![]() ![]() ![]() ![]() Why do my global variables behave strangely when I run my job on a cluster?.I want to pass variables between rules.I would like to receive a mail upon snakemake exit.How can I run Snakemake on a cluster where its main process is not allowed to run on the head node?.I want to import some helper functions from another python file.How do I enable syntax highlighting in Vim for Snakefiles?.How do I force Snakemake to rerun all jobs from the rule I just edited?.How do I incorporate files that do not follow a consistent naming scheme?.I get a NameError with my shell command.Is it possible to pass variable values to the workflow via the command line?.Snakemake complains about a cyclic dependency or a PeriodicWildcardError.I don’t want expand to use every wildcard, what can I do?.I don’t want expand to use the product of every wildcard, what can I do?.How do I run my rule on all files of a certain directory?.I don’t want Snakemake to detect an error if my shell command exits with an exitcode > 1.My shell command fails with exit code != 0 from within a pipe, what’s wrong?.My shell command fails with with errors about an “unbound variable”, what’s wrong?.Snakemake does not connect my rules as I have expected, what can I do to debug my dependency structure?.How does Snakemake interpret relative paths?.What is the key idea of Snakemake workflows?.Integrating foreign workflow management systems. ![]()
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