diff --git a/.hgignore b/.hgignore --- a/.hgignore +++ b/.hgignore @@ -1,79 +1,80 @@ ~$ \.(o|lo|Po|so|la|pyc)$ \.(yoda|aida|dat|txt|root)$ \.libs$ \.deps$ ^YODA-.*\.tar\.(gz|bz2)$ ^YODA-[\d\.]+$ ^yoda.pc$ ^yodaenv.sh$ Makefile$ Makefile\.in$ Doxyfile$ ^doxy$ ^INSTALL$ ^aclocal\.m4$ ^autom4te\.cache$ ^bin/yoda-config$ ^config\.guess$ ^config\.status$ ^config\.sub$ ^config\.log$ ^configure$ ^depcomp$ ^compile$ ^ar-lib$ \.dirstamp$ ^include/YODA/Config/BuildConfig\.h$ ^include/YODA/Config/DummyConfig\.h$ ^include/YODA/Config/DummyConfig\.h\.in$ ^include/YODA/Config/YodaConfig\.h$ ^include/YODA/Config/stamp-h.$ ^install-sh$ ^libtool$ ^ltmain\.sh$ ^m4/libtool.m4$ ^m4/lt(options|sugar|version|~obsolete)\.m4$ ^missing$ ^pyext/setup\.py$ ^pyext/build$ ^pyext/.*\.(pyc|pxi)$ ^pyext/yoda/core\.h$ ^pyext/yoda/core\.cpp$ ^pyext/yoda/util\.cpp$ ^pyext/yoda/rootcompat\.cpp$ ^pyext/yoda/include/Bin.D_.*\.pyx$ ^pyext/yoda/made_pyx_templates$ ^pyext/.*/generated$ ^test-driver$ ^tests/.*\.(trs|log)$ 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+c937a66ce9c92007b36349d05065a8c9930b74d1 yoda-1.7.3 +c88e4ebc1317334c46845db83c6c357a376634d4 yoda-1.7.4 +9ee5f2cadeb034e09c6dddc35baa1b7a3757778f yoda-1.7.5 +376626bf2c079c4b303603310dc80c4190efcfd2 yoda-1.7.6 +4019ca1879b672f71ca8f5247877a2321773820b yoda-1.7.7 diff --git a/ChangeLog b/ChangeLog --- a/ChangeLog +++ b/ChangeLog @@ -1,1815 +1,1987 @@ +2019-11-01 Andy Buckley + + * 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. + +2019-09-05 Andy Buckley + + * Final conversion to use ast module not just in autotype but as first choice in AO.annotation. + +2019-08-20 Andy Buckley + + * Remove ALL uses of @property in the Python interfaces: all methods must have call-parentheses now. + +2019-07-30 Andy Buckley + + * Improve Python annotation parsing to preferentially use ast rather than yaml. + +2019-06-21 Andy Buckley + + * Add x/yErrs and x/yErrAvgs functions to Scatter2D Python. + +2019-06-018 Louie Corpe + + * Release 1.7.7 + + * Fix printing of YAML annotations. + + * Fix Python 3 / Unicode compatibility for Point.pyx. + +2019-06-07 Andy Buckley + + * Release 1.7.6 + +2019-06-06 Andy Buckley + + * Add xEdges and yEdges methods to the 2D Histo and Profile classes, in C++ and Python. + + * Remove @property attributes from Python xEdges methods. More of that to come in version 1.8.0. + +2019-05-26 Andy Buckley + + * Fix Python3/argparse attribute access bug in yodamerge. + +2019-05-09 Andy Buckley + + * Release 1.7.5 + +2019-05-06 Andy Buckley + + * Convert bin/* scripts to use Python3-compatible argparse rather than old optparse. + +2019-05-02 Christian Gutschow + + * Fix Histo1D::integralRange to include the second-argument bin content as described in the docstring. + +2019-04-29 Andy Buckley + + * Fix Python3 StringIO import compatibility -- thanks to Tom Neep for the patch! + +2019-03-05 Andy Buckley + + * Add -m/-M filtering to yodadiff. + +2019-02-27 Andy Buckley + + * Fix HistoBin2D printing in Python interface. + +2019-02-17 Jon Butterworth + + * Protect yodamerge against zero-valued (?!) ScaledBy attributes. + +2018-12-10 Andy Buckley + + * Release 1.7.4 + +2018-11-16 Christian Gutschow + + * Roll out sameBinning methods for Profile1D and Profile2D. + +2018-11-08 Christian Gutschow + + * Add sameBinning methods for Histo1D and Histo2D. + +2018-11-08 Andy Buckley + + * 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. + +2018-10-13 Christian Gutschow + + * Fix additional weighting in yodamerge + +2018-09-24 Andy Buckley + + * Release 1.7.3 + +2018-09-12 Louie Corpe + + * Fix bug in multi-err point reader which was not parsing Variations correctly, + and a minor typo where the err- was duplicated for the additional columns. + +2018-09-06 Andy Buckley + + * Fix missing y and z components of Point2D and Point3D equality testing. + +2018-09-04 Andy Buckley + + * Add array accessors of x,y,zMins/Mids/Maxs/Vals/Errs, etc. to + Python Histo2D and Profile2D. + +2018-08-30 Andy Buckley + + * Update embedded yaml-cpp to v0.6.0. + + * Convert xyzMin/Max properties to functions in the Python interfaces. + + * Return numpy arrays if possible in Python interface array methods. + +2018-08-23 Andy Buckley + + * Release 1.7.2 + + * Add missing bin(i) method to Python Profile1D interface. + +2018-08-22 Andy Buckley + + * Avoid const-overloading clash for binAt functions. + +2018-08-14 Chris Gutschow + + * Merge Graeme Watt's modifications to yodadiff. + +2018-08-14 Andy Buckley + + * Release 1.7.1 + +2018-08-08 Andy Buckley + + * yodadiff now supports quiet (-q) and list (-l) modes. + +2018-06-01 Louie Corpe + + * Point1,2,3D now support multiple error sources for the highest dimension. + + * Scatter1,2,3D now read in/out with additional columns for the extra error + sources, with a variations() method to check with sources are available + +2018-05-02 Andy Buckley + + * StringUtils.h: Replace std::ptr_fun (removed in C++17) with a lambda function. Thanks to Stefan Richter. + +2018-04-30 Andy Buckley + + * Add "-" = stdin/stdout recognition to C++ IO functions. + + * Convert remaining Python read/write methods to use the C++ IO functions. + + * Convert Python read/write methods with filename arguments to use the gzip-aware IO functions. + +2018-04-27 Andy Buckley + + * Fix missing lock=false flag initialisation in Histo2D constructor from a Bins vector. + + * Improve axis locking error messages. + 2017-12-21 Andy Buckley * Version 1.7.0 release 2017-12-11 Andy Buckley * Add Nentries printout to yodals -v 2017-09-18 Andy Buckley * Patches for ROOT conversion from Robert Hatcher -- thanks! 2017-09-16 Andy Buckley * 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. 2017-09-14 Andy Buckley * Enable compressed writing from Python. 2017-09-13 Andy Buckley * Remove UNUSED macro in favour of anonymous args. * Enable zipped writing... but only works from C++ so far. 2017-09-11 Andy Buckley * Add HistoBin2D::area(), and provide a default normto=1.0 argument on the Python Histo2D.normalize() method. 2017-09-04 Andy Buckley * Change license explicitly to GPLv3, cf. MCnet3 agreement. * Parse YODA format AO headers as YAML (restriction to single-line dict entries for now). 2017-08-24 Andy Buckley * 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. 2017-08-19 Andy Buckley * Add optional zlib support via zstr -- massive thanks to Dmitry Kalinkin for the lovely patch! 2017-08-16 Andy Buckley * 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. 2017-07-24 Andy Buckley * 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. 2017-07-23 Andy Buckley * Add parallel/compatibility yoda1 package to aid eventual transition to YODA v2. 2017-07-22 Andy Buckley * 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. 2017-07-18 Andy Buckley * Add convenience aliases H1D, H2D, P1D, P2D, and S1D, S2D, S3D for the HistoXD, ProfileXD, and ScatterXD classes respectively. 2017-07-08 Andy Buckley * Add xyVals/Errs and other 'bin array property' accessors to the Python Histo1D and Profile1D types: important for connection to matplotlib. 2017-06-28 Andy Buckley * Use Python natsort library to sort yodals output if available. 2017-06-18 Andy Buckley * Version 1.6.7 release. 2017-05-12 Andy Buckley * pyext/yoda/rootcompat.pyx: Fix ordering of TH1 vs. TProfile conversion -- TProfile *is* a TH1, so we have to test for the more specific type-match first. Thanks to Dmitry Kalinkin for the patch. 2017-05-02 Andy Buckley * Add static Reader methods to match the Writer ones. 2017-02-23 Andy Buckley * Fix Histo2D and Profile2D total distribution reading from YODA format. 2017-02-19 Holger Schulz * Convert TH1F to TH1D in root2flat. Much simpler than duplicating the TH1D stuff in pyext. 2016-12-13 Andy Buckley * Version 1.6.6 release. 2016-12-12 Holger Schulz * Bugfixes in Cython bins accessors for Histo2D. 2016-11-17 Leif Lonnblad * Fixed warning messages about the obsoleteness of AIDA so that the scripts actually still work. 2016-09-28 Andy Buckley * Version 1.6.5 release, for the benefit of ROOT fans. * Fix handling of --enable/disable-root configure options. 2016-09-26 David Grellscheid * Improvements to Cython version testing. 2016-09-25 Andy Buckley * Version 1.6.4 release. 2016-09-20 David Grellscheid * Remove aliases for @property functions. They were scheduled for removal anyway, and don't work with Cython >= 24. 2016-09-06 Andy Buckley * Update configure scripts to use newer (Py3-safe) Python testing macros. 2016-08-09 Andy Buckley * Version 1.6.3 release! 2016-07-22 Andy Buckley * Add 'add' modes for scatter combination to yodamerge. * Fix yodamerge scatter averaging to use the first AO. 2016-07-21 Andy Buckley * Add --type-mismatch-mode flag and fallback logic to yodamerge. * Fix yodamerge logic to handle cases where an AO only appears once. 2016-07-19 Andy Buckley * Deprecate flat2yoda script and add warning output to it and the AIDA conversion scripts. * Add a convenience yoda2yoda script. 2016-07-14 Andy Buckley * Try to build PyROOT interface by default, if root-config is found. 2016-07-11 Andy Buckley * Remove accidentally remaining reference to Boost flags in yoda-config. 2016-07-06 Andy Buckley * Version 1.6.2 release! 2016-07-05 Andy Buckley * Pass the toNewScatter3D() scalebyarea flag to the called toScatter3D() functions. 2016-06-06 Andy Buckley * Re-enable the disabled-for-some-reason Scatter1D combineWith Python mappings. 2016-04-28 Andy Buckley * Version 1.6.1 release! * Add a unit test for annotation handling correctness. * Fix numerical precision of string storage of floating-point attributes. * Fix a bug in use of the replacement for lexical_cast. 2016-04-20 Andy Buckley * Version 1.6.0 release! 2016-04-16 Andy Buckley * Extend SFINAE craziness to allow writing of any object (e.g. smart pointer) that can be dereferenced to something that has AnalysisObject as its base class... and also to any container of them! Amazing what you can do with C++11! 2016-04-14 Andy Buckley * Add a few consts to the arguments in Scatter error setting via pairs. * Fix double-writing of minus errors in WriterYODA for Scatter1D and Scatter3D. Thanks to Graeme Watt for the report and fix. 2016-04-12 Andy Buckley * Remove Boost dependency and require C++11 compilation. 2016-04-08 Andy Buckley * Add a --guess-prefix flag to yoda-config, cf. fastjet-config. 2015-12-20 Andy Buckley * Change AO uncomputable division and mkScatter operations to return/set NaN rather than 0 -- behaviour change requires new major version series 1.6. 2016-03-09 Andy Buckley * Version 1.5.9! (oh no, we're out of convenient version number space!!) 2016-03-08 Andy Buckley * Add abs function to eq calculation in yodadiff. 2016-02-29 Andy Buckley * Remove blocking of builds against ROOT6 -- it works fine. 2016-02-16 Andy Buckley * Add a --add option to yodamerge, for simple histo stacking. Thanks to Chris Gutschow for the patch, although my spidey sense is tingling... 2015-12-21 Andy Buckley * Version 1.5.8! * Add a rebinning unit test, pytest-rebin. * Add optional range arguments to rebinBy methods, allowing block rebinnings to be applied only within a range of (original) bin indices. * Add missing root.py submodule file. Oops! 2015-12-20 Andy Buckley * Convert linspace to use multiplication rather than repeated addition to construct edge values, reducing precision errors. Thanks to Holger Schulz for the suggestion. 2015-12-15 Andy Buckley * Add xEdges() methods to Axis1D and the Histo1D and Profile1D that use it. The returned edge lists are finite only, i.e. they do not contain the +-inf values on the ends of the internal BinSearcher edges. 2015-12-13 Andy Buckley * Version 1.5.7! * Extend batch-adding in ReaderYODA to include Scatter types. * Add a match_aos function to Python, for filtering AO lists/dicts on path patterns and anti-patterns. 2015-12-12 Andy Buckley * Add a flag to yoda2root to change whether the conversion is to 'proper' types or to (more robustly) TGraphAsymmErrors objects. * Fix accidental use of S2D_MODE flag where S1D_MODE should have been used, in yodamerge. Thanks again to Radek Podskubka. * Allow new rebinTo() merging to restrict to a subset of the bin range, merging the outside bins into the overflow distributions. 2015-12-11 Andy Buckley * Add a rebinTo() method on Axis1D, allowing rebinning to a new given set of bin edges. Add an explicitly named rebinBy(), and overloaded rebin() aliases for both, and pass through to Histo1D and Profile1D APIs. Plus other internal tweaks to binning functionality... anticipating/fuelling the fundamental rewrite. 2015-12-10 Andy Buckley * Improve ReaderYODA to use temporary bin containers, to minimise calling sort when adding bins to histos. A quick test suggests this has sped up big file reading by a factor of 30 or so!!! * Add missing addBins() operators (only in C++ so far) to Histo and Profile classes. * Fix Counter::numEntries to return an unsigned long rather than double. Thanks to Radek Podskubka for the bug discovery and detective work. * Improve sortedvector to insert new elements into the sorted position, rather than resorting the whole vector. This should be a bit more efficient, but I think the asymptotic complexity is the same. Might help a bit with reading big data files. 2015-12-04 Andy Buckley * Add yoda.HAS_ROOT_SUPPORT flag, for API user convenience. 2015-11-22 Andy Buckley * Version 1.5.6! * Make AO path setting and retrieval prepend a leading slash if it is missing (unless the path is completely empty). 2015-11-21 Andy Buckley * Add root2yoda conversion script. * Deprecating yoda.to_root() in favour of yoda.root module, which contains to_root and to_yoda functions, as well as a ROOT file walking function. 2015-11-17 Andy Buckley * Map ROOT-to-YODA (as scatter) functions to Python. Phew. * Map new to-ROOT functions, including TGraph ones, to Python. 2015-11-16 Andy Buckley * ROOTCnv.h: Add toScatter3D ROOT->YODA, and toNew* YODA->ROOT conversion routines. * ROOTCnv.h: Fix bug in toTH2D(const Histo2D& h) as used with ROOT6. Thanks to Tim Martin. 2015-11-05 Andy Buckley * Fix double-dealloc in new Point class hierarchy Python mapping. 2015-10-23 Andy Buckley * Make the version() function inline, and the numerical constants static. * Change the default plotting backend to MPL rather than the much slower PGF. 2015-10-09 Andy Buckley * Reinstate __getitem__ special methods for Scatters in Python. * Provide dim() methods/attributes for the Point and Bin base classes. * Rename set*Err to set*Errs for the asymmetric variants. Plural aliases are also provided for the symm case. 2015-10-08 Andy Buckley * Pass std::pairs by reference in Point*D error setting functions. * Add Point base class with generic accessors to Point*D properties via an integer axis ID argument. 2015-10-07 Andy Buckley * Version 1.5.5 release. * Counter.pyx: Typo fix in sumW mapping. * yodamerge: Re-add checking for non-emptiness before merging, in case the empty ones are missing a ScaledBy attribute. Won't normally apply to Profiles, since they don't usually get normalised, but we might as well include them in the vetoing since empty histos don't contribute to the merging. Added a command-line option to disable this heuristic since in very strange situations a null sumW does not mean no fills. 2015-10-06 Andy Buckley * Version 1.5.4 release. * ReaderYODA: Typo fixes in Counter filling of sumW and Scatter3D reader state flag. * yodamerge: add merging heuristics for Scatter1D and Scatter3D (needs unification) 2015-10-05 Andy Buckley * yodamerge: add a fix for empty-in-all-runs histo merging; thanks to Daniel Rauch. 2015-10-04 Andy Buckley * Adding dim() function and corresponding Python attribute to AnalysisObject. * Map Counter arithmetic operations into Python. * Map Counter mkScatter() into Python (as bound method). * Add a YODA::version() function, mapped into Python and used to set the yoda.__version__ variable. 2015-10-01 Andy Buckley * Expose the yoda.plot() Python function in a way that doesn't automatically induce a dependence on matplotlib. 2015-09-30 Andy Buckley * Fix yodals to work with Counters. 2015-09-23 Andy Buckley * Version 1.5.3 release. * Update Boost version requirement to 1.48, due to use of type_traits/has_dereference, and add a check for that feature's header. 2015-09-19 Andy Buckley * Further improvements to handling leading _multiple_ # marks on YODA format BEGIN lines. 2015-09-11 Andy Buckley * Version 1.5.2 release. * Tolerate leading # symbols without separating whitespace on BEGIN lines in YODA format parsing. * Further improvements to handling LowStatsErrors in YODA format writing. * Fix shadowed variables that made ReaderYODA unhappy. 2015-09-03 Andy Buckley * Version 1.5.1 release. * Fix bugs in Python wrapper for Point3D. 2015-08-28 Peter Richardson * Catch LowStatsError when writing multiple histograms so only the histogram with the problem is not written 2015-08-28 Andy Buckley * Version 1.5.0 release. 2015-08-24 Andy Buckley * Improve protection of efficiency calculation against the weird world of general weighted events. 2015-08-17 Andy Buckley * Add some protection against calling matplotlib's legend() method if there are no valid labels to display, to suppress an MPL warning message when using yoda.plot(). 2015-08-12 Andy Buckley * Fix cut & paste typo, and add LowStatsError catching in Profile division. 2015-08-11 Andy Buckley * Replace old Spirit-based ReaderYODA with the new hand-rolled one. * Adding filling of Histo1D, Profile1D, Histo2D and Profile2D in new ReaderYODA. More hacking of Axis and Histo/Profile interfaces... needs clean-up, and infinite binning implementation. 2015-08-07 Andy Buckley * Convert the ReaderFLAT parser to also use a simple hand-written parser rather than Spirit. 2015-08-04 Andy Buckley * Add methods for Counter, Axis and Histo1D internal state access/setting, mainly for new persistency. NEEDS PRE-RELEASE TESTING!!! 2015-07-30 Andy Buckley * Remove # markers from YODA format BEGIN/END output. The parser will continue to accept them. 2015-07-29 Andy Buckley * Add SFINAE trait magic to restrict write(RANGE) functions to accepting iterables. Also generalising to allow either container-of-objects or container-of-pointers args by providing a writeBody(AO*) function to complement writeBody(AO&). Based on a patch from Lukas Heinrich. * Add configuration of output streams to throw exceptions on bad/fail state (based on patch from Lukas Heinrich). 2015-07-01 Andy Buckley * 1.4.0 release. 2015-06-30 Andy Buckley * More tweaks to yodamerge: adding control of S2D merging strategy, and now performing weighted normalized histo merges without reference to an absolute normalization. * Change yodamerge norm-detection heuristic to just look for a ScaledBy attribute rather than fuzzily compare norms. 2015-06-26 Andy Buckley * Removing add, subtract, and divide functions and operators on Scatter types, and re-implementing Histo and Profile divide functions explicitly rather than via mkScatter. Also removed from the Python interface. The combine() methods remain. 2015-06-24 Andy Buckley * Adding workaround versions of binAt to all the Python histo types (for some reason the direct mapping that works for bin(i) produces a compile error for binAt(x) :-/ 2015-06-23 Andy Buckley * Renaming, tidying, completing, etc. the Python-mapped methods on Bin1D and Bin2D. * Rename Python Histo2D mean, variance, etc. pair-returning methods to xyMean, xyVariance, etc., to distinguish from Profile2D mean, variance, etc. * Add Python mappings of all the methods below. * Add full set of {x,y}{Mean,Variance,StdDev,StdErr,RMS} to 1D and 2D binned distributions. * Add optional includeoverflows=True argument to all binned AO numEntries and effNumEntries. * Fix type of numEntries to always be unsigned long. 2015-06-18 Andy Buckley * Fix typos in Point3D Python mapping (accidentally trying to get the ptr via _Point2D rather than _Point3D). 2015-06-13 Andy Buckley * Adding an AnalysisObject::name() method, to return the last part of the path. Mapped into a Python property. * Adding an optional usestddev argument to mkScatter for profile types, so the error bars can represent distribution width rather than uncertainty on the mean. Mapped to Python. 2015-06-08 Andy Buckley * Adding unpatterns arguments to Python read functions, and auto-conversion from single strings and re.compile()d strs. 2015-06-04 Andy Buckley * Add binAt(x,y) and binIndexAt(iglobal) Python methods for 2D histos. Still want a way to get and pass a pair of bin indices, I think. * Adding includeoverflows optional args for Histo1D (eff)numEntries. * Adding Rename Histo1D integral() methods as integral(), integralRange(), and integralTo(), and mapping to Python. 2015-06-02 Andy Buckley * Adding missing binAt and binIndexAt methods to Histo1D and Profile1D, plus other minor Python mapping tweaks. * Add a regex pattern match optional argument to the IO.read() Python functions, for pre-emptive filtering. 2015-03-27 Andy Buckley * Fix a harmless possibility to raise an FPE exception in the BinSearcher. Thanks to Leif Lonnblad for the discovery, debug and patch! 2015-03-19 Andy Buckley * Bump version for 1.3.1 release. 2015-03-06 Andy Buckley * 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. 2015-02-05 Andy Buckley * Convert script matching options to use re search rather than match. * Adding matching options and verbose option to yodals. 2015-01-27 Andy Buckley * Improvements and additions to ROOTCnv.h routines, particularly to TProfile creation: thanks to Roman Lysak for advice. 2015-01-16 Andy Buckley * Add convenience YODA/YODA.h header. 2015-01-15 Andy Buckley * yodascale now uses PointMatcher and can normalize or multiply to abs values or ref histos/bin ranges. 2015-01-05 Andy Buckley * 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. 2014-12-10 Andy Buckley * Add a yoda.plotting sub-module, based on matplotlib. 2014-12-03 Andy Buckley * Small build improvements: cleaning test1.root from the yoda2root test, and adding a make target & flag file for mktemplates in pyext/yoda to make sure that it only gets run once. 2014-11-25 Andy Buckley * Handle overflow filling in binned types without invoking an exception. * Change inRange to have non-fuzzy comparison behaviour. 2014-11-11 Andy Buckley * Improving/adding __div__ functions in Python for all binned types. * Add std:: prefix to isinf() calls in BinSearcher.h. 2014-09-30 Andy Buckley * 1.3.0 release! * 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! 2014-09-17 Andy Buckley * 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. 2014-09-01 Andy Buckley * YODA 1.2.1 release! 2014-08-29 Andy Buckley * Hide non-const access to bin objects from histogram users: 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. 2014-08-26 Andy Buckley * Add protection against / characters in histo names in yoda2root (thanks to Will Bell for the report and suggested patch). 2014-08-17 Andy Buckley * 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. 2014-08-15 Andy Buckley * YODA 1.2.0 release! * Permit +-inf values to be filled into histograms; NaN fills will still explicitly throw an exception. * Add unit tests for Counter, Scatter1D, and Scatter2D, including persistency. * Adding YODA and FLAT format I/O for Scatter1D and Counter (as far as currently possible -- FLAT Counter can't be read due to a #item ambiguity, just like the one between the YODA format Point3D and ProfileBin1D). To be continued... 2014-08-14 Andy Buckley * Python mappings for Dbn0D and Counter, and other improvements. * Adding val() and err() methods to Counter, and errW() and relErrW() to all DbnXD types. * Adding Scatter1D and Point1D types, with conversion from Counter supported. Both Counter and Scatter1D still need to be supported by YODA persistency. 2014-08-11 Andy Buckley * Add ROOT version checking to configure. Thanks to Michael Grosse for the report/request. 2014-08-05 Andy Buckley * Remove all methods not specific about the axis to which they refer, e.g. Histo1D::mean -> xMean. Also remove all related aliases (a nightmare to maintain) and low/highEdge and midpoint functions: use the proper xMin/Max/Mid from now on. This is a significant compatibility breaking API change (and the decision was not taken lightly) so will require a 2nd digit version change. * Lots of adding xMin/Max etc. functions to C++ and Python bin/histo classes. * Compiler pickiness fixes in BinSearcher. * Improvement to linspace, avoiding fuzzyEquals and again making sure that the end value is exact. 2014-07-23 Andy Buckley * Fix to logspace: make sure that start and end values are exact, not the result of exp(log(x)). * Clean-up, minor improvements, and adding a test for BinSearcher and friends. 2014-07-19 Andy Buckley * Various consistency improvements and minor bugfixes to Python mapping utils and Dbn and Bin objects. * Fix Axis2D::reset, which was resetting the total dbn and outflows, but not the bins!!! Thanks to Ewen Gillies for the report. 2014-07-18 Andy Buckley * Add scaleX,Y,Z and scaleXYZ to Point and Scatter classes, and deprecate less explicit/consistent Scatter2D/3D.scale method. 2014-07-17 Andy Buckley * yodascale now writes out rescaled histograms and profiles rather than scatters. * A few more improvements on Point2D/3D, adding x,y,zMin/Max function mappings. * Add first version of a yodascale script, based on code from Simone Amoroso. 2014-07-16 Andy Buckley * More Scatter and 2D histo interface improvement. * Remove 'return *this' from Scatter2D/3D add and combine methods. * Add unit test checks for 1D and 2D mkScatter functions. * Improve Scatter2D/3D C++ and Python interfaces. * Add Scatter3D Python mapping. 2014-07-15 Andy Buckley * Add auto-parsing of yes/no/on/off/true/false as bools in the Python ao.annotation() function. * Add parsing of yodaplot styles from command line args and analysis object annotations. 2014-07-12 Andy Buckley * Fix infinite recursions in Python wrappers for Point2D and Point3D, and make the Python Point3D interface more standard. * Add yodaplot script for basic plotting, using pgfplots as a backend. 2014-07-10 Andy Buckley * Add mkScatter(Scatter2D) and mkScatter(Scatter3D) functions and Python mappings: this allows all AOs to be used as args to mkScatter(...) without needing to check if they already are scatters. 2014-07-02 Andy Buckley * Set y value and/or error to 0 in mkScatter(Histo1D) if an exception is thrown when calculating the appropriate values. Need an optional param to control this error handling behaviour between set-zero and skip-bin? 2014-07-01 Andy Buckley * Add exception translation to the mkScatter functions. * Add -m/-M match/unmatch options to yodacnv -- useful for filtering histogram file contents in a YODA->YODA conversion. 2014-06-24 Andy Buckley * Don't complain about merge assumptions if there is only one object with that path name to be 'merged' 2014-06-17 Andy Buckley * Adding explicit int cast in Python wrapping of numEntries functions. 2014-06-13 Andy Buckley * Adding yodals script to list data file contents. 2014-06-11 David Grellscheid * pyext/yoda/Makefile.am: 'make distcheck' and out-of-source builds should work now. 2014-06-10 Andy Buckley * Fix use of the install command for bash completion installation on Macs. 2014-06-06 Andy Buckley * YODA 1.1.0 release. Middle version number change to reflect API changes w.r.t 1.0.6. * Adding unit tests against ref data for yodamerge in make check. 2014-06-04 Andy Buckley * Fix silly typos in yodamerge which somehow made it past "make check" testing :-( 2014-06-02 Andy Buckley * YODA 1.0.7 release. DO NOT USE: prefer 1.1.0, above. 2014-05-30 Andy Buckley * 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. 2014-05-30 Holger Schulz * Some basic (FLAT) write-out capability for 2D histos 2014-05-29 Andy Buckley * 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. 2014-05-22 Andy Buckley * 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). 2014-05-19 Andy Buckley * 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. 2014-05-17 Andy Buckley * 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. 2014-05-14 Andy Buckley * Mapping the divide and efficiency functions into the Python interface as class methods, including the __div__ special function. 2014-05-13 Andy Buckley * Add the AnalysisObject::type() method back in Python (even though type(ao) is more Pythonic, this may be useful) 2014-05-06 Andy Buckley * Add Profile2D YODA format writing, note need for Scatter format change, add sumXY storage to both 2D histo types. 2014-05-03 Andy Buckley * Adding YODA reader functionality for Histo2D and Profile2D, but without outflows support yet. 2014-04-25 Andy Buckley * 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. 2014-04-24 Andy Buckley * Fixes, script installation, and detailed numerical comparisons in yodadiff. 2014-04-17 Andy Buckley * Change AnalysisObject::annotations to return the list of annotation keys rather than the map, since the previous behaviour mapped very badly into Python. 2014-04-16 Andy Buckley * 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. 2014-04-15 Andy Buckley * Adding a more portable version of getline to be used in the YODA file parsing to avoid falling over on DOS-produced input files. 2014-04-14 Andy Buckley * Adding the namespace protection workaround for Boost described at http://www.boost.org/doc/libs/1_55_0/doc/html/foreach.html 2014-04-13 Andy Buckley * 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. 2014-03-10 Andy Buckley * YODA 1.0.6 release. 2014-03-06 Andy Buckley * Improvements to AnalysisObject annotation handling in Python. * Adding rescaling arguments to yodamerge (and scale function to Python Scatter2D). * Better documentation and consistency of Histo and Profile Python wrappers, and removing some inappropriate attributes. * Adding clone() and newclone() functions to all analysis object classes. 2014-02-28 Andy Buckley * Cython mapping improvements, esp. adding numPoints/numBins functions and better Scatter2D __repr__. * Adding mapping of the mkScatter functions into Python (as methods on Histo1D and Profile1D rather than the original free functions, at least for now: some Python type-identifying boilerplate is needed to make a single mkScatter function work in Python) 2014-02-27 Leif Lönnblad * Minor modifications to BinSearcher to avoid NaN's. The NaN's were treated correctly before, but better to avoid them all together. 2014-02-27 Andy Buckley * Adding the generated pyext/yoda/rootcompat.cpp to the tarball and sorting out the ROOT/Cython interface conditionals a bit more sanely. Thanks to Oldrich Kepka for the bug report. * Protecting yodamerge against input histograms with zero integrals (thanks to Christian Bierlich for the bug report). 2014-02-14 Frank Siegert * Fix race condition with mktemplates. 2014-02-12 David Grellscheid * Fix bug in mktemplates code (thanks to Christian Johnson for the bug report). 2014-02-09 Andy Buckley * Adding explicit include/generated dir creation to Python extension build (thanks to Christian Johnson for the bug report). 2014-02-06 Andy Buckley * 1.0.5 release! 2014-02-05 Andy Buckley * Adding patches to ReaderFLAT and ReaderYODA use of Boost Spirit which reduce the Boost version requirement from 1.47 -> 1.41. Thanks to Andrii Verbytskyi for the patch. * Protect against invalid prefix value if the --prefix configure option is unused. 2014-02-04 Andy Buckley * Adding copy assignment operators where missing, based on an implementation in AnalysisObject which only copies rvalue paths and titles if they are non-null. 2014-02-03 Andy Buckley * Improving (i.e. increasing) bin edge overlap tolerance: 1e-10 relative was too tight. 2014-01-31 Andy Buckley * Adding x/yMid etc. methods on Bin1D and 2D, and more related Python API improvements. 2014-01-28 Andy Buckley * Adding missing fillBin methods to 1D and 2D Histo/Profile Python classes. * Fixed yodamerge default output file name treatment. * Avoid computing an unrecoverable error in Histo1D.__repr__ * Clean-ups and API improvements in Python IO functions. * Adding more sumW,W2 and (eff)NumEntries attrs to Python objects. 2013-12-17 Andy Buckley * Improved argument handling for x2y scripts. 2013-11-16 Andy Buckley * Fix to build the Cython rootcompt extension .cpp on request. 2013-11-14 Andy Buckley * Adding flags for the C++11 or C++0x standard if supported, cf. Rivet. 2013-10-24 Andy Buckley * YODA 1.0.4 release. * Supporting zsh completion via bash completion compatibility. 2013-10-21 Andy Buckley * Removing unused internal iterator typedefs from Writer functions. 2013-10-18 Andy Buckley * Adding a yodaenv.sh sourceable script to help with environment setup. * Remove Scatters from being handled by yodamerge by blocking the __add__ method fallback. 2013-10-09 Andy Buckley * Improvements to yoda-config and command-line completion, for the Rivet 2.0.0 release. 2013-10-09 Andy Buckley * Version 1.0.3 release. 2013-10-04 Andy Buckley * Cython mapping improvements. * Adding some improved heuristics and a --normalize-all option to yodamerge. Frank S is now happy again ;-) 2013-10-01 Andy Buckley * Adding operator +, -, +=, -= Python mappings wherever possible for Histo1/2D, Profile1/2D, and Scatter2D. 2013-09-26 Andy Buckley * Cython is no longer needed by tarball users. 2013-09-25 Andy Buckley * Unset path of returned histogram if those of the args to add() and subtract() are difference. 2013-09-24 Andy Buckley * Python mapping improvements. 2013-09-23 Andy Buckley * Add the -avoid-version flag to libtool. * Adding more add and subtract special methods in Python. 2013-09-22 Andy Buckley * mkScatter schanged to use histo midpoints rather than focuses by default for the point x value. 2013-08-14 Andy Buckley * Version 1.0.2. * Some exception message improvements and improving the protection of cosmetic mean calculations in WriterYODA. 2013-07-12 Andy Buckley * Adding ROOT detection in configure and otherwise updating Dave's rootcompat module so that it'll compile. There might be an inconvenient ROOT version dependency in the signature of one of the PyROOT API functions that is used as a shim :-( 2013-06-17 Andy Buckley * Adding yoda.m4 from James Robinson. 2013-06-06 Hendrik Hoeth * Improve "==" operator in Axis1D and Axis2D 2013-06-06 Andy Buckley * Adding fillBin() methods to all 1D and 2D histos, and noting that Bin types need a back-link to their axis to maintain consistency. * Release of version 1.0.1 2013-06-05 Andy Buckley * Change the divide(Scatter, Scatter) behaviours to use the midpoint of the num/denom bins rather than mean of foci for the output point position (and hence errors, too). * Adding a toIntegralEfficiencyHisto function. * Adding another Histo1D::integral() function, this time from 0 -> i, maybe including the underflow. 2013-06-04 Andy Buckley * Updating the Cython version requirement to 0.18 2013-06-03 Andy Buckley * Adding relErr functions to 1D and 2D histo and profile bins, and being careful about div by zero. * Improvements in error treatment in division (better handling of zeros). * Renaming merge-histos to yodamerge and installing it (and improving the usage string a bit). 2013-05-31 Andy Buckley * Adding the Counter type, and ability to output it from the YODA writer. * Adding numEntries and effNumEntries methods to 1D and 2D Histo and Profile classes. * Adding Dbn0D and using it to implement Dbn1D. 2013-05-30 Andy Buckley * Fixing several nasty errors in argument ordering for Point{1,2,3}D construction in Scatter addPoint functions. * Adding abs(...) to the returned Dbn1D::variance(), to avoid problems when negative weights produce negative variance. No, we don't like this either: is there a more correct way? * Fixing the efficiency(Histo1D, Histo1D) implementation, cf. http://root.cern.ch/phpBB3/viewtopic.php?t=3753 * Adding mkScatter(Profile2D) 2013-05-29 Hendrik Hoeth * Adding a reader for FLAT files and a flat2yoda converter 2013-05-27 Andy Buckley * Adding a yoda-completion file for bash. 2013-05-17 Andy Buckley * Mapping HistoBin1D.relErr in Python. * Adding a non-const points() accessor to Scatter2D. 2013-05-13 Andy Buckley * Adding combined value+error setX/Y functions on Point2D. * Adding HistoBin1D::relErr() 2013-04-23 Andy Buckley * Adding Python output handling for single AOs and to be able to use a "-" filename to mean stdout. 2013-04-12 Andy Buckley * Releasing version 1.0.0 -- it seems stable enough. 2013-04-10 Andy Buckley * Being more careful about adding -Wno-* flags to the C++ compiler used to built the Cython extension lib. 2013-03-22 Andy Buckley * Removing the use of svn:external to pull in Boost macros and using a minimal local set instead. * Using the nice Boost-finding macros from https://github.com/tsuna/boost.m4 and tidying up configure.ac 2013-03-15 Andy Buckley * Re-organising the C++ side of the auto-format I/O functions, into a new IO header and separated from the Reader.h and Writer.h. I'm tempted to say that users shouldn't really NEED to ever directly touch the Reader and Writer objects... * Adding auto-format read and write functions. I will probably change the API. Python mappings have been provided, but the string workarounds were too much of a pain with Cython 0.16 so I have updated the Cython version requirement to 0.17 where it is automatic and hence much cleaner. 2013-03-08 Andy Buckley * Making the x2y converter scripts write a copy into the *current* directory if only the input is specified. 2013-03-05 Andy Buckley * Removing Plot entirely from YODA: it was an anomaly only added to make plot file generation easy, but this is now done better via StringIO (in new compare-histos/rivet-cmphistos). * Removing the Plot from Cython... and soon from YODA itself: we'll do this stuff manually and less hackily. * Make Cython automatically add a copy of the original call signature to each function's docstring. 2013-03-04 Andy Buckley * Adding Plot mapping to Cython and improving the AO annotations handling in Python. * Adding PLOT section writing to WriterFLAT (and WriterYODA, although that might be a bad idea...) * Adding aida2yoda and aida2flat converter scripts. 2013-02-02 David Mallows * Adding support for Python >= 2.4 (was Python >= 2.6) * Fixing miscellaneous warnings on GCC 4.1 2013-01-30 Andy Buckley * Adding a points() method to the Python Scatter2D wrapper. * Adding a virtual destructor to Bin. 2012-12-30 Andy Buckley * Adding support for Boost.Range arguments and file format autodetection in Writer. 2012-11-24 Andy Buckley * Bump version to 0.6beta0 * Adding more ROOT converters. Who knows how to make TProfiles from scratch, but Histo1D and Scatter2D are covered, which should be enough to get started with, at least. 2012-11-16 Andy Buckley * Adding yoda-config 2012-11-16 Hendrik Hoeth * Adding WriterFLAT and yoda2flat 2012-11-16 Andy Buckley * Adding YODA/ROOTCnv.h. for data object converter functions. Two (untested) functions added for TH1 -> YODA. * Adding toIntegralHisto(Histo1D&) function. 2012-11-15 Dave Mallows * Commited numerous changes to Axis2D. Axis2D now uses BinSearcher as with Axis1D. 2012-11-15 Andy Buckley * Improving division and efficiency treatments, and allowing arbitrary f(x), f(y), and flip transformations on Scatter2D. 2012-11-14 Andy Buckley * Converting linspace, logspace, and their usage to place the nbins argument first. 2012-08-07 Andy Buckley * Removing unused (beyond 2nd order) sumWXYZ counter from Dbn3D. 2012-08-07 Dave Mallows * Converted Axis1D to use new Utils/BinSearcher. 2012-08-02 Dave Mallows * Heavily refactored Cython bindings * HistoBin1D, ProfileBin1D etc. now inherit from Bin1D[DBN] * Temporarily removed Histo2D, Profile2D and Scatter3D mappings. 2012-07-23 Andy Buckley * Installing scripts from bin dir, and making the yoda2aida interface nicer. * Adding Cython mappings for Dbn3D and Profile2D, and other fixes/improvements. 2012-07-22 Andy Buckley * Adding Cython mappings for Scatter3D and ProfileBin2D. * Fixing more crap code legacy from old 2D plot implementation, this time in Scatter3D. 2012-07-19 Andy Buckley * Adding stdErr for Histo2D + Python mapping, and more Cython improvements. * Adding path/title-only AO constructors and making nice Python constructor for Histo2D. * Cython mapping improvements & additions for Point3D + Scatter3D. * Removing mixed symm/asymm constructors on Point*D & Scatter*D classes. 2012-07-12 Andy Buckley * Reintroducing Profile2D and Scatter3D. * Adding axis locking to Axis2D. * Supporting Histo2D in WriterYODA. 2012-07-02 Andy Buckley * More incremental progress toward a working 2D bin hash mechanism. 2012-05-03 Andy Buckley * Adding nice constructor behaviours to the Histo1D and Profile2D Python interfaces, and adding the mkScatter operation for Profile1D. * Adding more default constructors for analysis objects, to allow member variable and STL container use without pointers. 2012-05-02 Andy Buckley * A much simplified and more robust rewrite of the Axis1D class, just using STL map in place of the hand-written bin edge caching. * Improvements (I hope) to the binary search in Axis1D, and providing an experimental default constructor for Histo1D. 2011-12-08 Hendrik Hoeth * ReaderYODA can now parse Histo1D and Profile1D flat files 2011-12-08 Andy Buckley * Adding a Utils::ndarray object and using it to implement a general Scatter system, with generalised Point and Error to boot. 2011-12-07 Hendrik Hoeth * Lots of cleanup 2011-12-07 Andy Buckley * Mapping the Dbn1D and Dbn2D classes into Python. * Adding an outflows() accessor to Histo2D. * Writing out total dbn lines for Histo1D and Profile1D in the YODA format, and now writing out the 'cross-terms' for Profile1D, too. * Properly adding Dbn1D accessors for Histo1D. * Updating the Cython mappings to provide the totalDbn() methods and add a placeholder mapping for Dbn2D. Completed mappings are needed for Dbn{1,2,3}D and the Profile types. * Adding totalDbn() accessors to data types. 2011-12-06 Andy Buckley * Making Histo1D/2D::scaleW() write a ScaledBy annotation. * Adding annotation-fetching methods with a default return value argument to AnalysisObject. * Adding normalize() methods to Histo1D/2D. * Adding weighted RMS calculating methods to Dbn1D, Dbn2D and Bin1D/2D. 2011-09-03 Dave Mallows * Fixed ReaderAIDA: x-value and low y-error interchanged when filling Scatter2D. * Changed to Cython for Python bindings: Swig bindings were in need of serious amounts of work. Cython should provide a means to provide more Pythonic bindings to YODA. A minimal subset of ReaderAIDA, Scatter2D and Point2D have been wrapped. * Modified configure.ac, Makefile.am and pyext/Makefile.am to reflect change to Cython. Added cython.m4 from python-efl (Part of the enlightenment project; LGPL) 2011-08-31 Dave Mallows * Fixed python tests by installing python extension to pyext/build 2011-08-23 Andy Buckley * Adding rebinning interface to Histo1D and Profile1D, and adding a test (and a new test feature for output message formatting) * Adding first implementation of 1D bin merging to Axis1D. 2011-08-22 Andy Buckley * Adding copy constructors and assignment operators to Histo1D, Profile1D, and Scatter2D, and their respective bins/points. * Remove use of sign(weight) in filling sum(w2) -- I think this was an historical attempt based on a scaling axiom which turned out to be inappropriate. * Reworking the Bin1D inheritance and composition design so that all bin types store a single distribution object -- a Dbn1D for histo bins and a Dbn2D for profile bins. 2011-08-18 Andy Buckley * Removing the Profile1D -> ProfileBin1D friendship. This is very heartening -- the fewer friend declarations we need, the more indication that the class structure is not pathological! (Or that we've just made everything public... but we haven't) 2011-08-15 Andy Buckley * Inlining all functions in HistoBin1D, ProfileBin1D, and HistoBin2D. * Converting Dbn2D to be composed of two Dbn1Ds and a cross-term. Also tidying the interfaces of the 2D classes and the scaleX/Y methods throughout, and adding Doxygen comments. 2011-08-12 Andy Buckley * Adding proper Doxygen structures and full descriptive comments to Dbn2D. * Adding the persistency state-setting constructors for Profile1D and Dbn2D. * Inlining lots of methods on Dbn1D. Same should be done for Dbn2D, but first it needs to be reimplemented in terms of two Dbn1Ds + the cross-term. 2011-08-11 Andy Buckley * Various typo fixes and comments relating to persistency constructors, Histo2D slicing, etc. * Changing the HistoBin1D state-setting constructors (aargh, these should *not* have already existed) to take Dbn1D as an argument rather than a long list of doubles. 2011-08-01 Andy Buckley * Adding tests to check that implicit construction of Weights objects from literal doubles and ints works. 2011-07-28 Andy Buckley * Bumping version number to 0.4.0beta0 -- there have been substantial changes recently and YODA is now in a state where it should be interesting for outsiders to start playing with it. * Templating the Axis1D on the distribution type to be used for total and under/overflow statistics: Profile1D now has Dbn2D objects handling its total and overflow statistics. 2011-07-26 Andy Buckley * Added a Histo1D::integral(index1, index2) method. Not sure how or if to extend this to Profile1D. * Implementing incomplete Scatter2D operator+ and operator- functions. 2011-07-25 Andy Buckley * Adding a Weights class, designed to seamlessly replace double-type weights and weighted moments with a named and vectorised form. 2011-07-19 Andy Buckley * Add Profile1D and Scatter2D division operators. * Add xMin/xMax synonyms to the Axis1D, cf. the bins. 2011-07-18 Andy Buckley * Add a first stab at a Histo1D/Histo1D division operator. 2011-07-10 Andy Buckley * Add construction of Histo1Ds from Profile1D and Histo1D, and construction of Profile1Ds from those and Scatter2D. 2011-07-07 Andy Buckley * Add construction of a Histo1D from Scatter2D. 2011-06-15 Andy Buckley * Making the AIDA reader work, including reading of annotations and a few tweaks to the simple type persistency system. Test histo 1b updated. 2011-06-12 Andy Buckley * Removing Histo1D::area * Filling and using under/overflow and total db on Histo1D, and adding boolean arg to integral, sumW, etc. * Fixing for C++ change in behaviour of std::make_pair * Adding addAnnotation, and mapping annotations to Python. 2011-02-22 Andy Buckley * Use distutils rather than setuptools for the Python interface build. * Renaming Bin, HistoBin and ProfileBin to be Bin1D, HistoBin1D, ProfileBin1D. Bin is now a top-level abstract class with minimal functionality to be shared between 1D and 2D bins. 2011-01-12 Andy Buckley * Type annotations in mkScatter * Added many vector constructors and addPoint functions to Scatter2D. 2011-01-11 Andy Buckley * Add lexical_cast support to annotation get and set functions. * Write out annotations in AIDA format, and copy annotations in mkScatter -- using a new AnalysisObject::setAnnotations method. * Convert DPS output to use interim Scatter construction * Make (unused) yoda.plot subpackage. * Write out annotations in YODA format. * Make Scatter2D representations of Histo1D and Profile1D. * Write out Scatter2D objects in AIDA and YODA formats. * Make Scatter2D and Point2D work. Add a few extra methods... evolution and tweaking required. 2011-01-10 Andy Buckley * Add Boost checks and header includes. Not used yet. * Hide Utils:: content from Doxygen and nvector -> Utils::nvector. * Removing unused YAML stuff: we aren't going that way for persistency anymore. * Renaming Axis -> Axis1D * Removing dead-end templated Scatter stuff. * Move (generated) config files into the Config subdir. * Move sortedvector and indexedset into the Utils dir. * Move the "utils" directory and namespace to "Utils" * Put the Doxyfile under configure control by moving it to Doxyfile.in and using the @PACKAGE_VERSION@ token. * Make Doxygen find the .icc file and hide functions with name _* and in the YAML namespace. * Removing the Binning argument and enum in favour of explicit bin edge vectors, possibly produced explicitly via the MathUtils linspace and logspace functions, or the new Axis::mkBinEdgesLin/Log alias functions. * Fixed Axis, Histo1D and Profile1D constructors, by adding a path argument, passing the path and title args to the AnalysisObject base constructor properly. * Removed several old and unused files such as Tree.h 2011-01-09 Andy Buckley * Updating copyright comments to be valid into 2011. * Persistency fixes, and changing the interface to use the annotated path. * Using annotations for path and title. * Adding tests of collection and iterator range AO writing. * Adding static write functions on Writer*.h implementations to avoid needing to make an explicit Writer object via the create() functions. * Rename Exception.h -> Exceptions.h * Added AnnotationError. * Re-enable persistency of collections with begin/end iterators. 2011-01-08 Andy Buckley * Enabling quiet compilation. * More annotation functionality. 2011-01-07 Andy Buckley * Sorting out autoheaders to be more useful. * Rewriting AIDA writer to use DPS representation (no reloading) for Histo1D and Profile1D objects. * Adding persistency system hooks, since RTTI just sucks too much. * Renaming test files to have more meaningful names. 2010-12-10 Andy Buckley * Some tweaks to Axis, Bin, etc. to use the sortedvector. Seems to be working! (I must be checking it wrongly...) * Adding another candidate object for the axis bin container: a sorted extension to STL std::vector with an insert method. This will do as a development placeholder: a proper sorted & indexed container may be substituted later. * Fix test code: titles are no longer given as histogram constructor arguments. 2010-11-21 Andy Buckley * Adding indexed set for holding bins on axes. Still not sure it's what we want, as (I just realised) STL sets are iterator-immutable because they are self-keyed and changes to elements would also change their sorting. 2010-09-19 Andy Buckley * Restarting ChangeLog contributions! Many changes in the huge time since last update... activity on YODA has renewed and we have a better picture of the distinctive features we require. New idea: named weight vector filling, allowing "parallel" histograms for various event weight variations. I/O remains an awkward issue, especially since the classes are now much richer than they used to be, and don't know about paths. Output can be easily put on top: not an issue... and we can probably do something with pickling. But reading in from C++? 2008-09-16 Andy Buckley * Moved duplicate Histo1D/Profile1D code on to Axis, making Axis a templated class at the same time. 2008-09-12 Andy Buckley * Started work on a little plotting tool, initially for Herwig++ parton pT cut testing, but incrementally enhancing it to be a command-line quick plotter seems like a good idea. * Added some more test programs... working towards a proper test suite. * Added "no path & title" constructors - you don't always want to write out the histo, since sometimes it's just a good way to gather statistics. * Fixed YODA mapping to allow use of vectors of bins as Python lists. * Added Profile1D functionality. * Fixed Dbn1D to use sign(weight) as part of the "w**2" measure, so that negative weights behave themselves. 2008-05-23 Andy Buckley * Added Dbn1D class to centralise the calculation of statistics from unbounded, unbinned, weighted distributions. 2008-05-15 Andy Buckley * Added Profile1D class. * Fixed NaN errors from zero weights. 2008-04-14 Andy Buckley * Python SWIG interface now compiles and can be used: the subtlety that was breaking it was that SWIG has to be prodded in pretty non-obvious ways to make std::vectors of classes without default (no-arg) constructors. See http://osdir.com/ml/programming.swig/2004-04/msg00011.html for about the only reference to this to be found anywhere! * Basic AIDA writer now available - it doesn't yet output all the necessary information though, especially not for merging parallel runs. diff --git a/Doxyfile.in b/Doxyfile.in --- a/Doxyfile.in +++ b/Doxyfile.in @@ -1,2312 +1,2312 @@ # Doxyfile 1.8.6 # This file describes the settings to be used by the documentation system # doxygen (www.doxygen.org) for a project. # # All text after a double hash (##) is considered a comment and is placed in # front of the TAG it is preceding. # # All text after a single hash (#) is considered a comment and will be ignored. # The format is: # TAG = value [value, ...] # For lists, items can also be appended using: # TAG += value [value, ...] # Values that contain spaces should be placed between quotes (\" \"). #--------------------------------------------------------------------------- # Project related configuration options #--------------------------------------------------------------------------- # This tag specifies the encoding used for all characters in the config file # that follow. The default is UTF-8 which is also the encoding used for all text # before the first occurrence of this tag. Doxygen uses libiconv (or the iconv # built into libc) for the transcoding. See http://www.gnu.org/software/libiconv # for the list of possible encodings. # The default value is: UTF-8. DOXYFILE_ENCODING = UTF-8 # The PROJECT_NAME tag is a single word (or a sequence of words surrounded by # double-quotes, unless you are using Doxywizard) that should identify the # project for which the documentation is generated. This name is used in the # title of most generated pages and in a few other places. # The default value is: My Project. PROJECT_NAME = "YODA - Yet more Objects for Data Analysis" # The PROJECT_NUMBER tag can be used to enter a project or revision number. This # could be handy for archiving the generated documentation or if some version # control system is used. PROJECT_NUMBER = @PACKAGE_VERSION@ # Using the PROJECT_BRIEF tag one can provide an optional one line description # for a project that appears at the top of each page and should give viewer a # quick idea about the purpose of the project. Keep the description short. PROJECT_BRIEF = # With the PROJECT_LOGO tag one can specify an logo or icon that is included in # the documentation. The maximum height of the logo should not exceed 55 pixels # and the maximum width should not exceed 200 pixels. Doxygen will copy the logo # to the output directory. PROJECT_LOGO = # The OUTPUT_DIRECTORY tag is used to specify the (relative or absolute) path # into which the generated documentation will be written. If a relative path is # entered, it will be relative to the location where doxygen was started. If # left blank the current directory will be used. OUTPUT_DIRECTORY = doxy # If the CREATE_SUBDIRS tag is set to YES, then doxygen will create 4096 sub- # directories (in 2 levels) under the output directory of each output format and # will distribute the generated files over these directories. Enabling this # option can be useful when feeding doxygen a huge amount of source files, where # putting all generated files in the same directory would otherwise causes # performance problems for the file system. # The default value is: NO. CREATE_SUBDIRS = NO # The OUTPUT_LANGUAGE tag is used to specify the language in which all # documentation generated by doxygen is written. Doxygen will use this # information to generate all constant output in the proper language. # Possible values are: Afrikaans, Arabic, Armenian, Brazilian, Catalan, Chinese, # Chinese-Traditional, Croatian, Czech, Danish, Dutch, English (United States), # Esperanto, Farsi (Persian), Finnish, French, German, Greek, Hungarian, # Indonesian, Italian, Japanese, Japanese-en (Japanese with English messages), # Korean, Korean-en (Korean with English messages), Latvian, Lithuanian, # Macedonian, Norwegian, Persian (Farsi), Polish, Portuguese, Romanian, Russian, # Serbian, Serbian-Cyrillic, Slovak, Slovene, Spanish, Swedish, Turkish, # Ukrainian and Vietnamese. # The default value is: English. OUTPUT_LANGUAGE = English # If the BRIEF_MEMBER_DESC tag is set to YES doxygen will include brief member # descriptions after the members that are listed in the file and class # documentation (similar to Javadoc). Set to NO to disable this. # The default value is: YES. BRIEF_MEMBER_DESC = YES # If the REPEAT_BRIEF tag is set to YES doxygen will prepend the brief # description of a member or function before the detailed description # # Note: If both HIDE_UNDOC_MEMBERS and BRIEF_MEMBER_DESC are set to NO, the # brief descriptions will be completely suppressed. # The default value is: YES. REPEAT_BRIEF = YES # This tag implements a quasi-intelligent brief description abbreviator that is # used to form the text in various listings. Each string in this list, if found # as the leading text of the brief description, will be stripped from the text # and the result, after processing the whole list, is used as the annotated # text. Otherwise, the brief description is used as-is. If left blank, the # following values are used ($name is automatically replaced with the name of # the entity):The $name class, The $name widget, The $name file, is, provides, # specifies, contains, represents, a, an and the. ABBREVIATE_BRIEF = # If the ALWAYS_DETAILED_SEC and REPEAT_BRIEF tags are both set to YES then # doxygen will generate a detailed section even if there is only a brief # description. # The default value is: NO. ALWAYS_DETAILED_SEC = NO # If the INLINE_INHERITED_MEMB tag is set to YES, doxygen will show all # inherited members of a class in the documentation of that class as if those # members were ordinary class members. Constructors, destructors and assignment # operators of the base classes will not be shown. # The default value is: NO. INLINE_INHERITED_MEMB = NO # If the FULL_PATH_NAMES tag is set to YES doxygen will prepend the full path # before files name in the file list and in the header files. If set to NO the # shortest path that makes the file name unique will be used # The default value is: YES. FULL_PATH_NAMES = YES # The STRIP_FROM_PATH tag can be used to strip a user-defined part of the path. # Stripping is only done if one of the specified strings matches the left-hand # part of the path. The tag can be used to show relative paths in the file list. # If left blank the directory from which doxygen is run is used as the path to # strip. # # Note that you can specify absolute paths here, but also relative paths, which # will be relative from the directory where doxygen is started. # This tag requires that the tag FULL_PATH_NAMES is set to YES. STRIP_FROM_PATH = # The STRIP_FROM_INC_PATH tag can be used to strip a user-defined part of the # path mentioned in the documentation of a class, which tells the reader which # header file to include in order to use a class. If left blank only the name of # the header file containing the class definition is used. Otherwise one should # specify the list of include paths that are normally passed to the compiler # using the -I flag. STRIP_FROM_INC_PATH = # If the SHORT_NAMES tag is set to YES, doxygen will generate much shorter (but # less readable) file names. This can be useful is your file systems doesn't # support long names like on DOS, Mac, or CD-ROM. # The default value is: NO. SHORT_NAMES = NO # If the JAVADOC_AUTOBRIEF tag is set to YES then doxygen will interpret the # first line (until the first dot) of a Javadoc-style comment as the brief # description. If set to NO, the Javadoc-style will behave just like regular Qt- # style comments (thus requiring an explicit @brief command for a brief # description.) # The default value is: NO. JAVADOC_AUTOBRIEF = NO # If the QT_AUTOBRIEF tag is set to YES then doxygen will interpret the first # line (until the first dot) of a Qt-style comment as the brief description. If # set to NO, the Qt-style will behave just like regular Qt-style comments (thus # requiring an explicit \brief command for a brief description.) # The default value is: NO. QT_AUTOBRIEF = NO # The MULTILINE_CPP_IS_BRIEF tag can be set to YES to make doxygen treat a # multi-line C++ special comment block (i.e. a block of //! or /// comments) as # a brief description. This used to be the default behavior. The new default is # to treat a multi-line C++ comment block as a detailed description. Set this # tag to YES if you prefer the old behavior instead. # # Note that setting this tag to YES also means that rational rose comments are # not recognized any more. # The default value is: NO. MULTILINE_CPP_IS_BRIEF = NO # If the INHERIT_DOCS tag is set to YES then an undocumented member inherits the # documentation from any documented member that it re-implements. # The default value is: YES. INHERIT_DOCS = YES # If the SEPARATE_MEMBER_PAGES tag is set to YES, then doxygen will produce a # new page for each member. If set to NO, the documentation of a member will be # part of the file/class/namespace that contains it. # The default value is: NO. SEPARATE_MEMBER_PAGES = NO # The TAB_SIZE tag can be used to set the number of spaces in a tab. Doxygen # uses this value to replace tabs by spaces in code fragments. # Minimum value: 1, maximum value: 16, default value: 4. TAB_SIZE = 8 # This tag can be used to specify a number of aliases that act as commands in # the documentation. An alias has the form: # name=value # For example adding # "sideeffect=@par Side Effects:\n" # will allow you to put the command \sideeffect (or @sideeffect) in the # documentation, which will result in a user-defined paragraph with heading # "Side Effects:". You can put \n's in the value part of an alias to insert # newlines. ALIASES = # This tag can be used to specify a number of word-keyword mappings (TCL only). # A mapping has the form "name=value". For example adding "class=itcl::class" # will allow you to use the command class in the itcl::class meaning. TCL_SUBST = # Set the OPTIMIZE_OUTPUT_FOR_C tag to YES if your project consists of C sources # only. Doxygen will then generate output that is more tailored for C. For # instance, some of the names that are used will be different. The list of all # members will be omitted, etc. # The default value is: NO. OPTIMIZE_OUTPUT_FOR_C = NO # Set the OPTIMIZE_OUTPUT_JAVA tag to YES if your project consists of Java or # Python sources only. Doxygen will then generate output that is more tailored # for that language. For instance, namespaces will be presented as packages, # qualified scopes will look different, etc. # The default value is: NO. OPTIMIZE_OUTPUT_JAVA = NO # Set the OPTIMIZE_FOR_FORTRAN tag to YES if your project consists of Fortran # sources. Doxygen will then generate output that is tailored for Fortran. # The default value is: NO. OPTIMIZE_FOR_FORTRAN = NO # Set the OPTIMIZE_OUTPUT_VHDL tag to YES if your project consists of VHDL # sources. Doxygen will then generate output that is tailored for VHDL. # The default value is: NO. OPTIMIZE_OUTPUT_VHDL = NO # Doxygen selects the parser to use depending on the extension of the files it # parses. With this tag you can assign which parser to use for a given # extension. Doxygen has a built-in mapping, but you can override or extend it # using this tag. The format is ext=language, where ext is a file extension, and # language is one of the parsers supported by doxygen: IDL, Java, Javascript, # C#, C, C++, D, PHP, Objective-C, Python, Fortran, VHDL. For instance to make # doxygen treat .inc files as Fortran files (default is PHP), and .f files as C # (default is Fortran), use: inc=Fortran f=C. # # Note For files without extension you can use no_extension as a placeholder. # # Note that for custom extensions you also need to set FILE_PATTERNS otherwise # the files are not read by doxygen. EXTENSION_MAPPING = # If the MARKDOWN_SUPPORT tag is enabled then doxygen pre-processes all comments # according to the Markdown format, which allows for more readable # documentation. See http://daringfireball.net/projects/markdown/ for details. # The output of markdown processing is further processed by doxygen, so you can # mix doxygen, HTML, and XML commands with Markdown formatting. Disable only in # case of backward compatibilities issues. # The default value is: YES. MARKDOWN_SUPPORT = YES # When enabled doxygen tries to link words that correspond to documented # classes, or namespaces to their corresponding documentation. Such a link can # be prevented in individual cases by by putting a % sign in front of the word # or globally by setting AUTOLINK_SUPPORT to NO. # The default value is: YES. AUTOLINK_SUPPORT = YES # If you use STL classes (i.e. std::string, std::vector, etc.) but do not want # to include (a tag file for) the STL sources as input, then you should set this # tag to YES in order to let doxygen match functions declarations and # definitions whose arguments contain STL classes (e.g. func(std::string); # versus func(std::string) {}). This also make the inheritance and collaboration # diagrams that involve STL classes more complete and accurate. # The default value is: NO. BUILTIN_STL_SUPPORT = YES # If you use Microsoft's C++/CLI language, you should set this option to YES to # enable parsing support. # The default value is: NO. CPP_CLI_SUPPORT = NO # Set the SIP_SUPPORT tag to YES if your project consists of sip (see: # http://www.riverbankcomputing.co.uk/software/sip/intro) sources only. Doxygen # will parse them like normal C++ but will assume all classes use public instead # of private inheritance when no explicit protection keyword is present. # The default value is: NO. SIP_SUPPORT = NO # For Microsoft's IDL there are propget and propput attributes to indicate # getter and setter methods for a property. Setting this option to YES will make # doxygen to replace the get and set methods by a property in the documentation. # This will only work if the methods are indeed getting or setting a simple # type. If this is not the case, or you want to show the methods anyway, you # should set this option to NO. # The default value is: YES. IDL_PROPERTY_SUPPORT = YES # If member grouping is used in the documentation and the DISTRIBUTE_GROUP_DOC # tag is set to YES, then doxygen will reuse the documentation of the first # member in the group (if any) for the other members of the group. By default # all members of a group must be documented explicitly. # The default value is: NO. DISTRIBUTE_GROUP_DOC = NO # Set the SUBGROUPING tag to YES to allow class member groups of the same type # (for instance a group of public functions) to be put as a subgroup of that # type (e.g. under the Public Functions section). Set it to NO to prevent # subgrouping. Alternatively, this can be done per class using the # \nosubgrouping command. # The default value is: YES. SUBGROUPING = YES # When the INLINE_GROUPED_CLASSES tag is set to YES, classes, structs and unions # are shown inside the group in which they are included (e.g. using \ingroup) # instead of on a separate page (for HTML and Man pages) or section (for LaTeX # and RTF). # # Note that this feature does not work in combination with # SEPARATE_MEMBER_PAGES. # The default value is: NO. INLINE_GROUPED_CLASSES = NO # When the INLINE_SIMPLE_STRUCTS tag is set to YES, structs, classes, and unions # with only public data fields or simple typedef fields will be shown inline in # the documentation of the scope in which they are defined (i.e. file, # namespace, or group documentation), provided this scope is documented. If set # to NO, structs, classes, and unions are shown on a separate page (for HTML and # Man pages) or section (for LaTeX and RTF). # The default value is: NO. INLINE_SIMPLE_STRUCTS = NO # When TYPEDEF_HIDES_STRUCT tag is enabled, a typedef of a struct, union, or # enum is documented as struct, union, or enum with the name of the typedef. So # typedef struct TypeS {} TypeT, will appear in the documentation as a struct # with name TypeT. When disabled the typedef will appear as a member of a file, # namespace, or class. And the struct will be named TypeS. 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SORT_MEMBERS_CTORS_1ST = NO # If the SORT_GROUP_NAMES tag is set to YES then doxygen will sort the hierarchy # of group names into alphabetical order. If set to NO the group names will # appear in their defined order. # The default value is: NO. SORT_GROUP_NAMES = NO # If the SORT_BY_SCOPE_NAME tag is set to YES, the class list will be sorted by # fully-qualified names, including namespaces. If set to NO, the class list will # be sorted only by class name, not including the namespace part. # Note: This option is not very useful if HIDE_SCOPE_NAMES is set to YES. # Note: This option applies only to the class list, not to the alphabetical # list. # The default value is: NO. SORT_BY_SCOPE_NAME = NO # If the STRICT_PROTO_MATCHING option is enabled and doxygen fails to do proper # type resolution of all parameters of a function it will reject a match between # the prototype and the implementation of a member function even if there is # only one candidate or it is obvious which candidate to choose by doing a # simple string match. By disabling STRICT_PROTO_MATCHING doxygen will still # accept a match between prototype and implementation in such cases. # The default value is: NO. STRICT_PROTO_MATCHING = NO # The GENERATE_TODOLIST tag can be used to enable ( YES) or disable ( NO) the # todo list. This list is created by putting \todo commands in the # documentation. # The default value is: YES. GENERATE_TODOLIST = YES # The GENERATE_TESTLIST tag can be used to enable ( YES) or disable ( NO) the # test list. This list is created by putting \test commands in the # documentation. # The default value is: YES. GENERATE_TESTLIST = YES # The GENERATE_BUGLIST tag can be used to enable ( YES) or disable ( NO) the bug # list. This list is created by putting \bug commands in the documentation. # The default value is: YES. GENERATE_BUGLIST = YES # The GENERATE_DEPRECATEDLIST tag can be used to enable ( YES) or disable ( NO) # the deprecated list. This list is created by putting \deprecated commands in # the documentation. # The default value is: YES. GENERATE_DEPRECATEDLIST= YES # The ENABLED_SECTIONS tag can be used to enable conditional documentation # sections, marked by \if ... \endif and \cond # ... \endcond blocks. ENABLED_SECTIONS = # The MAX_INITIALIZER_LINES tag determines the maximum number of lines that the # initial value of a variable or macro / define can have for it to appear in the # documentation. If the initializer consists of more lines than specified here # it will be hidden. Use a value of 0 to hide initializers completely. The # appearance of the value of individual variables and macros / defines can be # controlled using \showinitializer or \hideinitializer command in the # documentation regardless of this setting. # Minimum value: 0, maximum value: 10000, default value: 30. MAX_INITIALIZER_LINES = 30 # Set the SHOW_USED_FILES tag to NO to disable the list of files generated at # the bottom of the documentation of classes and structs. If set to YES the list # will mention the files that were used to generate the documentation. # The default value is: YES. SHOW_USED_FILES = YES # Set the SHOW_FILES tag to NO to disable the generation of the Files page. This # will remove the Files entry from the Quick Index and from the Folder Tree View # (if specified). # The default value is: YES. SHOW_FILES = YES # Set the SHOW_NAMESPACES tag to NO to disable the generation of the Namespaces # page. This will remove the Namespaces entry from the Quick Index and from the # Folder Tree View (if specified). # The default value is: YES. SHOW_NAMESPACES = YES # The FILE_VERSION_FILTER tag can be used to specify a program or script that # doxygen should invoke to get the current version for each file (typically from # the version control system). Doxygen will invoke the program by executing (via # popen()) the command command input-file, where command is the value of the # FILE_VERSION_FILTER tag, and input-file is the name of an input file provided # by doxygen. Whatever the program writes to standard output is used as the file # version. For an example see the documentation. FILE_VERSION_FILTER = # The LAYOUT_FILE tag can be used to specify a layout file which will be parsed # by doxygen. The layout file controls the global structure of the generated # output files in an output format independent way. To create the layout file # that represents doxygen's defaults, run doxygen with the -l option. You can # optionally specify a file name after the option, if omitted DoxygenLayout.xml # will be used as the name of the layout file. # # Note that if you run doxygen from a directory containing a file called # DoxygenLayout.xml, doxygen will parse it automatically even if the LAYOUT_FILE # tag is left empty. LAYOUT_FILE = # The CITE_BIB_FILES tag can be used to specify one or more bib files containing # the reference definitions. This must be a list of .bib files. The .bib # extension is automatically appended if omitted. This requires the bibtex tool # to be installed. See also http://en.wikipedia.org/wiki/BibTeX for more info. # For LaTeX the style of the bibliography can be controlled using # LATEX_BIB_STYLE. To use this feature you need bibtex and perl available in the # search path. Do not use file names with spaces, bibtex cannot handle them. See # also \cite for info how to create references. CITE_BIB_FILES = #--------------------------------------------------------------------------- # Configuration options related to warning and progress messages #--------------------------------------------------------------------------- # The QUIET tag can be used to turn on/off the messages that are generated to # standard output by doxygen. If QUIET is set to YES this implies that the # messages are off. # The default value is: NO. QUIET = YES # The WARNINGS tag can be used to turn on/off the warning messages that are # generated to standard error ( stderr) by doxygen. If WARNINGS is set to YES # this implies that the warnings are on. # # Tip: Turn warnings on while writing the documentation. # The default value is: YES. WARNINGS = YES # If the WARN_IF_UNDOCUMENTED tag is set to YES, then doxygen will generate # warnings for undocumented members. If EXTRACT_ALL is set to YES then this flag # will automatically be disabled. # The default value is: YES. WARN_IF_UNDOCUMENTED = YES # If the WARN_IF_DOC_ERROR tag is set to YES, doxygen will generate warnings for # potential errors in the documentation, such as not documenting some parameters # in a documented function, or documenting parameters that don't exist or using # markup commands wrongly. # The default value is: YES. WARN_IF_DOC_ERROR = YES # This WARN_NO_PARAMDOC option can be enabled to get warnings for functions that # are documented, but have no documentation for their parameters or return # value. If set to NO doxygen will only warn about wrong or incomplete parameter # documentation, but not about the absence of documentation. # The default value is: NO. WARN_NO_PARAMDOC = NO # The WARN_FORMAT tag determines the format of the warning messages that doxygen # can produce. The string should contain the $file, $line, and $text tags, which # will be replaced by the file and line number from which the warning originated # and the warning text. Optionally the format may contain $version, which will # be replaced by the version of the file (if it could be obtained via # FILE_VERSION_FILTER) # The default value is: $file:$line: $text. WARN_FORMAT = "$file:$line: $text" # The WARN_LOGFILE tag can be used to specify a file to which warning and error # messages should be written. If left blank the output is written to standard # error (stderr). WARN_LOGFILE = #--------------------------------------------------------------------------- # Configuration options related to the input files #--------------------------------------------------------------------------- # The INPUT tag is used to specify the files and/or directories that contain # documented source files. You may enter file names like myfile.cpp or # directories like /usr/src/myproject. Separate the files or directories with # spaces. # Note: If this tag is empty the current directory is searched. INPUT = main.dox \ include \ src # This tag can be used to specify the character encoding of the source files # that doxygen parses. Internally doxygen uses the UTF-8 encoding. Doxygen uses # libiconv (or the iconv built into libc) for the transcoding. See the libiconv # documentation (see: http://www.gnu.org/software/libiconv) for the list of # possible encodings. # The default value is: UTF-8. INPUT_ENCODING = UTF-8 # If the value of the INPUT tag contains directories, you can use the # FILE_PATTERNS tag to specify one or more wildcard patterns (like *.cpp and # *.h) to filter out the source-files in the directories. If left blank the # following patterns are tested:*.c, *.cc, *.cxx, *.cpp, *.c++, *.java, *.ii, # *.ixx, *.ipp, *.i++, *.inl, *.idl, *.ddl, *.odl, *.h, *.hh, *.hxx, *.hpp, # *.h++, *.cs, *.d, *.php, *.php4, *.php5, *.phtml, *.inc, *.m, *.markdown, # *.md, *.mm, *.dox, *.py, *.f90, *.f, *.for, *.tcl, *.vhd, *.vhdl, *.ucf, # *.qsf, *.as and *.js. FILE_PATTERNS = *.h \ *.cc \ *.icc # The RECURSIVE tag can be used to specify whether or not subdirectories should # be searched for input files as well. # The default value is: NO. RECURSIVE = YES # The EXCLUDE tag can be used to specify files and/or directories that should be # excluded from the INPUT source files. This way you can easily exclude a # subdirectory from a directory tree whose root is specified with the INPUT tag. # # Note that relative paths are relative to the directory from which doxygen is # run. EXCLUDE = src/tinyxml \ src/ReaderYODA.cc \ src/ReaderFLAT.cc # The EXCLUDE_SYMLINKS tag can be used to select whether or not files or # directories that are symbolic links (a Unix file system feature) are excluded # from the input. # The default value is: NO. EXCLUDE_SYMLINKS = NO # If the value of the INPUT tag contains directories, you can use the # EXCLUDE_PATTERNS tag to specify one or more wildcard patterns to exclude # certain files from those directories. # # Note that the wildcards are matched against the file with absolute path, so to # exclude all test directories for example use the pattern */test/* EXCLUDE_PATTERNS = # The EXCLUDE_SYMBOLS tag can be used to specify one or more symbol names # (namespaces, classes, functions, etc.) that should be excluded from the # output. The symbol name can be a fully qualified name, a word, or if the # wildcard * is used, a substring. Examples: ANamespace, AClass, # AClass::ANamespace, ANamespace::*Test # # Note that the wildcards are matched against the file with absolute path, so to # exclude all test directories use the pattern */test/* EXCLUDE_SYMBOLS = _* \ YAML \ YODA::Utils # The EXAMPLE_PATH tag can be used to specify one or more files or directories # that contain example code fragments that are included (see the \include # command). EXAMPLE_PATH = tests # If the value of the EXAMPLE_PATH tag contains directories, you can use the # EXAMPLE_PATTERNS tag to specify one or more wildcard pattern (like *.cpp and # *.h) to filter out the source-files in the directories. If left blank all # files are included. EXAMPLE_PATTERNS = # If the EXAMPLE_RECURSIVE tag is set to YES then subdirectories will be # searched for input files to be used with the \include or \dontinclude commands # irrespective of the value of the RECURSIVE tag. # The default value is: NO. EXAMPLE_RECURSIVE = NO # The IMAGE_PATH tag can be used to specify one or more files or directories # that contain images that are to be included in the documentation (see the # \image command). IMAGE_PATH = # The INPUT_FILTER tag can be used to specify a program that doxygen should # invoke to filter for each input file. Doxygen will invoke the filter program # by executing (via popen()) the command: # # # # where is the value of the INPUT_FILTER tag, and is the # name of an input file. Doxygen will then use the output that the filter # program writes to standard output. If FILTER_PATTERNS is specified, this tag # will be ignored. # # Note that the filter must not add or remove lines; it is applied before the # code is scanned, but not when the output code is generated. If lines are added # or removed, the anchors will not be placed correctly. INPUT_FILTER = # The FILTER_PATTERNS tag can be used to specify filters on a per file pattern # basis. Doxygen will compare the file name with each pattern and apply the # filter if there is a match. The filters are a list of the form: pattern=filter # (like *.cpp=my_cpp_filter). See INPUT_FILTER for further information on how # filters are used. If the FILTER_PATTERNS tag is empty or if none of the # patterns match the file name, INPUT_FILTER is applied. FILTER_PATTERNS = # If the FILTER_SOURCE_FILES tag is set to YES, the input filter (if set using # INPUT_FILTER ) will also be used to filter the input files that are used for # producing the source files to browse (i.e. when SOURCE_BROWSER is set to YES). # The default value is: NO. FILTER_SOURCE_FILES = NO # The FILTER_SOURCE_PATTERNS tag can be used to specify source filters per file # pattern. A pattern will override the setting for FILTER_PATTERN (if any) and # it is also possible to disable source filtering for a specific pattern using # *.ext= (so without naming a filter). # This tag requires that the tag FILTER_SOURCE_FILES is set to YES. FILTER_SOURCE_PATTERNS = # If the USE_MDFILE_AS_MAINPAGE tag refers to the name of a markdown file that # is part of the input, its contents will be placed on the main page # (index.html). This can be useful if you have a project on for instance GitHub # and want to reuse the introduction page also for the doxygen output. USE_MDFILE_AS_MAINPAGE = #--------------------------------------------------------------------------- # Configuration options related to source browsing #--------------------------------------------------------------------------- # If the SOURCE_BROWSER tag is set to YES then a list of source files will be # generated. Documented entities will be cross-referenced with these sources. # # Note: To get rid of all source code in the generated output, make sure that # also VERBATIM_HEADERS is set to NO. # The default value is: NO. SOURCE_BROWSER = YES # Setting the INLINE_SOURCES tag to YES will include the body of functions, # classes and enums directly into the documentation. # The default value is: NO. INLINE_SOURCES = YES # Setting the STRIP_CODE_COMMENTS tag to YES will instruct doxygen to hide any # special comment blocks from generated source code fragments. Normal C, C++ and # Fortran comments will always remain visible. # The default value is: YES. STRIP_CODE_COMMENTS = YES # If the REFERENCED_BY_RELATION tag is set to YES then for each documented # function all documented functions referencing it will be listed. # The default value is: NO. REFERENCED_BY_RELATION = YES # If the REFERENCES_RELATION tag is set to YES then for each documented function # all documented entities called/used by that function will be listed. # The default value is: NO. REFERENCES_RELATION = YES # If the REFERENCES_LINK_SOURCE tag is set to YES and SOURCE_BROWSER tag is set # to YES, then the hyperlinks from functions in REFERENCES_RELATION and # REFERENCED_BY_RELATION lists will link to the source code. Otherwise they will # link to the documentation. # The default value is: YES. REFERENCES_LINK_SOURCE = YES # If SOURCE_TOOLTIPS is enabled (the default) then hovering a hyperlink in the # source code will show a tooltip with additional information such as prototype, # brief description and links to the definition and documentation. Since this # will make the HTML file larger and loading of large files a bit slower, you # can opt to disable this feature. # The default value is: YES. # This tag requires that the tag SOURCE_BROWSER is set to YES. SOURCE_TOOLTIPS = YES # If the USE_HTAGS tag is set to YES then the references to source code will # point to the HTML generated by the htags(1) tool instead of doxygen built-in # source browser. The htags tool is part of GNU's global source tagging system # (see http://www.gnu.org/software/global/global.html). You will need version # 4.8.6 or higher. # # To use it do the following: # - Install the latest version of global # - Enable SOURCE_BROWSER and USE_HTAGS in the config file # - Make sure the INPUT points to the root of the source tree # - Run doxygen as normal # # Doxygen will invoke htags (and that will in turn invoke gtags), so these # tools must be available from the command line (i.e. in the search path). # # The result: instead of the source browser generated by doxygen, the links to # source code will now point to the output of htags. # The default value is: NO. # This tag requires that the tag SOURCE_BROWSER is set to YES. USE_HTAGS = NO # If the VERBATIM_HEADERS tag is set the YES then doxygen will generate a # verbatim copy of the header file for each class for which an include is # specified. Set to NO to disable this. # See also: Section \class. # The default value is: YES. VERBATIM_HEADERS = YES #--------------------------------------------------------------------------- # Configuration options related to the alphabetical class index #--------------------------------------------------------------------------- # If the ALPHABETICAL_INDEX tag is set to YES, an alphabetical index of all # compounds will be generated. Enable this if the project contains a lot of # classes, structs, unions or interfaces. # The default value is: YES. ALPHABETICAL_INDEX = YES # The COLS_IN_ALPHA_INDEX tag can be used to specify the number of columns in # which the alphabetical index list will be split. # Minimum value: 1, maximum value: 20, default value: 5. # This tag requires that the tag ALPHABETICAL_INDEX is set to YES. COLS_IN_ALPHA_INDEX = 5 # In case all classes in a project start with a common prefix, all classes will # be put under the same header in the alphabetical index. The IGNORE_PREFIX tag # can be used to specify a prefix (or a list of prefixes) that should be ignored # while generating the index headers. # This tag requires that the tag ALPHABETICAL_INDEX is set to YES. IGNORE_PREFIX = #--------------------------------------------------------------------------- # Configuration options related to the HTML output #--------------------------------------------------------------------------- # If the GENERATE_HTML tag is set to YES doxygen will generate HTML output # The default value is: YES. GENERATE_HTML = YES # The HTML_OUTPUT tag is used to specify where the HTML docs will be put. If a # relative path is entered the value of OUTPUT_DIRECTORY will be put in front of # it. # The default directory is: html. # This tag requires that the tag GENERATE_HTML is set to YES. HTML_OUTPUT = html # The HTML_FILE_EXTENSION tag can be used to specify the file extension for each # generated HTML page (for example: .htm, .php, .asp). # The default value is: .html. # This tag requires that the tag GENERATE_HTML is set to YES. HTML_FILE_EXTENSION = .html # The HTML_HEADER tag can be used to specify a user-defined HTML header file for # each generated HTML page. If the tag is left blank doxygen will generate a # standard header. # # To get valid HTML the header file that includes any scripts and style sheets # that doxygen needs, which is dependent on the configuration options used (e.g. # the setting GENERATE_TREEVIEW). It is highly recommended to start with a # default header using # doxygen -w html new_header.html new_footer.html new_stylesheet.css # YourConfigFile # and then modify the file new_header.html. See also section "Doxygen usage" # for information on how to generate the default header that doxygen normally # uses. # Note: The header is subject to change so you typically have to regenerate the # default header when upgrading to a newer version of doxygen. For a description # of the possible markers and block names see the documentation. # This tag requires that the tag GENERATE_HTML is set to YES. HTML_HEADER = # The HTML_FOOTER tag can be used to specify a user-defined HTML footer for each # generated HTML page. If the tag is left blank doxygen will generate a standard # footer. See HTML_HEADER for more information on how to generate a default # footer and what special commands can be used inside the footer. See also # section "Doxygen usage" for information on how to generate the default footer # that doxygen normally uses. # This tag requires that the tag GENERATE_HTML is set to YES. HTML_FOOTER = # The HTML_STYLESHEET tag can be used to specify a user-defined cascading style # sheet that is used by each HTML page. It can be used to fine-tune the look of # the HTML output. If left blank doxygen will generate a default style sheet. # See also section "Doxygen usage" for information on how to generate the style # sheet that doxygen normally uses. # Note: It is recommended to use HTML_EXTRA_STYLESHEET instead of this tag, as # it is more robust and this tag (HTML_STYLESHEET) will in the future become # obsolete. # This tag requires that the tag GENERATE_HTML is set to YES. HTML_STYLESHEET = # The HTML_EXTRA_STYLESHEET tag can be used to specify an additional user- # defined cascading style sheet that is included after the standard style sheets # created by doxygen. Using this option one can overrule certain style aspects. # This is preferred over using HTML_STYLESHEET since it does not replace the # standard style sheet and is therefor more robust against future updates. # Doxygen will copy the style sheet file to the output directory. For an example # see the documentation. # This tag requires that the tag GENERATE_HTML is set to YES. HTML_EXTRA_STYLESHEET = # The HTML_EXTRA_FILES tag can be used to specify one or more extra images or # other source files which should be copied to the HTML output directory. Note # that these files will be copied to the base HTML output directory. Use the # $relpath^ marker in the HTML_HEADER and/or HTML_FOOTER files to load these # files. In the HTML_STYLESHEET file, use the file name only. Also note that the # files will be copied as-is; there are no commands or markers available. # This tag requires that the tag GENERATE_HTML is set to YES. HTML_EXTRA_FILES = # The HTML_COLORSTYLE_HUE tag controls the color of the HTML output. Doxygen # will adjust the colors in the stylesheet and background images according to # this color. Hue is specified as an angle on a colorwheel, see # http://en.wikipedia.org/wiki/Hue for more information. For instance the value # 0 represents red, 60 is yellow, 120 is green, 180 is cyan, 240 is blue, 300 # purple, and 360 is red again. # Minimum value: 0, maximum value: 359, default value: 220. # This tag requires that the tag GENERATE_HTML is set to YES. HTML_COLORSTYLE_HUE = 220 # The HTML_COLORSTYLE_SAT tag controls the purity (or saturation) of the colors # in the HTML output. For a value of 0 the output will use grayscales only. A # value of 255 will produce the most vivid colors. # Minimum value: 0, maximum value: 255, default value: 100. # This tag requires that the tag GENERATE_HTML is set to YES. HTML_COLORSTYLE_SAT = 100 # The HTML_COLORSTYLE_GAMMA tag controls the gamma correction applied to the # luminance component of the colors in the HTML output. Values below 100 # gradually make the output lighter, whereas values above 100 make the output # darker. The value divided by 100 is the actual gamma applied, so 80 represents # a gamma of 0.8, The value 220 represents a gamma of 2.2, and 100 does not # change the gamma. # Minimum value: 40, maximum value: 240, default value: 80. # This tag requires that the tag GENERATE_HTML is set to YES. HTML_COLORSTYLE_GAMMA = 80 # If the HTML_TIMESTAMP tag is set to YES then the footer of each generated HTML # page will contain the date and time when the page was generated. Setting this # to NO can help when comparing the output of multiple runs. # The default value is: YES. # This tag requires that the tag GENERATE_HTML is set to YES. HTML_TIMESTAMP = YES # If the HTML_DYNAMIC_SECTIONS tag is set to YES then the generated HTML # documentation will contain sections that can be hidden and shown after the # page has loaded. # The default value is: NO. # This tag requires that the tag GENERATE_HTML is set to YES. HTML_DYNAMIC_SECTIONS = NO # With HTML_INDEX_NUM_ENTRIES one can control the preferred number of entries # shown in the various tree structured indices initially; the user can expand # and collapse entries dynamically later on. Doxygen will expand the tree to # such a level that at most the specified number of entries are visible (unless # a fully collapsed tree already exceeds this amount). So setting the number of # entries 1 will produce a full collapsed tree by default. 0 is a special value # representing an infinite number of entries and will result in a full expanded # tree by default. # Minimum value: 0, maximum value: 9999, default value: 100. # This tag requires that the tag GENERATE_HTML is set to YES. HTML_INDEX_NUM_ENTRIES = 100 # If the GENERATE_DOCSET tag is set to YES, additional index files will be # generated that can be used as input for Apple's Xcode 3 integrated development # environment (see: http://developer.apple.com/tools/xcode/), introduced with # OSX 10.5 (Leopard). To create a documentation set, doxygen will generate a # Makefile in the HTML output directory. Running make will produce the docset in # that directory and running make install will install the docset in # ~/Library/Developer/Shared/Documentation/DocSets so that Xcode will find it at # startup. See http://developer.apple.com/tools/creatingdocsetswithdoxygen.html # for more information. # The default value is: NO. # This tag requires that the tag GENERATE_HTML is set to YES. GENERATE_DOCSET = NO # This tag determines the name of the docset feed. A documentation feed provides # an umbrella under which multiple documentation sets from a single provider # (such as a company or product suite) can be grouped. # The default value is: Doxygen generated docs. # This tag requires that the tag GENERATE_DOCSET is set to YES. DOCSET_FEEDNAME = "Doxygen generated docs" # This tag specifies a string that should uniquely identify the documentation # set bundle. This should be a reverse domain-name style string, e.g. # com.mycompany.MyDocSet. Doxygen will append .docset to the name. # The default value is: org.doxygen.Project. # This tag requires that the tag GENERATE_DOCSET is set to YES. DOCSET_BUNDLE_ID = org.doxygen.Project # The DOCSET_PUBLISHER_ID tag specifies a string that should uniquely identify # the documentation publisher. This should be a reverse domain-name style # string, e.g. com.mycompany.MyDocSet.documentation. # The default value is: org.doxygen.Publisher. # This tag requires that the tag GENERATE_DOCSET is set to YES. DOCSET_PUBLISHER_ID = org.doxygen.Publisher # The DOCSET_PUBLISHER_NAME tag identifies the documentation publisher. # The default value is: Publisher. # This tag requires that the tag GENERATE_DOCSET is set to YES. DOCSET_PUBLISHER_NAME = Publisher # If the GENERATE_HTMLHELP tag is set to YES then doxygen generates three # additional HTML index files: index.hhp, index.hhc, and index.hhk. The # index.hhp is a project file that can be read by Microsoft's HTML Help Workshop # (see: http://www.microsoft.com/en-us/download/details.aspx?id=21138) on # Windows. # # The HTML Help Workshop contains a compiler that can convert all HTML output # generated by doxygen into a single compiled HTML file (.chm). Compiled HTML # files are now used as the Windows 98 help format, and will replace the old # Windows help format (.hlp) on all Windows platforms in the future. Compressed # HTML files also contain an index, a table of contents, and you can search for # words in the documentation. The HTML workshop also contains a viewer for # compressed HTML files. # The default value is: NO. # This tag requires that the tag GENERATE_HTML is set to YES. GENERATE_HTMLHELP = NO # The CHM_FILE tag can be used to specify the file name of the resulting .chm # file. You can add a path in front of the file if the result should not be # written to the html output directory. # This tag requires that the tag GENERATE_HTMLHELP is set to YES. CHM_FILE = # The HHC_LOCATION tag can be used to specify the location (absolute path # including file name) of the HTML help compiler ( hhc.exe). If non-empty # doxygen will try to run the HTML help compiler on the generated index.hhp. # The file has to be specified with full path. # This tag requires that the tag GENERATE_HTMLHELP is set to YES. HHC_LOCATION = # The GENERATE_CHI flag controls if a separate .chi index file is generated ( # YES) or that it should be included in the master .chm file ( NO). # The default value is: NO. # This tag requires that the tag GENERATE_HTMLHELP is set to YES. GENERATE_CHI = NO # The CHM_INDEX_ENCODING is used to encode HtmlHelp index ( hhk), content ( hhc) # and project file content. # This tag requires that the tag GENERATE_HTMLHELP is set to YES. CHM_INDEX_ENCODING = # The BINARY_TOC flag controls whether a binary table of contents is generated ( # YES) or a normal table of contents ( NO) in the .chm file. # The default value is: NO. # This tag requires that the tag GENERATE_HTMLHELP is set to YES. BINARY_TOC = NO # The TOC_EXPAND flag can be set to YES to add extra items for group members to # the table of contents of the HTML help documentation and to the tree view. # The default value is: NO. # This tag requires that the tag GENERATE_HTMLHELP is set to YES. TOC_EXPAND = NO # If the GENERATE_QHP tag is set to YES and both QHP_NAMESPACE and # QHP_VIRTUAL_FOLDER are set, an additional index file will be generated that # can be used as input for Qt's qhelpgenerator to generate a Qt Compressed Help # (.qch) of the generated HTML documentation. # The default value is: NO. # This tag requires that the tag GENERATE_HTML is set to YES. GENERATE_QHP = NO # If the QHG_LOCATION tag is specified, the QCH_FILE tag can be used to specify # the file name of the resulting .qch file. The path specified is relative to # the HTML output folder. # This tag requires that the tag GENERATE_QHP is set to YES. QCH_FILE = # The QHP_NAMESPACE tag specifies the namespace to use when generating Qt Help # Project output. For more information please see Qt Help Project / Namespace # (see: http://qt-project.org/doc/qt-4.8/qthelpproject.html#namespace). # The default value is: org.doxygen.Project. # This tag requires that the tag GENERATE_QHP is set to YES. QHP_NAMESPACE = org.doxygen.Project # The QHP_VIRTUAL_FOLDER tag specifies the namespace to use when generating Qt # Help Project output. For more information please see Qt Help Project / Virtual # Folders (see: http://qt-project.org/doc/qt-4.8/qthelpproject.html#virtual- # folders). # The default value is: doc. # This tag requires that the tag GENERATE_QHP is set to YES. QHP_VIRTUAL_FOLDER = doc # If the QHP_CUST_FILTER_NAME tag is set, it specifies the name of a custom # filter to add. For more information please see Qt Help Project / Custom # Filters (see: http://qt-project.org/doc/qt-4.8/qthelpproject.html#custom- # filters). # This tag requires that the tag GENERATE_QHP is set to YES. QHP_CUST_FILTER_NAME = # The QHP_CUST_FILTER_ATTRS tag specifies the list of the attributes of the # custom filter to add. For more information please see Qt Help Project / Custom # Filters (see: http://qt-project.org/doc/qt-4.8/qthelpproject.html#custom- # filters). # This tag requires that the tag GENERATE_QHP is set to YES. QHP_CUST_FILTER_ATTRS = # The QHP_SECT_FILTER_ATTRS tag specifies the list of the attributes this # project's filter section matches. Qt Help Project / Filter Attributes (see: # http://qt-project.org/doc/qt-4.8/qthelpproject.html#filter-attributes). # This tag requires that the tag GENERATE_QHP is set to YES. QHP_SECT_FILTER_ATTRS = # The QHG_LOCATION tag can be used to specify the location of Qt's # qhelpgenerator. If non-empty doxygen will try to run qhelpgenerator on the # generated .qhp file. # This tag requires that the tag GENERATE_QHP is set to YES. QHG_LOCATION = # If the GENERATE_ECLIPSEHELP tag is set to YES, additional index files will be # generated, together with the HTML files, they form an Eclipse help plugin. To # install this plugin and make it available under the help contents menu in # Eclipse, the contents of the directory containing the HTML and XML files needs # to be copied into the plugins directory of eclipse. The name of the directory # within the plugins directory should be the same as the ECLIPSE_DOC_ID value. # After copying Eclipse needs to be restarted before the help appears. # The default value is: NO. # This tag requires that the tag GENERATE_HTML is set to YES. GENERATE_ECLIPSEHELP = NO # A unique identifier for the Eclipse help plugin. When installing the plugin # the directory name containing the HTML and XML files should also have this # name. Each documentation set should have its own identifier. # The default value is: org.doxygen.Project. # This tag requires that the tag GENERATE_ECLIPSEHELP is set to YES. ECLIPSE_DOC_ID = org.doxygen.Project # If you want full control over the layout of the generated HTML pages it might # be necessary to disable the index and replace it with your own. The # DISABLE_INDEX tag can be used to turn on/off the condensed index (tabs) at top # of each HTML page. A value of NO enables the index and the value YES disables # it. Since the tabs in the index contain the same information as the navigation # tree, you can set this option to YES if you also set GENERATE_TREEVIEW to YES. # The default value is: NO. # This tag requires that the tag GENERATE_HTML is set to YES. DISABLE_INDEX = NO # The GENERATE_TREEVIEW tag is used to specify whether a tree-like index # structure should be generated to display hierarchical information. If the tag # value is set to YES, a side panel will be generated containing a tree-like # index structure (just like the one that is generated for HTML Help). For this # to work a browser that supports JavaScript, DHTML, CSS and frames is required # (i.e. any modern browser). Windows users are probably better off using the # HTML help feature. Via custom stylesheets (see HTML_EXTRA_STYLESHEET) one can # further fine-tune the look of the index. As an example, the default style # sheet generated by doxygen has an example that shows how to put an image at # the root of the tree instead of the PROJECT_NAME. Since the tree basically has # the same information as the tab index, you could consider setting # DISABLE_INDEX to YES when enabling this option. # The default value is: NO. # This tag requires that the tag GENERATE_HTML is set to YES. GENERATE_TREEVIEW = NO # The ENUM_VALUES_PER_LINE tag can be used to set the number of enum values that # doxygen will group on one line in the generated HTML documentation. # # Note that a value of 0 will completely suppress the enum values from appearing # in the overview section. # Minimum value: 0, maximum value: 20, default value: 4. # This tag requires that the tag GENERATE_HTML is set to YES. ENUM_VALUES_PER_LINE = 4 # If the treeview is enabled (see GENERATE_TREEVIEW) then this tag can be used # to set the initial width (in pixels) of the frame in which the tree is shown. # Minimum value: 0, maximum value: 1500, default value: 250. # This tag requires that the tag GENERATE_HTML is set to YES. TREEVIEW_WIDTH = 250 # When the EXT_LINKS_IN_WINDOW option is set to YES doxygen will open links to # external symbols imported via tag files in a separate window. # The default value is: NO. # This tag requires that the tag GENERATE_HTML is set to YES. EXT_LINKS_IN_WINDOW = NO # Use this tag to change the font size of LaTeX formulas included as images in # the HTML documentation. When you change the font size after a successful # doxygen run you need to manually remove any form_*.png images from the HTML # output directory to force them to be regenerated. # Minimum value: 8, maximum value: 50, default value: 10. # This tag requires that the tag GENERATE_HTML is set to YES. FORMULA_FONTSIZE = 10 # Use the FORMULA_TRANPARENT tag to determine whether or not the images # generated for formulas are transparent PNGs. Transparent PNGs are not # supported properly for IE 6.0, but are supported on all modern browsers. # # Note that when changing this option you need to delete any form_*.png files in # the HTML output directory before the changes have effect. # The default value is: YES. # This tag requires that the tag GENERATE_HTML is set to YES. FORMULA_TRANSPARENT = YES # Enable the USE_MATHJAX option to render LaTeX formulas using MathJax (see # http://www.mathjax.org) which uses client side Javascript for the rendering # instead of using prerendered bitmaps. Use this if you do not have LaTeX # installed or if you want to formulas look prettier in the HTML output. When # enabled you may also need to install MathJax separately and configure the path # to it using the MATHJAX_RELPATH option. # The default value is: NO. # This tag requires that the tag GENERATE_HTML is set to YES. USE_MATHJAX = NO # When MathJax is enabled you can set the default output format to be used for # the MathJax output. See the MathJax site (see: # http://docs.mathjax.org/en/latest/output.html) for more details. # Possible values are: HTML-CSS (which is slower, but has the best # compatibility), NativeMML (i.e. MathML) and SVG. # The default value is: HTML-CSS. # This tag requires that the tag USE_MATHJAX is set to YES. MATHJAX_FORMAT = HTML-CSS # When MathJax is enabled you need to specify the location relative to the HTML # output directory using the MATHJAX_RELPATH option. The destination directory # should contain the MathJax.js script. For instance, if the mathjax directory # is located at the same level as the HTML output directory, then # MATHJAX_RELPATH should be ../mathjax. The default value points to the MathJax # Content Delivery Network so you can quickly see the result without installing # MathJax. However, it is strongly recommended to install a local copy of # MathJax from http://www.mathjax.org before deployment. # The default value is: http://cdn.mathjax.org/mathjax/latest. # This tag requires that the tag USE_MATHJAX is set to YES. MATHJAX_RELPATH = http://www.mathjax.org/mathjax # The MATHJAX_EXTENSIONS tag can be used to specify one or more MathJax # extension names that should be enabled during MathJax rendering. For example # MATHJAX_EXTENSIONS = TeX/AMSmath TeX/AMSsymbols # This tag requires that the tag USE_MATHJAX is set to YES. MATHJAX_EXTENSIONS = # The MATHJAX_CODEFILE tag can be used to specify a file with javascript pieces # of code that will be used on startup of the MathJax code. See the MathJax site # (see: http://docs.mathjax.org/en/latest/output.html) for more details. For an # example see the documentation. # This tag requires that the tag USE_MATHJAX is set to YES. MATHJAX_CODEFILE = # When the SEARCHENGINE tag is enabled doxygen will generate a search box for # the HTML output. The underlying search engine uses javascript and DHTML and # should work on any modern browser. Note that when using HTML help # (GENERATE_HTMLHELP), Qt help (GENERATE_QHP), or docsets (GENERATE_DOCSET) # there is already a search function so this one should typically be disabled. # For large projects the javascript based search engine can be slow, then # enabling SERVER_BASED_SEARCH may provide a better solution. It is possible to # search using the keyboard; to jump to the search box use + S # (what the is depends on the OS and browser, but it is typically # , /