New upstream version 2.2.6

language: python

python:

  - "3.8"

  - "3.7"

  - "3.6"

  - "3.5"

install:

  - pip install --upgrade pip

  - pip install --upgrade -r requirements.txt

2019-12-12  Tao Liu  <vladimir.liu@gmail.com>

	MACS version 2.2.6

	* New Features

	1) Speed up MACS2. Some programming tricks and code cleanup. The

	filter_dup function replaces separate_dups. The later one was

	implemented for potentially putting back duplicate reads in

	certain downstream analysis. However such analysis hasn't been

	implemented. Optimize the speed of writing bedGraph

	files. Optimize BAM and BAMPE parsing with pointer casting instead

	of python unpack.

	2) The comment lines in the headers of BED or SAM files will be

	correctly skipped. However, MACS2 won't check comment lines in the

	middle of the file.

	* Bugs fixed

	1) Cutoff-analysis in callpeak command. #341

	2) Issues related to SAMParser and three ELAND Parsers are

	fixed. #347

	* Other

	1) cmdlinetest script in test/ folder has been updated to: 1. test

	cutoff-analysis with callpeak cmd; 2. output the 2 lines before

	and after the error or warning message during tests; 3. output

	only the first 10 lines if the difference between test result and

	standard result can be found; 4. prockreport monitor CPU time and

	memory usage in 1 sec interval -- a bit more accurate.

	2) Python3.5 support is removed. Now MACS2 requires Python>=3.6.

2019-10-31  Tao Liu  <vladimir.liu@gmail.com>

	MACS version 2.2.5 (Py3 speed up)

# Official MACS2 v2.2.5 docker

# Official MACS2 v2.2.6 docker

MACS2 is a bioinformatics algorithm to analyze ChIP-seq datasets. 

# INSTALL Guide For MACS

Time-stamp: <2019-10-03 11:56:03 taoliu>

Time-stamp: <2019-12-12 13:26:11 taoliu>

Please check the following instructions to complete your installation.

## Prerequisites

MACS v2.2.x requires Python3. We have tested MACS in Python3.5, 3.6

and 3.7. MACS runs slower under Python3.5, so Python3.6 or Python3.7

is recommended.

MACS v2.2.x requires Python3. We have tested MACS in Python3.6, 3.7

and 3.8. 

MACS also requires [Numpy](http://www.scipy.org/Download) (>=1.17).

MACS_VERSION = "2.2.5"

MACS_VERSION = "2.2.6"

FILTERDUP_VERSION = "1.0.0 20140616"

RANDSAMPLE_VERSION = "1.0.0 20120703"

MAX_PAIRNUM = 1000