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prepareallsortsinput.rst
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prepareallsortsinput.rst
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:orphan:
Prepare ALLSorts Input
=============================================
``prepareALLSortsInput`` · *1 contributor · 1 version*
No documentation was provided: `contribute one <https://github.com/PMCC-BioinformaticsCore/janis-bioinformatics>`_
Quickstart
-----------
.. code-block:: python
from janis_bioinformatics.tools.oshlack.prepareallsortsinput import PrepareALLSortsInput_0_1_0
wf = WorkflowBuilder("myworkflow")
wf.step(
"prepareallsortsinput_step",
PrepareALLSortsInput_0_1_0(
inps=None,
)
)
wf.output("out", source=prepareallsortsinput_step.out)
*OR*
1. `Install Janis </tutorials/tutorial0.html>`_
2. Ensure Janis is configured to work with Docker or Singularity.
3. Ensure all reference files are available:
.. note::
More information about these inputs are available `below <#additional-configuration-inputs>`_.
4. Generate user input files for prepareALLSortsInput:
.. code-block:: bash
# user inputs
janis inputs prepareALLSortsInput > inputs.yaml
**inputs.yaml**
.. code-block:: yaml
inps:
- inps_0
- inps_1
5. Run prepareALLSortsInput with:
.. code-block:: bash
janis run [...run options] \
--inputs inputs.yaml \
prepareALLSortsInput
Information
------------
:ID: ``prepareALLSortsInput``
:URL: *No URL to the documentation was provided*
:Versions: v0.1.0
:Container: python:3.8.1
:Authors: Jiaan Yu
:Citations: None
:Created: 2020-09-21
:Updated: 2020-09-21
Outputs
-----------
====== ====== ===============
name type documentation
====== ====== ===============
out csv
====== ====== ===============
Additional configuration (inputs)
---------------------------------
=============== ======================= ===============
name type documentation
=============== ======================= ===============
inps Array<File>
labels Optional<Array<String>>
output_filename Optional<String>
fusion_caller Optional<String>
=============== ======================= ===============