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authorJustin Bedo <cu@cua0.org>2019-05-09 13:42:29 +1000
committerJustin Bedo <cu@cua0.org>2019-05-09 13:42:29 +1000
commit8f4b321c07f13ebe8597d1ab4ef3c6bda16f38af (patch)
tree300c68b1fec139221190b3643a560da4bbc82819
parente1bb4233c72b0af954ec560759c408d92b2cea15 (diff)
fastp: rename run to check for consistency with fastqc
-rw-r--r--test-tnpair.nix2
-rw-r--r--tools/fastp-check.nix (renamed from tools/fastp-run.nix)0
-rw-r--r--tools/fastp.nix2
3 files changed, 2 insertions, 2 deletions
diff --git a/test-tnpair.nix b/test-tnpair.nix
index 802a2bb..153a4c3 100644
--- a/test-tnpair.nix
+++ b/test-tnpair.nix
@@ -16,7 +16,7 @@ let
nameSort = samtools.sort {nameSort = true;};
flagstat = samtools.flagstat {};
check-fastqc = fastqc.check {};
- check-fastp = fastp.run {};
+ check-fastp = fastp.check {};
callVariants = strelka.callSomatic {};
markdup = samtools.markdup {};
fixmate = samtools.fixmate {};
diff --git a/tools/fastp-run.nix b/tools/fastp-check.nix
index c7cbb3c..c7cbb3c 100644
--- a/tools/fastp-run.nix
+++ b/tools/fastp-check.nix
diff --git a/tools/fastp.nix b/tools/fastp.nix
index 52c9041..90f6c1d 100644
--- a/tools/fastp.nix
+++ b/tools/fastp.nix
@@ -4,6 +4,6 @@ with bionix;
rec {
app = pkgs.callPackage ./fastp-app.nix {};
- run = callBionixE ./fastp-run.nix;
+ check = callBionixE ./fastp-check.nix;
}