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File YODA.changes of Package YODA
------------------------------------------------------------------- Mon Feb 19 12:18:23 UTC 2024 - Atri Bhattacharya <badshah400@gmail.com> - Update to version 1.9.10: * No release notes. ------------------------------------------------------------------- Wed Dec 6 08:09:10 UTC 2023 - Atri Bhattacharya <badshah400@gmail.com> - Update to version 1.9.9: * Limit autotools requirement to 2.69 * Ignore unknown sections in FLAT files (allows reading files generated by rivet-cmphistos) * Fix binary relocation in binreloc.c * Explicitly import base-class virtual operator= in AO classes to silence new GCC13 compiler warnings. * Fix error propagation to always return a positive uncertainty size in object divisions (which can produce a negative ratio value) * Fix a bug with HistoBin2D.yMean() returning value of xMean * Fix missing function calls in HistoBin2D.xy*() methods * Add workaround for Ubuntu 23.04 putting 'local' in the Python platbase path. ------------------------------------------------------------------- Fri Sep 8 14:22:24 UTC 2023 - Atri Bhattacharya <badshah400@gmail.com> - Use Cython < 3 to avoid an issue with `setYErr` when using Cython >= 3. ------------------------------------------------------------------- Tue Jul 11 08:06:31 UTC 2023 - Atri Bhattacharya <badshah400@gmail.com> - Update to version 1.9.8: * Fix Cython matching of optional Booleans in ROOT conversion functions. * Introducing matplotlib based plotting: standalone Python scripts are generated that contain the logic to produce a plot. These script do not depend on YODA and should hence be sharable with people that have no YODA. Python3 and matplotlib are required. The numerical data associated with individual curves is outsourced to a {name}__data.py script to aide legibility. * Fix bug in yodamerge to handle files with inconsistent AOs * Add CXXFLAGS and LDFLAGS propagation to the Python-extension build script. * Enable Cython auto-conversion of all C++ strings to Python native str for v2 and v3, removing extensive encode()/decode() calls. * Add binreloc-based libPath() and dataPath() functions, including in Python. - Drop YODA-correct-python-platlib.patch: fixed upstream. - Split out new package, YODA-matplotlib-style, that installs a style file to produce YODA styled plots using matplotlib. - autoconf >= 2.71 now required (update BuildRequires). ------------------------------------------------------------------- Sun Oct 23 10:12:58 UTC 2022 - Atri Bhattacharya <badshah400@gmail.com> - Update to version 1.9.7 * Add Stat and Uncor to labels flagged as uncorrelated. * Update yaml-cpp version for C++17 compatibility. * Replace distutils with sysconfig and manual calls to the compiler. - Add YODA-correct-python-platlib.patch: Use correct python platlib ($prefix/lib64) consistently across different python versions; although we do not build for multiple python versions, we would not want to adapt the file list everytime upstream python vacillates between lib (e.g. python 3.8/3.10) vs lib64 (e.g. python 3.9) for platlib. ------------------------------------------------------------------- Wed Aug 24 22:12:43 UTC 2022 - Atri Bhattacharya <badshah400@gmail.com> - Set PYTHONPATH to buildroot's python3_sitearch before testing to allow importing of yoda module. ------------------------------------------------------------------- Fri Jul 15 22:52:01 UTC 2022 - Atri Bhattacharya <badshah400@gmail.com> - Update to version 1.9.6: * Pass ignoreOffDiagonalTerms correctly when retrieving covariance matrix from a Scatter2D. * Add a covariance/off-diag test to test-s2d.py * Force Cython rebuilds on all .pyx files, if possible (helps with Python ABI compat). - Drop 0001-fix-cython-rebuild-after-configure.patch: incorporated upstream. ------------------------------------------------------------------- Thu Jul 7 09:17:21 UTC 2022 - Christophe Giboudeaux <christophe@krop.fr> - Add patch to fix build with python 3.10: * 0001-fix-cython-rebuild-after-configure.patch - Spec cleanup ------------------------------------------------------------------- Sun May 29 12:47:31 UTC 2022 - Atri Bhattacharya <badshah400@gmail.com> - Update to version 1.9.5: * Add per-AO double-precision writing if the WriterDoublePrecision annotation is set. * Ensure that default variation +- errors are both positive, for all Scatter types. Original patch by Jon Butterworth. * Protect against NaNs arising from the YAML parser in error-breakdown calcs. ------------------------------------------------------------------- Tue Dec 7 20:12:26 UTC 2021 - Atri Bhattacharya <badshah400@gmail.com> - Update to version 1.9.4: * Fix Scatter.variations keys to be string instead of bytes in Python 3. - Changes from version 1.9.3: * yoda2root,root2yoda: use ROOT in the batch mode. * Restructure tests to use autotools standard naming and trigger on extensions, and to ensure testwriter runs before testreader. * Fix Point.errMap() keys to be string instead of bytes in Python 3. * Catch low-stats errors in computing errors in H1 and H2 conversion to scatters. ------------------------------------------------------------------- Sat Nov 13 00:33:13 UTC 2021 - Atri Bhattacharya <badshah400@gmail.com> - Update to version 1.9.2: * Fix ao.path setting to use ao.setPath() in root2yoda. * Introduce rmVariations() for Points and Scatters * Add precision arguments to unbound write functions, and Python mapping of setPrecision() and useCompression() methods of Writer classes. * Fix IO failure modes to actually report exceptions, and with correct types and error messages. * Fix broken reading gzipped files in Python (was a regression in 1.9.0) * Provide more options to specify the Cython command to be used. * Fix yAvgErr -> yErrAvg typo in Scatter2D.yErrAvgs. * yodascale: improved handling of .yoda.gz extensions, and adding --output. * Fix a bug with reading files while running with non-US locales. * Remove rogue s.variations() call, causing rivet-merge to crash * Change the Axis2D edge-uniqueness test to be based on the smallest bin width rather than the median. * Remove adoptPoint, make addPoint(Point) argument non-const since one should always want to update the parent of the point. * Add updateTotalUncertainty method which allows the user to automatically set the total error to the sum in quad of the error components for each point. * Add adoptPoint(s) methods to the Scatter*D classes, which allows to add a previously-instantiated point while modifying its parentage so that it points back to that Scatter. * Modify the Scatter*D copy constructor so that the parentage of the relevant points is correctly set, to avoid set faults after a Scatter*D is clone()'d. * Add some missing functionality which used to only be available to Scatter2D to also cover Scatter{1,3}D. * Add many additional tests to cover the ErrorBreakdown functionality in existing pytest scripts * Bin2D: use fuzzyEquals for bin edge comparisons. Required for correct rivet-merge behaviour with 2D histograms. * Provide x,yWidths() functions on Histos and Profiles. ------------------------------------------------------------------- Thu Apr 1 00:22:09 UTC 2021 - Atri Bhattacharya <badshah400@gmail.com> - Update to version 1.9.0: * Add missing inline declarations to free IO functions. * Add fillDim() methods to the Bin, Bin1D and Bin2D classes. * Rename the Point getParentAO etc. to getParent, using the new Scatter base, and improve the accessor methods. * Add Scatter base class to the Scatter classes, with rmPoints() implemented there. * Add Binned and Fillable base classes, the former introducing the fillDim() method and rmBin(), and use them as ABCs for the counter, histo and profile types. * Allow YODA's Python interface to read from StringIO and FileIO objects. * Add rmPoint() and rmPoints() methods on all Scatter types. * Change scaleDim() to scale() for points and scatters * Remove ROOT5 compatibility, and handle 6.22 change in PyROOT. * Fix out-of-source builds re. bash completions. * Fixes to the Profile1D Python interface. * Add <limits> header include to AnalysisObject.h to support GCC11 (cf. http://gcc.gnu.org/gcc-11/porting_to.html) * Restructure yodamerge to use pairwise merges, avoiding simultaneous loading of all the input files and greatly speeding up processing. Simultaneous simplification by replacement of yodamerge stacking functionality with yodastack. ------------------------------------------------------------------- Sat Nov 28 15:33:02 UTC 2020 - Atri Bhattacharya <badshah400@gmail.com> - Update to version 1.8.5: * Add relErrs() functions to the H1D and H2D Python interfaces. * Add an explicit configure test and override variable for the cython executable. * Fix typo from xAvgErr -> xErrAvg in Scatter2D.xErrAvgs() Python function. ------------------------------------------------------------------- Mon Nov 9 22:20:45 UTC 2020 - Atri Bhattacharya <badshah400@gmail.com> - Update to version 1.8.4: * Don't suppress cross-section-normalised empty histograms in yodamerge. * Use ROOT's ROOT_VERSION_CODE and ROOT_VERSION macros to handle the changing TPython API. * Do not apply bin-width scaling by default between YODA and ROOT binned objects. * Improve ROOT conversion utilities to support a fuller set of width-scaling and focus-mapping options. * Fix Point1D.setXErrs() function to handle sources and asymm errors correctly. * Map scatter reset() functions into Python. * Create bash completion dir in $prefix/etc if it doesn't exist. * Fix missing call-parentheses in Python-mapped Bin classes, including in the __repr__ functions, which was making print(bin) crash. - Move bash_completion file from /usr/etc, where it is installed, to the correct dir: `%{_datadir}/bash-completions/completions/`; add BuildRequires: bash-completion for correct dir ownership. ------------------------------------------------------------------- Tue Jul 14 19:09:59 UTC 2020 - Atri Bhattacharya <badshah400@gmail.com> - Update to version 1.8.3: * The python method `Histo2D.addBins` was reimplemented using `Histo2D::addBins()` C++ method instead of `Histo2D::addBin()` for better performance. * Make the low stats error for variances strictly require Neff > 1, rather than a fuzzy comparison that can cause trouble downstream. * Make xyMids,Foci,Errs,Mins,Maxs etc. runtime configurable with 'unique' and 'asgrid' optional params. * Convert geometric axis-property array functions on Histo2D and Profile2D to return the unique edges, mins, maxes, mids, etc. rather than the heavily repeated versions for all the bins. * Fix Histo2D.volumes() Python mapping, and add sumWs() functions to all histo types. * Add asgrid optional arguments to value-related Python methods for Histo2D and Profile2D * Add computation of Python versions and passing them to Cython as command-line flags. - Changes from version 1.8.2: * Fix off-by-one error in Axis2D.numBinsX/Y() return values, fixing Histo2D and Profile2D. * Add numBinsX() methods to the 1D histogram and profile classes. * Py3 compatibility fix * Fix call to `Histo1D.annotationsDict` - Changes from version 1.8.1: * Fix list-return read YODA-format function. * Removed unwanted space at end of headers. * Set correct dimension when calling setErrs. * Added zerrs to 3DScatter headers. * Added xErrs, yErrs, zErrs to Scatter3D.pyx * Add underflow and overflow reporting to the verbose yodals printout. * Re-instate title() and fix bug in z-error storage for scatter 3Ds. * Python3 compatibility tweaks * Add a pdfspace() function in C++ and a Python equivalent -- recoded rather than mapped, due to the technical implications of passing Python callables as std::functions -- for custom binning from a density function. * Fix YODA 1.7 style call to AO.dim. * Update yodamerge ao_out.point(i).setVal(dim, val_i) * IO.pyx: missing python3 compatibility * Sort dicts on IO write(), and return ordered dicts in read mode if possible. - Drop YODA-py3-compatibility-for-IO_pyx.patch: incorporated upstream. ------------------------------------------------------------------- Sat Jan 18 13:47:23 UTC 2020 - Atri Bhattacharya <badshah400@gmail.com> - Add YODA-py3-compatibility-for-IO_pyx.patch -- Py3 compatibilty for IO.pyx; patch taken from upstream commit and modified to fix further similar errors (https://gitlab.com/hepcedar/yoda/issues/4). - Change hashbangs referring to python or `env python` to use `/usr/bin/python3` consistently in source dir, rather than from buildroot after installation. This allows to run the tests correctly in the %check section. - Move binaries using the python module to python3-%{name} package. - Run make check. ------------------------------------------------------------------- Wed Jan 8 20:51:46 UTC 2020 - Atri Bhattacharya <badshah400@gmail.com> - Switch to python3: * Requires and BuildRequires switched to python3 versions * Rename python package to python3-%{name} and provide python-%{name} from it; this makes the py3 switch clear to users. * Explicitly pass PYTHON_VERSION as py3 version to make it build against python3 * Drop an unecessary hashbang from a file in non-exec location. - Remove an sed hack for buildroot in *.pyc file(s); no longer needed. ------------------------------------------------------------------- Sat Jan 4 16:41:21 UTC 2020 - Atri Bhattacharya <badshah400@gmail.com> - Update to version 1.8.0: * Add extra optional bool arguments to the mkScatter converter functions for Histo1D and Histo2D types. * Force rebuild of the Python interface if a sufficient Cython is found, even if the generated .cpp file is present at configure-time. * Final conversion to use ast module not just in autotype but as first choice in AO.annotation. * Remove ALL uses of @property in the Python interfaces: all methods must have call-parentheses now. * Improve Python annotation parsing to preferentially use ast rather than yaml. * Add x/yErrs and x/yErrAvgs functions to Scatter2D Python. - Rebase so numbering patch for updated version. ------------------------------------------------------------------- Wed Aug 21 08:14:14 UTC 2019 - Atri Bhattacharya <badshah400@gmail.com> - Update to version 1.7.7: * Fix printing of YAML annotations. * Fix Python 3 / Unicode compatibility for Point.pyx. - Changes from version 1.7.6: * Add xEdges and yEdges methods to the 2D Histo and Profile classes, in C++ and Python. * Remove @property attributes from Python xEdges methods. * Fix Python3/argparse attribute access bug in yodamerge. - Changes from version 1.7.5: * Convert bin/* scripts to use Python3-compatible argparse rather than old optparse. * Fix Histo1D::integralRange to include the second-argument bin content as described in the docstring. * Fix Python3 StringIO import compatibility * Add -m/-M filtering to yodadiff. * Fix HistoBin2D printing in Python interface. * Protect yodamerge against zero-valued (?!) ScaledBy attributes. - Drop conditional for boost BuildRequires pertaining to outdated versions of openSUSE. ------------------------------------------------------------------- Wed May 1 11:31:10 UTC 2019 - Atri Bhattacharya <badshah400@gmail.com> - Update to version 1.7.4: * Roll out sameBinning methods for Profile1D and Profile2D. * Add sameBinning methods for Histo1D and Histo2D. * Remove debug couts from single-AO Writer::write() function. * Add --ignore-missing and --ignore-new flags to yodadiff. * Tidy up point-comparison output of yodadiff. * Fix additional weighting in yodamerge - See %{_docdir}/YODA-devel/ChangeLog for changes between version 1.7.1 through 1.7.3. - Rebase sover.diff to apply cleanly. ------------------------------------------------------------------- Wed May 23 08:17:39 UTC 2018 - badshah400@gmail.com - Update to version 1.7.0: * Add Nentries printout to yodals -v * Patches for ROOT conversion from Robert Hatcher -- thanks! * Add YODA format version annotation, at version 2, and update YODA reader to use version info and multiline YAML EOF marker. * Write YODA annotations in YAML with a --- YAML break-line. * Enable compressed writing from Python. * Remove UNUSED macro in favour of anonymous args. * Enable zipped writing... but only works from C++ so far. * Add HistoBin2D::area(), and provide a default normto=1.0 argument on the Python Histo2D.normalize() method. * Change license explicitly to GPLv3, cf. MCnet3 agreement. * Parse YODA format AO headers as YAML (restriction to single-line dict entries for now). * Use a slightly enhanced fast numeric parser in ReaderYODA (taken from LHAPDF, originally inspired by Gavin Salam). * Add an UNSCALE spec option to yodascale, to undo ScaledBy effects. * Add optional zlib support via zstr * Fix setVal(i, x) numbered-axis methods on Point2D and Point3D: switch break statements were missing. * Explicitly load all ROOT objects as a list rather than generator. Patch from Dmitry Kalinkin. * Improvements to yodaplot, including two operating modes: the default CMP mode is suitable for plotting histos by path, from raw .yoda files. * Update yoda.plotting functions to treat plot-keys as args and AO annotations via case-insensitive keys. * Add annotationsDict to the Python AO interface. * Add AO as an alias for AnalysisObject. * Add parallel/compatibility yoda1 package to aid eventual transition to YODA v2. * Add x,y,zMins and Maxs to all 1D data types and scatters (and x,yMin/Max to the scatters) -- Python interface only. * Rework some of the yoda.plotting tools, making it a bit more compatible with user-scripted matplotlib. * Add convenience aliases H1D, H2D, P1D, P2D, and S1D, S2D, S3D for the HistoXD, ProfileXD, and ScatterXD classes respectively. * Add xyVals/Errs and other 'bin array property' accessors to the Python Histo1D and Profile1D types: important for connection to matplotlib. * Use Python natsort library to sort yodals output if available. - Rebase sover.diff. - Add BuildRequires: pkgconfig(zlib); now required for bulding YODA. - Fix env-based hashbangs. ------------------------------------------------------------------- Wed Aug 2 06:10:35 UTC 2017 - badshah400@gmail.com - Update to version 1.6.7: * pyext/yoda/rootcompat.pyx: Fix ordering of TH1 vs. TProfile conversion * Add static Reader methods to match the Writer ones. * Fix Histo2D and Profile2D total distribution reading from YODA format. * Convert TH1F to TH1D in root2flat. Much simpler than duplicating the TH1D stuff in pyext. - Changes from version 1.6.6: * Bugfixes in Cython bins accessors for Histo2D. * Fixed warning messages about the obsoleteness of AIDA so that the scripts actually still work. ------------------------------------------------------------------- Mon Feb 13 15:52:49 UTC 2017 - jengelh@inai.de - Call ldconfig directly. Add sover.diff, enforce versioning as per guidelines. ------------------------------------------------------------------- Thu Feb 2 15:49:18 UTC 2017 - adam.majer@suse.de - use individual libboost-*-devel packages instead of boost-devel ------------------------------------------------------------------- Thu Nov 10 14:19:51 UTC 2016 - badshah400@gmail.com - Update to version 1.6.5: * Fix handling of --enable/disable-root configure options. * Improvements to Cython version testing. - Numerous changes from last packaged version (1.3.1) through version 1.6.4. Please see ChangeLog file for details. - Drop YODA-boost-configure-for-GCC5.patch: no longer needed due to fixes in upstream code. ------------------------------------------------------------------- Thu Jun 25 06:28:15 UTC 2015 - badshah400@gmail.com - Add YODA-boost-configure-for-GCC5.patch to fix autoconf boost macros lookup with GCC5; patch taken from boost.m4 upstream [https://github.com/tsuna/boost.m4]. - Clean up some further remnants of %buildroot in python byte-compiled files. ------------------------------------------------------------------- Thu Jun 25 06:12:08 UTC 2015 - badshah400@gmail.com - Update to version 1.3.1: + Adding usefocus optional argument to some mkScatter functions, plus the Python bindings. + Cleaning up some Python mappings of 2D histogram bin classes. + Removing mappings of bin-level fill and scale operations in Python. + Fix formatting and error handling in Python Bin and Dbn __repr__ methods. + Add a -i/--in-place option pair on yodascale. + Convert script matching options to use re search rather than match. + Adding matching options and verbose option to yodals. + Improvements and additions to ROOTCnv.h routines, particularly to TProfile creation: thanks to Roman Lysak for advice. + Add convenience YODA/YODA.h header. + yodascale now uses PointMatcher and can normalize or multiply to abs values or ref histos/bin ranges. + Adding yoda.matcher Python sub-package with PointMatcher functionality. To be used in Professor 2.0 and in yodascale. + Adding 'scat2' type to yodahist. + Add match/unmatch args to all conversion scripts, via a new Python yoda.script_helpers function. + Script updates, improved docstrings, and improved tab completion. + Add a yoda.plotting sub-module, based on matplotlib. + Small build improvements. + Handle overflow filling in binned types without invoking an exception. + Change inRange to have non-fuzzy comparison behaviour. + Improving/adding __div__ functions in Python for all binned types. + Add std:: prefix to isinf() calls in BinSearcher.h. ------------------------------------------------------------------- Sun Oct 26 04:31:24 UTC 2014 - badshah400@gmail.com - Update to version 1.3.0: + Use numEntries() rather than effNumEntries() when checking consistency of inputs to efficiency() calculations -- the effNumEntries of a set can be smaller than that of a strict subset, surprisingly! + Small improvements to yodahist and yodaplot behaviours/UIs. + Adding setX/Y/Z(val, err) methods to Point3D. + Add an efficiency method for 2D histos. + Hide fill and fillBin methods from Python mappings of bin types. ------------------------------------------------------------------- Thu Sep 18 02:01:15 UTC 2014 - badshah400@gmail.com - Update to version 1.2.1: + Hide non-const access to bin objects from histogram user: avoids potential for inconsistency between total dbns and in-range bins. + Bug in BinSearcher fixed by Peter Richardson: constructor arguments were passed in the wrong order when constructing a LinEstimator in cases where log binning wouldn't be allowed. + Add protection against / characters in histo names in yoda2root + Add +=, -=, *-, /=, ++ and -- operators to Counter, along with an (implicit) constructor from a double -- all for user convenience so Counter can be used in lieu of a simple number - Changes from version 1.2.0: + Many changes from 1.1.0 version, please see installed ChangeLog file - Add the new binaries yadals, yodaplot and yodascale to filelist. ------------------------------------------------------------------- Sat Jun 21 21:59:18 UTC 2014 - badshah400@gmail.com - Update to version 1.1.0: + YODA 1.1.0 release. + Adding unit tests against ref data for yodamerge in make check. + Removing 'foreach' macro definition and using raw BOOST_FOREACH instead until C++11 is allowed. + Adding pytest-p1d and pytest-p2d tests, and FLAT writing/reading in pytests. + Tweaking WriterFLAT and adding ReaderFLAT functionality for 2D histos and profiles. + Some basic (FLAT) write-out capability for 2D histos + Improvements to the yodahist script, including support for 2D histograms and input files. + Adding bin edges constructors for all 1D and 2D histos in Python. + Improvements to Profile2D and Point2D interfaces in Python. + Add a single-file at a time yodacnv multi-format converter script (thanks to Andrii Verbytskyi for the suggestion). + Typo fixes in Profile2D YODA-format parsing: 2D histo tests now pass! + Adding Python tests for Histo2D and Profile2D. + Adding a YODA/Predicates.h header and using it in Axis2D bin edge construction. + Enabling Profile2D writing in various Writers, and a bit of IO code tidying. + Disable writing out of Histo2D and Profile2D outflows for now, while they are redesigned, and get 2D I/O working for the in-range part. + Mapping the divide and efficiency functions into the Python interface as class methods, including the __div__ special function. + Add the AnalysisObject::type() method back in Python (even though type(ao) is more Pythonic, this may be useful) + Add Profile2D YODA format writing, note need for Scatter format change, add sumXY storage to both 2D histo types. + Adding YODA reader functionality for Histo2D and Profile2D, but without outflows support yet. + Adding simple command line yodahist script for quick 1D histogramming from plain text files, with weight support. More development to come! + Mapping linspace, logspace and a few stat functions into Python. + Fixes, script installation, and detailed numerical comparisons in yodadiff. + Change AnalysisObject::annotations to return the list of annotation keys rather than the map, since the previous behaviour mapped very badly into Python. + Add special case handling for 2-arg use of x2y scripts where the second arg is -, for stdin. This will be treated as writing out to stdout, not converting two files one of which is stdin. + Adding a more portable version of getline to be used in the YODA file parsing to avoid falling over on DOS-produced input files. + Adding the namespace protection workaround for Boost described at http://www.boost.org/doc/libs/1_55_0/doc/html/foreach.html + Adding an assumed-equal-run-size, ratio-like merging heuristic for Scatter2Ds to yodamerge, and renaming the --normalize-all flag to --assume-normalized. + Adding and installing a pkg-config data file for YODA. + Rationalising (and fixing?) the yodamerge logic re. user & normalization scalings, and making way for a Scatter2D merging heuristic - Packaging changes: + Package new binaries yodacnv, yodadiff, yodahist + Package new pkgconfig file (buildrequires pkg-config). ------------------------------------------------------------------- Tue Dec 10 00:39:02 UTC 2013 - badshah400@gmail.com - Initial version
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