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Fix lesson 02 exercise
author
Peter Amstutz <peter.amstutz@curii.com>
Wed, 17 Feb 2021 00:29:19 +0000
(19:29 -0500)
committer
Peter Amstutz <peter.amstutz@curii.com>
Wed, 17 Feb 2021 00:29:19 +0000
(19:29 -0500)
_episodes/02-workflow.md
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diff --git
a/_episodes/02-workflow.md
b/_episodes/02-workflow.md
index eccdebab567ded82e40eb1d1386ad68cd35c8edc..768d53ae7bb53dd959119605b04aed14fa1da322 100644
(file)
--- a/
_episodes/02-workflow.md
+++ b/
_episodes/02-workflow.md
@@
-317,13
+317,16
@@
correspond to the command line parmeters from our source script.
> correspond to the command line arguments used in the source script:
> `--runThreadN`, `--genomeDir`, `--outSAMtype`, and
> `--outSAMunmapped`. Also identify the name of the output parameter.
> correspond to the command line arguments used in the source script:
> `--runThreadN`, `--genomeDir`, `--outSAMtype`, and
> `--outSAMunmapped`. Also identify the name of the output parameter.
-> Use these to write the STAR step.
>
> > ## Solution
> >
>
> > ## Solution
> >
-> > input parameter name: RunThreadN, GenomeDir, ForwardReads, OutSAMtype, SortedByCoordinate, OutSAMunmapped
+> > `--runThreadN` → `RunThreadN`
+> > `--genomeDir` → `GenomeDir`
+> > `--readFilesIn` → `ForwardReads`
+> > `--outSAMtype` → `OutSAMtype`, `SortedByCoordinate`
+> > `--outSAMunmapped` → `OutSAMunmapped`
> >
> >
-> > output parameter name:
alignment
+> > output parameter name:
`alignment`
> {: .solution}
{: .challenge}
> {: .solution}
{: .challenge}
@@
-359,7
+362,7
@@
correspond to the command line parmeters from our source script.
> ## Exercise
>
> ## Exercise
>
-> Using the input and output parameters identified in the
last
+> Using the input and output parameters identified in the
previous
> exercise, write the `run`, `in` and `out` sections of the STAR step.
>
> > ## Solution
> exercise, write the `run`, `in` and `out` sections of the STAR step.
>
> > ## Solution