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Author SHA1 Message Date
s-kuberski
a214465413
 		Fix/gaps (#169) 
* fix: Fixed range detection in gamma_method

* Corrected test in dobsio

* Changed expansion paradigm in gamma_method

* Extended tests

* Updated docstrings

* Removed unnecessary intermediate variable

* Removed unnecessary code

* Fixed previously introduced bug in output in obs.details()

* Fixed previously introduced bug in window determination

* New criterion for matching gapped replica, fixed determination of w_max and fixed tau_exp analysis with gaps

* tests: split up consistency test for gamma method.

---------

Co-authored-by: Fabian Joswig <fabian.joswig@ed.ac.uk>
 2023-04-20 17:30:57 +01:00
Fabian Joswig
edcb4de8aa
 		docs: DOI badge corrected. 2023-04-14 15:41:29 +01:00
Fabian Joswig
05d47a2540
 		docs: DOI badge added. 2023-04-14 15:40:00 +01:00
Justus Kuhlmann
9d67738b32
 		extended extract_t0 by postfix argument, default stays .ms (#168) 
* extended extract_t0 by postfix argument, default stays .ms

* linting
 2023-03-24 11:10:26 +01:00
Fabian Joswig
af364cfd09
 		build: version bumped to 2.8.0-dev 2023-03-21 10:47:25 +01:00
Fabian Joswig
857540dbf8
 		build: version number bumped to 2.7.0 v2.7.0 2023-03-21 10:29:03 +01:00
Fabian Joswig
64e8e4975e
 		docs: CHANGELOG updated. 2023-03-21 10:28:15 +01:00
Fabian Joswig
500690b266
 		build: .hypothesis added to gitignore. 2023-03-17 17:56:40 +00:00
nils-ht
2363b755dd
 		NHT changes plots combined fit (#166) 
* NHT changes plots combined fit

* feat: Exception for illegal combination added and test fixed.

---------

Co-authored-by: Fabian Joswig <fabian.joswig@ed.ac.uk>
 2023-03-17 13:52:07 +00:00
Justus Kuhlmann
83204ce794
 		fixed appended mode reading (#165) 2023-03-16 13:12:03 +00:00
Justus Kuhlmann
41fec09816
 		Impr/fix refactor sfcf read (#164) 
* refactor read_sfcf

* adding tests for find_corr and read_compact_file

* add necessary broken data for tests

* fixed appended mode reading

* factored out sort_names and find_files

* now also using sort_files in sfcf.py

* edited tests to fit with new structure

* added find_files function

* shifted helpfunctions to bottom of file

* removed some debug lines

* linting

* Fixed requested changes, added silent mode

* added Exception if correlator is not found by read_append_rep

* use tmp_path fixture

* linting silent keyword

* try to fix testing for a_bb

* tests: Exception testing in test_find_corr made more explicit.

---------

Co-authored-by: Fabian Joswig <fabian.joswig@ed.ac.uk>
 2023-03-15 17:46:12 +00:00
Fabian Joswig
991199a680
 		docs: README updated. 2023-03-14 14:27:51 +00:00
Fabian Joswig
90c9ce9c73
 		refactor: unnecessary line in fit parameter detection removed. 
Iterator variable renamed.
 2023-03-14 09:50:35 +00:00
Fabian Joswig
5255f87d7d
 		docs: image resized. 2023-03-13 16:34:01 +00:00
Fabian Joswig
23fd00b4c2
 		docs: image resized. 2023-03-13 16:25:50 +00:00
Fabian Joswig
8530353d32
 		docs: xkcd 927 added to documentation of json.gz format. 2023-03-13 16:20:25 +00:00
Fabian Joswig
08197efe0f
 		docs: moved installation info for develop branch to documentation. 2023-03-13 13:30:43 +00:00
Fabian Joswig
a2a64146b0
 		docs: installation info also added to start page of the documentation. 2023-03-13 13:27:57 +00:00
Fabian Joswig
34981b6102
 		docs: conda-forge installation added to README. 2023-03-13 13:25:24 +00:00
Fabian Joswig
a1d6b95e9a
 		build: bug report default title changed again. 2023-03-11 21:38:29 +00:00
Fabian Joswig
031b048fa3
 		build: bug report default title changed. 2023-03-11 21:35:34 +00:00
Fabian Joswig
bafa6ce38d
 		feat: system added to print_config. 2023-03-11 21:31:21 +00:00
Fabian Joswig
caef8af988
 		build: bug report issue template added. 2023-03-11 21:30:14 +00:00
Fabian Joswig
0044f90315
 		feat: print_config moved to misc. 2023-03-11 21:22:03 +00:00
Fabian Joswig
8ed5ce9569
 		feat: print_config function added to help with debugging. 2023-03-11 21:17:09 +00:00
Fabian Joswig
d8fb683262
 		docs: CONTRIBUTING.md extended. 2023-03-10 14:37:50 +00:00
Fabian Joswig
fe0f80b8c3
 		docs: README and CONTRIBUTING updated. 2023-03-10 14:25:17 +00:00
Fabian Joswig
3c942b380d
 		Serialize list of Obs in pandas.to_sql (#162) 
* feat: Added serialization of list of Obs in pandas.to_sql.

* tests: test for list of Obs to sql added.

* feat: auto_gamma functionality added for deserialization of lists of
Obs.
 2023-03-10 14:17:20 +00:00
Fabian Joswig
a7a098b861
 		fix: chisquare, dof and p-value also calculated when dof is 0. Test for 
dof and chisquare_over_dof added.
 2023-03-09 15:32:27 +00:00
Fabian Joswig
06ba2015be
 		tests: test for different methods in prior fit added. 2023-03-09 15:00:52 +00:00
Fabian Joswig
99a1033703
 		refactor: refactored construction of prior Obs in least_squares. 2023-03-09 14:25:37 +00:00
Fabian Joswig
e41f869d18
 		docs: version guard added to combined fit example. 2023-03-09 13:38:51 +00:00
Fabian Joswig
507fa7dbdc
 		chore: Duplicate check of y-errors removed and Exception made more 
explicit in least_squares.
 2023-03-08 16:52:21 +00:00
Fabian Joswig
80f4eef912
 		chore: Exception in least_squares specified. 2023-03-08 16:45:29 +00:00
Fabian Joswig
e6051d7ba0
 		docs: docstring of least_squares updated. 2023-03-07 16:39:37 +00:00
Fabian Joswig
839d9214ed
 		Improved prior fit (#161) 
* refactor: merged combined fit and prior fit without breaking the
routine. Fitting with priors does not work yet.

* refactor: correlated fits without priors work now.

* refactor: prior error propagation and dof fixed.

* refactor: old prior fit implementation moved to tests.

* refactor: moved _extract_val_and_dval out of least_squares.

* refactor: comment removed.

* tests: additional tests and exceptions added.

* tests: test for constrained prior fit added.

* docs: least_squares docstring extended.

* fix: linting errors fixed.

* feat: additional if cause for fits without priors added to achieve
original speed.

* tests: test_constrained_and_prior_fit fixed.

* fix: fix array cast of least_squares dict mode.

* tests: test for lists in dict fit added.

* fix: additional asarray added in resplot.

Co-authored-by: Simon Kuberski <simon.kuberski@uni-muenster.de>
 2023-03-07 16:15:16 +00:00
Fabian Joswig
82cd2f11ea
 		fix: multi dim fits fixed in least squares. Test added. (#160) 
Co-authored-by: Simon Kuberski <simon.kuberski@uni-muenster.de>
 2023-03-03 16:35:26 +00:00
Fabian Joswig
cb289a55ec
 		Merge pull request #158 from fjosw/refactor/fits2 
Refactor chisquare function in least squares
 2023-03-03 16:34:28 +00:00
Fabian Joswig
9ef7e504a0
 		chore: Exceptions in Obs.__init__ made more explicit. 2023-03-02 18:54:08 +00:00
Fabian Joswig
2ac38515b6
 		refactor: logic in least square fits simplified. 
Co-authored-by: Simon Kuberski <simon.kuberski@uni-muenster.de>
 2023-03-02 18:42:55 +00:00
Fabian Joswig
a140b2ab39
 		refactor: removed redundant formulations of the chisquare function in 
least_squares.
 2023-03-01 16:29:59 +00:00
Fabian Joswig
ee2944d5b0
 		refactor: chisqfunc rewritten as sum over residuals. 2023-03-01 16:12:31 +00:00
Fabian Joswig
dc7033e51f
 		refactor: _standard_fit method made redundant. (#154) 
* refactor: _standard_fit method made redundant.

* fix: xs and yz in Corr.fit promoted to arrays.

* fix: x promoted to array in _combined_fit if input is just a list.

* feat: residual_plot and qqplot now work with combined fits with
dictionary inputs.

* tests: test for combined fit resplot and qqplot added.

* docs: docstring of fits.residual_plot extended.
 2023-03-01 10:00:35 +00:00
Fabian Joswig
de35332a80
 		Merge pull request #157 from fjosw/fix/calc_rho_large_t 
_calculate_drho for large time separations
 2023-02-28 15:46:54 +00:00
Fabian Joswig
d81d6ea0b8
 		fix: loop range in standard windowing procedure adjusted by gapsize 
- Test added

Co-authored-by: Simon Kuberski <simon.kuberski@uni-muenster.de>
 2023-02-27 21:43:29 +00:00
Fabian Joswig
a33c0a205a
 		feat: added __slots__ to Corr class. (#155) 2023-02-27 10:23:02 +00:00
Fabian Joswig
e85d7dfde6
 		ci: flake8 workflow made more strict again (and CONTRIBUTING.md updated.) 2023-02-26 19:08:47 +00:00
Fabian Joswig
854b46c5b4
 		chore: reformat in _compute_drho. 2023-02-26 18:58:54 +00:00
Fabian Joswig
8bc204fc31
 		tests: nan obs test added. 2023-02-26 18:56:46 +00:00
Fabian Joswig
3b773b7b52
 		ci: default ignore options added to flake8 workflow and CONTRIBUTING.md 
updated.
 2023-02-26 18:55:16 +00:00