From 8458d40cf4154e4a37d80c40a16c343aa72b8d2e Mon Sep 17 00:00:00 2001
From: clottaz <claudio.lottaz@klinik.uni-regensburg.de>
Date: Tue, 19 Feb 2019 17:18:02 +0100
Subject: [PATCH] add a recipe for FastqPuri (#13679)

* add a recipe for FastqPuri
Changes to be committed:
	new file:   recipes/fastqpuri/build.sh
	new file:   recipes/fastqpuri/meta.yaml

* fix issues in fastqpuri recipe
Changes to be committed:
	modified:   build.sh
	modified:   meta.yaml
---
 recipes/fastqpuri/build.sh  |  7 +++++++
 recipes/fastqpuri/meta.yaml | 41 +++++++++++++++++++++++++++++++++++++
 2 files changed, 48 insertions(+)
 create mode 100755 recipes/fastqpuri/build.sh
 create mode 100644 recipes/fastqpuri/meta.yaml

diff --git a/recipes/fastqpuri/build.sh b/recipes/fastqpuri/build.sh
new file mode 100755
index 0000000000000..27dcfa4184a86
--- /dev/null
+++ b/recipes/fastqpuri/build.sh
@@ -0,0 +1,7 @@
+#!/bin/bash
+
+Rscript -e 'install.packages(c("rmarkdown", "pheatmap"), repos="https://stat.ethz.ch/CRAN")'
+cmake -H. -Bbuild -DCMAKE_INSTALL_PREFIX=${PREFIX} -DCMAKE_C_COMPILER=${CC}
+cd build
+make
+make install
diff --git a/recipes/fastqpuri/meta.yaml b/recipes/fastqpuri/meta.yaml
new file mode 100644
index 0000000000000..35118d03831f0
--- /dev/null
+++ b/recipes/fastqpuri/meta.yaml
@@ -0,0 +1,41 @@
+package:
+  name: fastqpuri
+  version: 1.0.5
+
+source:
+  url: https://github.com/jengelmann/FastqPuri/archive/v1.0.5.tar.gz
+  sha256: 33fedf39e6322428ff384a5815809f3721efe3fd93798807fdca8fbc50bd62c7
+
+build:
+  number: 3
+
+requirements:
+  build:
+    - cmake
+    - make
+    - {{ compiler('c') }}
+  host:
+    - r-base
+    - pandoc
+    - zlib
+    - bzip2
+  run:
+    - r-base
+    - pandoc
+    - zlib
+    - bzip2
+
+about:
+  home: https://github.com/jengelmann/FastqPuri
+  summary: fastq quality assessment and filtering tool
+  license: GPL3.0
+  license_file: LICENSE.txt
+ 
+test:
+  commands:
+    - Qreport -h
+    - Sreport -h
+    - trimFilter -h
+    - trimFilterPE -h
+    - makeTree -h
+    - makeBloom -h