Revision history for App-Sandy

0.21      2018-09-18 20:07:39-03:00 America/Sao_Paulo

	- Set expression-matrix as optional
	- Fix bash/zsh completion installation
	- Distinguish count file between genome (coverage)
	  and transcriptome (abundance)
	- Add compression level option
	- Set minimum perl version to 5.014

0.19      2018-08-10 21:10:27-03:00 America/Sao_Paulo

	- Implement structural variation
	- Add variation database
	- Add bash/zsh completions

0.18      2018-05-06 02:36:33-03:00 America/Sao_Paulo

	- Add citation command

0.17      2018-05-05 22:44:51-03:00 America/Sao_Paulo

	- Fix bug in fasta_tree and fasta_rtree
	- Populate quality and expression databases
	- Improve documentation
	- Rename project from App-SimulateReads to App-Sandy

0.16      2018-04-16 00:59:15-03:00 America/Sao_Paulo

	- Update quality profile database in order to keep it simple
	- Turn read-size option settable only when quality-profile="poisson".
	  Otherwise, if quality-profile comes from database, it will override
	  the default/user-provided value

0.15      2018-04-15 02:15:43-03:00 America/Sao_Paulo

	- Substitute expression-matrix for weight-file
	- Add an expression-matrix database to provide vendor
	  options for the users
	- Change main commands to: genome, transcriptome, custom,
	  quality and expression. The first three manage simulations
	  and the last two manage databases

0.14      2018-03-29 03:29:43-03:00 America/Sao_Paulo

	- Add seed option for reproducible simulations
	- Change weighted raffle from 'role' to 'class'

0.13      2018-03-25 20:40:24-03:00 America/Sao_Paulo

	- Add save counts
	- SeqId is now case sensitive

0.12      2018-03-24 13:38:37-03:00 America/Sao_Paulo

	- Add sequence identifier template

0.11      2018-03-23 18:44:59-03:00 America/Sao_Paulo

	- Fix bug when weight-file has just one entry and it is equal to "1"
	- Split digest command into genome, transcriptome and custom

0.10      2017-12-03 04:27:18-02:00 America/Sao_Paulo

	- Add version option

0.09      2017-11-28 23:24:58-02:00 America/Sao_Paulo

	- Fix bug concerning perl versions (5.010 and >=5.018) and
	  experimental::smartmatch warnings

0.08      2017-11-27 22:21:06-02:00 America/Sao_Paulo

	- Fix indexed weight file. If an entry does not exist at the indexed
	  fasta, then it is removed from the weight file hash

0.07      2017-11-27 11:55:16-02:00 America/Sao_Paulo

	- App no more dies if an indexed weighted file has not a valid seqid
	  recorded at a validated indexed fasta
	- Add Dockerfile for the project

0.06      2017-10-29 04:28:50-02:00 America/Sao_Paulo

	- Corrected My::Types to App::SimulateReads::Types in Base class
	- App no more dies if an indexed fasta sequence has not passed the
	  length constraints. Instead, that sequence are deleted from the hash

0.05      2017-10-02 22:57:50-03:00 America/Sao_Paulo

	- Remove Statistics::Basic
	- Test::Perl::Critic and Test::UseAllModules were moved to [TestRecommends]

0.04      2017-09-25 19:16:51-03:00 America/Sao_Paulo

	- Minimum perl version set to v5.10

0.03      2017-09-17 22:50:47-03:00 America/Sao_Paulo

	- Split App::SimulateReads by creating a CLI::App, CLI::Command interface

0.02      2017-09-16 02:18:05-03:00 America/Sao_Paulo

	- Fix README.md issue with PodWeaver by using ReadmeAnyFromPod

0.01      2017-09-15 23:03:14-03:00 America/Sao_Paulo

	- Initial version
