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2010-10-23	W. Trevor King	Start fleshing out "Related work" section in the manual.	commit \| commitdiff \| tree
2010-10-23	W. Trevor King	Fix some long URLs that had been wrapped by pybtex.	commit \| commitdiff \| tree
2010-10-23	W. Trevor King	Update the README with more information about the pysawsim...	commit \| commitdiff \| tree
2010-10-23	W. Trevor King	Add namedtuple definition from Python 2.6's collections...	commit \| commitdiff \| tree
2010-10-23	W. Trevor King	Move `import with_statement` from sawsim_histogram...	commit \| commitdiff \| tree
2010-10-23	W. Trevor King	Replace EXAMPLE_HISTOGRAM_FILE_CONTENTS histograms...	commit \| commitdiff \| tree
2010-10-23	W. Trevor King	Add epilogs to each OptionParser in pysawsim.	commit \| commitdiff \| tree
2010-10-23	W. Trevor King	Move sawsim running into a new pysawsim.sawsim.SawsimRunner...	commit \| commitdiff \| tree
2010-10-21	W. Trevor King	Add 'mpi' to pysawsim.manager.MANAGERS.	commit \| commitdiff \| tree
2010-10-21	W. Trevor King	Relax command-not-found doctest messages.	commit \| commitdiff \| tree
2010-10-21	W. Trevor King	Merge branch 'master' of http://www.physics.drexel...	commit \| commitdiff \| tree
2010-10-21	W. Trevor King	Fix dropped receive during ThreadManager._spawn_jobs.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Add autogenerated .be/id-cache to .gitignore.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Merge branch 'master' of ssh://wking@einstein/~/public_html...	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Upgrade .be bug cache to Bugs Everywhere Directory...	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Disable pysawsim.manager.subproc is multiprocessing...	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Work around namedtuple import for Pythons < 2.6.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Also cleanup local mpd if the pysawsim nosetests fail.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Add CC, CFLAGS, and LDFLAGS to the Makefile for easy...	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Work around missing MPD with a more elaborate pysawsim...	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Kill off worker-node implementations of master code.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Add pysawsim.manager.mpi with an mpi4py-based manager.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Add link to Python wiki's parallel processing page.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Adjust pysawsim.manager.pbs to skip most doctests if...	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Remove execute permission from pysawsim/manager/pbs.py.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Add pysawsim.manager.subproc using subprocessing.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Add pysawsim.sawsim.main() and bin/sawsim_hist.py calling it.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Add Histogram.to_stream() and .headings.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Fix 'intil_state' -> 'initial_state' typo in pysawsim...	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Add Histogram.calculate_bin_edges().	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Reduce ThreadManager default worker_thread to 2.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Add --sawsim option to velocity_dependant_scan.main().	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Allow Job status logging when .status is an Exception.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Allow Job.__str__() to work when .id == None.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Teardown manager after use in velocity_dependant_scan...	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Add --clean-cache option to velocity_dependant_scan...	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	No need for `if __name__ == '__main__'` in velocity_dependan...	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Rearrange velocity_dependant_scan.main() to group residual...	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Pass velocity_dependant_scan.main() --manager through...	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Reposition matplotlib.use() call in velocity_dependant_scan.py.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Fix sawsim_histogram imports in velocity_dependant_scan.py.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Add bin/vel_dep_scan.py calling pysawsim.velocity_dependant_...	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Add --manager option to velocity_dependant_scan.py.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Add pysawsim.manager.SUBMODS and .IsSubclass and .get_manager.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Transition more of the pysawsim framework into Python.	commit \| commitdiff \| tree
2010-10-20	W. Trevor King	Add pysawsim.sawsim module.	commit \| commitdiff \| tree
2010-10-19	W. Trevor King	Move 'qwait' to pysawsim.manager.pbs and add the rest...	commit \| commitdiff \| tree
2010-10-19	W. Trevor King	Fix a few deadlock errors in pysawsim.manager.thread.	commit \| commitdiff \| tree
2010-10-19	W. Trevor King	Move Histogram class from fit_force_histogram to new...	commit \| commitdiff \| tree
2010-10-19	W. Trevor King	JobManager.async_invoke() should accept Job instances.	commit \| commitdiff \| tree
2010-10-19	W. Trevor King	Add pysawsim.manager and pysawsim.manager.thread for...	commit \| commitdiff \| tree
2010-10-18	W. Trevor King	Add pysawsim/__init__.py and break invoke out into...	commit \| commitdiff \| tree
2010-10-18	W. Trevor King	Add nosetests line to misc/hooks/REAMDE for pre-commit...	commit \| commitdiff \| tree
2010-10-18	W. Trevor King	Introduce pysawsim in the README and add fit_force_histogram...	commit \| commitdiff \| tree
2010-10-18	W. Trevor King	Document suggested Git hooks.	commit \| commitdiff \| tree
2010-10-18	W. Trevor King	"% pop. per s" -> "%% pop. per s" in printf() for k_model_utils.	commit \| commitdiff \| tree
2010-10-18	W. Trevor King	Add prelimiary check_* code for each *.h file in sawsim.nw.	commit \| commitdiff \| tree
2010-10-18	W. Trevor King	Corrections to sawsim.bib after earlier pybtex run.	commit \| commitdiff \| tree
2010-10-18	W. Trevor King	Add missing comma between references to tension and...	commit \| commitdiff \| tree
2010-10-17	W. Trevor King	Add Tame the BeaST link and von-naming blurbs to README...	commit \| commitdiff \| tree
2010-10-16	W. Trevor King	Preserve space after \copy macro in sawsim.bib.	commit \| commitdiff \| tree
2010-10-16	W. Trevor King	Consolidated ...X macros and abbreviated journal/publisher...	commit \| commitdiff \| tree
2010-10-16	W. Trevor King	Passed sawsim.bib through pybtex and updated keys in...	commit \| commitdiff \| tree
2010-10-16	W. Trevor King	Corrections to saswim.bib before reformating with pybtex.	commit \| commitdiff \| tree
2010-10-16	W. Trevor King	Moved BibTeX comments from src/sawsim.bib to README...	commit \| commitdiff \| tree
2010-10-14	W. Trevor King	Add examples/Marszalek_Fernandez_1999/titin_intermediate.sh.	commit \| commitdiff \| tree
2010-10-14	W. Trevor King	Update copyright/licensing blurbs with newer GPLv3+.	commit \| commitdiff \| tree
2010-10-14	W. Trevor King	Added README.git to point Git newbies towards good...	commit \| commitdiff \| tree
2009-10-13	W. Trevor King	Added inverse piston comments + whitespace in tension_balance()	commit \| commitdiff \| tree
2009-09-25	W. Trevor King	Fixed mispelled 'sec.transtion_rate' reference	commit \| commitdiff \| tree
2009-09-25	W. Trevor King	Added cased equation to piston tension model description	commit \| commitdiff \| tree
2009-09-25	W. Trevor King	Fixed typo in "Transition rate" section equation	commit \| commitdiff \| tree
2009-09-13	W. Trevor King	Bumped to version 0.10.	commit \| commitdiff \| tree
2009-09-13	W. Trevor King	Added max dF "-F" option to sawsim.	commit \| commitdiff \| tree
2009-09-13	W. Trevor King	Added full_chain_stiffness() to handle stiffness with...	commit \| commitdiff \| tree
2009-09-13	W. Trevor King	Added piston tension model.	commit \| commitdiff \| tree
2009-08-21	W. Trevor King	-P option now sets target P_N, not P_1. Bumped to...	commit \| commitdiff \| tree
2009-08-19	W. Trevor King	Extended bell and const rate tests to multi-domain...	commit \| commitdiff \| tree
2009-08-13	W. Trevor King	The (P_N = NP_1) bug that triggered 0.7 -> 0.8 isn...	commit \| commitdiff \| tree
2009-08-13	W. Trevor King	safe_strto*() now also checks for empty input	commit \| commitdiff \| tree
2009-08-13	W. Trevor King	Safer string to number conversion with ato() -> safe_strto().	commit \| commitdiff \| tree
2009-08-13	W. Trevor King	Removed TODO in favor of BugsEverywhere bugtracking.	commit \| commitdiff \| tree
2009-08-13	W. Trevor King	Fixed _major_ bug in multi-domain unfolding calculations...	commit \| commitdiff \| tree
2009-08-03	W. Trevor King	inverse_wlc now handles F=HUGE_VAL.	commit \| commitdiff \| tree
2009-03-24	W. Trevor King	Added inverse tension functions for speed. Bumped...	commit \| commitdiff \| tree
2009-03-09	W. Trevor King	Fixed up the guts to support the new multi-state capabilities.	commit \| commitdiff \| tree
2009-03-05	W. Trevor King	Starting on version 0.6, with generalized discrete...	commit \| commitdiff \| tree
2009-02-25	W. Trevor King	Added stiffness env. parameter and stiffness-corrected...	commit \| commitdiff \| tree
2009-02-24	W. Trevor King	Increased verbose output from tension_model_utils.	commit \| commitdiff \| tree
2009-02-24	W. Trevor King	Corrected some strings for tension_model_utils.	commit \| commitdiff \| tree
2009-02-02	W. Trevor King	Fixed a few minor typos.	commit \| commitdiff \| tree
2008-11-11	W. Trevor King	Added Fmax and Xmax options to tension_model_utils	commit \| commitdiff \| tree
2008-09-09	W. Trevor King	Added testing scripts, comparing sawsim with theory	commit \| commitdiff \| tree
2008-09-07	W. Trevor King	Removed debugging printfs from sawsim.c stepping	commit \| commitdiff \| tree
2008-09-06	W. Trevor King	Added the option to make discrete steps in x.	commit \| commitdiff \| tree
2008-09-02	W. Trevor King	Made directory prerequisites order-only prerequisites.	commit \| commitdiff \| tree
2008-09-02	W. Trevor King	Added a better introduction and UTF-8 capability in...	commit \| commitdiff \| tree
2008-09-02	W. Trevor King	Fixed linker error running wlc check in check_sawsim.	commit \| commitdiff \| tree
2008-09-01	W. Trevor King	Fixed some bugs with `make clean'	commit \| commitdiff \| tree
2008-09-01	W. Trevor King	Major rewrite of the build system/Makefile reorganized.	commit \| commitdiff \| tree
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Sawsim, a Monte Carlo, mechanical protein unfolding simulator.

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