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comparison README.rst @ 3:ed3932e6d616 draft

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"planemo upload commit 2fed2858d4044a3897a93a5604223d1d183ceac0-dirty"
author immuneml
date Thu, 01 Jul 2021 16:51:28 +0000
parents 9bf78cb6b91d
children 48569213d91c
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2:9bf78cb6b91d 3:ed3932e6d616
1 Installation 1 Installation
2 ============ 2 ============
3 You will need to define a new datatype, which is done as follows: 3 You will need to define a new datatype ``immuneml_receptors``, which is done as follows:
4 4
5 1. In your ``galaxy.yml`` look up the name of your ``datatypes_config_file``. If the name is not yet defined, set 5 1. In your ``galaxy.yml`` look up the name of your ``datatypes_config_file``. If the name is not yet defined, set
6 6
7 ``datatypes_config_file: datatypes_conf.xml`` 7 ``datatypes_config_file: datatypes_conf.xml``
8 8
9 2. Make ``datatypes_conf.xml`` by copying ``datatypes_conf.xml.sample`` unless a ``datatypes_config_file`` was already defined. 9 2. Make ``datatypes_conf.xml`` by copying ``datatypes_conf.xml.sample`` unless a ``datatypes_config_file`` was already defined.
10 3. Add the following line to your ``datatypes_config_file``: 10 3. Add the following line to your ``datatypes_config_file``:
11 11
12 ``<datatype extension="iml_dataset" type="galaxy.datatypes.text:Html" subclass="True"/>`` 12 ``<datatype extension="immuneml_receptors" type="galaxy.datatypes.text:Html" subclass="True"/>``
13 The line has to be inside ``<registration>`` along with the other datatypes. 13 The line has to be inside ``<registration>`` along with the other datatypes.
14 14
15 The immuneML conda package 15 The immuneML conda package
16 ========================== 16 ==========================
17 Galaxy will need to install the immuneML conda package. This conda installation typically takes several minutes. 17 Galaxy will need to install the immuneML conda package. This conda installation typically takes several minutes.