Mercurial > repos > immuneml > immuneml_tools

comparison README.rst @ 6:2d3dd9ff7e84 draft

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"planemo upload commit 74f2bd15d2b7723c8e5a22d743913706dc7d8333-dirty"
author immuneml
date Tue, 27 Jul 2021 09:30:50 +0000
parents 48569213d91c
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1 Dependencies 1 The tools rely on immuneML version 2.0.1 or newer.
2
3 Installation
2 ============ 4 ============
3 The tools rely on immuneML version 2.0.1 or newer.
4
5 Installation: datatype
6 ======================
7 You will need to define a new datatype ``immuneml_receptors``, which is done as follows: 5 You will need to define a new datatype ``immuneml_receptors``, which is done as follows:
8 6
9 1. In your ``galaxy.yml`` look up the name of your ``datatypes_config_file``. If the name is not yet defined, set 7 1. In your ``galaxy.yml`` look up the name of your ``datatypes_config_file``. If the name is not yet defined, set
10 8
11 ``datatypes_config_file: datatypes_conf.xml`` 9 ``datatypes_config_file: datatypes_conf.xml``
14 3. Add the following line to your ``datatypes_config_file``: 12 3. Add the following line to your ``datatypes_config_file``:
15 13
16 ``<datatype extension="immuneml_receptors" type="galaxy.datatypes.text:Html" subclass="True"/>`` 14 ``<datatype extension="immuneml_receptors" type="galaxy.datatypes.text:Html" subclass="True"/>``
17 The line has to be inside ``<registration>`` along with the other datatypes. 15 The line has to be inside ``<registration>`` along with the other datatypes.
18 16
19 Installation: The immuneML package 17 The immuneML package
20 ================================== 18 ====================
21 Conda installation of immuneML typically takes several minutes. There is general information about Galaxy's dependency resolution here: https://docs.galaxyproject.org/en/release_20.05/admin/conda_faq.html 19 Conda installation of immuneML typically takes several minutes. There is general information about Galaxy dependency resolution here: https://docs.galaxyproject.org/en/release_20.05/admin/conda_faq.html