| 90f5f18 | Gareth S Davies | 28 April 2020, 09:35:24 UTC | Prepare for new release (#3236) | 28 April 2020, 09:35:24 UTC |
| cc4a0b4 | Miriam Cabero | 27 April 2020, 12:47:34 UTC | Add option to plot waveform track on top of qscan (#3232) * Add option to plot waveform track on top of qscan * Separate masses argument into mass1, mass2 | 27 April 2020, 12:47:34 UTC |
| 470d4aa | Miriam Cabero | 24 April 2020, 09:15:20 UTC | Fix typo spotted in issue 3231 (#3233) | 24 April 2020, 09:15:20 UTC |
| 4e6ed62 | Gareth S Davies | 23 April 2020, 11:02:16 UTC | changes to PTA histogram normalisation (#3216) * changes to PTA histogram normalisation when reading Co-authored-by: Thomas Dent <thomas.dent@usc.es> | 23 April 2020, 11:02:16 UTC |
| b40bf0a | Gareth S Davies | 22 April 2020, 16:19:30 UTC | ifar_catalog bug (#3230) | 22 April 2020, 16:19:30 UTC |
| 316716b | Gareth S Davies | 22 April 2020, 12:42:23 UTC | Multiifo page_ifar (#3219) * pycbc_page_ifar updated to use new-style statmap files (NB. *not* combined statmap) * Add page_ifar uncombined plots into workflow | 22 April 2020, 12:42:23 UTC |
| dd8e2b8 | Gabriele Bozzola | 21 April 2020, 10:44:55 UTC | Improve float comparison in matchedfilter.py (#3227) * Improve float comparison in matchedfilter.py stilde.delta_f and psd.delta_f were compared with the == operator. This can produce false positives due to the finite precision of the floating point representation. Now, assert_almost_equal takes care of this. In addition, a bare except has been removed to catch the correct exception that numpy.testing.assert_almost_equal throws. * Update test_matchedfilter.py Co-authored-by: Alex Nitz <alex.nitz@gmail.com> | 21 April 2020, 10:44:55 UTC |
| 812b518 | dfinstad | 20 April 2020, 21:11:48 UTC | add link to relative doc page (#3225) | 20 April 2020, 21:11:48 UTC |
| b835b65 | dfinstad | 20 April 2020, 19:33:40 UTC | Generalize relative model to all frequency domain approximants (#3224) * make sure bin edges are unique * switch to using get_fd_waveform_sequence and clean up loglr * anchor bins at left edge in summary data * remove SPA from class name * read fiducial params from config * fix typos * prune low freqs to avoid waveform errors * codeclimate * add doc example * make relative model example actually run | 20 April 2020, 19:33:40 UTC |
| bb42e4d | Ian Harry | 20 April 2020, 11:51:48 UTC | Optimize 2det multiifo coinc (#3204) * Test new two-det speedy option * Typo fix * Typo * Resolve various comments * more legible formatting, kill whitespace * Update stat.py * CC hates me * minor fix to comment * duh codeclimate | 20 April 2020, 11:51:48 UTC |
| 38fb02a | Ian Harry | 20 April 2020, 08:54:54 UTC | Coinc snrchi multiifo (#3220) * Uncomment snrchi plots * Try to support new format inputs * Remove fixed FIXMEs * Add ifos to output title and caption Co-authored-by: Gareth S Davies <gareth.davies@usc.es> | 20 April 2020, 08:54:54 UTC |
| 693210e | Ian Harry | 17 April 2020, 08:16:41 UTC | Prepare for new release | 17 April 2020, 08:16:41 UTC |
| 332b9ad | Ian Harry | 16 April 2020, 18:03:50 UTC | Assume low values of PSDvar are anomalous (#3213) * Assume low values of PSDvar are anomalous * np -> numpy * Update ranking.py | 16 April 2020, 18:03:50 UTC |
| b0935e2 | Gareth S Davies | 16 April 2020, 14:03:55 UTC | Add colorbar labels to foundmissed plots. General tidy-up of the foundmissed script (#3218) | 16 April 2020, 14:03:55 UTC |
| eea8bbb | Gareth S Davies | 16 April 2020, 12:52:33 UTC | Wrap phase, remove extraneous snr ratio bins (#3217) | 16 April 2020, 12:52:33 UTC |
| bf93156 | Collin Capano | 16 April 2020, 12:45:26 UTC | Allow for more flexible substitution from injections in config file (#3215) * make FROM_INJECTION more flexible * allow replacement to happen within an option value * update doc string | 16 April 2020, 12:45:26 UTC |
| 232d115 | David Keitel | 16 April 2020, 12:44:31 UTC | JointDistribution: introduce loop for renormalization due to constraints, and improve documentation (#3214) * fix renormalization due to constraints in JointDistribution, and doc * since the resulting distribution cannot be evaluated on arrays, the constraint functions need not / cannot be vectorized either (and the given example isn't), so internally need to loop over the random samples used for pdf renormalization * also document n_test_samples kwarg * and minor doc fixes * JointDistribution: throw error if self._pdf_scale == 0.0 * this means that none of the random draws for pdf renormalization satisfied the constraints * can happen for self-contradictory constraints, or just for harsh constraints and too low n_test_samples * would lead to an unusable distribution | 16 April 2020, 12:44:31 UTC |
| 653f93e | Gareth S Davies | 15 April 2020, 10:59:20 UTC | make foreground table in workflow (#3212) | 15 April 2020, 10:59:20 UTC |
| 76dc9f3 | Thomas Dent | 13 April 2020, 13:54:41 UTC | Change unused newsnr_sgchisq_psdvar function (#3207) * Change unused newsnr_sgchisq_psdvar function New stat scales both SNR and chisq by psd_var * codeclimate * fix more codeclimate * couple of brackets to be more explicit | 13 April 2020, 13:54:41 UTC |
| 629428c | Gareth S Davies | 10 April 2020, 06:18:55 UTC | Add code for foreground loudest events table in multiifo format (#3209) * Add code for foreground loudest events in multiifo format Co-authored-by: Koustav Chandra <56917539+KoustavChandra@users.noreply.github.com> | 10 April 2020, 06:18:55 UTC |
| bbbec62 | Koustav Chandra | 08 April 2020, 10:44:56 UTC | Made the pycbc_page_found_missed colourblind friendly. (#3205) * Make pycbc_page_found_missed colorblind friendly | 08 April 2020, 10:44:56 UTC |
| 76a0edb | Ian Harry | 07 April 2020, 12:32:50 UTC | Fix broken add_statmap (#3206) * Correct tags in add_statmap | 07 April 2020, 12:32:50 UTC |
| 3c480fc | Gareth S Davies | 06 April 2020, 13:37:46 UTC | missed change to int8 comparison (#3203) | 06 April 2020, 13:37:46 UTC |
| a7f57a2 | Gareth S Davies | 06 April 2020, 12:20:27 UTC | Prior histogram efficiency (#3202) * changes to dtphase and stat.py to allow for changes in histogram format | 06 April 2020, 12:20:27 UTC |
| 92880fd | Ian Harry | 01 April 2020, 16:00:49 UTC | Missed a line (#3197) | 01 April 2020, 16:00:49 UTC |
| bd8f8c7 | Ian Harry | 01 April 2020, 14:52:55 UTC | Move fit_by files to the same directory (#3201) | 01 April 2020, 14:52:55 UTC |
| 275c3cc | Ian Harry | 31 March 2020, 16:31:27 UTC | Stop changing dtype for stat file (#3200) We currently have an issue where the HLV statistic file is using 30G of RAM. It seems a major part of the problem is that the `param_bin` information is cast to a python `int`. An `int` is apparently a 24-byte object, whereas in the current HDF file it's stored as a 1-byte integer. So we can reduce the memory usage there by not changing the dtype and just using the dtype from the input file. We will still need to go further to manage memory better, and avoid doing the sort operation here. So a subsequent patch should enable the ability to provide a pre-sorted file in the same format as this code needs it. But for now getting this in is useful for being able to run this code! | 31 March 2020, 16:31:27 UTC |
| 836ba4d | Collin Capano | 30 March 2020, 17:54:07 UTC | Bug: Turn off removing common offsets in plot posterior and correctly set 1D marginal plot limits (#3199) * fix bug setting 1D marginal limits * turn off removing common offsets | 30 March 2020, 17:54:07 UTC |
| 985444a | Ian Harry | 30 March 2020, 15:53:58 UTC | Dont duplicate Executables [revisited] (#3196) * Force executable reuse * Avoid duplication of exes * More stuff around * Typo * Don't reuse pycbc_inspiral * Try using pegasus_name * Rejig is_same_as * Testing * Trying again * Whitespace | 30 March 2020, 15:53:58 UTC |
| 29164ff | Tito Dal Canton | 30 March 2020, 12:43:28 UTC | Improvements to pycbc_condition_strain (#3194) * Improvements to pycbc_condition_strain * Avoid passing through single precision if double is requested * Support HDF output when splitting output frames * Cleanup * Save one line | 30 March 2020, 12:43:28 UTC |
| 5d35606 | Ian Harry | 30 March 2020, 10:22:00 UTC | New search workflow cleanup 2 (#3195) * Edits to the injection side of the new workflow generator * Bugfix * More cleanup * Try the sorting again | 30 March 2020, 10:22:00 UTC |
| aca7905 | Ian Harry | 27 March 2020, 14:50:29 UTC | New search workflow cleanup 1 (#3193) * Cleaning up the FULL_DATA part of the new search workflow * Typo in previous * One more minor fix * One more problem * Add back in ifos when searching for tags * Sort ifos in Executable * Sorted in other place * Now this is not a list * Write out tags * Don't require tags * Another typo * More cleanup of hdfbank * Reduce verbosity * One more issue * Fix some issues with plotting codes * Some ifo-related fixes * More small changes * Make CC happier * 80-char overspill | 27 March 2020, 14:50:29 UTC |
| 3a923b7 | Gareth S Davies | 24 March 2020, 11:13:52 UTC | Start to add in codes for inclusion of offline singles (#3190) * start implementing changes to add offline singles into workflow | 24 March 2020, 11:13:52 UTC |
| 4b3199f | Ian Harry | 23 March 2020, 12:35:03 UTC | Allow empty statfile list (#3192) | 23 March 2020, 12:35:03 UTC |
| 93fb397 | Tito Dal Canton | 22 March 2020, 15:29:18 UTC | Fix issues with banksim code (#3191) * Error due to string conversions in Python 3 * FF plot too small with modern matplotlib | 22 March 2020, 15:29:18 UTC |
| e6a74d7 | Prayush Kumar | 21 March 2020, 15:27:29 UTC | Minor bugfix in data opts reading from config (#3188) A check for psd_inverse_length was not qualified by detector name in data_opts_from_config, resulting in it always passing. Fixed that. | 21 March 2020, 15:27:29 UTC |
| 077e668 | Gareth S Davies | 19 March 2020, 16:07:20 UTC | Add live single trigger fitting scripts (#3189) * Add live single trigger fitting scripts * better naming/location convention * added shebang line and intro blurb * remove not needed plotting of fits. address Leo's comments | 19 March 2020, 16:07:20 UTC |
| 7b8f892 | Gareth S Davies | 18 March 2020, 11:14:00 UTC | Add in Gracedb search functionality to results page (#3186) * Add in Gracedb search functionality to results page * split line for codeclimate | 18 March 2020, 11:14:00 UTC |
| 6e05377 | Collin Capano | 17 March 2020, 11:11:22 UTC | Update pp workflow (#3187) * make add_input a public method * add separate funtions for pp plots and injection recovery * first stab at updating injection workflow * add function to create pp summary table; update the workflow * make default distribution section in create injections be 'prior' * use function for boiler-plate workflow options * set config-files in create injection node; whitespace * fix bug in setting injection file * fix some typos; use pp_summary_table to determine whether to do pp test * try to make pp jobs their own sub workflow * try not using any container workflow * fix bugs in figuring out dependencies for sub workflows * fix pp test page layout * make inj recovery plots have the same aspect ratio as pp plots * ensure pp params are enclosed in quotes * python 3: fix issue saving approximant to injection file * save metadata with inj recovery plots, and use bbox inches tight * whitespace * another fix to making the workflow dependencies * move function to add workflow cli group to workflow/core.py | 17 March 2020, 11:11:22 UTC |
| 3c48bfd | Gareth S Davies | 13 March 2020, 16:52:25 UTC | Add found Injtable to workflow (#3185) * Add found injtable to workflow | 13 March 2020, 16:52:25 UTC |
| ce20a96 | Simone Mozzon | 13 March 2020, 11:21:12 UTC | clean variation.py and update pycbc_inspiral (#3180) * Remove obsolete functions cal_psd_variation and find_trigger_value. Rename new_find_trigger_value to find_trigger_value. * Remove unused packages imported in variation.py | 13 March 2020, 11:21:12 UTC |
| 7f383fa | Collin Capano | 12 March 2020, 16:52:26 UTC | add dump/load state functions from epsie (#3182) | 12 March 2020, 16:52:26 UTC |
| 565847c | Collin Capano | 12 March 2020, 14:04:24 UTC | optionally import epsie file (#3179) | 12 March 2020, 14:04:24 UTC |
| 35fdd7f | Koustav Chandra | 12 March 2020, 13:46:15 UTC | pycbc_page_injtable_multi_ifo to create a table of missed/found (#3105) * pycbc_page_injtable_multi_ifo to create a table of missed/found injecttion * Made it compatible with multi-detector * Merged it to pycbc_page_injtable * Update pycbc_page_injtable Added few comment * Fixed the Injection time problem * Fixed 3detectors table * changed n/a to N/A * Added python exectuable lines * Removed White Space and Resolved few other issues * pycbc_page_injtable_multi_ifo to create a table of missed/found injecttion * Made it compatible with multi-detector * Merged it to pycbc_page_injtable * Fixed the Injection time problem * Update pycbc_page_injtable Added few comment * Fixed 3detectors table * changed n/a to N/A * Added python exectuable lines * Removed White Space and Resolved few other issues * Only use ifos from file for effective distance * fix fap issue * simplify naming * typo * allow sorting on columns which do not include nan - add in nans to SNR, chis and newsnr columns. Change order so ranking stat and IFAR are before tdiffs Co-authored-by: Gareth Davies <gareth.davies@ligo.org> Co-authored-by: Gareth S Davies <gareth.davies@usc.es> | 12 March 2020, 13:46:15 UTC |
| 711b239 | Collin Capano | 09 March 2020, 15:28:28 UTC | don't have a separate section for posterior parameters (#3175) | 09 March 2020, 15:28:28 UTC |
| 816e7d4 | Tito Dal Canton | 09 March 2020, 09:52:29 UTC | Fix pycbc_banksim for Python 3 (#3177) * Fix pycbc_banksim for Python 3 * Remove unused imports | 09 March 2020, 09:52:29 UTC |
| 488552b | Alex Nitz | 04 March 2020, 17:55:48 UTC | population run keywords into dynesty (#3170) * population run keywords into dynesty * cc + docs * fix typo | 04 March 2020, 17:55:48 UTC |
| 274df06 | Alex Nitz | 04 March 2020, 17:55:33 UTC | Update release instructions to include pycbc-config items (#3172) | 04 March 2020, 17:55:33 UTC |
| e0bb66c | Alex Nitz | 04 March 2020, 17:55:17 UTC | Set back to development (#3173) | 04 March 2020, 17:55:17 UTC |
| e8bba30 | Tito Dal Canton | 04 March 2020, 16:32:48 UTC | Prepare for release (#3171) | 04 March 2020, 16:32:48 UTC |
| a87fee6 | Yifan Wang | 03 March 2020, 16:18:52 UTC | make the ValueError message more accurate (#3169) | 03 March 2020, 16:18:52 UTC |
| 867c5c5 | Alex Nitz | 28 February 2020, 20:15:10 UTC | add sampler platter to docs (#3167) * add sampler examples * add samplers to test suite * add samplers example to docs * fix * fix | 28 February 2020, 20:15:10 UTC |
| 26a8454 | Alex Nitz | 28 February 2020, 19:59:13 UTC | install companion for travis (#3166) | 28 February 2020, 19:59:13 UTC |
| 9923ec8 | Alex Nitz | 27 February 2020, 15:16:19 UTC | add very basic support for ultranest sampler (#3139) * recommit * pass sampler options * cc fixes * remove redundancies * remove redundancies * update * cc * update * fixes * cc * fix * Update ultranest.py * simp * update companion | 27 February 2020, 15:16:19 UTC |
| 3db889d | Alex Nitz | 26 February 2020, 17:31:02 UTC | don't hard require epsie (#3164) | 26 February 2020, 17:31:02 UTC |
| 4efc1bf | Collin Capano | 26 February 2020, 10:18:35 UTC | Add epsie (#3163) * first commit of epsie ptsampler support * add support for epsie jump proposals * load jump proposals from config * add betas_from_config method to BaseMultiTemperedMCMC * use the betas_from_config function in emcee_pt; improve the doc strs for emcee_pt * add more required functions and properties to epsie sampler * add reading/writing state * rename epsie_pt -> epsie * add epsie io class * register epsie sampler and io classes * fix rename * various bug fixes * move self validation to a method of base sampler file * use hickle dump in epsie files for checkpointing * fix randomgen requirements * update from config for new resume from checkpoint api * fix typo in getting temps for emcee_pt * pase filename to epsie checkpoint; fix bug in storing temp data * pass file handler to epsie checkpoint * update randomgen requirements * update the requirements * use machinery for thinning on the fly to store temperature metadata and acceptance ratios * fix issues caught by code climate * fix bug in creating boundaries for adaptive normal proposal * add abs function to boundaries * only call logl function if prior isn't zero * save sampler's seed to file's attrs * use global model call * rename jump_proposals jump | 26 February 2020, 10:18:35 UTC |
| 3308fd9 | Collin Capano | 25 February 2020, 09:18:41 UTC | Fix Issue #3160, which was caught by @yanyuechuixue (#3162) * fix setup_output calls * fix multinest setup output doc string | 25 February 2020, 09:18:41 UTC |
| 8161365 | Francesco Pannarale | 21 February 2020, 13:13:31 UTC | Grb uberbank (#3061) * Updating em_progenitors.py with recent remnant mass formula * Cleaning up comments and unused code in em_progenitors.py * Optimising PG_ISSO_eq function * First stab at updating coord_utils.py on the basis of changes in em_progenitorys.py * Modifying pycbc_make_sbank_workflow and pycbc_geom_aligned_bank to ask for and handle a transformation-catalog-filename (see workflow/core.py FIXME note on this) * Vectorizing the function remnant_mass --> remnant_masses * Better comments to get_random_mass when processing em_bright/dark proposals * Sanity check on nsbh boundary mass with respect to maximum EOS mass * Removed unused functions * Deleted unused variable "shift" * Reviewing NSBH remnant mass tools before merging * Introducing transformation catalog files for uberbank workflow * Allowing pycbc_make_uberbank_workflow to handle both the standard uberbank and PyGRB uberbank * Improved help Co-authored-by: jsantoro392 <48946331+jsantoro392@users.noreply.github.com> | 21 February 2020, 13:13:31 UTC |
| 932e699 | Duncan Macleod | 20 February 2020, 14:24:49 UTC | Use gwdatafind instead of glue.datafind (#3051) * use gwdatafind instead of glue.datafind fixes #2916 * handle return types from gwdatafind queries | 20 February 2020, 14:24:49 UTC |
| 260611f | Tito Dal Canton | 20 February 2020, 13:56:32 UTC | Fix reported times for single-detector triggers (#3156) | 20 February 2020, 13:56:32 UTC |
| e2543cd | Collin Capano | 19 February 2020, 23:56:51 UTC | Option to map injection parameters to inference samples (#3152) * add option to map injection parameters to sample parameters * add option to plot_pp * add option to pp_table_summary * add option to plot_inj_recovery | 19 February 2020, 23:56:51 UTC |
| 575c374 | Alex Nitz | 19 February 2020, 23:56:10 UTC | update brute force bank (#3157) * use kde * faster tau0 * bbank * add max q argument * update * ad fixed args * tau0 crawl * fixes | 19 February 2020, 23:56:10 UTC |
| 8241e84 | Collin Capano | 19 February 2020, 22:59:55 UTC | Percentile-percentile plot upgrades (#3148) * rename inj_intervals plot_pp, update the default injections directory, and make ks test optional * use seaborn-colorblind as default color cycle * use mpl style instead; adjust legend columns based on number of parameters * inj_intervals should've been removed with the first commit... | 19 February 2020, 22:59:55 UTC |
| fec5238 | Alex Nitz | 19 February 2020, 14:35:23 UTC | try travis fix (#3158) | 19 February 2020, 14:35:23 UTC |
| 3b2e4af | Duncan Macleod | 17 February 2020, 16:22:02 UTC | remove usetex from remaining plotting scripts (#3052) | 17 February 2020, 16:22:01 UTC |
| 266a811 | Collin Capano | 15 February 2020, 13:09:55 UTC | Add wildcard to parameters option (#3154) * add a greedy option to extract samples (doesn't do anything yet) * put option in results parser * fix labels * use wildcard instead of separate option * whitespace | 15 February 2020, 13:09:55 UTC |
| 858e383 | Collin Capano | 14 February 2020, 20:38:42 UTC | Add functions to set matplotlib style (#3146) * add functions to specify and set mpl-style * allow style settings to be set in plot posterior * whitespace * add mpl-style to plot movie; also fix aspect ratio * add mpl style to plot_psd_file * use bbox_inches=tight in plot_psd * use bbox inches = tight in plot_posterior * fix whitespace, forgot to set default | 14 February 2020, 20:38:42 UTC |
| 39b955d | Sumit Kumar | 14 February 2020, 20:38:18 UTC | Setting initial conditions from checkpoint files (#2948) * Moving 'setting initial conditions' from pycbc_inference to set_initial_conditions function * Minor bugs fixed * clean up * Some more cleaning up * Fixing a spacing issue raised by code climate * Made changes for setting initial conditions from checkpoint file in various samplers * Fixing codeclimate issues * Revert new_checkpoint option to sampler class * Clean up * more cleanup * Removed output_file option from resume_from_config and fixed other related issues * Simplified some commands * Clean up * Removed unnecessary lines in multinest and added resume_from_checkpoint * Addressing codeclimate issues * Cleaning up * Removed resume_for_checkpoint call from multinest class * Fixed a typo | 14 February 2020, 20:38:18 UTC |
| 18b54f8 | Collin Capano | 14 February 2020, 18:53:49 UTC | keep other groups when extracting posterior from multiple files (#3151) | 14 February 2020, 18:53:49 UTC |
| 3ff5ddc | Collin Capano | 14 February 2020, 18:53:11 UTC | Executable to create summary of PP test (#3150) * add pp_summary_table * fix import, other errors * add number of injections used * only do p-value of p-values if more than one parameter given * rename to be consistent with other programs | 14 February 2020, 18:53:11 UTC |
| 6933f54 | Gareth S Davies | 14 February 2020, 14:20:02 UTC | Separate the ordered ifo list from the number of detectors in tags (#3147) | 14 February 2020, 14:20:02 UTC |
| 0ab53f4 | Alex Nitz | 14 February 2020, 13:59:44 UTC | Update docker_build_dist.sh (#3153) * Update docker_build_dist.sh * Update docker_build_dist.sh | 14 February 2020, 13:59:44 UTC |
| 3fc1c73 | veronica-villa | 13 February 2020, 17:31:51 UTC | Extend source classification to all kinds of GraceDB uploads (#3149) * Add source classification for the rest of GraceDB uploads * Add hdf5 to dict functions * Small corrections * Simplify save_hdf5_to_dict functions * Fixing codeclimate issues * Fixing codeclimate issues * Remove access to protected members | 13 February 2020, 17:31:51 UTC |
| 73f8e4f | Gareth S Davies | 12 February 2020, 17:01:57 UTC | numpy hstack FutureWarning fix (#3145) Numpy hstack is giving a FutureWarning that generators will not be allowed as input - this changes the input to hstack from a generator to a list | 12 February 2020, 17:01:57 UTC |
| 5e2679d | Collin Capano | 12 February 2020, 13:23:11 UTC | Restore condor checkpointing in inference (#3144) * use class in jobsetup to setup inference job * add import * fix hanging parenthesis; pep8 * forgot to append samples files to list | 12 February 2020, 13:23:11 UTC |
| d320e93 | Collin Capano | 07 February 2020, 14:09:42 UTC | allow parameters to be read from py2 file in py3 (#3138) | 07 February 2020, 14:09:42 UTC |
| 76cbdd0 | Collin Capano | 07 February 2020, 10:50:54 UTC | Update inference workflow (#3140) * first stab at updating workflow * use config override for setting time for multiple events * remove leftover line * some bug fixes * some bug fixes * don't use parameter names in file names (Fixes Issue #2740); also add seed option * set some defaults for workflow to reduce unecessary user input * use plot groups and explicit summary table parameters in workflow; also save config files using workflow utility * manually save the config files * add pfn information to save_config method * add function to automatically escape commands for pegasus-kickstart * add result label to table summary * use event label in file names * add priors to 1d marginal posterior plots * use different workflows for different events * chdirs for sub workflows * use labels in plot samples headers * don't use local universe for plotting jobs * first stab at adding inference plotting workflow * add extract posterior node; have all posterior plots use parameters from posterior * fix some bugs in the plot workflow * don't use sub-workflows for plots; fix bug with file * don't get parameters for prior from common section * add skymaps and collapsible wells to inference plots workflow * use different section for posterior summary plots * remove unused comments in plots workflow * read print metadata from table summary section * update make workflow for changes to summary page * fix label bugs * move plotting and posterior file generation to functions * minor pep-8 * update plots workflow; have it read events from the config file * fix typos * fix typo in plots workflow * add skip_opts argument to WorkflowConfigParser.section_to_cli * update make_inference_workflow; have it read events from the workflow config file * fix typos * fix labels in plots workflow * add tags option to make diagnostic plots * pass tags to the diagnostic plots * remove unused variable; pep8 * remove unused functions and reduce redundancy in inference_followups * rename inference_rate inference_acceptance_rate * rename default executable sections to more closely match the program names * fix undefined variable * rename inference_skymap section plot_skymap * minor doc fix * make sure to add node to workflow after all options have been added * typo | 07 February 2020, 10:50:54 UTC |
| 392ecc5 | Collin Capano | 07 February 2020, 10:01:50 UTC | Don't automatically copy config files (#3136) * don't make local copies of config files * account for logic testing whether file exists * make default copy_to_cwd in resovle_url be true; false in WorkflowConfigParser | 07 February 2020, 10:01:50 UTC |
| 0477b40 | Collin Capano | 05 February 2020, 18:27:02 UTC | Fix plot movie (#3121) * fix frame numbering in plot movie; allow snr to be use for z-arg * fix frame step, use index instead of samples | 05 February 2020, 18:27:02 UTC |
| 21e023d | Alex Nitz | 05 February 2020, 15:53:07 UTC | make it easier to conver to ndarray from pycbc array: speeds up a bunch of things! (#3129) * make it easier to conver to ndarray from pycbc array * Update array.py | 05 February 2020, 15:53:07 UTC |
| fa04654 | Collin Capano | 05 February 2020, 12:29:24 UTC | sort attr arrays before comparing them in extract_samples (#3137) | 05 February 2020, 12:29:24 UTC |
| 7ec1641 | Collin Capano | 05 February 2020, 10:43:30 UTC | Allow FromFile distribution to use posterior files (#3126) * add ability to set data group in fromfile distribution * fix in arbitrary distribution for python 3 * fix docs | 05 February 2020, 10:43:30 UTC |
| 724299b | Collin Capano | 05 February 2020, 09:59:18 UTC | Correct jacobian for emcee pt (#3135) * correct jacobian on disk before exiting * don't try to use pool for correcting logjacobian * whitespace | 05 February 2020, 09:59:18 UTC |
| 50d4a7a | Alex Nitz | 04 February 2020, 12:54:24 UTC | switch to multidetoptions for low / high frequency cutoff model options (#3131) * switch to multidetoptions for low / high frequency cutoff model options * fixes * more fixes * cc * update * update docs | 04 February 2020, 12:54:24 UTC |
| 2dd3294 | Connor McIsaac | 04 February 2020, 11:21:44 UTC | Add utility scripts to stage out a failed workflow and copy the output map (#3134) * Add utility script to copy any lines fom output map if the file exists and has a non-zero size added options and help add utility script to stage out files in a failed workflow added verbosity fixed user input fixed user input * ignore subdax files * added inspiral and merged triggers options. Also improved time. | 04 February 2020, 11:21:44 UTC |
| b6be96a | Alex Nitz | 03 February 2020, 19:41:13 UTC | allow scripts to be run before main documentation build (#3130) * remove vistigle renaming of sphinx conf file * allow to run scripts before docs * forgot to commit this | 03 February 2020, 19:41:13 UTC |
| 011fec9 | veronica-villa | 03 February 2020, 16:28:14 UTC | Add calculation of source type probabilities to PyCBC Live (#3077) * Introduce source probability calculation * Mass gap probabilities improved * Change save function to add probs file * Change in z_delta and mchirp_delta * Add argument for mchirp_delta coefficient * Add mchirp bbh condition * Change save function * Add CBC probabilities to upload method * Small corrections to mchirp_area.py * Add logging messages * Fix small errors * Fix small syntax error * Fix codeclimate issues * Fix codeclimate issues * Fix codeclimate issues * Fix Travis issue * Changes in pie plot code * Remove unnecessary serialization to JSON file * Move distance and redshift estimations to mchirp_area module * Fix small errors * Fix codeclimate issue * Add color codes for the different CBC sources * Change option names and help strings * Assign colors to CBC sources and tag JSON file and plot as EM followup * Fix codeclimate issues * Change mc_area_args to be an attribute of LiveEventManager | 03 February 2020, 16:28:14 UTC |
| c2701f7 | Collin Capano | 03 February 2020, 10:13:42 UTC | Apply remapped params to prior in plot posterior (#3124) * apply remapped params to prior in plot posterior * correctly handle missing parameter in python 3 | 03 February 2020, 10:13:42 UTC |
| bc5f42e | Alex Nitz | 31 January 2020, 21:59:56 UTC | add single template example to docs and pycbc test suite (#3128) * add single template model example * add single template docs / test case * file to download gwfs * update * increase sample rate * update * Update single.rst * update test | 31 January 2020, 21:59:56 UTC |
| 0605b6d | Alex Nitz | 31 January 2020, 16:24:06 UTC | move inference examples to sub-pages, fix crosslinks (#3127) * move inference examples to sub-pages, fix crosslinks * Update analytic.rst * comments * more fixes * fix | 31 January 2020, 16:24:06 UTC |
| b60da26 | Duncan Macleod | 31 January 2020, 13:51:15 UTC | pycbc_submit_dax: allow user to pass extra arguments to start/stop/status/debug (#3125) | 31 January 2020, 13:51:15 UTC |
| 493379f | Collin Capano | 31 January 2020, 11:58:37 UTC | Delay applying waveform transforms (#3123) * delay applying waveform transforms to when the likelihood is actually called * fix doc string * code climate | 31 January 2020, 11:58:37 UTC |
| 9a5080b | Collin Capano | 31 January 2020, 10:33:00 UTC | Fix effective number of samples estimate (#3122) * fix bug in estimate of effective number of samples * add catch for thin interval < 1; correctly determine the interval if the thin factor is smaller * have file's thin function accept thin interval rather than multiple of previous * fix printing act for python 3 | 31 January 2020, 10:33:00 UTC |
| 1d9de95 | Collin Capano | 30 January 2020, 21:13:40 UTC | Allow extract samples to combine files; improve py3 support (#3119) * add ability to extract samples to combine files * temporarily add analyzed ifos to extract samples * kludges to get hdf to be compliant with python3 * python 3 fix attrs comparison in extract samples * remove unused block from extract samples * remove unused block from base_hdf; add doc for format_attr * remove saving analyzed detectors (this is done by the model) | 30 January 2020, 21:13:40 UTC |
| c1bbd7e | Tito Dal Canton | 30 January 2020, 16:29:21 UTC | PyCBC Live: add more info to GraceDB log (#3098) * Add more info to GraceDB log * That FIXME will probably be there for some time anyway... * Fix error * Fix more errors * Fix another error * Fix another error * Prevent GraceDb import from making tests fail | 30 January 2020, 16:29:21 UTC |
| 3475109 | Collin Capano | 30 January 2020, 15:47:12 UTC | Remove automatic transforms when loading results (#3116) * remove automatic transforms from results from cli * remove automatic transforms from plot_samples * remove automatic transforms from plot prior * remove automatic transforms from inj_recovery * remove unused import * remove automatic transforms from plot_movie * fix typo | 30 January 2020, 15:47:12 UTC |
| 9780a02 | Fergus-Hayes | 30 January 2020, 12:04:17 UTC | Added pycbc_make_skymap (#3097) * Added pycbc_make_skymap * Making bin/pycbc_make_skymap a test exception due to gracedb package * Trigger time help message now requests a float not dictionary of values | 30 January 2020, 12:04:17 UTC |
| 2b262f4 | Collin Capano | 30 January 2020, 08:38:36 UTC | Add wrappers to create skymap (#3115) * add executable to create fits files * don't fail if can't remove obj file * add wrapper around ligo-skymap-plot * add options for specifying ra, dec, distance, tc parameters * add docs to plot sky * rename plot_sky plot_skymap | 30 January 2020, 08:38:36 UTC |
| fcbd74d | Ian Harry | 29 January 2020, 18:05:16 UTC | Set back to development. (#3114) | 29 January 2020, 18:05:16 UTC |
| c3949fb | Ian Harry | 29 January 2020, 16:36:01 UTC | Prep. for release (#3113) | 29 January 2020, 16:36:01 UTC |
