Introduction Base omix env task Base r env task Blast ec list extractor Blast to EC-number Annotator Deep ec Deep ec env task Deep ec list extractor DESeq2 pairwise differential analysis ECListMerger Feature Counts Genome by mapping assembly pipeline Gmap align gtf Gmap index GSEA_GO_enrichment HTSeqCount Inter pro scan env task Py gsea env task Salmon index Salmon quant mapping Star index Star mapping genome reads Star mapping transcriptome reads Subread env task Top go2 env task TopGO2_GO_enrichment Trim fq env task TrimGalore cleaning Version
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Trim fq 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