Rapid08 (#13652)

* v0.8 update - added r-viridis package

* r-viridis fix version

* 0.8 viridis, plots CB friendly update

* rapidv0.8_build_1

* Added pin to bowtie2 (v2.3.0) because of the issue: BenLangmead/bowtie2#230

recipes/rapid/0.8/build.sh

@@ -0,0 +1,7 @@
+#!/bin/bash
+
+BIN=$PREFIX/bin
+mkdir -p $BIN
+cp bin/* $BIN/
+rapid=$PREFIX/bin
+chmod 755 $rapid/*

recipes/rapid/0.8/meta.yaml

@@ -0,0 +1,57 @@
+{% set version = "0.8" %}
+
+package:
+  name: rapid
+  version: {{ version }}
+
+source:
+  url: https://github.com/SchulzLab/RAPID/archive/v{{ version }}.tar.gz
+  sha256: caddaa79d9be8012bc1ab09bdc431b863c80414eb471ac3a79ce5c940a03d4b5
+build:
+  number: 1
+
+requirements:
+  build:
+    - r-base >=3.4.1
+    - r-gplots ==3.0.1
+    - r-ggplot2 ==2.2.1
+    - r-rcolorbrewer >=1.1
+    - r-scales ==0.5.0
+    - r-knitr ==1.20
+    - r-rmarkdown >=1.3
+    - r-reshape2 >=1.4
+    - r-viridis ==0.5.1
+    - bioconductor-deseq2 >=1.18
+    - bowtie2 >=2.2.5
+    - bedtools ==2.23.0
+    - samtools >=0.1.19
+    - perl
+    - pandoc ==1.17.2
+  run:
+    - r-base >=3.4.1
+    - r-gplots ==3.0.1
+    - r-ggplot2 ==2.2.1
+    - r-rcolorbrewer >=1.1
+    - r-scales ==0.5.0
+    - r-knitr ==1.20
+    - r-rmarkdown >=1.3
+    - r-reshape2 >=1.4
+    - r-viridis ==0.5.1
+    - bioconductor-deseq2 >=1.18
+    - bowtie2 >=2.2.5
+    - bedtools ==2.23.0
+    - samtools >=0.1.19
+    - perl
+    - pandoc ==1.17.2
+test:
+  commands:
+    - rapidStats.sh --help
+    - samtools --version
+    - bedtools --version
+    - bowtie2 --version
+    - R --version
+    - perl --version
+about:
+  home: https://github.com/SchulzLab/RAPID
+  license: GPL2
+  summary: "Read Alignment, Analysis, and Differential Pipeline (RAPID) is a set of tools for the alignment, and analysis of genomic regions with small RNA clusters derived from small RNA sequencing data."

recipes/rapid/v0.8/meta.yaml

@@ -8,7 +8,7 @@ source:
   url: https://github.com/SchulzLab/RAPID/archive/v{{ version }}.tar.gz
   sha256: caddaa79d9be8012bc1ab09bdc431b863c80414eb471ac3a79ce5c940a03d4b5
 build:
-  number: 1
+  number: 2
 
 requirements:
   host:
@@ -22,7 +22,7 @@ requirements:
     - r-reshape2
     - r-viridis
     - bioconductor-deseq2
-    - bowtie2
+    - bowtie2 ==2.3.0
     - bedtools ==2.23.0
     - samtools
     - pandoc
@@ -37,7 +37,7 @@ requirements:
     - r-reshape2
     - r-viridis
     - bioconductor-deseq2
-    - bowtie2
+    - bowtie2 ==2.3.0
     - bedtools ==2.23.0
     - samtools
     - pandoc