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Augustus predicts genes in eukaryotic genomic sequences.



See which versions of augustus are available:

$ module avail augustus

Load one version into your environment:

$ module load augustus/3.3


Notes from the sysadmin during installation:

$ cd /tmp
$ wget
$ tar xf augustus-3.3.tar.gz 
$ cd augustus
$ sed -i 's/#ZIPINPUT = true/ZIPINPUT = true/'
$ export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/export/apps/bamtools/2.5.1/lib64 LDFLAGS="$LDFLAGS -L/export/apps/bamtools/2.5.1/lib64" CFLAGS="$CFLAGS -I/export/apps/bamtools/2.5.1/include/bamtools"
$ sed -i 's#/usr/include/bamtools#/export/apps/bamtools/2.5.1/include/bamtools#' auxprogs/bam2hints/Makefile
$ sed -i 's#/usr/include/bamtools#/export/apps/bamtools/2.5.1/include/bamtools#' auxprogs/filterBam/src/Makefile
$ sudo yum install boost-devel
$ make clean
$ make
$ sudo mkdir /export/apps/augustus/3.3
$ sudo chown aorth /export/apps/augustus/3.3
$ make INSTALLDIR=/export/apps/augustus/3.3 install
$ find /export/apps/augustus/3.3 -type d -exec chmod 755 {} \;
$ sudo chown -R root:root /export/apps/augustus/3.3

Augustus requires bamtools at compile time (but not during run time).

augustus-software.1515285276.txt.gz · Last modified: 2018/01/07 00:34 by aorth