swh:1:snp:3a699297f000109a1bc833f294a54171df990207

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Revision Author Date Message Commit Date
fd1f21e E@H build: update scipy to 0.19.0 06 April 2017, 18:18:37 UTC
f376eb4 E@H OSX build: prepare for scipy.weave -> weave transition 06 April 2017, 18:18:37 UTC
2bab8b7 Use our weave from PyPi 06 April 2017, 17:32:51 UTC
9bb7a87 Apparently dependency_links is deprecated 06 April 2017, 17:32:51 UTC
8949129 Fix weave URL for release 06 April 2017, 17:32:51 UTC
f8103ba Weave's setup.py is set to 0.16.0-dev 06 April 2017, 17:32:51 UTC
a985a6a Require a weave that has the lib.six patch 06 April 2017, 17:32:51 UTC
82a3f00 rename scipy.weave hook 06 April 2017, 17:32:51 UTC
487b77f Update spa_tmplt_cpu.py 06 April 2017, 17:32:51 UTC
7f45649 Update threshold_cpu.py 06 April 2017, 17:32:51 UTC
26b99bd more fixes 06 April 2017, 17:32:51 UTC
fec9a6f use weave 06 April 2017, 17:32:51 UTC
4ce5266 Use the pycbc.version module (#1564) 06 April 2017, 17:07:10 UTC
5d1b98d Clarification in the inference doc (#1556) * fix typo * update GPS_START_TIME, GPS_END_TIME 05 April 2017, 17:37:29 UTC
4b7623e Add libdb4.8 to requirements per pr/1524 (#1561) 05 April 2017, 17:35:00 UTC
3108ded don't limit the proxy duration (#1560) 05 April 2017, 17:34:49 UTC
c08583e Update lalsuite commit for issue 1558 and force a clean (#1559) * Update lalsuite commit for issue 1558 and force a clean * Remove the clean option 05 April 2017, 16:00:03 UTC
caba2ff E@H build: only 'silence' pycbc_inspiral log outut in --silence-build (#1527) 05 April 2017, 14:50:40 UTC
d4f79fb Add gridftp at Caltech as a third backup (#1557) 05 April 2017, 13:43:43 UTC
7e1a011 Added code to print loudest events to a wiki table (#1554) * Added code to print loudest events to a wiki table * Moved add_wiki_row into script 04 April 2017, 21:42:19 UTC
55120e7 Allow banksim to use HDF input template banks (#1541) * Allow banksim to use HDF input template banks * Remove unused command-line arguments * Revert "Remove unused command-line arguments" This reverts commit 15c38ca7ec6cdf8a3b8639bf7311d8a1db3db1af. * Remove unused command-line argument 04 April 2017, 15:35:40 UTC
3714a6a add import Error from ConfigParser 04 April 2017, 12:54:53 UTC
680bcad delete uniform_angle.py 04 April 2017, 12:54:53 UTC
7a29121 move uniform angle, uniform solid angle into angular; add __all__ to all files 04 April 2017, 12:54:53 UTC
bb90c25 Update function calls. PEP8. 04 April 2017, 12:54:53 UTC
1998766 Add import. 04 April 2017, 12:54:53 UTC
57e4033 Move UniformSolidAngle to sky_location. 04 April 2017, 12:54:53 UTC
a135724 Update import. 04 April 2017, 12:54:53 UTC
a5d9db5 Rename to sky_location module. 04 April 2017, 12:54:53 UTC
54f2033 Move sine and cosine distributions to angular module. 04 April 2017, 12:54:53 UTC
76febb5 Fix import for conversions unit test. 04 April 2017, 12:54:53 UTC
c0b086f Remove one wildcard import. 04 April 2017, 12:54:53 UTC
20e013c Update more docs links. 04 April 2017, 12:54:53 UTC
cdb91d6 Fix local namespace. 04 April 2017, 12:54:53 UTC
5f0ff24 Fix call to bounded function. 04 April 2017, 12:54:53 UTC
e4b8210 Remove import. 04 April 2017, 12:54:53 UTC
b7f070f Update dynamic links on docs page. 04 April 2017, 12:54:53 UTC
19d69e7 Fix boundaries imports. 04 April 2017, 12:54:53 UTC
606170c Move boundaries module. 04 April 2017, 12:54:53 UTC
72031c8 Rename _BoundedDist to BoundedDist. 04 April 2017, 12:54:53 UTC
add1319 Fix import in example. 04 April 2017, 12:54:53 UTC
6757e58 Add module to setup. 04 April 2017, 12:54:53 UTC
00d03fb Fix inference examples imports. 04 April 2017, 12:54:53 UTC
7cda536 Fix imports in distributions examples. 04 April 2017, 12:54:53 UTC
e16bc16 Fix unit test imports. 04 April 2017, 12:54:53 UTC
83b95db Fix import in prior plotting script. 04 April 2017, 12:54:53 UTC
6330ea7 Remove unused imports. 04 April 2017, 12:54:53 UTC
6856eb7 Move distributions to its own subpackage. 04 April 2017, 12:54:53 UTC
a0014ee fix bug in lowpass example (#1550) 04 April 2017, 09:37:23 UTC
4fc212e Allow the bank compression code to read in a variable low frequency cutoff for templates if that is stored in the input bank and compress using that. (#1551) * Allow the bank compression code to read in a variable low frequency cutoff for templates if that is stored in the input bank and compress using that. * Get the low frequency cutoff for getting the sample points directly from FilterBank. 03 April 2017, 16:52:34 UTC
be65a5f Add --frame-files to pycbc_make_inference_workflow (#1552) * Move workflow generator to bin/workflow dir. * Update setup. * Use --frame-files. * Remove unused vars. * Remove unused import. * PEP8. * Remove unused varrs. * Update instructions to prompt for proxy. * Update pegasus profile. * Add --frame-files. * PEP8. * PEP8. * PEP8. * Use frame files from command line. * Use append action. * Add PFN. * ws 03 April 2017, 13:44:28 UTC
851041c Move inference data loading/writing to single functions (#1549) * add data_from_cli, __all__ to option utils * use data_from_cli in pycbc_inference * fix bug * functions for parsing low frequency cutoff * fix bug * remove all as it's not really needed * move writing of data to a single function * fix codacy issues * allow data to be saved to a different group than root * rename write_data_to_output to write_data 03 April 2017, 09:47:26 UTC
96846bd Use pycbc.workflow.datafind in pycbc_make_inference_workflow (#1547) * Move workflow generator to bin/workflow dir. * Update setup. * Use --frame-files. * Remove unused vars. * Remove unused import. * PEP8. * Remove unused varrs. * Update instructions to prompt for proxy. * Update pegasus profile. 31 March 2017, 19:29:23 UTC
8564fcb allow pool to be keyboard interrupted (#1548) * allow pool to be keboard interrupted * allow pool to be keboard interrupted * also disable keyboard interrupt on children * wrap * forgotten import * another attempt * typo * typo * handle shutdown of pool on sigterm * typo * try atexit instaed * typo * update 31 March 2017, 14:47:22 UTC
ec21725 Changes in pycbc_inspiral and bank.py to use compressed waveforms in the search (#1472) * Changes to bank.py * Changes to bank.py to check whether precision used to compress and decompress are the same. * Changes in pycbc_inspiral to turn on compressed waveforms * Removed white spaces * Read the waveform decompression precision from tempout * Moved getting decompressed waveform to a method in FilterBank * Added comments * Removed the condition to check whether the precision of the sample points stored in the compressed bank is the same as the precision of the out file to be used for decompressing the waveform and raise an error otherwise, because that has been taken care of in the decompression code 31 March 2017, 08:04:32 UTC
36b2e7a Add ability to use frequency cutoff function (#1229) * add ability to use a frequency function for f_upper * add freq_func to list of parameters * raise NoWaveformError if f_final <= f_lower instead of returning empty array * fix other places where named_frequency_cutoffs is used * add NoWaveformError to namespace * catch case when the waveform terminates before the filtering low frequency cutoff * move the check for f_final >= f_lower 30 March 2017, 20:08:36 UTC
1027119 one more (#1545) 30 March 2017, 12:14:54 UTC
935566f change name to output_map_path (#1544) 30 March 2017, 10:24:07 UTC
75f04a6 Changes in pycbc_coinc_findtrigs to use compressed waveforms in the search (#1474) * Changes to pycbc_coinc_findtrigs * Changed checking for compressed_waveforms to checking for the parameters attribute in the bank. 29 March 2017, 19:03:43 UTC
3a85ea3 make the requirements.txt a bit more useable (#1531) * make the requirements.txt a bit more useable * add pycbc itself of course 29 March 2017, 14:49:00 UTC
5d86804 Apply precision in compress bank last (#1492) * Changes to compress_bank to pass precision as an argument to compress_waveform in compress.py * Changes to compress.py * Changes to compress.py to save precision as metadata * White spaces * speed up compress alogirthm; fix location of break in inline_linear * fix error in determining what precision to use for output * ensure that only new sample points are added when compressing * give option to save change precision when saving compressed waveforms * do compression in double precision, saving to single at the end * Simplified conditions for write_to_hdf * Revert "Simplified conditions for write_to_hdf" This reverts commit 4411d2fdf3f351066fae89a4027a30c58a880a76. * set default precision * white spaces * fix psd precision to double * fix doc string 28 March 2017, 18:14:43 UTC
35d65a7 fix unused processes, amend documentation (#1536) 28 March 2017, 15:00:59 UTC
13fe5e0 Fix to pycbc_page_segtable (#1540) 28 March 2017, 14:21:20 UTC
1b778aa Fix the end point for compression in compress bank (#1519) * speed up compress alogirthm * fix error in determining what precision to use for output * ensure that only new sample points are added when compressing * fix the cutoff index for compression sample points 27 March 2017, 01:04:52 UTC
d86ea89 updated workflow.save for new arguments (#1538) * updated workflow.save for new arguments * re-add argument for output_map 24 March 2017, 20:12:35 UTC
e92ebca Glue to pycbcglue (#1535) * Move glue to pycbc-glue everywhere * Didn't mean to add these * Add changed pycbc-glue * Travis temporarily needs pycbc-glue 24 March 2017, 19:04:38 UTC
34ae0c3 Make methods in MatchedFilterControl return a TimeSeries for snr and a FrequencySeries for corr instead of arrays. (#1537) * Make functions in MatchedFilterControl return a TimeSeries for snr and a FrequencySeries for corr instead of arrays. * Return empty lists for points not above the threshold, added copy=False when generating timeseries, moved delta_t to init of MatchedFilterControl, edited docs. 24 March 2017, 13:01:00 UTC
9387722 Fix tmpltbank workflows (#1534) * Fix uberbank, output_map is File only once! * More updates 22 March 2017, 16:43:32 UTC
6643e16 E@H build: fix FFTW compilation (#1528) - got broken in #1505 21 March 2017, 20:15:12 UTC
4dcc9ee Fix a bug related to precision in inline_linear and other clean up (#1491) * speed up compress alogirthm * fix error in determining what precision to use for output * ensure that only new sample points are added when compressing * fix bugs when figuring out what points to add 17 March 2017, 13:51:43 UTC
12c7d50 Cumulative SNR - Rate Histogram and Cumulative SNR - IFAR Histogram (#1521) * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Undo stupidity.... * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Undo stupidity.... * Undo stupidity.... * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Undo stupidity.... * Undo stupidity.... * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Undo stupidity.... * Undo stupidity.... * Undo stupidity.... * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Undo stupidity.... * Undo stupidity.... * Undo stupidity.... * Undo stupidity.... * Undo stupidity.... * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Undo stupidity.... * Undo stupidity.... * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Undo stupidity.... * Undo stupidity.... * Undo stupidity.... * Undo stupidity.... * Undo stupidity.... * Undo stupidity.... * Undo stupidity.... * Ensure backwards compatibility with older statmap hdf files or the case that no hierarchical removals were done. Previous code could not do this. * Get rid of pretty num, no longer needed. * Not sure why it put the decimal back in after the 10. Fix it back. 16 March 2017, 23:10:24 UTC
eeab39e Plot expected values in posterior plots (#1530) * add ability to plot expected values * plot expected vaues on marginalized plot * change linewidth * fix bug if expected parameters not given * add expected params to plot movie * fix bug when no expected parameters provided * fix zorder, linewidth of expected lines 16 March 2017, 21:04:29 UTC
b4185c9 add mpi support for emcee and kombine (#1308) * add mpi support for emcee and kombine rearrange so multiple processes don't try to write the same file in pycbc inference coday cleanup add helper functions to make pools pool fixes fixes * Update pycbc_inference * Update pycbc_inference * Update sampler_emcee.py 16 March 2017, 20:35:38 UTC
9aff59f E@H build script: set pipefail (#1523) - hotfix for issue #1522 15 March 2017, 16:32:10 UTC
a5a9075 Stops attempt to iterate NoneType if default value (#1498) 14 March 2017, 16:36:37 UTC
1ff0800 remove warning as error (#1517) 10 March 2017, 15:17:06 UTC
42ee0b9 do not build lalsuite against lalxml (#1490) 10 March 2017, 13:38:50 UTC
13cc30f Turn on documentation testing in Travis (#1516) * move travis environment variables into a single file * add packaged needed to build documentation * build the documentation * Revert "move travis environment variables into a single file" This reverts commit 6b60f7aa760eb59041a7449cf43f674224b65ab9. * get library needed to build fft module docs * fail on warnings * use the gh_pages target * write to a _gh-pages directory * deploy documentation using travis * refer to lalsuite docs for lalapps programs 10 March 2017, 12:15:06 UTC
e42219c hide bogus error message (#1515) 09 March 2017, 17:23:23 UTC
6c1130d Enable fixed prog and send stderr of find to /dev/null (#1513) 09 March 2017, 15:56:50 UTC
d6e18a9 Remove files that should not be cached (#1512) 09 March 2017, 13:26:10 UTC
a0eb592 Simplify the logging in the travis test (#1510) * Simplify the logging * Fix a typo to trigger Travis * Send the output to the log file 09 March 2017, 12:49:16 UTC
b3d4a16 TRAVIS_PULL_REQUEST is string false if not a pull (#1511) 09 March 2017, 12:13:20 UTC
0ac7932 Use correct reference for pulls and checkouts (#1509) * use correct reference for pulls and checkouts * fixed typo in pull 09 March 2017, 12:00:39 UTC
82eb83a Fixed bad import (#1506) 09 March 2017, 11:39:32 UTC
2c4c1fc Switch Travis to use the Einstein@Home build infrastructure. (#1505) * add Ubuntu 12 as a recognized OS * use bernd's script to build * add sqlite3 libraries to travis container environment * temporary patch for testing will revert * use eah build script to build code * changes needed for travis ubuntu container build * fixed typo introduced in rebase * set up build environment using eah script * run eah build on the pending merge commit * add a quiet build option as travis limits stdout/err to 4MB * fix typo in tmp command * fixed build logging for travis limit * use the eah environment for the virtual build * add enough progress output to keep travis happy * add the ability to checkout a pull request * pass the build script the pull reference * only dump 100 lines so as not to overwhelm travis * hardwire commit refs while testing * use the actual merge ref * remove hacks for local testing * use the specified remote to get the refs * check all binaries * tweak verbosity in silent mode for travis * turn on gw150914 analysis in travis * used hdf5 and openssl from apt on travis * travis uses lower case l for linux * set the pip cache before running the build script * print pycbc_inspiral test progress to screen * set environment variables properly * automatically find unit tests * install segment database tools for tests * suppress filtering messages from pycbc_inspiral * fixed syntax error * suppress more filtering output * print logging message on entry * reduce the amount of cached data * make zlib build optional * use zlib and freetype from apt on travis * additional supression of output from pycbc_inspiral * increase cache upload timeout * let stdout/err go to screen * try some more fancy awk filtering on pycbc_inspiral * Revert "let stdout/err go to screen" This reverts commit 2982f7fa069692758fdddf56ced63e9e0809a48b. * fixed syntax errors in test script * more filtering of pycbc_inspiral verboseness * remove lalsim and print pass or fail * filter out more generating messages * print more filter messages * enable lalpulsar needed to test the template bank * clean lalsuite to refresh cache * use cached lalsuite * use the lal data that e@h caches * disable test_waveform until e@h uses lal r11 data * install M2Crypto for segdb tests * trivial change to trigger a travis build 09 March 2017, 11:14:48 UTC
770c47c Eah update (#1504) * E@H build script: minor (wget) updates - provide alternative download URL for swig source code - add wget options --tries=5 --timeout=30 (faster fail) - removed unused setting build_gcc * E@H build script: added --no-lalsuite-update * cleanup tools/einsteinathome - remove files specific to E@H/BOINC that are not closely related to the PyCBC application These are tracked elsewhere (Albert@Home project repo) and are attached as examples to the E@H documentation (Wiki page) * E@H build script: centralize --enable-static in variable 'static' - we probably don't need to build staic libraries at all here * E@H build: no need to build static libraries * E@H build: fix lalsuite build for Cygwin - should be reverted once the patch is upstream * E@H build: hotfix for building lalburst (Python) on Cygwin 08 March 2017, 15:26:15 UTC
8cfb3fc fix WEAVE_FLAGS usage (#1503) By default, WEAVE_FLAGS is set to '-march=native -O3 -w', unless the environment variable WEAVE_FLAGS contains an -march= specification on its own. ADDING these options to extra_compile_args in the current way is dysfunctional, as - it's superfluous - it's missing a blank, resulting in the invalid option "-w-march=native" - it prevents the user from overriding the default, resulting in failure with compiler versions that don't know this architecture. 08 March 2017, 14:43:39 UTC
2dfe943 Changes in pycbc_compress_bank and compress.py to use compressed waveforms in the search (#1473) * Changes to compress.py * Changes to pycbc_compress_bank * Changes to compress_bank to pass precision as an argument to compress_waveform in compress.py * Changes to compress.py to save precision as metadata * White spaces * Fixed location of break statement in inline decompression code 08 March 2017, 12:55:51 UTC
a24be95 The functions lalsimulation.SimInspiralWaveformParamsInsertTidalLambda1, lalsimulation.SimInspiralWaveformParamsInsertTidalLambda2, lalsimulation.SimInspiralWaveformParamsInsertdQuadMon1, lalsimulation.SimInspiralWaveformParamsInsertdQuadMon2 were misnamed. They are now corrected. (#1500) 07 March 2017, 16:59:35 UTC
903e9ea Snr-rate Cumulative Histograms and Non-Cumulative Histograms (SNR- IFAR) Plots (#1427) * Fix a change in numpy indexing of arrays so that the index is a pure integer not a float * Undo stupidity.... * Undo stupidity.... * Plot foreground triggers for hierarchically removed triggers in purple. Doesn't do this for non-cumulative statistical significance plots yet. * Make a few changes here or there to stuff....sorry forgot what the edits were. * Take away period, for float to int * A few edits to try and make purple triangles for not cumulative plot * Eliminate two case conditions for inclusive background. Note this is not a full fix yet....just slow progress.... * Add tracking of ranking statistic so that downstream plotting code can make use of them to see how the IFARs/FAPs have changed due to hierarchical removal. * Mistake in string parsing...fixed.. * Further edits... * Change the help message for plotting which inclusive background. * Get rid of an extraneous parenthesis that will goof this code up * Permit the plotting of the non cumulative histogram with combined FAR and FAP for adjusted values at different stages of the hierarchical removal. * Change capitalization for some reason? * Store ifar and fap and snr from no hierarchical removals * Delete out extraneous commented lines. * Let us plot the no hierarchical background ifars too. * Update help message. * Add back in the arrows. * Remove commented out code. * Make no sigma shading the default. Change to p-value instead of FAP. Get rid of the plot type that nobody likes. * Make no sigma shadings the default. When --sigma-shading is not given, no sigmas will be plotted. When --sigma-shading is given the sigmas will be plotted. * Make arrows only if h_removed is louder than background * Accidentally made an error in case where no hierarchical removals are done. This fixes that. * Fix --sigma-shading to be more conventional logic convention. * Remove all sigma shading from cumulative histogram plots, but maintain sigma shading for all non-cumulative histogram plots 07 March 2017, 15:51:24 UTC
88cce7c plot_singles_timefreq: more visible inspiral tracks (#1497) 06 March 2017, 20:55:06 UTC
3967701 pycbc_plot_singles_vs_params: improve autolog (#1496) 06 March 2017, 20:10:55 UTC
096e492 Add cosmology module (#1435) * add cosmology package for computing redshift * add redshift to parameters, waveform array * change to conversions * rename dL variables to be consistent with rest of pycbc * fix whitespace 06 March 2017, 15:29:19 UTC
b098b37 Added psd option to calculate the overlap between waveforms in the function vecdiff (#1479) * Added psd option to the function vecdiff * Made psd a keyword argument in _vecdiff * Made psd a keyword argument in vecdiff 06 March 2017, 15:10:13 UTC
5f68460 turn on sg chisq veto so all code gets built (#1493) 03 March 2017, 23:13:48 UTC
875c0d8 Fixing bug in pycbc_condition_strain (#1494) 03 March 2017, 15:43:31 UTC
dbbc612 Set back to release (#1489) 02 March 2017, 02:02:33 UTC
481883e set for 1.6.8 release (#1485) 01 March 2017, 11:21:09 UTC
99ca134 make an rfc compliant proxy (#1488) 01 March 2017, 11:19:53 UTC
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