From a7e8927c61f6e10f41b2479b0ded09ea16761ac5 Mon Sep 17 00:00:00 2001
From: Alexandre Gilardet <alexandre.gilardet@crick.ac.uk>
Date: Wed, 16 Mar 2022 16:11:21 +0000
Subject: [PATCH] added Crick config for eager in eager.config and crick.md

---
 docs/pipeline/eager/crick.md | 24 ++++++++++++++++++++++++
 pipeline/eager.config        |  1 +
 2 files changed, 25 insertions(+)
 create mode 100755 docs/pipeline/eager/crick.md

diff --git a/docs/pipeline/eager/crick.md b/docs/pipeline/eager/crick.md
new file mode 100755
index 0000000..2c56677
--- /dev/null
+++ b/docs/pipeline/eager/crick.md
@@ -0,0 +1,24 @@
+# nf-core/configs: Crick eager specific configuration
+
+Extra specific configuration for eager pipeline
+
+## Usage
+
+To use, run the pipeline with `-profile crick`.
+
+This will download and launch the eager specific [`crick.config`](../../../conf/pipeline/eager/crick.config) which is adapted to data generated at the Crick and
+processed on the Crick's HPC.
+
+Example: `nextflow run nf-core/eager -profile crick`
+
+#### screening
+
+- Low coverage data.
+
+#### production
+
+- High coverage data.
+
+#### external
+
+- External higher coverage data.
diff --git a/pipeline/eager.config b/pipeline/eager.config
index 82fd071..ad9ec2f 100644
--- a/pipeline/eager.config
+++ b/pipeline/eager.config
@@ -12,4 +12,5 @@ profiles {
   eva { includeConfig "${params.custom_config_base}/conf/pipeline/eager/eva.config" }
   maestro { includeConfig "${params.custom_config_base}/conf/pipeline/eager/maestro.config" }
   mpcdf { includeConfig "${params.custom_config_base}/conf/pipeline/eager/mpcdf.config" }
+  crick { includeConfig "${params.custom_config_base}/conf/pipeline/eager/crick.config" }
 }