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sawsim.git
2010-11-06 W. Trevor KingStandardize max step calculation and fit-parameter... commit | commitdiff | tree | snapshot
2010-11-06 W. Trevor KingWider bins and weaker comparisons allow bell_rate to... commit | commitdiff | tree | snapshot
2010-11-06 W. Trevor KingCompare theory vs. sim scaled by bin width (not theory... commit | commitdiff | tree | snapshot
2010-11-06 W. Trevor KingFix Gumbel normalization in pysawsim.test.bell_rate... commit | commitdiff | tree | snapshot
2010-11-06 W. Trevor KingEnsure that self.headings exists in Histogram, e.g... commit | commitdiff | tree | snapshot
2010-11-06 W. Trevor KingFor high K_0, the Bell model's <f> can be negative... commit | commitdiff | tree | snapshot
2010-11-06 W. Trevor KingMove Bell model unfolding rate test into pysawsim/test... commit | commitdiff | tree | snapshot
2010-11-05 W. Trevor KingUse verbose nosetests (to easily ensure tests are being... commit | commitdiff | tree | snapshot
2010-11-05 W. Trevor KingBe less specific about fit info in pysawsim.fit.ModelFi... commit | commitdiff | tree | snapshot
2010-11-05 W. Trevor Kingpysawsim/fit.py should not be executable. commit | commitdiff | tree | snapshot
2010-11-05 W. Trevor KingEscape LaTeX backslashes in pysawsim.test.constant_rate. commit | commitdiff | tree | snapshot
2010-11-05 W. Trevor KingNo need to give an explicit K in the pysawsim constant... commit | commitdiff | tree | snapshot
2010-11-05 W. Trevor KingAdd doctest call to pysawsim.test.constant_rate.test... commit | commitdiff | tree | snapshot
2010-11-05 W. Trevor Kingconstant_rate.py should not be executable. commit | commitdiff | tree | snapshot
2010-11-05 W. Trevor KingFixup pysawsim.test.constant_rate so it passes. commit | commitdiff | tree | snapshot
2010-11-05 W. Trevor KingOnly log WARNING level messages (and more urgent ones... commit | commitdiff | tree | snapshot
2010-11-05 W. Trevor KingForce bin_edges and counts to be numy arrays in Histogram. commit | commitdiff | tree | snapshot
2010-11-05 W. Trevor KingModelFitter.fit() should always return a list (even... commit | commitdiff | tree | snapshot
2010-11-05 W. Trevor KingMove constant unfolding rate test into pysawsim/test... commit | commitdiff | tree | snapshot
2010-11-05 W. Trevor KingAccount for binwidth in HistogramModelFitter doctest. commit | commitdiff | tree | snapshot
2010-11-05 W. Trevor KingSplit Histogram.analyze() out of Histogram.from_stream(). commit | commitdiff | tree | snapshot
2010-11-05 W. Trevor KingAdd pysawsim.test submodule (currently empty). commit | commitdiff | tree | snapshot
2010-11-04 W. Trevor KingMoved testing/common/fit.py to pysawsim/fit.py and... commit | commitdiff | tree | snapshot
2010-11-04 W. Trevor KingMerge remote branch 'pub/master' commit | commitdiff | tree | snapshot
2010-11-04 W. Trevor KingDisable epilog line wrapping in pysawsim/parameter_erro... commit | commitdiff | tree | snapshot
2010-11-03 W. Trevor KingThere *is* a Gentoo package for pbs_python: sys-cluster... commit | commitdiff | tree | snapshot
2010-11-03 W. Trevor KingUpdate Gentoo overlay info in README now that my overla... commit | commitdiff | tree | snapshot
2010-11-02 W. Trevor KingAdd a Gentoo package section to the README. commit | commitdiff | tree | snapshot
2010-11-02 W. Trevor KingBetter pysawsim.sawsim.SAWSIM detection via distutils... commit | commitdiff | tree | snapshot
2010-11-02 W. Trevor KingAdd simple setup.py for installing pysawsim. commit | commitdiff | tree | snapshot
2010-11-02 W. Trevor KingUse `rm -rf` instead of `rmdir` for `make clean`. commit | commitdiff | tree | snapshot
2010-11-02 W. Trevor KingCreate new phony Makefile targets all_doc and all_bin. commit | commitdiff | tree | snapshot
2010-11-01 W. Trevor KingFix : -> :: (rst markup) in README; document setupools... commit | commitdiff | tree | snapshot
2010-10-29 W. Trevor KingUse numpy.ndarray.sum() vs. __builtin__.sum() to comput... commit | commitdiff | tree | snapshot
2010-10-29 W. Trevor KingRemove cruft from testing/ in preparation for test... commit | commitdiff | tree | snapshot
2010-10-27 W. Trevor KingPython FAQ GIL link should point to GIL blurb, not... commit | commitdiff | tree | snapshot
2010-10-27 W. Trevor KingMerge remote branch 'borg/master' commit | commitdiff | tree | snapshot
2010-10-27 W. Trevor King-m/--manager now defaults to auto-select. commit | commitdiff | tree | snapshot
2010-10-27 W. Trevor KingAdd ability to import a default manager with get_manager(). commit | commitdiff | tree | snapshot
2010-10-27 W. Trevor Kingpysawsim/parameter_error.py should not be executable. commit | commitdiff | tree | snapshot
2010-10-27 W. Trevor KingAdd support for nosetests multiprocessing plugin. commit | commitdiff | tree | snapshot
2010-10-27 W. Trevor KingConvert tabs to spaces in pre-commit-pysawsim-check. commit | commitdiff | tree | snapshot
2010-10-27 W. Trevor KingUse single-quote delimited strings when possssible. commit | commitdiff | tree | snapshot
2010-10-27 W. Trevor KingHistogramMatcher should not plot residual comparisons... commit | commitdiff | tree | snapshot
2010-10-27 W. Trevor KingAdded bin/sawsim_param_error.py and pysawsim/parameter_... commit | commitdiff | tree | snapshot
2010-10-27 W. Trevor KingAssorted minor cleanups to pysawsim/parameter_scan.py. commit | commitdiff | tree | snapshot
2010-10-26 W. Trevor KingRemove some more velocity-specific cruft from pysawsim... commit | commitdiff | tree | snapshot
2010-10-26 W. Trevor Kingparameter_scan.py no longer needs to import anything... commit | commitdiff | tree | snapshot
2010-10-24 W. Trevor KingPrint the CommandError of failed sawsim executions. commit | commitdiff | tree | snapshot
2010-10-24 W. Trevor KingSave CommandError in failed InvokeJobs. commit | commitdiff | tree | snapshot
2010-10-24 W. Trevor KingAdd pysawsim.invoke.CommandError.__repr__() method... commit | commitdiff | tree | snapshot
2010-10-24 W. Trevor KingMake pysawsim.invoke.CommandError picklable, and add... commit | commitdiff | tree | snapshot
2010-10-24 W. Trevor KingFix cache shuffling (random.shuffle() shuffles in place... commit | commitdiff | tree | snapshot
2010-10-24 W. Trevor KingMove __version__ import from sawsim_histogram to sawsim... commit | commitdiff | tree | snapshot
2010-10-23 W. Trevor KingStart fleshing out "Related work" section in the manual. commit | commitdiff | tree | snapshot
2010-10-23 W. Trevor KingFix some long URLs that had been wrapped by pybtex. commit | commitdiff | tree | snapshot
2010-10-23 W. Trevor KingUpdate the README with more information about the pysaw... commit | commitdiff | tree | snapshot
2010-10-23 W. Trevor KingAdd namedtuple definition from Python 2.6's collections... commit | commitdiff | tree | snapshot
2010-10-23 W. Trevor KingMove `import with_statement` from sawsim_histogram... commit | commitdiff | tree | snapshot
2010-10-23 W. Trevor KingReplace EXAMPLE_HISTOGRAM_FILE_CONTENTS histograms... commit | commitdiff | tree | snapshot
2010-10-23 W. Trevor KingAdd epilogs to each OptionParser in pysawsim. commit | commitdiff | tree | snapshot
2010-10-23 W. Trevor KingMove sawsim running into a new pysawsim.sawsim.SawsimRu... commit | commitdiff | tree | snapshot
2010-10-21 W. Trevor KingAdd 'mpi' to pysawsim.manager.MANAGERS. commit | commitdiff | tree | snapshot
2010-10-21 W. Trevor KingRelax command-not-found doctest messages. commit | commitdiff | tree | snapshot
2010-10-21 W. Trevor KingMerge branch 'master' of physics.drexel.edu/~wking... commit | commitdiff | tree | snapshot
2010-10-21 W. Trevor KingFix dropped receive during ThreadManager._spawn_jobs. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAdd autogenerated .be/id-cache to .gitignore. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingMerge branch 'master' of ssh://wking@einstein/~/public_... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingUpgrade .be bug cache to Bugs Everywhere Directory... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingDisable pysawsim.manager.subproc is multiprocessing... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingWork around namedtuple import for Pythons < 2.6. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAlso cleanup local mpd if the pysawsim nosetests fail. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAdd CC, CFLAGS, and LDFLAGS to the Makefile for easy... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingWork around missing MPD with a more elaborate pysawsim... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingKill off worker-node implementations of master code. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAdd pysawsim.manager.mpi with an mpi4py-based manager. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAdd link to Python wiki's parallel processing page. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAdjust pysawsim.manager.pbs to skip most doctests if... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingRemove execute permission from pysawsim/manager/pbs.py. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAdd pysawsim.manager.subproc using subprocessing. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAdd pysawsim.sawsim.main() and bin/sawsim_hist.py calli... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAdd Histogram.to_stream() and .headings. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingFix 'intil_state' -> 'initial_state' typo in pysawsim... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAdd Histogram.calculate_bin_edges(). commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingReduce ThreadManager default worker_thread to 2. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAdd --sawsim option to velocity_dependant_scan.main(). commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAllow Job status logging when .status is an Exception. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAllow Job.__str__() to work when .id == None. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingTeardown manager after use in velocity_dependant_scan... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAdd --clean-cache option to velocity_dependant_scan... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingNo need for `if __name__ == '__main__'` in velocity_dep... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingRearrange velocity_dependant_scan.main() to group resid... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingPass velocity_dependant_scan.main() --manager through... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingReposition matplotlib.use() call in velocity_dependant_... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingFix sawsim_histogram imports in velocity_dependant_scan.py. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAdd bin/vel_dep_scan.py calling pysawsim.velocity_depen... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAdd --manager option to velocity_dependant_scan.py. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAdd pysawsim.manager.SUBMODS and .IsSubclass and .get_m... commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingTransition more of the pysawsim framework into Python. commit | commitdiff | tree | snapshot
2010-10-20 W. Trevor KingAdd pysawsim.sawsim module. commit | commitdiff | tree | snapshot
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Sawsim, a Monte Carlo, mechanical protein unfolding simulator.