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In followup of our discussion yesterday, I'd like to propose a clarification to the description of the 'processing' concept.
Right now, there's an important issue in the 'Processing Runner' explanati…
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The only objectives form the index page which aren't already covered in episodes or the intermediate tutorial are these:
> **convert a shell script into a CWL workflow (lesson-level objective)**
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flags (parameters without argument) are placed in the cwl associated with (default)values (of their boolean default values in the tool).
_Originally posted by @mwalzer in https://github.com/Workflo…
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## Steps to reproduce
Let's say I have a tool with a CWL id of `bwa--mem--0.7.17`:
```
id: bwa--mem--0.7.17
```
If I open that tool in Rabix Composer, the double dashes will be converted to…
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Hi, I am aware of #482 where outputs have been limited explicitly to only a single format.
I have more of a question regarding that decision.
I do not understand why it is critical that an outpu…
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**Snakemake version**
7.12.0
**Describe the bug**
`snakemake --export-cwl workflow.cwl` fails with `FileNotFoundError`.
**Logs**
```
Traceback (most recent call last):
Fil…
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`use case:`
for many settings we often want to ensure that the same workflow runs under different environments and versions of software. one way is to build docker containers for each version (a la t…
satra updated
8 years ago
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The workflow and tool descriptions, but not the software they control.
- **WF1 General software metadata**: At workflow and step level, according to [T3](https://github.com/RenskeW/runcrate-analysi…
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- [ ] test instructions and record the known working version
- [ ] Send out explicit preparation instructions
- Python 2.7
- Linux, OS X, MS Windows Bash
- [ ] room checklist:
- number of …