BioInformatics Tool for Infrastructure Automation (BiTIA) CLI utility
This is the cli utility of the BiTIA project. The other component is
bitia-runner. Most users only need the cli client bitia to submit jobs.
Install it using pip.
python -m pip install bitia --user
python -m bitia --help
Configuration
TODO: Order of searching configuration file.
Unix like systems
./bitia.toml~/.bitia.toml$HOME/.config/bitia.toml/etc/bitia.toml
Windows
bitia.toml%APPDATA%\bitia.toml%PROGRAMDATA%\bitia.toml
BiTIA runner
If you are self-hosting the BiTIA server, you need bitia-runner as well. See
the documents of bitia-runner for more details. TODO.
EXAMPLES
- Using samtools to view a fastq file with same name as provided in url
| NORMAL PIPELINE EXECUTION CODE | BITIA EXECUTION CODE |
|---|---|
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- Using samtools to view a fastq file with different file name as provided in url
| NORMAL PIPELINE EXECUTION CODE | BITIA EXECUTION CODE |
|---|---|
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- Using Fastqc to do Quality check on a fastq file with same file name as provided
| NORMAL PIPELINE EXECUTION CODE | BITIA EXECUTION CODE |
|---|---|
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1 maintainer
Metadata
1 maintainer
Release files for bitia 0.2.3
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| bitia-0.2.3-py3-none-any.whl | Python 3 | none | any | Details |
Release files / bitia-0.2.3-py3-none-any.whl
| Download URL | bitia-0.2.3-py3-none-any.whl |
|---|---|
| Size | 24.1 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
827fa145c908401018855ac6c9882b3dfe02719aa7c60f74c430528a7ae0e518
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BLAKE2b-256 checksum How to use checksums |
c56b653ef2ea860f745f90b91c3323ef4de081f0308754f66e4c65383e243b3e
|
| Upload date | |
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Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/4.0.2 CPython/3.8.16
|
