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| author | Justin Bedo <cu@cua0.org> | 2021-07-28 08:07:32 +1000 |
|---|---|---|
| committer | Justin Bedo <cu@cua0.org> | 2021-07-28 09:17:56 +1000 |
| commit | ed98174bbefc85f9895c870fdb7518e2a534a150 (patch) | |
| tree | 913c1eb5cb384213d22af6cf4f4e2b8fd2a51276 /examples/call.nix | |
| parent | 134f5e0bfcd5f22e3adee4b707e10693cf71e635 (diff) | |
bugfix: use unsorted type for alignment output
Most aligners are only pseudo-name sorted (i.e., pairs adjacant).
Diffstat (limited to 'examples/call.nix')
| -rw-r--r-- | examples/call.nix | 1 |
1 files changed, 1 insertions, 0 deletions
diff --git a/examples/call.nix b/examples/call.nix index 8c4f073..8a38fdb 100644 --- a/examples/call.nix +++ b/examples/call.nix @@ -12,6 +12,7 @@ with lib; let preprocess = flip pipe [ (bwa.align { inherit ref; }) + (samtools.sort { nameSort = true; }) (samtools.fixmate {}) (samtools.sort {}) (samtools.markdup {}) |