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Some tidying up and typo fixes
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tbooth committed Oct 10, 2024
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4 changes: 2 additions & 2 deletions episodes/03-chaining_rules.md
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---
title: Chaining rules
teaching: 40
exercises: 30
teaching: 30
exercises: 20
---

::::::::::::::::::::::::::::::::::::::: objectives
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6 changes: 3 additions & 3 deletions episodes/04-logs_and_errors.md
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---
title: Adding logs, and understanding errors
teaching: 40
exercises: 30
title: Complex outputs, logs and errors
teaching: 30
exercises: 20
---

::::::::::::::::::::::::::::::::::::::: objectives
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11 changes: 6 additions & 5 deletions episodes/06-expansion.md
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Expand Up @@ -13,10 +13,9 @@ exercises: 30

:::::::::::::::::::::::::::::::::::::::: questions

- How do I process multiple files at once?
- How do I define a default set of outputs for my Snakefile?
- How do I make Snakemake detect what to process?
- How do I combine multiple files together?
- How do I make rules which combine whole lists of files?
- How do I process all available input files at once?

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:::::::::::::::::::::::::::::::::::::::: keypoints

- Rename your input files if necessary to maintain consistent naming
- List the things you want to proces as global variables, or discover input files with `glob_wildcards()`
- List the things you want to proces as global variables, or discover input files with
`glob_wildcards()`
- Use the `expand()` function to generate lists of filenames you want to combine
- These functions can be tested in the Python interpreter
- Any `{input}` to a rule can be a variable-length list, but variable lists of outputs are trickier and rarely needed
- Any `{input}` to a rule can be a variable-length list
- (But variable lists of outputs are trickier and rarely needed)

::::::::::::::::::::::::::::::::::::::::::::::::::

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2 changes: 1 addition & 1 deletion episodes/11-conda_integration.md
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Expand Up @@ -97,7 +97,7 @@ regarding the channel configuration in this course.

::::::::::::::::::::::::::::::::::::::: challenge

## Queryting and installing Conda packages
## Querying and installing Conda packages

1. Find out what version of *fastx\_toolkit* is installed in the current conda environment.

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