Introduction Feature Frequency Table importer Feature Table importer Make metadata manifest Metagenome seq env task old_Q2FeatureInferenceSE Q2FeatureInferencePE Q2FeatureInferenceSE Q2GreengenesDiversity Q2NCBIDiversity Q2QualityCheck Q2RarefactionAnalysis Q2RDPDiversity Q2SilvaDiversity Qiime single-end sample frequencies Qiime1 env task Qiime2 ANCOM differential analysis Qiime2 env task Qiime2 feature frequencies (paired-end) Qiime2 manifest table exporter Qiime2 manifest table importer Qiime2 metadata table exporter Qiime2 metadata table importer Qiime2 metadata table maker Qiime2 rarefaction analysis Qiime2 taxa composition annotator Quality Table importer Rarefaction Table importer Taxonomy Table importer Taxonomy Table importer
Technical Documentation
Resources
Tasks
Metagenome seq env task
CondaEnvShell task.
This class allows to run python scripts in conda virtual environments. It rely on the awesome Conda containerization system to efficiently automate the management of your venvs. See also https://conda.io/.
:property env_file_path: The dependencies to install. Could be a list of modules or the path of a dependency file.
:type env_file_path: list,str
For conda, a typical yml environment file content is:
name: my_env_name channels: - javascript - conda-forge dependencies: - r-base=3.1.2 - r-tidyverse - python=3.6 - bokeh=0.9.2 - numpy=1.9.* - nodejs=0.10.* - flask - pip: - Flask-Testing