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comparison README.rst @ 22:dfb939015935 draft

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Uploaded version 2.1.2.0.
author pjbriggs
date Wed, 12 Dec 2018 07:55:16 -0500
parents 51303ba3fbbe
children c7646ff9b5c9
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21:228d8669c559 22:dfb939015935
13 13
14 Automated installation 14 Automated installation
15 ====================== 15 ======================
16 16
17 Installation via the Galaxy Tool Shed will take of installing the tool wrapper and 17 Installation via the Galaxy Tool Shed will take of installing the tool wrapper and
18 the MACS 2.1 program. 18 the MACS 2.1.2 program.
19 19
20 Manual Installation 20 Manual Installation
21 =================== 21 ===================
22 22
23 There are two files to install: 23 There are two files to install:
29 need to modify the ``tools_conf.xml`` file to tell Galaxy to offer the tool 29 need to modify the ``tools_conf.xml`` file to tell Galaxy to offer the tool
30 by adding the line: 30 by adding the line:
31 31
32 <tool file="macs21/macs21_wrapper.xml" /> 32 <tool file="macs21/macs21_wrapper.xml" />
33 33
34 You will also need to install MACS 2.1 and its dependencies: 34 You will also need to install MACS 2.1.2 and its dependencies:
35 35
36 - https://pypi.python.org/pypi/MACS2 36 - https://pypi.python.org/pypi/MACS2
37 37
38 and ensure that it's on your Galaxy user's ``PATH`` when running the tool. 38 and ensure that it's on your Galaxy user's ``PATH`` when running the tool.
39 39
57 practices in invoking commands from Galaxy, and to add new functionality. 57 practices in invoking commands from Galaxy, and to add new functionality.
58 58
59 ========== ====================================================================== 59 ========== ======================================================================
60 Version Changes 60 Version Changes
61 ---------- ---------------------------------------------------------------------- 61 ---------- ----------------------------------------------------------------------
62 2.1.2.0 - Update to use MACS 2.1.2
62 2.1.1.0 - Update to use MACS 2.1.1 and use conda to resolve dependencies 63 2.1.1.0 - Update to use MACS 2.1.1 and use conda to resolve dependencies
63 2.1.0-6 - Add bedSort step into bigWig file generation; terminate with error 64 2.1.0-6 - Add bedSort step into bigWig file generation; terminate with error
64 when MACS finishes with non-zero exit code. 65 when MACS finishes with non-zero exit code.
65 2.1.0-5 - User must explicitly specify the format for the inputs (to allow 66 2.1.0-5 - User must explicitly specify the format for the inputs (to allow
66 for paired-end data) 67 for paired-end data)