This page was last updated on Sunday, 13-Nov-2016 09:10:39 CST

Installation notes for fastq-mcf from ea-utils version xxx

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Prerequisites

sudo apt-get install libgsl-dev

Installation

1. $ cd /programinstallers/
2. $ git clone https://github.com/zachcp/ea-utils.git
3. $ cd ea-utils/clipper
4. Bug as seen here https://github.com/zachcp/ea-utils/issues/45
   manually correct several files
   $ nano ea-bcl2fastq.cpp fastq-join.cpp fastq-mcf.cpp fastq-multx.cpp sam-stats.cpp
5. $ make
6. $ BINDIR=/usr/local/bin/ea-utils make install

   mkdir -p /usr/local/bin/ea-utils
   cp fastq-clipper /usr/local/bin/ea-utils/fastq-clipper
   cp fastq-mcf /usr/local/bin/ea-utils/fastq-mcf
   cp fastq-multx /usr/local/bin/ea-utils/fastq-multx
   cp fastq-join /usr/local/bin/ea-utils/fastq-join
   cp fastq-stats /usr/local/bin/ea-utils/fastq-stats
   cp sam-stats /usr/local/bin/ea-utils/sam-stats
   cp varcall /usr/local/bin/ea-utils/varcall
   cp fastx-graph /usr/local/bin/ea-utils/fastx-graph
   cp determine-phred /usr/local/bin/ea-utils/determine-phred
   cp randomFQ /usr/local/bin/ea-utils/randomFQ
   cp alc /usr/local/bin/ea-utils/alc

7. Add to the default PATH
   $ sudo nano /etc/profile
   …
   PATH="$PATH:/usr/local/bin/ea-utils"
   …
8. Cleanup
   $ cd /programinstallers ; rm ea-utils -rf