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Commits on Sep 5, 2022

• And another file for readthedocs

  andrewdavidsmith

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• More for readthedocs

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• Merge branch 'master' of github.com:smithlabcode/preseq

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• Adding files for readthedocs

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• Update README.md

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• Update README.md

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• Updating version number ahead of new release

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Commits on Aug 17, 2022

• The gpl license file has been renamed to LICENSE

  andrewdavidsmith

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• Changing the name of the LICENSE file

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Commits on Nov 3, 2021

• added check to exclude histogram counts of 0

  

  terencewtli

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Commits on Dec 3, 2020

• renamed file in data dir for more clarity

  terencewtli

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• updated configure.ac and README version numbers/documentation

  terencewtli

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Commits on Nov 28, 2020

• Adding the cstddef header so it is visible in all the c++ source files

  

  Andrew Smith

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Commits on Oct 15, 2020

• updated version number in configure.ac

  terencewtli

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• removed extraneous #include for hts support. updated version number. added dependencies in Makefile so that users who clone can compile with htslib support

  terencewtli

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Commits on Oct 5, 2020

• removed header that required users to have htslib by default. added deprecated header to the header-guarded bam code

  terencewtli

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• removed extraneous comments

  terencewtli

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• Updating the configure.ac for the new version number 3.1.0

  andrewdavidsmith

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• Updating the README.md for the new version

  andrewdavidsmith

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• Changes so we can keep using the old SAM stuff for now

  andrewdavidsmith

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• Adding the MappedRead header in to-mr.cpp

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• Pulled down update to submodule

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Commits on Oct 4, 2020

• Changed defaults for pop_size to assume we have seen one in a billion of the population already. Works for all available examples.

  andrewdavidsmith

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Commits on Oct 1, 2020

• removed extra pop_size module; removed break statement

  terencewtli

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• Merge pull request #47 from terencewtli/master

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• Merge branch 'master' into master

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Commits on Sep 29, 2020

• edited pop_size to be its own module. changed max_extrap, and now step size is based on the initial distinct reads. removed break statement from vector_median_and_ci

  terencewtli

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Commits on Sep 23, 2020

• Setting some initial values for the pop_size

  andrewdavidsmith

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• Adding the pop_size module

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Commits on Sep 22, 2020

• added convergence criteria for lc_extrap/pop_size: converge when difference between iterations < 1.0

  terencewtli

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Commits on Sep 3, 2020

• Removing the silent rules from configure.ac so bug reports will be more informative

  andrewdavidsmith

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Commits on Aug 22, 2020

• merged pop_size module with lc_extrap. flag is passed into lc_extrap to indicate the module type, and corresponding default msg/output is modified

  terencewtli

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Commits on Aug 21, 2020

• added main body for pop_size module. removed unneeded includes and using std statements. replaced functions that used std:: in main

  terencewtli

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Commits on Aug 20, 2020

• added docs directory to Makefile.am

  terencewtli

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• Adding more test data, this time the Shakespeare data, and in both histogram and counts values formats

  andrewdavidsmith

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