, 01:03:16 UTC |
| 97c60b6 | John Grefenstette | 11 November 2015, 23:07:28 UTC | Improved status messages in Health Messages ca create a health chart for each individual, showing changes in health status. No change to rt. | 11 November 2015, 23:07:28 UTC |
| fed3f96 | JohnGrefenstette | 11 November 2015, 21:17:45 UTC | Recalibrated after last bug fix New RT results with recailbration | 11 November 2015, 21:17:45 UTC |
| ac091a9 | John Grefenstette | 11 November 2015, 20:46:57 UTC | Bug fix: symptoms now resolve | 11 November 2015, 20:46:57 UTC |
| c08e6f2 | John Grefenstette | 11 November 2015, 20:17:09 UTC | fixed bug that prevented people from become symptomatic | 11 November 2015, 20:17:09 UTC |
| 61cdb5e | John Grefenstette | 11 November 2015, 01:29:50 UTC | Fixed indentation | 11 November 2015, 01:29:50 UTC |
| 7db872e | JohnGrefenstette | 10 November 2015, 17:57:16 UTC | Recalibration and new rt New rt results | 10 November 2015, 17:57:16 UTC |
| eef9cf8 | John Grefenstette | 10 November 2015, 14:16:22 UTC | Allow 3 digits of precision | 10 November 2015, 14:16:22 UTC |
| 40fd5d7 | JohnGrefenstette | 09 November 2015, 23:00:56 UTC | Add fred_get_age_plot | 09 November 2015, 23:00:56 UTC |
| 737ae21 | JohnGrefenstette | 09 November 2015, 21:16:01 UTC | Adopt age_bias transmission in neighborhoods as default New rt results. | 09 November 2015, 21:16:01 UTC |
| 267afbc | JohnGrefenstette | 09 November 2015, 16:51:32 UTC | Use lognormal incubation for influenza by default New rt results. | 09 November 2015, 16:51:32 UTC |
| 3c57aa4 | John Grefenstette | 08 November 2015, 21:38:29 UTC | Code cleanup and improved comments | 08 November 2015, 21:38:29 UTC |
| c7f691b | John Grefenstette | 08 November 2015, 21:29:52 UTC | Make all disease-specific age maps optional. All age maps are assumes empty unless given in the params file, with one exception: if age_specific_prob_infection_immunity is not specified in the params files, we assume that INFECTION PRODUCES LIFE-LONG IMMUNITY. | 08 November 2015, 21:29:52 UTC |
| 8f31804 | John Grefenstette | 07 November 2015, 21:59:32 UTC | Restored use of asymptomatic_infectivity multiplier The asymp_infectivity parameter was no being used. Restore to old usage. RTs updated. | 07 November 2015, 21:59:32 UTC |
| dc85d73 | John Grefenstette | 06 November 2015, 15:07:43 UTC | Optional upper bounds for natural history distributions New optional parameters xx_incubation_period_upper_bound = 0 xx_symptoms_duration_upper_bound = 0 xx_latent_period_upper_bound = 0 xx_infectious_duration_upper_bound = 0 These only apply to lognormal distributions. If the upper bound is > 0 and the draw from the lognormal exceeds the upper bound, and random number between 0 and upper bound is selected. No change to rt. | 06 November 2015, 15:07:43 UTC |
| 352f2bc | John Grefenstette | 05 November 2015, 22:07:48 UTC | Fixed bugs in HIV_Natural_History | 05 November 2015, 22:07:48 UTC |
| e65db81 | John Grefenstette | 05 November 2015, 20:33:16 UTC | Reduce log messages. No change in rt | 05 November 2015, 20:33:16 UTC |
| 08b9231 | John Grefenstette | 05 November 2015, 15:16:52 UTC | Improved error checking in Natural_History.cc | 05 November 2015, 15:16:52 UTC |
| 38b3b0c | David Galloway | 04 November 2015, 15:34:16 UTC | Merge pull request #36 from FRED-PITT/Network_Update Network update | 04 November 2015, 15:34:16 UTC |
| e231331 | David Galloway | 04 November 2015, 15:33:34 UTC | Update for Mixing_Group Made enroll and unenroll virtual in Mixing_Group to make sure that the inherited class overrides get called | 04 November 2015, 15:33:34 UTC |
| eda95a1 | David Galloway | 03 November 2015, 18:54:56 UTC | More Refactoring for mixing group | 03 November 2015, 18:54:56 UTC |
| 79515e9 | John Grefenstette | 30 October 2015, 14:00:10 UTC | Bug fixed to sexual transmission No change to rt | 30 October 2015, 14:00:10 UTC |
| 4a1db30 | David Galloway | 29 October 2015, 18:47:28 UTC | Updates For Networks 1) Created Sexual_Transmission_Network as a subclass of Network 2) Place subtypes are now just characters (since that is how we used them anyhow) and they are defined in the base class where they will be used (e.g. Place.h or Network.h) 3) Moved some methods down to Mixing_Group 4) Made some member variables in Mixing_Group private so that the descendants need to use the setters/getters | 29 October 2015, 18:47:28 UTC |
| 29e0937 | John Grefenstette | 27 October 2015, 14:00:02 UTC | Make all age maps optional If an age_map is not found, it will be set to empty. This relieves the burden on new disease definitions to provide parameters for all age maps. No change in rt. | 27 October 2015, 14:00:02 UTC |
| 190a76b | JohnGrefenstette | 26 October 2015, 20:48:52 UTC | Added optional parameters to ramp up symptoms and/or infectivity No change to rt. | 26 October 2015, 20:48:52 UTC |
| 3532957 | JohnGrefenstette | 26 October 2015, 12:37:36 UTC | Updated gitignore | 26 October 2015, 12:37:36 UTC |
| 19ba84e | John Grefenstette | 25 October 2015, 13:34:39 UTC | Code cleanup No change in rt. | 25 October 2015, 13:34:39 UTC |
| d4e7e85 | John Grefenstette | 25 October 2015, 13:17:46 UTC | Code refactoring -- removed functors No change in rt. | 25 October 2015, 13:17:46 UTC |
| 5ee9e59 | John Grefenstette | 25 October 2015, 13:02:55 UTC | Minor code refactoring No change to rt. | 25 October 2015, 13:02:55 UTC |
| f289879 | John Grefenstette | 25 October 2015, 02:29:44 UTC | Removed obsolete code No change in rt. | 25 October 2015, 02:29:44 UTC |
| a4b3b18 | John Grefenstette | 25 October 2015, 02:18:07 UTC | Removed obsolete code No change in rt. | 25 October 2015, 02:18:07 UTC |
| 120b178 | John Grefenstette | 25 October 2015, 02:10:51 UTC | Removed obsolete code No change in rt. | 25 October 2015, 02:10:51 UTC |
| 9976c75 | John Grefenstette | 24 October 2015, 18:40:08 UTC | comments added to defaults No change to rt. | 24 October 2015, 18:40:08 UTC |
| bf892db | John Grefenstette | 24 October 2015, 16:40:59 UTC | Integrated lognormal and cdf options for infectious and symptom distributions No change to rt. | 24 October 2015, 16:40:59 UTC |
| 39742b5 | John Grefenstette | 23 October 2015, 19:58:48 UTC | Flu parameters using lognormal distribution for incubation period and infectious offsets from start of symptoms No change to rt. | 23 October 2015, 19:58:48 UTC |
| 781c6c8 | John Grefenstette | 23 October 2015, 13:46:54 UTC | Merge pull request #35 from FRED-PITT/incubation-offset-branch Incubation offset branch | 23 October 2015, 13:46:54 UTC |
| 1652f51 | John Grefenstette | 23 October 2015, 13:43:48 UTC | Working version of incubation_offset | 23 October 2015, 13:43:48 UTC |
| ab0818a | John Grefenstette | 22 October 2015, 16:36:59 UTC | Merge branch 'master' into incubation-offset-branch | 22 October 2015, 16:36:59 UTC |
| e05ecca | David Galloway | 20 October 2015, 17:22:35 UTC | Refactoring and Code Cleanup 1) Refactored Network and Place to inherit from base class Mixing_Group 2) Removed the unnecessary setup() from Places so that they now call the base constructor before they do their own initialization 3) Code clean-up 4) added a new parameter-based workplace size model so that we can modify the number of size groups as well as the max of each category | 20 October 2015, 17:22:35 UTC |
