https://github.com/gwastro/pycbc

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Revision Author Date Message Commit Date
e58ed8b Set for v1.5.10 (#1274) 22 November 2016, 18:23:37 UTC
a5053ee fix periodic remove line in pegasus properties (#1280) 22 November 2016, 18:22:59 UTC
27130b9 plot_singles_vs_params: let user set x-y ranges (#1278) 21 November 2016, 19:36:14 UTC
344d294 put if switch ahead of concatenation (#1276) 21 November 2016, 17:03:32 UTC
33a5e1f Fixes to sharedoptions section (#1277) * Fixes to sharedoptions section * Fix to shareedoptions 21 November 2016, 15:33:59 UTC
85c9c1f Remove the profile hints.executionPool (#1268) 21 November 2016, 13:44:29 UTC
fa0ab3d always say the executable is not installed (#1271) 21 November 2016, 13:36:07 UTC
0a7b2e9 add a note about aei hdf5 location (#1267) Tested, seems to work 20 November 2016, 20:51:35 UTC
6a92c0d Set back to development (#1266) 20 November 2016, 15:09:35 UTC
88ec002 Fix the way that executables are added to the DAX (#1265) * simplify execution site code and fix bug * improve error message 20 November 2016, 15:08:13 UTC
155a8dd Set for 1.5.9 (#1263) 20 November 2016, 13:04:00 UTC
8bf2981 Remove --cache from the arguments to be added to pycbc_submit_dax in pycbc_make_coinc_search_workflow running docs. (#1261) 19 November 2016, 23:28:40 UTC
d798ffd initialize findtrigs with empty list (#1262) 19 November 2016, 23:28:28 UTC
bfe546c Set back to development (#1258) * Set for 1.5.8 release * Set back to development 18 November 2016, 18:49:41 UTC
ccaf9a3 Set for 1.5.8 release (#1256) 18 November 2016, 18:47:47 UTC
e321089 Minor bug fixes for OSG running (#1260) * added note about PYTHONUSERBASE and XDG_CACHE_HOME * do not make a proxy from a proxy * add instructions to use the cvmfs bundle 18 November 2016, 18:47:24 UTC
899c171 Faster pycbc_generate_hwinj (#1257) * pycbc_generate_hwinj: Don't compute waveform twice * pycbc_generate_hwinj: Don't reset network SNR 18 November 2016, 18:14:29 UTC
aef71dd added note about PYTHONUSERBASE and XDG_CACHE_HOME (#1259) 18 November 2016, 17:58:11 UTC
bf396e2 raise error if timeslide interval is smaller than time_window (#1210) * raise error if timeslide interval is smaller than time_window between detectors * update message * allow no timeslides again * Update pycbc_coinc_findtrigs 18 November 2016, 17:27:34 UTC
19fd9ce Rainbow hist (#1249) * adding capability to produce single hists split over template duration * Enable binned trig fitting code to produce results page style output * coinc_workflow: put a binned newsnr hist on the summary page 18 November 2016, 13:49:51 UTC
d611972 Change the binning in histograms in pycbc_page_snrratehist (#1254) * Change the way that we bin histograms for this plot. The code before was trying to be clever in the way it decided minimum and maximum bounds for binning up the space. This changes it to a naive method of just take the min of the data, and max of the data, space it evenly with a fudge factor of two extra bins in case the min = max. This code inherits the problem that it will fall over if there are no background triggers in a bin, but that can be remedied easily if we come to it. * The initial commit used bins that were different for foreground triggers, inclusive background, and exclusive background. This forces them to be all the same. It also changes the minimum when looking at foreground triggers, if there's only one foreground trigger minimum = fstat.min() = maximum = fstat.max() which ruins binning for histograms. So, instead just do what we do for maximum in the case that you are looking at the open box. Let minimum = min(fstat.min(), bstat.min()) * We don't need the symmetric binning around minimum - args.bin_size and maximum + args.bin_size, choosing one or the other is sufficient. * Change the binning back to numpy.arange just for the legacy, it doesn't matter whether you choose numpy.linspace or numpy.arange, unless you have only 1 element to use for binning. * No need to change what it originally said on that line, anyway. * I don't need to import from math anymore. Not using numpy.linspace method anymore. * Don't put new lines in 17 November 2016, 20:21:13 UTC
abb6a6f Add note on MacOS installation of m2crypto in install instructions (#1250) * Add note on MacOS installation of m2crypto in install instructions * fix instruction 17 November 2016, 19:34:10 UTC
5dea72b Allow pycbc_generate_hwinj to use --asd-file and --psd-file (#1255) * Interpolate PSD. * Skip strain reading if using PSD or ASD file. * More detailed log message. * Some PEP8. * Some PEP8. * More verbose messages. * Only check options if not using PSD/ASD file. PEP8. * Remove debug. * Use and not or. * Use zeroNoise. * Only interpolate once. * Change check. * Check that --psd-estimation is used with frame files. 17 November 2016, 17:37:30 UTC
57c23d9 pass errors through faithsim (#1253) * pass errors through faithsim * move errors to warning class 17 November 2016, 16:26:50 UTC
82c5aaa Read the template start frequency from the template bank (#1146) * start alpha6 flower or hdf file * read frequency start of waveforms from bank * update docs * Fix errors * update bank chisq for the change in the filterbank interface 16 November 2016, 17:50:44 UTC
ca52bfc Use multi-IFO options for hardware injection generation executable (#1245) * Add --filterbank-gain 1.0 since gain of filterbnk is 0.0 if no active injection. * Use multi-PSD options for hwinj generation. * Fix shebang line. * Remove commented line. 16 November 2016, 14:57:40 UTC
5d51707 Back to development (#1244) 15 November 2016, 21:56:28 UTC
b3b03f1 set for 1.5.7 release (#1239) 15 November 2016, 21:19:06 UTC
952a6fe Remove extraneous files (#1243) * rely on edgar to set the environment up on osg * removed old files 15 November 2016, 20:28:36 UTC
996e6b3 Incorrect syntax originally, a numpy float doesn't have the .isnan() option, use numpy.isnan(float) instead. (#1242) 15 November 2016, 19:35:00 UTC
222872e Documentation correction for pycbc_make_inference_workflow (#1221) * made changes to readme to test if git is working * spelling * correct documentation typo, add GPS_END_TIME to testing * corrected README * define OUTPUT_MAP_PATH environment variable * Fixed typo * Inference config file now references mass2 15 November 2016, 19:25:31 UTC
fb4e744 Add ability to gate data to pycbc inference (#1233) * add ability to save strain to inference hdf * add ability to apply gates, save strain, to inference * option to apply gates to overwhitened data; allow seperate gates to be applied to psd data * fix some bugs * rename save-psds to be consistent with other save/write options * update inference workflow docs 15 November 2016, 19:23:43 UTC
2f018c4 Update setup.py (#1240) 15 November 2016, 15:26:52 UTC
4892523 removed extraneous environment variables (#1238) 15 November 2016, 15:26:45 UTC
afbad7b Update README.md (#1237) 15 November 2016, 12:09:38 UTC
287a4b7 set the main workflow name for osg (#1236) 15 November 2016, 02:37:42 UTC
7ee8471 Be less verbose (#1235) 15 November 2016, 00:22:05 UTC
4469899 Add static libraries that lalapps is missing (#1234) * add static libraries that lalapps is missing * remove old bundling instructions 14 November 2016, 21:57:41 UTC
ae59958 cache the pip directory (#1232) 14 November 2016, 20:11:17 UTC
b3be99e Use the automatic Zendo release for the DOI (#1231) * reference the doi on zendo * clarify that the badge is the latest release 14 November 2016, 17:16:53 UTC
8958c72 added information on citing pycbc (#1228) 14 November 2016, 15:24:59 UTC
c33ac80 Set back to development (#1227) 14 November 2016, 04:14:22 UTC
cdf85df Tag for 1.5.6 release (#1226) * added url for the lalsuite github repository * set to v1.5.6 14 November 2016, 02:08:10 UTC
6a9ac50 Encode html and parse append-site-profile properly (#1225) * encode html and parse append-site-profile properly * set an empty path now the glidein sets it properly * fixed bugs found in testing 14 November 2016, 02:07:59 UTC
6a2f316 Default to N chisq bins in case of NaN (#1219) * default to 3 chisq bins in case of NaN * add a default bin option * use logging and fix typo * Use the default if less than 2 chisq bins * set the minimum number of chisq bins * catch the case where there is no minimum set * error could be cause by negative chisq bins 13 November 2016, 21:56:22 UTC
2040531 PSD estimation workflow: don't average over detectors in single ifo workflows (#1212) 13 November 2016, 20:21:17 UTC
f8fdf0a handle case where sigma labels would be below recorded background (#1216) 13 November 2016, 20:20:20 UTC
c35b762 geom_aligned_bank: fix syntax error from #1144 (#1217) 13 November 2016, 20:19:34 UTC
b9db004 Add the root workflow name to the sub-workflows (#1223) * Add the root workflow name to the sub-workflows * Add the root workflow name to the sub-workflows 13 November 2016, 19:54:29 UTC
ca03915 Add thin_end to fp.read_samples. (#1215) 11 November 2016, 17:43:43 UTC
c7c85d1 Added code to determine optimal orientation for a detector at a given GPS time (#1218) * Added optimal orientation calculation * Fixed typo * Trailing whitespace 10 November 2016, 18:27:17 UTC
5ce8deb remove pylal from pycbc (#1213) 10 November 2016, 13:45:09 UTC
2d2cbff Add quotes so the user doesn't write a file. (#1206) 08 November 2016, 17:11:46 UTC
32b9c0b Update instructions since pip has removed the --process-dependency-links option (#1201) * Tell pip to bring in all the dependencies * Fixed typo that hid instructions to update pip * Point to new DASWG repository page * removed link as process dependency links has been removed from pip * fix instructions to remove process-dependency-links * removed deprecated dependency_links * get mpld3 from pypi 08 November 2016, 15:37:10 UTC
fb6b779 Change default waiting time to kill held jobs (#1205) 08 November 2016, 15:20:51 UTC
eae77cf Add --filterbank-gain 1.0 since gain of filterbnk is 0.0 if no active injection. (#1203) 08 November 2016, 14:36:48 UTC
71f769e pnutils: use SEOBNRv2_ROM_DoubleSpinHI for time-freq track (#1202) 07 November 2016, 19:08:57 UTC
431a406 Give dashboard longer to respond (#1200) 07 November 2016, 14:08:52 UTC
acc5118 SEOBNRv4 ROM requires LAL to have HDF5 (#1199) 07 November 2016, 11:30:39 UTC
e9bd19d Reset back to development 05 November 2016, 18:01:44 UTC
6353ed4 Set for 1.5.5 release (#1197) 05 November 2016, 17:55:36 UTC
282dc8a set path for release 8 which contains the SEOBNRv4 data (#1196) 05 November 2016, 17:22:41 UTC
04a547b If datafind returns CVMFS urls then they can also be used on OSG (#1195) * if datafind returns osg compatable pfns store them for osg as well * fixed typo in documentation * provide old path until new path has propagated * LAL_DATA_PATH is not actually a path, so just give the old location for now * add a the gsiftp server as a second backup 05 November 2016, 14:50:34 UTC
1090967 Fix for the X509_USER_PROXY issue with workflow submission (#1194) * force the user to have a valid proxy * handle the refresh of the cert in the scripts * fixed section header * remove mention of pylal * fixed bash typo * allow the user to tell pegasus where an executable is * clean up documentation * set the pegasus home to /usr * fix stylistic issues 04 November 2016, 21:56:50 UTC
b526344 Documentation correction for pycbc_make_inference_workflow (#1193) * made changes to readme to test if git is working * spelling * correct documentation typo, add GPS_END_TIME to testing * corrected README * define OUTPUT_MAP_PATH environment variable * Fixed typo 04 November 2016, 20:41:26 UTC
bf18287 Add corner to install required. (#1191) * Add kombine version and corner to install required. * remove kombine version since there's this outdated 1.1 version. 04 November 2016, 18:53:27 UTC
5164826 Update install and run instructions (#1190) * moved old install script to tools directory * made new install script executable * update OSG running instructions for Pegasus 4.7.1 * pruned environment variables as the glidein script now takes care of them * use consistent example path * use VIRTUAL_ENV rather than NAME * add note about make -j * add instructions for lalapps executables * tell the user where to clone lalsuite * make it clear that HDF5 is SL6 only * install Pegasus 4.7.1 * fixed bugs in install instructions * tell the user to upgrade setuptools and pip * add note to say that pylal must be manually installed if needed 04 November 2016, 16:43:37 UTC
ba55168 follow-up fix to #1183: cover all cases correctly (#1184) 04 November 2016, 15:59:34 UTC
88b6ec3 Splitbank injection/full-data separation (#1186) * Move workflows in hdfcoinc directory * Update setup.py with move * Split banksplitter for injs and full-data * Tags are lists. Always. 04 November 2016, 11:37:31 UTC
c015a8a Fix end interval in pycbc_inference checkpointing and add --checkpoint-fast (#1178) * Some PEP8 in pycbc_inference. Add option to skip calculating ACL/evidence every checkpoint. Use pycbc logging. * Fix typo. Use __file__. * ws * Fix end interval. 02 November 2016, 16:46:51 UTC
a875243 Add --config-overrides to pycbc_inference (#1170) * Add overrides. * Pass iterable with [section, key, value]. 02 November 2016, 16:05:48 UTC
a753e9b Changes needed to run on OSG in ER10 (#1182) * moved old install script to tools directory * made new install script executable * fixed a bug in the cache file parsing cause by not resetting the IFS * clean up osg site template for OSG 3.3 * Revert "clean up osg site template for OSG 3.3" This reverts commit 2e3455b41f161fd338c6f7d677cf9c14f83a2662. * less agressive cleanup of osg site template * removed debugging statement * clean up pegasus database query code * working version for osg 3.3 * fixed return from sqlite3 * add a flag to tell weave not to create a temporary directory 01 November 2016, 23:32:10 UTC
2c01cec base the behavior of --fixed-weave-cache on env. var. FIXED_WEAVE_CACHE (#1183) * Revert "fixed-weave-cache: if running a 'frozen' 'onefile' PyInstaller bundle," didn't work for all cases This reverts commit 71977f24f99225940359e88d22222a2d45c78476. * base the behavior of --fixed-weave-cache on env. var. FIXED_WEAVE_CACHE - if it is set, take its value as a path to the weave cache - if it is not and the app is a PyInstaller bundle, use its directory - if none of the above, use $PWD/pycbc_inspiral 01 November 2016, 23:28:50 UTC
2ec859f Add more detail to throughpyt plots (#1164) 01 November 2016, 14:32:37 UTC
4e352d0 speed up logsignal term (#1177) * speed up logsignal term * ws 01 November 2016, 09:37:24 UTC
0dabfaa fixed-weave-cache: if running a 'frozen' 'onefile' PyInstaller bundle, (#1180) point PYTHONCOMPILED to the bundle directory 31 October 2016, 14:53:08 UTC
943cf0c Fix fitstat (#1176) * stat.py : added alan-ibrated fitting stat * stat.py: slight simplification of new stat * Add combined O2 stat, also use 0,1 numbering for sngl stats * fix phasetd stat 28 October 2016, 14:19:12 UTC
9d39fc1 Function to get the frequency of the hybrid MECO (#1139) * Function to get the frequency of the hybrid MECO * Set 1 as default for the quadrupole terms * New expression for the hybrid energy and improvements for the minimize algorithms * Implement most of SideCi comments * Final (hopefully) version of the hybrid energy * Fix some of the landscape issues * Trailing whitespace removal 27 October 2016, 13:06:17 UTC
e389100 Fix fitstat (#1173) * stat.py : added alan-ibrated fitting stat * stat.py: slight simplification of new stat * add dtypes to stat classes (#1159) * add dtypes to stat classes * ws * modularize signal likelihood in the phasetd class, add stub for combined phase and exp fit stat * add comment * remove stub class * Add combined O2 stat, also use 0,1 numbering for sngl stats * coinc_findtrigs: clean up help msg formatting 26 October 2016, 20:28:56 UTC
2e8e9bb add the coinc class (#1161) * add coinc classes * update documentation * style * update style * style * ws * ws * landscape * make ring buffer resizing .. f resize * ws * ws * ws * ws 26 October 2016, 17:46:17 UTC
3df934e allow multiple statistic-files options (#1171) * allow multiple statistic-files options * style improvements requested by Tom 26 October 2016, 10:06:52 UTC
53c8868 Add memory statements for aligned bank (#1144) 25 October 2016, 09:52:16 UTC
9a3c869 add dtypes to stat classes (#1159) * add dtypes to stat classes * ws * modularize signal likelihood in the phasetd class, add stub for combined phase and exp fit stat * add comment * remove stub class 22 October 2016, 22:21:20 UTC
ffe8d11 Use relative-dir not relative-submit-dir (#1169) * Use relative-dir not relative-submit-dir * Whitespace 22 October 2016, 21:34:18 UTC
d41a925 Pylalectomy : no longer use pycbc-pylal functions in binned volume integral (#1131) * fixing bin utils, rate and sensitivity functions * add back old binned trig fitting code * Removing old sqlite-based postproc and gstlal mimicking thingies * sensitivity and rate: formatting and whitespace * sensitivity.py: typos and cleanup docstring * sensitivity.py : add pylal binned sensitivity functions * added rate and bin utils modules for binning and pylal-style sensitive volume calculation * bin_utils: fix min and max overwriting builtins * sensitivity.py: fix input overwriting a builtin * rate.py: remove unused kwarg, more comments 22 October 2016, 21:33:29 UTC
3cb5b9c pycbc_banksim: variable low-frequency cutoff and cleanup (#1158) * pycbc_banksim: cleanup and move to logging module * pycbc_banksim: enable per-template low-frequency cutoff * pycbc_banksim: further cleanup * Ian's comment * Doh 21 October 2016, 15:04:07 UTC
176236f set site to nonlocal if file is not accessible (#1162) * set site to nonlocal if file is not accessible * handle case of file url as request by Duncan B. * ws 21 October 2016, 09:36:41 UTC
bf9e95a fail status if channel cannot be read (#1160) * fail status if channel cannot be read * update 20 October 2016, 17:45:20 UTC
f7d9dc2 Fix fitstat (#1167) * stat.py : added alan-ibrated fitting stat * stat.py: slight simplification of new stat 20 October 2016, 17:20:03 UTC
ca5730d Revert "Fix fitstat" (#1166) Try again with the tweaked network-snr-like stat 20 October 2016, 14:14:51 UTC
9ea2dab Allow exemption for pegasus-profile section (#1165) 20 October 2016, 13:45:32 UTC
7b80d4b Ability to save low-frequency cutoff into bank XML files (#1148) This is needed for the uberbank workflow to produce a consistent bank when the variable cutoff is used in sbank. 19 October 2016, 14:18:53 UTC
8332075 Fix local-site-scratch variable (#1153) 18 October 2016, 19:16:24 UTC
69390e9 Fix fitstat (#1155) * stat.py : added alan-ibrated fitting stat * stat.py: slight simplification of new stat 18 October 2016, 18:02:59 UTC
e92d433 allow profile to be overriden (#1152) 18 October 2016, 14:11:13 UTC
8ef9049 Force backwards compatibility for submit directory layout (#1151) 17 October 2016, 21:11:24 UTC
ad3decf Segment errmsg (#1150) * clarify error msgs, clean up/shorten comments * whitespace! * removing a redundant message, clarifying no segment message 15 October 2016, 23:15:57 UTC
0f9d091 Code for splitting a given compressed template bank into smaller banks in hdf5 format (#1142) * Code for splitting a given compressed template bank into smaller banks in hdf5 format * Added description to arguments, added checks for input arguments that are required, closed output files in pycbc_hdf5_splitbank, made start and stop indices keyword arguments and added doc strings for those in bank.py * removed white space * Fixed sideci issues in bank.py * removed white spaces * Addressed sideci error:Added blank line 14 October 2016, 09:08:20 UTC
dfb3c71 Add spin magnitude and angles to generators. (#1137) * Add spin magnitude and angles to generators. * Use .format for string. 13 October 2016, 21:05:59 UTC
bfcff8f Fix fitstat (#1147) * expfit stat: fix mysterious bugs from previous pulls * Dont hard-code name of stat to be combined newsnr 13 October 2016, 13:46:15 UTC
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