log_snakemake

This function checks whether a log file was specified in the Snakemake rule.
If so, it directs any output, messages, warnings, or errors to the
rule-specific log file.
See the Snakemake documentation on <a href="https://snakemake.readthedocs.io/en/stable/snakefiles/rules.html#log-files">log files</a>
and <a href="https://snakemake.readthedocs.io/en/stable/snakefiles/rules.html#r-and-r-markdown">R scripts</a>
for more details.

A collection of useful functions and example code created and
used by the Schloss Lab for reproducible microbiome research. Perform
common tasks like read files created by mothur <https://mothur.org/>,
tidy up your microbiome data, and format R Markdown documents for
publication. See the website <http://www.schlosslab.org/schtools/>
for more information, documentation, and examples.

Kelly Sovacool

schtools

Schloss Lab Tools for Reproducible Microbiome Research

log_snakemake function

<dl><dt>quiet</dt>
<dd>Silence messages about the status of the snakemake object and
log file (default: <code>TRUE</code>).</dd></dl>

Arguments

Kelly Sovacool <a href="/link/sovacool%40umich.edu?package=schtools&version=0.4.1" data-mini-rdoc="schtools::sovacool@umich.edu">sovacool@umich.edu</a>

Author

This function checks whether a log file was specified in the Snakemake rule.
If so, it directs any output, messages, warnings, or errors to the
rule-specific log file.
See the Snakemake documentation on <a href='https://snakemake.readthedocs.io/en/stable/snakefiles/rules.html#log-files'>log files</a>
and <a href='https://snakemake.readthedocs.io/en/stable/snakefiles/rules.html#r-and-r-markdown'>R scripts</a>
for more details.

Save output, messages, warnings, and errors to the Snakemake log file — log_snakemake

<dl>

<dt>quiet</dt>
<dd>Silence messages about the status of the snakemake object and
log file (default: <code>TRUE</code>).</dd>

</dl>

Kelly Sovacool <a href='mailto:sovacool@umich.edu'>sovacool@umich.edu</a>

log_snakemake: Save output, messages, warnings, and errors to the Snakemake log file

Description

Usage

Arguments

Author

Examples