- recipe latch
A python bioinformatics framework
- Homepage:
- License:
MIT
- Recipe:
It takes months to build infrastructure with the compute, storage, and user-friendly interface necessary to run bioinformatics pipelines at scale.
The Latch SDK is an open-source toolchain to define serverless bioinformatics workflows with plain python and deploy associated no-code interfaces using single command.
- Bioinformatics workflows developed with the SDK automatically receive:
* Instant no-code interfaces for accessibility and publication * First class static typing * Containerization and versioning of every registered change * Reliable and scalable managed cloud infrastructure * Single line definition of arbitrary resource requirements (eg. CPU, GPU) for serverless execution
- package latch¶
- versions:
2.19.11-0- depends aioconsole:
0.5.1- depends apscheduler:
3.9.1- depends asyncssh:
2.12.0- depends awscli:
1.25.22- depends boto3:
>=1.24.22- depends click:
>=8.0,<9.0- depends cloudpickle:
>=2.0.0- depends cookiecutter:
>=1.7.3- depends croniter:
>=0.3.20,<4.0.0- depends dataclasses-json:
>=0.5.2- depends deprecated:
>=1.0,<2.0- depends diskcache:
>=5.2.1- depends docker-image-py:
>=0.1.10- depends docker-py:
>=5.0.3,<6.0.0- depends docstring_parser:
>=0.9.0- depends googleapis-common-protos:
- depends gql:
3.4.0- depends graphql-core:
3.2.3- depends grpcio:
>=1.43.0,!=1.45.0,<2.0- depends grpcio-status:
>=1.43,!=1.45.0- depends jsonschema:
>=4.5.1- depends keyring:
>=18.0.1- depends marshmallow-jsonschema:
>=0.12.0- depends natsort:
>=7.0.1- depends numpy:
<1.22.0- depends pandas:
>=1.0.0,<2.0.0- depends paramiko:
>=2.11.0- depends prompt-toolkit:
3.0.33- depends protobuf:
>=3.6.1,<4.0.0- depends protoc-gen-swagger:
- depends pyarrow:
>=4.0.0,<7.0.0- depends pyjwt:
>=0.2.0- depends python:
>=3.8- depends python-dateutil:
>=2.1- depends python-json-logger:
>=2.0.0- depends python-kubernetes:
>=24.2.0- depends pytimeparse:
>=1.1.8,<2.0.0- depends pytz:
- depends pyyaml:
- depends requests:
>=2.28.1,<3.0.0- depends requests-toolbelt:
0.10.1- depends responses:
>=0.10.7- depends retry:
0.9.2- depends scp:
>=0.14.0- depends sortedcontainers:
>=1.5.9,<3.0.0- depends statsd:
>=3.0.0,<4.0.0- depends tqdm:
>=4.63.0- depends typing-extensions:
4.5.0- depends typing_extensions:
- depends urllib3:
>=1.22,<2.0.0- depends uvloop:
0.17.0- depends watchfiles:
0.18.1- depends websockets:
10.3- depends wheel:
>=0.30.0,<1.0.0- depends wrapt:
>=1.0.0,<2.0.0- requirements:
Installation
You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).
While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.
Given that you already have a conda environment in which you want to have this package, install with:
mamba install latch and update with:: mamba update latch
To create a new environment, run:
mamba create --name myenvname latch
with
myenvnamebeing a reasonable name for the environment (see e.g. the mamba docs for details and further options).Alternatively, use the docker container:
docker pull quay.io/biocontainers/latch:<tag> (see `latch/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/latch/README.html)
