bionix.git - Functional, highly-reproducible bioinformatics pipelines

Age	Commit message (Collapse)	Author
2021-11-03	update ex-tnpair cluster example	Justin Bedo
	- fix bug with deprecated use of slurm tree - remove torque support
2021-10-29	treewide reformatting and simplification	Justin Bedo
	- simplify with statix - reformat with nixpkgs-fmt
2021-07-28	bugfix: use unsorted type for alignment output	Justin Bedo
	Most aligners are only pseudo-name sorted (i.e., pairs adjacant).
2021-02-16	Add -I flags to example invocations	Justin Bedo
	BioNix is expected to be in the search path, which by default is not the case. Explicitly adding include flags to the build invocation in the examples simplifies execution for new users (issue #17).
2020-11-18	rewrite cluster example to usse overlay	Justin Bedo

2020-11-03	update example to not use explicit path reference	Justin Bedo

2020-04-10	update tnpair example to run on colo828	Justin Bedo

2020-03-27	update exampes to use nixpkgs.lib.pipe	Justin Bedo

2019-07-26	Simplify example	Justin Bedo

2019-07-08	linkOutputs: refactor output linking expression	Justin Bedo
	The existing linkDrv only has a singular output, making it difficult to separate the various types of output. The new functionality replaces the old with attribute sets defining the outputs. The old linkDrv is deprecated.
2019-06-11	rewrite README documentation	Justin Bedo
	Significant expansion of README to include installation instructions and instructions on how to use with HPC.
2019-05-16	example: pass bionix to call.nix pipeline	Justin Bedo

2019-05-15	edit example to support passing bionix as argument	Justin Bedo

2019-04-30	Add examples and example README	Justin Bedo

2019-04-30	fix example data urls and hashes	Justin Bedo

2019-04-30	cleanup examples and stray files	Justin Bedo

2019-04-07	Update example data and expand tests	Justin Bedo

2018-12-19	examples: update call.nix to use new pipe function	Justin Bedo

2018-12-19	examples: added example tumour-normal calling pipeline script	Justin Bedo