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Upgrade .be bug cache to Bugs Everywhere Directory v1.4.
2010-10-20 W. Trevor KingUpgrade .be bug cache to Bugs Everywhere Directory...
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2010-10-20 W. Trevor KingWork around namedtuple import for Pythons < 2.6.
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2010-10-20 W. Trevor KingAlso cleanup local mpd if the pysawsim nosetests fail.
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2010-10-20 W. Trevor KingAdd CC, CFLAGS, and LDFLAGS to the Makefile for easy...
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2010-10-20 W. Trevor KingWork around missing MPD with a more elaborate pysawsim...
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2010-10-20 W. Trevor KingKill off worker-node implementations of master code.
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2010-10-20 W. Trevor KingAdd pysawsim.manager.mpi with an mpi4py-based manager.
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2010-10-20 W. Trevor KingAdd link to Python wiki's parallel processing page.
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2010-10-20 W. Trevor KingAdjust pysawsim.manager.pbs to skip most doctests if...
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2010-10-20 W. Trevor KingRemove execute permission from pysawsim/manager/pbs.py.
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2010-10-20 W. Trevor KingAdd pysawsim.manager.subproc using subprocessing.
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2010-10-20 W. Trevor KingAdd pysawsim.sawsim.main() and bin/sawsim_hist.py calling it.
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2010-10-20 W. Trevor KingAdd Histogram.to_stream() and .headings.
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2010-10-20 W. Trevor KingFix 'intil_state' -> 'initial_state' typo in pysawsim...
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2010-10-20 W. Trevor KingAdd Histogram.calculate_bin_edges().
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2010-10-20 W. Trevor KingReduce ThreadManager default worker_thread to 2.
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2010-10-20 W. Trevor KingAdd --sawsim option to velocity_dependant_scan.main().
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2010-10-20 W. Trevor KingAllow Job status logging when .status is an Exception.
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2010-10-20 W. Trevor KingAllow Job.__str__() to work when .id == None.
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2010-10-20 W. Trevor KingTeardown manager after use in velocity_dependant_scan...
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2010-10-20 W. Trevor KingAdd --clean-cache option to velocity_dependant_scan...
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2010-10-20 W. Trevor KingNo need for `if __name__ == '__main__'` in velocity_dependan...
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2010-10-20 W. Trevor KingRearrange velocity_dependant_scan.main() to group residual...
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2010-10-20 W. Trevor KingPass velocity_dependant_scan.main() --manager through...
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2010-10-20 W. Trevor KingReposition matplotlib.use() call in velocity_dependant_scan.py.
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2010-10-20 W. Trevor KingFix sawsim_histogram imports in velocity_dependant_scan.py.
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2010-10-20 W. Trevor KingAdd bin/vel_dep_scan.py calling pysawsim.velocity_dependant_...
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2010-10-20 W. Trevor KingAdd --manager option to velocity_dependant_scan.py.
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2010-10-20 W. Trevor KingAdd pysawsim.manager.SUBMODS and .IsSubclass and .get_manager.
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2010-10-20 W. Trevor KingTransition more of the pysawsim framework into Python.
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2010-10-20 W. Trevor KingAdd pysawsim.sawsim module.
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2010-10-19 W. Trevor KingMove 'qwait' to pysawsim.manager.pbs and add the rest...
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2010-10-19 W. Trevor KingFix a few deadlock errors in pysawsim.manager.thread.
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2010-10-19 W. Trevor KingMove Histogram class from fit_force_histogram to new...
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2010-10-19 W. Trevor KingJobManager.async_invoke() should accept Job instances.
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2010-10-19 W. Trevor KingAdd pysawsim.manager and pysawsim.manager.thread for...
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2010-10-18 W. Trevor KingAdd pysawsim/__init__.py and break invoke out into...
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2010-10-18 W. Trevor KingAdd nosetests line to misc/hooks/REAMDE for pre-commit...
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2010-10-18 W. Trevor KingIntroduce pysawsim in the README and add fit_force_histogram...
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2010-10-18 W. Trevor KingDocument suggested Git hooks.
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2010-10-18 W. Trevor King"% pop. per s" -> "%% pop. per s" in printf() for k_model_utils.
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2010-10-18 W. Trevor KingAdd prelimiary check_* code for each *.h file in sawsim.nw.
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2010-10-18 W. Trevor KingCorrections to sawsim.bib after earlier pybtex run.
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2010-10-18 W. Trevor KingAdd missing comma between references to tension and...
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2010-10-17 W. Trevor KingAdd Tame the BeaST link and von-naming blurbs to README...
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2010-10-16 W. Trevor KingPreserve space after \copy macro in sawsim.bib.
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2010-10-16 W. Trevor KingConsolidated ...X macros and abbreviated journal/publisher...
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2010-10-16 W. Trevor KingPassed sawsim.bib through pybtex and updated keys in...
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2010-10-16 W. Trevor KingCorrections to saswim.bib before reformating with pybtex.
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2010-10-16 W. Trevor KingMoved BibTeX comments from src/sawsim.bib to README...
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2010-10-14 W. Trevor KingAdd examples/Marszalek_Fernandez_1999/titin_intermediate.sh.
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2010-10-14 W. Trevor KingUpdate copyright/licensing blurbs with newer GPLv3+.
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2010-10-14 W. Trevor KingAdded README.git to point Git newbies towards good...
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2009-10-13 W. Trevor KingAdded inverse piston comments + whitespace in tension_balance()
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2009-09-25 W. Trevor KingFixed mispelled 'sec.transtion_rate' reference
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2009-09-25 W. Trevor KingAdded cased equation to piston tension model description
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2009-09-25 W. Trevor KingFixed typo in "Transition rate" section equation
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2009-09-13 W. Trevor KingBumped to version 0.10.
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2009-09-13 W. Trevor KingAdded max dF "-F" option to sawsim.
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2009-09-13 W. Trevor KingAdded full_chain_stiffness() to handle stiffness with...
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2009-09-13 W. Trevor KingAdded piston tension model.
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2009-08-21 W. Trevor King-P option now sets target P_N, not P_1. Bumped to...
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2009-08-19 W. Trevor KingExtended bell and const rate tests to multi-domain...
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2009-08-13 W. Trevor KingThe (P_N = NP_1) bug that triggered 0.7 -> 0.8 isn...
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2009-08-13 W. Trevor Kingsafe_strto*() now also checks for empty input
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2009-08-13 W. Trevor KingSafer string to number conversion with ato*() -> safe_strto*().
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2009-08-13 W. Trevor KingRemoved TODO in favor of BugsEverywhere bugtracking.
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2009-08-13 W. Trevor KingFixed _major_ bug in multi-domain unfolding calculations...
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2009-08-03 W. Trevor Kinginverse_wlc now handles F=HUGE_VAL.
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2009-03-24 W. Trevor KingAdded inverse tension functions for speed. Bumped...
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2009-03-09 W. Trevor KingFixed up the guts to support the new multi-state capabilities.
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2009-03-05 W. Trevor KingStarting on version 0.6, with generalized discrete...
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2009-02-25 W. Trevor KingAdded stiffness env. parameter and stiffness-corrected...
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2009-02-24 W. Trevor KingIncreased verbose output from tension_model_utils.
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2009-02-24 W. Trevor KingCorrected some strings for tension_model_utils.
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2009-02-02 W. Trevor KingFixed a few minor typos.
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2008-11-11 W. Trevor KingAdded Fmax and Xmax options to tension_model_utils
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2008-09-09 W. Trevor KingAdded testing scripts, comparing sawsim with theory
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2008-09-07 W. Trevor KingRemoved debugging printfs from sawsim.c stepping
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2008-09-06 W. Trevor KingAdded the option to make discrete steps in x.
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2008-09-02 W. Trevor KingMade directory prerequisites order-only prerequisites.
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2008-09-02 W. Trevor KingAdded a better introduction and UTF-8 capability in...
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2008-09-02 W. Trevor KingFixed linker error running wlc check in check_sawsim.
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2008-09-01 W. Trevor KingFixed some bugs with `make clean'
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2008-09-01 W. Trevor KingMajor rewrite of the build system/Makefile reorganized.
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2008-08-29 W. Trevor KingAdded some missing cleanup targets to the Makefile
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2008-08-29 W. Trevor KingAdded a .gitignore file
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2008-08-08 W. Trevor KingFixed a few minor typos
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2008-08-06 W. Trevor KingFixed LaTeX typos
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2008-07-22 W. Trevor KingFixed some other tension model bugs in tension_model_handler.
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2008-07-22 W. Trevor KingPassed INIT_MODEL() alterations on to the utility programs.
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2008-07-21 W. Trevor KingFixed 'y > yub' error by reducing default tolerances...
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2008-07-21 W. Trevor KingFixed group implementation, still need to test it.
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2008-07-16 W. Trevor KingAdded Fmax, xmin, and xmax options to k_model_utils
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2008-07-16 W. Trevor KingAdded noweb dependency information to README
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2008-07-16 W. Trevor KingAdded GSL dependency notes.
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2008-07-16 W. Trevor KingAdded interpolating lookup table files. They are from...
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2008-07-16 W. Trevor Kingfixed some citation typos
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2008-07-16 W. Trevor KingAdded sawsim.bib so sawsim.pdf will compile with citations.
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2008-07-16 W. Trevor Kingadded a README explaining how to get the makefile out...
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Sawsim, a Monte Carlo, mechanical protein unfolding simulator.