- 11 Mar, 2021 6 commits
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van den Berg authored
Full rewrite of the pipeline
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van den Berg authored
Merge latest changes and testing into develop
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van den Berg authored
Add github workflow testing
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van den Berg authored
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van den Berg authored
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van den Berg authored
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- 10 Mar, 2021 6 commits
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van den Berg authored
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van den Berg authored
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van den Berg authored
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van den Berg authored
This reverts commit fb607603.
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van den Berg authored
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van den Berg authored
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- 09 Mar, 2021 5 commits
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van den Berg authored
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van den Berg authored
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van den Berg authored
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van den Berg authored
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van den Berg authored
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- 08 Mar, 2021 1 commit
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van den Berg authored
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- 04 Mar, 2021 4 commits
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van den Berg authored
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van den Berg authored
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van den Berg authored
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van den Berg authored
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- 02 Mar, 2021 2 commits
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van den Berg authored
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van den Berg authored
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- 07 Jan, 2021 2 commits
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van den Berg authored
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van den Berg authored
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- 04 Jan, 2021 4 commits
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van den Berg authored
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van den Berg authored
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van den Berg authored
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van den Berg authored
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- 10 Dec, 2020 2 commits
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van den Berg authored
MultiQC can run out of /tmp space on execution nodes on shark, leading to incorrect results or crashes. This commit fixes this problem by specifying a default location for the python tempfiles that MultiQC uses via the environment variable TMPFILE inside of the shell block for the MultiQC rule.
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van den Berg authored
After renaming the pytest-workflow test cases, I forgot to update all the marks for the tests of the stats output file, leading to some of them always being skipped.
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- 08 Dec, 2020 5 commits
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van den Berg authored
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van den Berg authored
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van den Berg authored
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van den Berg authored
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van den Berg authored
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- 29 Sep, 2020 1 commit
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van den Berg authored
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- 28 Sep, 2020 1 commit
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van den Berg authored
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- 02 Sep, 2020 1 commit
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van den Berg authored
Picard HsMetrics requires both a file containing the targets of the capture, as well as the actual baits used in the capture. However, Agilent is refusing to share the baits of their older capture kits. A common workaround for this issue is to simply specify the targets file to picard twice.
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