swh:1:snp:3a699297f000109a1bc833f294a54171df990207

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Revision Author Date Message Commit Date
b1f3751 Add ACL-based burn in and fix ks test burn in (#2112) * fix ks test; add n_acl burn in * use keyword argument for KS threshold 05 April 2018, 12:53:05 UTC
06e8a55 Add fd2td waveform functions (#2115) * add fd2td functions * rename * whitespace 05 April 2018, 11:10:48 UTC
0083549 Remove static build (#2117) 05 April 2018, 08:43:16 UTC
926286e Set back to development 26 March 2018, 20:02:36 UTC
2557bb5 Set for 1.9.4 release 26 March 2018, 19:57:02 UTC
61d9c3f Fix Debian4 Einstein@Home/OSG build (#2093) * E@H Debian 4: install libbz2-dev before compiling Pythom (or else the module 'bz' will not be available) * E@H build: prefer curl over wget for determining the blessed lalsuite version 21 March 2018, 15:59:28 UTC
c275fa6 add doc on runny jupyter within docker (#2097) 20 March 2018, 21:51:19 UTC
022da40 Adds wrapper script for pycbc_inference (#2109) * adds wrapper script for pycbc_inference * add run_pycbc_inference to setup.py 16 March 2018, 11:19:30 UTC
13fbc64 add marginalized phase likelihood (#2090) 15 March 2018, 15:37:07 UTC
e2805d6 Fixed bug in import version info to __init__ (#2107) * pycbc.__init__: use relative import fixes #2106 * pycbc.__init__: provide __version__ allows access to version information through standard name 15 March 2018, 12:59:32 UTC
524423b pycbc.__init__: don't print mkl importerror (#2108) its empty 15 March 2018, 12:58:21 UTC
bf127e3 provide strain high pass option for gaussian noise (#2104) 14 March 2018, 09:27:28 UTC
9df42b6 don't explicitly require lal gpstime python module (#2062) 13 March 2018, 23:11:27 UTC
e05e368 use None for required args default (#2102) 12 March 2018, 20:38:44 UTC
4d8bedb fix label (#2103) 12 March 2018, 20:28:26 UTC
bb6bdc1 Plot injection values in plot posterior (#2101) * add function to get injection parameters from result files * add ability to use injections for the expected parameters * fix bugs * remove common offset from expected parameters * use new function in option utils * add option to plot movie * improve docs for function 12 March 2018, 18:26:00 UTC
43fd991 Check for burn in when counting number of independent samples (#2099) * check for burn in when counting number of independent samples * remove check for burn in, since this is now done in the sampler 10 March 2018, 09:47:15 UTC
14f60de Add new fitting executable (#2048) * add multi param average fitting * add more fitting options * allow alternate t/f versions * update fixes * fix typo 09 March 2018, 22:46:26 UTC
a55df0b Give option to save backup (#2100) * don't delete backup file unless requested * make the default operation be to delete 09 March 2018, 20:48:03 UTC
c61b241 Add the new keep-history keyword https://docs.travis-ci.com/user/deployment/pages/ 09 March 2018, 18:34:51 UTC
ae35ea8 Updates to plot_inj_interval (#2096) * cast to fieldarray so can use the same parameter args for both injections and samples * use perecentile of score for pp plots; add KS test * set kind to weak * add plot metadata 09 March 2018, 18:00:50 UTC
83f6745 PSD variation code (#2087) * adding first attempt at recording psd variation Values wont propagate through to the end. Trying now to tidy up code * first attempt at pulling out a psd variation value for each trigger to come out of pycbc_inspiral * first end to end testing of psd variation with pycbc inspiral. So far all works * making changes per merge request. Sorted out comment spacing in variation.py and moved this in to psd * sorting out spacing in variation.py * removing unused import in variation and removing trailing whitespace in various locations * adding psd variation options to multi_ifo * moving the psd variation options out of strain and into psd 09 March 2018, 12:18:57 UTC
f6e6e7f FIx edge effect bug (#2098) 09 March 2018, 11:11:24 UTC
bc9a5ee Make conversions module consistent with numpy (#2095) * always return array if an array was given * make ensurearray, formatreturn public * propagate changes to ensurearray to other modules 07 March 2018, 12:34:25 UTC
504a1a3 add bzip2 to explicity build req (#2094) * add bzip2 to explicity build req * debug * test * test 06 March 2018, 20:15:33 UTC
c99069b add gwpy to install within cvmfs / docker (#2092) * add gwpy to install within cvmfs / docker * astropy required * update 06 March 2018, 15:54:01 UTC
a132f2b Add functions to find intersection of time series (#2081) * add function to add common part of time series * split into a second common function * update * codacy complaints 06 March 2018, 09:13:17 UTC
6463293 add slack notifications to travis 05 March 2018, 16:57:27 UTC
0631358 Astro results using PyCBC (#2009) * Added Astro * Changed project Name * Moved pycbc_astro to bin * moved pycbc_astro to the new nolder population with new name pycbc_population_rates * Added init * moved folder population inside bib * added population to setup.py * Updated the two python files * updated executable file * Addressed Ian's Ales's first set of comments * Made suggested corrections. Included Calibration errors. Made astro parameter input by user. * Fixed Codacy, removed pystan with my version * removed seaborn. shortened long lines * more codacy fixes * fixed Collins suggestions * all inputs from files now and not folders * Injection strategy now provided by the user. Much simplified now. * Codacy fixes * fixed comments * removed useless function, fixed Ian-s suggestion * Fixed Toms suggestion and other codacy stuff * made changes to init file as suggested by Ian 27 February 2018, 11:16:21 UTC
95bc9cc Need to round non-integer frame times up (#2088) 26 February 2018, 12:37:01 UTC
97c8167 PSD variation code (#2079) * adding first attempt at recording psd variation Values wont propagate through to the end. Trying now to tidy up code * first attempt at pulling out a psd variation value for each trigger to come out of pycbc_inspiral * first end to end testing of psd variation with pycbc inspiral. So far all works * making changes per merge request. Sorted out comment spacing in variation.py and moved this in to psd * sorting out spacing in variation.py * removing unused import in variation and removing trailing whitespace in various locations 23 February 2018, 17:19:24 UTC
e3f4927 set back to dev (#2084) 23 February 2018, 11:53:42 UTC
76e0492 Set version for 1.9.2 release (#2083) 23 February 2018, 09:30:48 UTC
d76240c Updated psd.estimate.welch to allow window as ndarray (#2080) * psd.estimate: allow window as ndarray with sanity check that its the correct size * psd.estimate.welch: updated function docstring to include `numpy.ndarray` as a type for `window` 21 February 2018, 16:46:58 UTC
2118175 Use waveform_transforms in pycbc_create_injections (#2069) * Use waveform transforms and save those params * Remove replace_parameters and make waveforms_transforms use static args too as inputs * fix_typo 21 February 2018, 12:18:23 UTC
63f629f Resume from checkpoint file (#2055) * allow resumming from checkpoint or backup files * fix issues using checkpoint with kombine * fix codacy issues * fix mcmc * fix whitespace * update command line, save points when resumed from checkpoint * allow for backward compatibility * fix whitespace * only return checkpoint_valid; write command line to backup file 21 February 2018, 11:17:20 UTC
e71541d Allow CustomTransform to work with arrays (#2077) * allow CustomTransform to work with arrays * fix typo 15 February 2018, 07:31:50 UTC
c0288c9 Fix checking for required args in waveform (#2074) * add f_lower to list of required parameters * check for required args in props 14 February 2018, 13:48:09 UTC
8fc8cba Fix Travis build failure (#2073) 12 February 2018, 16:36:08 UTC
87a3268 fix trivial bugs in page sensitivity (#2070) 09 February 2018, 21:45:50 UTC
46505dd Fixes to the running on osg part of the documentation (#2071) 09 February 2018, 19:43:33 UTC
68dac95 Add ringdown conversions from mass-spin to freq-tau (#2068) 09 February 2018, 15:05:10 UTC
54bab62 page_sensitivity: reworking of data handling to take multiple inj files (#2066) * page_sensitivity: reworking of data handling to take multiple inj files * fixes to page_sensitivity 09 February 2018, 14:53:38 UTC
7593240 Set back to development (#2067) * Set back to development * Wrong 08 February 2018, 12:30:56 UTC
3d0b85a Prepare for release (#2065) * Prepare for release * Change number 08 February 2018, 09:06:18 UTC
26c91e1 record runtime of inspiral jobs (#2064) 07 February 2018, 15:40:30 UTC
bfc9750 use pycbc.org urls (#2061) 07 February 2018, 14:44:43 UTC
e931a77 Remove now unused import (#2063) 07 February 2018, 13:05:03 UTC
c31adfe don't require lalinspiral or lalmetaio in versioning (#2060) 07 February 2018, 11:04:49 UTC
f2ebd4b fix bug in getsubitem (#2057) 05 February 2018, 13:54:33 UTC
3917848 Move the parsed configuration files (#2056) 01 February 2018, 14:27:19 UTC
9f1c378 Distinguish between dQuadMon = 0 and dQuadMon not given. (#2050) * Make default param value None not 0 for laldict * Distinguishing between needed, and not, parameters * Include nulls * FIx previous * Use all parameters * This rabbit hole is deep * FIx whitespace * Collin's suggestions Conflicts: pycbc/waveform/parameters.py * Missed this * And this 31 January 2018, 10:52:29 UTC
0685fa2 remove astropy from setup.py requirements (#2053) 30 January 2018, 16:42:54 UTC
627ddf3 Assorted landscape commits (#2052) 30 January 2018, 07:50:43 UTC
2089a56 results.color: import colour scheme from gwpy (#2047) matches recent publications, and the summary pages 29 January 2018, 20:18:11 UTC
cca7f4d Segments need coalescing (#2051) 29 January 2018, 04:56:25 UTC
fe27e00 Several changes to FFT infrastructure (#2049) * Set a default library backend for each scheme * Remove caching for MKL/FFTW 'plans' in function API * Remove all 'wisdom' related functions from fftw.from_cli * Move parsing of FFT options in pycbc_inspiral * Relocate call to fft.from_cli in pycbc_live 24 January 2018, 21:31:06 UTC
fee2850 Add injection workflow (#1994) * Add workflow example. * Move executable. * Add more plotting codes. * Optional CBC nodes. * Allow simulated data and CBC injection. * Use GPS time from ini file. * Remove pycbc.workflow import and remove duplicate functions. * Remove unused imports and reorganize imports. * Change imports some more. * Try to make options easier to read in executable. * Change default workflow name. * Add comments. * Move functions and codeblocks to workflow modules. * Fix syntax. * Add --version. * Add more plots. * Avoid scatter point if can't plot scatter plot. * Change to one-liner. * Switch to groups instead of all 1-d plots. * Reorganize pages. * Shorten code. * Remove some imports. * Change HTML layout. * Whitespace. * Use only unique parameters in table. * Remove extra char. * Use ifo_list. * Add docstrings. * Use dict for channel names. * Debug. * Add exe to setup. * Add a docs page. * Fix formatting. * Add tags to files. * Fix y-axis. * Typecast to float. * Add link for documentation. * Changes to workflow doc. * Assign fake_strain_seed if not simulated_data. * More verbose docstring. * More verbose docstring. * More verbose docstring. * More verbose docstring. * More verbose docstring. 24 January 2018, 16:25:59 UTC
215e88a add times for O1 data (#2046) 24 January 2018, 15:55:03 UTC
9fe9ad9 Make acceptance function plotting code work for all current samplers (#2045) * Define acceptance_fraction as an array of fraction of steps accepted by walker * Make acceptance fraction for kombine similar to that for emcee * Do not have to override read and write acceptance fraction for emcee now * Provide walkers and or temps to acceptance fraction. Make histogram plot * ws 23 January 2018, 15:09:05 UTC
22e0827 Simplify lalapps build instructions and improve doc formatting (#2043) * Simplify lalapps build instructions and improve doc formatting * remove Atlas library note * Update lalsuite-extra location in install.rst 18 January 2018, 14:48:26 UTC
2a75c93 fix trigger time recording in single_template, also whitespace (alas) (#2044) * fix trigger time recording in single_template, also whitespace (alas) * remove stupid test 18 January 2018, 14:35:03 UTC
2d8013c Add omega scans to workflow (#2040) * Add new qscan executable * Adding code into minifollowups * Fixes for minifollowups * Remove unused import * Bug fix * Address comments from Tom * More updates 16 January 2018, 15:36:36 UTC
6f9f5f5 Fixing style issues in PyCBC (#2041) * Fix tabs in plot_Nth_loudes_coinc_omicron * Fix issues in executable * Fix bad indentation in events.py * Fix indentation problem in single.py * Visual indent issue in trigger_fits.py * FIx indentation problems in fftw.py * Indentation issues in prior.py * Fix indentation issue in inference_hdf.py * Fix visual indentation in record.py * Fix too long line in libutils.py * Fix bad indent in pnutils.py * not x in a -> x not in a in estimate.py * Fix too-long-line in dq.py * Fixing not a in b -> a not in b in followup.py * Formatting in legacy_grb.py * Fix a not in b in scatter_histograms.py * FIx indenetation in versioning.py * Indentation issues in strain.py * Fix indentation in calc_moments.py * has_key -> in in calc_moments.py * Fix indentation in lambda_mapping.py * Fix indentation in lattice_utils.py * not X is Y -> X is not Y in option_utils.py * has_key to in in partitioned_bank.py * Fix indentation in array_cuda.py * Has_key -> in in optparse.py * Bad indentation in bank.py * Bad indentation in pycbc_phenomC_tmplt.py * Bad indentation in ringdown.py * Fix long line in spa_tmplt.py * Fix some of the too-long line in SpinTaylorF2.py * Fix issues in waveform/utils.py * Fix issues in waveform.py * Fix issues in workflow/core.py * Fix issues in datafind.py * has_key -> in in minifollowups.py * Indentation in plotting.py * Issues introduced in last few months * More new issues uncovered * This is nasty, but hopefully weave goes soon 15 January 2018, 19:06:40 UTC
066c551 Fix zero-found-injections failures (#2036) * Fix zero-found-injections failures * Comments from Tom 15 January 2018, 10:25:00 UTC
8196d1f Trying to fix Travis issues - part 1 (#2037) 11 January 2018, 19:18:30 UTC
ee89ace Fix inference test failure with numpy 1.14 (#2039) Numpy 1.14 seems to have changed the way recarrays work, requiring __setitem__ to be given a tuple instead of an ndarray. This changes such operation in a couple places in the inference code. 11 January 2018, 18:20:51 UTC
151eb69 Update catalog.rst 29 December 2017, 12:07:01 UTC
27b642d Update README.md 20 December 2017, 23:39:31 UTC
d9ce908 Use in-place sort (#2033) 20 December 2017, 22:41:06 UTC
1d605b0 Set back to development (#2032) 20 December 2017, 20:30:59 UTC
13b15d5 Set for 1.9.0 release (#2031) 20 December 2017, 16:25:46 UTC
6c72769 Add sbank scripts to released virtualenvs (#2028) * Add sbank scripts to released virtualenvs * Needs full make && make install; also, avoid transferring the entire lalsuite history 19 December 2017, 21:03:20 UTC
369870a Check InferenceFile integrity (#2027) * turn on checkpointing in datasets * add check_integrity function * try to please codacy * whitespace 18 December 2017, 18:18:36 UTC
1755721 Avoid trying to do scatter plot if not enough parameters (#2010) * Avoid scatter point if can't plot scatter plot. * Change to one-liner. 18 December 2017, 14:16:16 UTC
7fd6e84 BUGFIX log terms in template bank, and add tidal terms support (#1941) * Template bank add tidal terms * Adding another get_chirp_params function * Fix issues in log terms for metric computation * Remove unused code now * Updating test cases * Remove unused imports * Add new test of metric match vs actual match * Codacy 15 December 2017, 13:55:44 UTC
8fbdcca Fix error in Travis lalsuite update, update lalsuite for Docker images (#2026) * Fix error in Travis lalsuite update * Also update lalsuite for Docker images * Try to patch the psycopg2 bug * Investigate why pg_config is still around * DIE PG_CONFIG!!! * Missing sudo 15 December 2017, 08:57:49 UTC
ca3872a Typo fix (#2025) 14 December 2017, 18:57:27 UTC
d02bdd9 remove phenomb_chi (#2023) * update triggers.py to use conversions module * remove references to phenomb_chi 14 December 2017, 10:43:59 UTC
5c942f7 Update lalsuite to enable merging #1941 (#2024) 14 December 2017, 10:36:38 UTC
4e8b65f Randomize optimal_SNR (#2022) * Randomize optimal_SNR * Use numpy's random 13 December 2017, 16:16:07 UTC
157d086 remove optimal snr kludge (#2018) 13 December 2017, 14:27:29 UTC
7c51d8c Fix label warning in Sphinx (#2021) * Fix label warning in Sphinx * Remove legend 13 December 2017, 11:22:37 UTC
c5ff007 fix some bugs in mcmc (#2019) 13 December 2017, 10:18:49 UTC
00fb627 Option to specify url type in frame_paths (#2016) * Added urltype option to frame.frame_paths * Fixes urltype default 12 December 2017, 15:09:36 UTC
bcee1a5 Mcmc sampler (#1960) * initial set-up * first working version * Bug fixes * Added normed=True to histogram plotting * removed unnecessary verbose argument * Updated simple MCMC sampler to inherit BaseMCMCSampler, with nwalkers set to 1 * removed "from pycbc.io import FieldArray" 12 December 2017, 13:10:45 UTC
effc83d Move PriorEvaluator and rename to JointDistribution (#2005) * move priorevaluator to distributions * rename to Joint Distribution * ws * remove import * forgotten import * move joint distribution to its own module * update help * add missing imports * remove some unused imports * simplify import test for jointdistribution 11 December 2017, 18:12:59 UTC
00877eb Add metadata to posterior plot. (#2013) 11 December 2017, 18:06:23 UTC
c841421 Call from class. (#2011) 11 December 2017, 16:51:56 UTC
9e057e1 rescale test_volcano likelihood evaluator (#2012) * rescale volcano center * update test_volcano documentation 11 December 2017, 13:38:23 UTC
5197e31 Bug-fix for pycbc_page_foreground (#2014) Not sure how this happened or didn't get picked up in automated tests, but `pycbc_page_foreground` is not currently a python executable. 11 December 2017, 07:17:34 UTC
c4e3849 Fix error in Travis test script (#2008) 06 December 2017, 18:06:16 UTC
9003d00 Fix import error in setup.py under Python 3 (#2007) `trace.fullmodname` was undocumented in Python 2 and actually became an internal function in Python 3. We should not depend on it. 04 December 2017, 17:54:04 UTC
5009f90 Add analytic distribution to travis test suite (#2006) * add inference test * test * update 02 December 2017, 18:57:44 UTC
a3f0363 remove pycbc-glue develop doc (#2004) 01 December 2017, 19:30:23 UTC
83f9bef make the pycbc inference docs a bit more heirarchical (#2003) * show more of the inference items in the top-level page * update to be more heirarchical 01 December 2017, 09:47:58 UTC
b1a9efa Do not raise an error if an unrecognized parameter is passed to the CBC generator (#2001) * warn user about unused parameters instead of raising error * edit message 30 November 2017, 21:09:33 UTC
056ffdf Fix the psd start/end times in the inference docs (#2000) @micamu just pointed out to me that the PSD start/end times in the inference docs are using a larger time than expected. The PSD start time should be the trigger time +/- the desired PSD data length (1024s) / 2. The way the script sets it up now, however, it uses the gps start/end time -/+ the data length / 2, giving a total data length of 1024s + 16s. This isn't terrible, it just results in using slightly more time than what you might expect. Still, better to fix to be obvious. 29 November 2017, 15:48:44 UTC
a0aca18 Update inference docs (#1998) * switch to using n-independent-samples, burn in function * add documentation about sampling and waveform transforms * add documentation about the analytic distributions * add more about likelihood evaluators * added n_samples env variable * fix typos * fix typo 29 November 2017, 13:47:05 UTC
42e5148 Add some basic documentation on using the merger catalog interface (#1992) * update install directions * add catalog examples * add catalog.rst 22 November 2017, 22:53:45 UTC
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