{"id":1890,"date":"2019-01-03T16:51:40","date_gmt":"2019-01-03T16:51:40","guid":{"rendered":"http:\/\/ri.itservices.manchester.ac.uk\/csf3\/?page_id=1890"},"modified":"2026-06-30T10:17:06","modified_gmt":"2026-06-30T09:17:06","slug":"bioinf","status":"publish","type":"page","link":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/software\/applications\/bioinf\/","title":{"rendered":"Bio-informatics Helper Modulefile"},"content":{"rendered":"<div class=\"warning\">\nThe following modulefiles (and app installs) are old, and unlikely to work on the CSF3 (Slurm) cluster.<\/p>\n<p>If you have previously used these modules but find that they no longer work, please consider installing the app yourself using <a href=\"\/csf3\/software\/applications\/conda\/\">Conda &#8211; MiniForge<\/a> (in the case of a python app) or <a href=\"\/csf3\/help\">contact us<\/a> to request help. Note that we are unlikely to install very old versions of applications &#8211; now is an opportunity to upgrade to a recent version of an app.\n<\/div>\n<p>As part of the DPSF merger in to the CSF3, many bio-informatics applications were copied from the DPSF to the CSF3. These are not documented individually. To access these applications, please run the following command on the login node, and also in your jobscripts, if you load modulefiles from within jobscripts:<\/p>\n<pre>\r\nmodule load apps\/bioinf                # Same as loading the apps\/dpsf modulefile\r\n<\/pre>\n<p>Listing the available module files using <code>module avail<\/code> or searching for modulefiles using <code>module search <em>name<\/em><\/code> will display more modulefile names. <\/p>\n<p>To use the required software you will need to load both the bioinf modulefile and the specific one for the software. For example to use module load apps\/bioinf<\/p>\n<pre>\r\nmodule load apps\/bioinf\r\nmodule load apps\/picard\/2.1.0\/bin\r\n<\/pre>\n<p>If you have moved from CSF2 and cannot find the application you require then please try loading this modulefile as it may be that what you require is available, but has a slightly different modulefile name on CSF3.<\/p>\n<p>The following list of applications is available as of 3-Jan-2019. We will not frequently update this list so please use <code>module search<\/code> as above to check whether what you need may have been installed recently.<\/p>\n<pre>\r\n---  \/opt\/gridware\/legacy-dpsf\/el7\/etc\/modules  ---\r\n  apps\/bamtools\/2.3.0\/gcc-4.8.5\r\n  apps\/bbmap\/36.32\/gcc-4.8.5\r\n  apps\/bcftools\/1.2\/gcc-4.8.5\r\n  apps\/bcftools\/1.3\/gcc-4.8.5\r\n  apps\/bcftools\/1.4\/gcc-4.8.5\r\n  apps\/bcl2fastq\/1.8.4\/gcc-4.8.5\r\n  apps\/bcl2fastq\/2.17\/gcc-4.8.5+boost-1.55.0\r\n  apps\/bedtools\/2.22.0\/gcc-4.8.5\r\n  apps\/bedtools\/2.25.0\/gcc-4.8.5\r\n  apps\/bedtools\/2.27.1\/gcc-4.8.5\r\n  apps\/bismark\/0.16.3\/noarch\r\n  apps\/bismark\/0.17.0\/noarch\r\n  apps\/bitseq\/0.7.5\/gcc-4.8.5\r\n  apps\/bowtie\/1.1.0\/gcc-4.8.5\r\n  apps\/bowtie2\/2.2.3\/gcc-4.8.5\r\n  apps\/bowtie2\/2.2.6\/gcc-4.8.5\r\n  apps\/bowtie2\/2.3.0\/gcc-4.8.5\r\n  apps\/breakdancer\/1.3.5.1\/gcc-4.8.5+samtools-0.1.18+boost-1.60.0\r\n  apps\/bwa\/0.7.12\/gcc-4.8.5\r\n  apps\/bwa\/0.7.15\/gcc-4.8.5\r\n  apps\/bwa\/0.7.7\/gcc-4.8.5+perl-5.20.2\r\n  apps\/chromhmm\/1.2\/noarch\r\n  apps\/cmake\/3.5.2\/gcc-4.8.5\r\n  apps\/cpanminus\/1.5017\/perl-5.20.2\r\n  apps\/cufflinks\/2.2.2.20150701\/gcc-4.8.5+boost-1.55.0+samtools-0.1.19+eigen-3.2.4\r\n  apps\/cutadapt\/1.14\/gcc-4.8.5+python-2.7.8+setuptools-15.1\r\n  apps\/cutadapt\/1.8\/gcc-4.8.5+python-2.7.8\r\n  apps\/cython\/0.23.4\/gcc-4.8.5+python-2.7.8\r\n  apps\/cython_python3\/0.23.4\/gcc-4.8.5+python3-3.3.3\r\n  apps\/cython_python34\/0.23.4\/gcc-4.8.5+python3-3.4.3\r\n  apps\/delly\/0.6.5\/gcc-4.8.5+htslib-1.3+bamtools-2.3.0+boost-1.60.0\r\n  apps\/diaumpire\/2.0.0\/noarch\r\n  apps\/diffreps\/20150410\/gcc-4.8.5+perl-5.20.2\r\n  apps\/ensemblvep\/84\/perl-5.20.2+htslib-1.3\r\n  apps\/fastlowess\/20130915\/gcc-4.8.5+atlas-3.11.36+numpy-1.9.2+cython-0.23.4+python-2.7.8\r\n  apps\/fastml\/3.1\/noarch\r\n  apps\/fastqc\/0.11.3\/noarch\r\n  apps\/fastqscreen\/0.4.1\/noarch\r\n  apps\/fastqscreen\/0.6.1\/gcc-4.8.5+perl-5.20.2\r\n  apps\/faststructure\/1.0\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+scipy-0.17.0+cython-0.23.4+gsl-1.16+setuptools-15.1\r\n  apps\/fasttree\/2.1.3\/gcc-4.8.5\r\n  apps\/freebayes\/1.0.2\/gcc-4.8.5+bamtools-2.3.0+cmake-3.5.2\r\n  apps\/freebayes\/1.1.0\/gcc-4.8.5+cmake-3.5.2\r\n  apps\/gatk\/3.5.0\/noarch\r\n  apps\/gatk\/3.6.0\/noarch\r\n  apps\/gatk\/3.8.0\/noarch [CSF(Slurm): Add -jdk_inflater -jdk_deflater to your GATK command-line]\r\n  apps\/gatk\/4.0.4.0\/noarch\r\n  apps\/gatkqueue\/3.5.0\/noarch\r\n  apps\/gatkqueue\/3.6.0\/noarch\r\n  apps\/gemini\/0.18.3\/gcc-4.8.5+setuptools-15.1+python-2.7.8+numpy-1.9.2+numexpr-2.4.4+pysam-0.8.3+cython-0.23.4+pybedtools-0.7.4+scipy-0.17.0+pandas-0.17.0+bcolz-1.1.0+ipython-4.2.1\r\n  apps\/genomicsbcftbx\/0.99.12\/gcc-4.8.5+setuptools-15.1+python-2.7.8\r\n  apps\/ghc\/7.8.2\/bin\r\n  apps\/ginkgo\/20180103\/gcc-4.8.5+R-3.3.1+bioconductor-2.14\r\n  apps\/gnuplot\/5.0.2\/gcc-4.8.5\r\n  apps\/gubbins\/1.4.9\/python3-3.4.3+setuptools_python34-15.1+fasttree-2.1.3+fastml-3.1+raxml-8.1.16\r\n  apps\/hdf5_mpi\/1.8.9\/gcc-4.8.5+openmpi-1.8.5\r\n  apps\/hdf5_serial\/1.8.9\/gcc-4.8.5\r\n  apps\/hicpro\/2.10.0\/gcc-4.8.5+python-2.7.8+pip-8.1.2+numpy-1.9.2+scipy-0.17.0+pysam-0.8.3+R-3.1.1+bowtie2-2.3.0+samtools-1.4\r\n  apps\/htseq\/0.6.1p1\/gcc-4.8.5+python-2.7.8+numpy-1.9.2\r\n  apps\/htseq\/0.9.1\/gcc-4.8.5+python-2.7.8+setuptools-15.1+numpy-1.9.2+matplotlib-1.4.3\r\n  apps\/htslib\/1.3\/gcc-4.8.5\r\n  apps\/htslib\/1.3.2\/gcc-4.8.5\r\n  apps\/idr_python34\/2.0.2\/python3-3.4.3+numpy_python34-1.9.2+setuptools_python34-15.1+matplotlib_python34-1.4.3+scipy_python34-0.17.0\r\n  apps\/imb\/4.0\/gcc-4.8.5+openmpi-1.8.5\r\n  apps\/ipython\/4.2.1\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+matplotlib-1.4.3\r\n  apps\/kallisto\/0.43.0\/gcc-4.8.5+hdf5_serial-1.8.9\r\n  apps\/kent\/303.1\/gcc-4.8.5\r\n  apps\/khmer\/2.0\/gcc-4.8.5+python-2.7.8+screed-0.9\r\n  apps\/khmer_python3\/2.0\/gcc-4.8.5+python3-3.3.3+screed_python3-0.9\r\n  apps\/khmer_python34\/2.0\/gcc-4.8.5+python3-3.4.3+screed_python34-0.9\r\n  apps\/luciphor2\/20141023\/noarch\r\n  apps\/macs\/2.1.0\/gcc-4.8.5+numpy-1.9.2\r\n  apps\/macs\/2.1.0.20150420\/gcc-4.8.5+numpy-1.9.2\r\n  apps\/macs\/2.1.0.20150731\/gcc-4.8.5+numpy-1.9.2\r\n  apps\/macs\/2.1.1.20160309\/gcc-4.8.5+numpy-1.9.2\r\n  apps\/mats\/3.2.2b\/noarch\r\n  apps\/mats\/4.0.1\/noarch\r\n  apps\/memesuite\/4.11.2\/gcc-4.8.5+perl-5.20.2+python-2.7.8\r\n  apps\/memesuite_mpi\/4.11.2\/gcc-4.8.5+perl-5.20.2+python-2.7.8+openmpi-1.8.5\r\n  apps\/memtester\/4.3.0\/gcc-4.8.5\r\n  apps\/minimap2\/2.2\/gcc-4.8.5+python-2.7.8+cython-0.23.4\r\n  apps\/misopy\/0.5.4\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+scipy-0.17.0\r\n  apps\/mono\/4.0.4.1\/gcc-4.8.5\r\n  apps\/msproteomicstools\/0.3.3\/gcc-4.8.5+python-2.7.8+cython-0.23.4+numpy-1.9.2+biopython-1.63+scipy-0.17.0+pil-1.1.7+pyqwt_qt46-5.2.1+pyqt-4.9.6\r\n  apps\/msproteomicstools\/0.4.3\/gcc-4.8.5+python-2.7.8+cython-0.23.4+numpy-1.9.2+biopython-1.63+scipy-0.17.0+sip-4.16.3+pil-1.1.7+pyqt-4.11.2+pyqwt_qt48-5.2.1\r\n  apps\/multiqc\/1.0\/gcc-4.8.5+python-2.7.8+setuptools-15.1+numpy-1.9.2+matplotlib-1.4.3\r\n  apps\/multiqc\/1.1\/gcc-4.8.5+python-2.7.8+setuptools-15.1+numpy-1.9.2+matplotlib-1.4.3\r\n  apps\/ncbiblast\/2.2.30\/gcc-4.8.5\r\n  apps\/novobreak\/1.1\/noarch\r\n  apps\/openms\/2.0.0\/gcc-4.8.5+boost-1.60.0+eigen-3.2.4+seqan-1.4.1+libsvm-3.21.0+qt-4.8.4\r\n  apps\/openms\/2.0.1\/gcc-4.8.5+boost-1.60.0+eigen-3.2.4+seqan-1.4.1+libsvm-3.21.0+qt-4.8.4\r\n  apps\/openms\/2.2.0\/gcc-4.8.5+boost-1.60.0+eigen-3.2.4+seqan-1.4.1+libsvm-3.21.0+qt-4.8.4\r\n  apps\/openms_python\/2.0.0\/gcc-4.8.5+boost-1.60.0+eigen-3.2.4+seqan-1.4.1+libsvm-3.21.0+qt-4.8.4+python-2.7.8+numpy-1.9.2+cython-0.23.4\r\n  apps\/pandaseq\/2.8.1\/gcc-4.8.5\r\n  apps\/parallel\/20151222\/gcc-4.8.5\r\n  apps\/patchelf\/0.9\/gcc-4.8.5\r\n  apps\/percolator\/3.2\/gcc-4.8.5+boost-1.60.0+xsd-4.0.0\r\n  apps\/perl\/5.20.2\/gcc-4.8.5\r\n  apps\/phantompeakqualtools\/1.1\/gcc-4.8.5+R-3.2.3+boost-1.60.0\r\n  apps\/picard\/2.1.0\/bin\r\n  apps\/pip\/8.1.2\/python-2.7.8\r\n  apps\/plink\/1.07\/gcc-4.8.5\r\n  apps\/plink\/1.90.150618\/gcc-4.8.5+atlas-3.11.36+patchelf-0.9\r\n  apps\/plinkseq\/0.10\/gcc-4.8.5\r\n  apps\/proteowizard\/3.0.9844\/gcc-4.8.5+boost-1.60.0\r\n  apps\/pycogent\/1.5.3\/gcc-4.8.5+numpy-1.9.2+python-2.7.8\r\n  apps\/pynast\/1.2.2\/python-2.7.8+pycogent-1.5.3\r\n  apps\/pyprophet\/0.18.3\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+pandas-0.17.0+numexpr-2.4.4+scipy-0.17.0+matplotlib-1.4.3+seaborn-0.7.0+scikitlearn-0.17.1+setuptools-15.1\r\n  apps\/pyprophet\/0.22.0\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+pandas-0.17.0+numexpr-2.4.4+scipy-0.17.0+matplotlib-1.4.3+seaborn-0.7.0+scikitlearn-0.17.1+setuptools-15.1\r\n  apps\/python\/2.7.8\/gcc-4.8.5\r\n  apps\/python3\/3.3.3\/gcc-4.8.5\r\n  apps\/python3\/3.4.3\/gcc-4.8.5\r\n  apps\/qiime\/1.9.1\/python-2.7.8+numpy-1.9.2+scipy-0.17.0+pycogent-1.5.3+pandas-0.17.0+biomformat-2.1.4+matplotlib-1.4.3+ghc-7.8.2+pynast-1.2.2\r\n  apps\/quast\/2.3\/gcc-4.8.5+python-2.7.8+matplotlib-1.4.3\r\n  apps\/quast\/4.6.3\/gcc-4.8.5+python-2.7.8+matplotlib-1.4.3\r\n  apps\/R\/3.1.1\/gcc-4.8.5+lapack-3.5.0+blas-3.6.0\r\n  apps\/R\/3.2.3\/gcc-4.8.5+lapack-3.5.0+blas-3.6.0\r\n  apps\/R\/3.3.1\/gcc-4.8.5+lapack-3.5.0+blas-3.6.0\r\n  apps\/raxml\/8.1.16\/gcc-4.8.5+openmpi-1.8.5\r\n  apps\/rcount\/20150128\/gcc-4.8.5\r\n  apps\/rdpclassifier\/2.2\/noarch\r\n  apps\/repeatmasker\/4.0.5\/gcc-4.8.5+trf-4.07b+rmblast-2.2.27\r\n  apps\/rmblast\/2.2.27\/gcc-4.8.5\r\n  apps\/rnachipintegrator\/1.0.1\/gcc-4.8.5+setuptools-15.1+python-2.7.8\r\n  apps\/rnaseqc\/1.1.8\/noarch\r\n  apps\/rsem\/1.2.19\/gcc-4.8.5\r\n  apps\/salmon\/0.8.2\/gcc-4.8.5+boost-1.60.0+tbb-4.4.20160128\r\n  apps\/samtools\/0.1.18\/gcc-4.8.5\r\n  apps\/samtools\/0.1.19\/gcc-4.8.5\r\n  apps\/samtools\/1.2\/gcc-4.8.5\r\n  apps\/samtools\/1.3.1\/gcc-4.8.5+htslib-1.3.2\r\n  apps\/samtools\/1.4\/gcc-4.8.5\r\n  apps\/screed\/0.9\/gcc-4.8.5+python-2.7.8\r\n  apps\/screed_python3\/0.9\/gcc-4.8.5+python3-3.3.3\r\n  apps\/screed_python34\/0.9\/gcc-4.8.5+python3-3.4.3\r\n  apps\/seqprep\/1.2\/gcc-4.8.5\r\n  apps\/seqtk\/1.0\/gcc-4.8.5\r\n  apps\/setuptools\/15.1\/python-2.7.8\r\n  apps\/setuptools\/24.0.1\/python-2.7.8\r\n  apps\/setuptools_python3\/15.1\/python3-3.3.3\r\n  apps\/setuptools_python34\/15.1\/python3-3.4.3\r\n  apps\/sip\/4.14.2\/gcc-4.8.5+python-2.7.8\r\n  apps\/sip\/4.16.3\/gcc-4.8.5+python-2.7.8\r\n  apps\/sra\/2.3.5-2\/gcc-4.8.5\r\n  apps\/star\/2.4.2a\/gcc-4.8.5\r\n  apps\/star\/2.5.1a\/gcc-4.8.5\r\n  apps\/star\/2.5.3a\/gcc-4.8.5\r\n  apps\/star_long\/2.4.2a\/gcc-4.8.5\r\n  apps\/star_long\/2.5.3a\/gcc-4.8.5\r\n  apps\/stringtie\/1.3.3b\/gcc-4.8.5\r\n  apps\/subread\/1.5.0-p3\/gcc-4.8.5\r\n  apps\/subread\/1.6.0\/gcc-4.8.5\r\n  apps\/swathprophet\/20150223\/noarch\r\n  apps\/tabix\/0.2.6\/gcc-4.8.5\r\n  apps\/tax2tree\/1.0\/python-2.7.8+pycogent-1.5.3\r\n  apps\/tophat\/2.1.0\/gcc-4.8.5+boost-1.60.0\r\n  apps\/tpp\/4.8.0\/gcc-4.8.5+gnuplot-5.0.2\r\n  apps\/trf\/4.07b\/bin\r\n  apps\/trimgalore\/0.4.2\/noarch\r\n  apps\/trimgalore\/0.4.4\/noarch\r\n  apps\/trimmomatic\/0.32\/noarch\r\n  apps\/trimmomatic\/0.35\/noarch\r\n  apps\/trimmomatic\/0.36\/noarch\r\n  apps\/vcftools\/0.1.14\/gcc-4.8.5+perl-5.20.2\r\n  apps\/vcftools\/0.1.9\/gcc-4.8.5\r\n  apps\/virtualenv\/13.1.2\/python-2.7.8\r\n  apps\/virtualenv_python3\/13.1.2\/python3-3.3.3\r\n  apps\/virtualenv_python34\/13.1.2\/python3-3.4.3\r\n  apps\/vt\/0.577\/gcc-4.8.5\r\n  apps\/xtandem\/20151215\/gcc-4.8.5\r\n  compilers\/gcc\/4.8.2\r\n  compilers\/gcc\/system *default*\r\n  libs\/atlas\/3.10.3\/gcc-4.8.5+openmp+haswell *default*\r\n  libs\/atlas\/3.10.3\/gcc-4.8.5+openmp+ivybridge\r\n  libs\/atlas\/3.11.36\/gcc-4.8.5\r\n  libs\/bcolz\/1.1.0\/gcc-4.8.5+setuptools-24.0.1+python-2.7.8+numpy-1.9.2\r\n  libs\/bioconductor\/2.14\/gcc-4.8.5+R-3.2.3\r\n  libs\/bioconductor\/3.3\/gcc-4.8.5+R-3.3.1\r\n  libs\/biomformat\/2.1.4\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+scipy-0.17.0\r\n  libs\/bioperl\/1.6.923\/gcc-4.8.5+samtools-0.1.19\r\n  libs\/biopython\/1.63\/gcc-4.8.5+python-2.7.8+numpy-1.9.2\r\n  libs\/biopython_python3\/1.63\/gcc-4.8.5+python3-3.3.3+numpy_python3-1.9.2\r\n  libs\/blas\/3.6.0\/gcc-4.8.5\r\n  libs\/boost\/1.55.0\/gcc-4.8.5+openmpi-1.8.5+python-2.7.8\r\n  libs\/boost\/1.60.0\/gcc-4.8.5+openmpi-1.8.5+python-2.7.8\r\n  libs\/eigen\/3.2.4\/gcc-4.8.5\r\n  libs\/gcc\/4.8.2\r\n  libs\/gcc\/system\r\n  libs\/gsl\/1.16\/gcc-4.8.5\r\n  libs\/imagemagick\/6.9.4\/gcc-4.8.5\r\n  libs\/lapack\/3.5.0\/gcc-4.8.5\r\n  libs\/libsvm\/3.21.0\/gcc-4.8.5\r\n  libs\/matplotlib\/1.4.3\/gcc-4.8.5+python-2.7.8+numpy-1.9.2 *default*\r\n  libs\/matplotlib\/1.4.3\/ivy\r\n  libs\/matplotlib_python3\/1.4.3\/gcc-4.8.5+python3-3.3.3+numpy_python3-1.9.2\r\n  libs\/matplotlib_python34\/1.4.3\/gcc-4.8.5+python3-3.4.3+numpy_python34-1.9.2\r\n  libs\/netcdf\/4.3.0\/gcc-4.8.5+hdf5_serial-1.8.9\r\n  libs\/numexpr\/2.4.4\/gcc-4.8.5+python-2.7.8+numpy-1.9.2\r\n  libs\/numpy\/1.9.2\/gcc-4.8.5+atlas-3.10.3+python-2.7.8\r\n  libs\/numpy\/1.9.2\/gcc-4.8.5+atlas-3.11.36+python-2.7.8 *default*\r\n  libs\/numpy_python3\/1.9.2\/gcc-4.8.5+atlas-3.11.36+python3-3.3.3\r\n  libs\/numpy_python34\/1.9.2\/gcc-4.8.5+atlas-3.11.36+python3-3.4.3\r\n  libs\/pandas\/0.17.0\/gcc-4.8.5+python-2.7.8+numpy-1.9.2\r\n  libs\/pil\/1.1.7\/gcc-4.8.5+python-2.7.8\r\n  libs\/pybedtools\/0.7.4\/gcc-4.8.5+python-2.7.8+pysam-0.8.3\r\n  libs\/pyqt\/4.11.2\/gcc-4.8.5+python-2.7.8+qt-4.8.4\r\n  libs\/pyqt\/4.9.6\/gcc-4.8.5+python-2.7.8+qt-4.6.4\r\n  libs\/pyqwt_qt46\/5.2.1\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+sip-4.14.2+pyqt-4.9.6+qt-4.6.4\r\n  libs\/pyqwt_qt48\/5.2.1\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+sip-4.16.3+pyqt-4.11.2+qt-4.8.4\r\n  libs\/pysam\/0.8.3\/gcc-4.8.5+python-2.7.8\r\n  libs\/qt\/4.6.4\/gcc-4.8.5\r\n  libs\/qt\/4.8.4\/gcc-4.8.5\r\n  libs\/rpy2\/2.8.2\/gcc-4.8.5+setuptools-15.1+python-2.7.8+R-3.2.3\r\n  libs\/scikitlearn\/0.17.1\/gcc-4.8.5+python-2.7.8+matplotlib-1.4.3+numpy-1.9.2+scipy-0.17.0\r\n  libs\/scikit-learn\/0.17.1\/gcc-4.8.5+python-2.7.8+matplotlib-1.4.3+numpy-1.9.2+scipy-0.17.0\r\n  libs\/scikit-learn_python3\/0.17.1\/gcc-4.8.5+python3-3.3.3+matplotlib_python3-1.4.3+numpy_python3-1.9.2+scipy_python3-0.17.0\r\n  libs\/scikit-learn_python34\/0.17.1\/gcc-4.8.5+python3-3.4.3+matplotlib_python34-1.4.3+numpy_python34-1.9.2+scipy_python34-0.17.0\r\n  libs\/scipy\/0.17.0\/gcc-4.8.5+atlas-3.10.3+python-2.7.8+numpy-1.9.2\r\n  libs\/scipy\/0.17.0\/gcc-4.8.5+atlas-3.11.36+python-2.7.8+numpy-1.9.2 *default*\r\n  libs\/scipy_python3\/0.17.0\/gcc-4.8.5+atlas-3.11.36+python3-3.3.3+numpy_python3-1.9.2\r\n  libs\/scipy_python34\/0.17.0\/gcc-4.8.5+atlas-3.11.36+python3-3.4.3+numpy_python34-1.9.2\r\n  libs\/seaborn\/0.7.0\/gcc-4.8.5+python-2.7.8+scipy-0.17.0+matplotlib-1.4.3+pandas-0.17.0\r\n  libs\/seqan\/1.4.1\/noarch\r\n  libs\/tbb\/4.4.20160128\/gcc-4.8.5\r\n  libs\/xsd\/4.0.0\/bin\r\n<\/pre>\n","protected":false},"excerpt":{"rendered":"<p>The following modulefiles (and app installs) are old, and unlikely to work on the CSF3 (Slurm) cluster. If you have previously used these modules but find that they no longer work, please consider installing the app yourself using Conda &#8211; MiniForge (in the case of a python app) or contact us to request help. Note that we are unlikely to install very old versions of applications &#8211; now is an opportunity to upgrade to a.. <a href=\"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/software\/applications\/bioinf\/\">Read more &raquo;<\/a><\/p>\n","protected":false},"author":2,"featured_media":0,"parent":86,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-1890","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/pages\/1890","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/comments?post=1890"}],"version-history":[{"count":10,"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/pages\/1890\/revisions"}],"predecessor-version":[{"id":12415,"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/pages\/1890\/revisions\/12415"}],"up":[{"embeddable":true,"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/pages\/86"}],"wp:attachment":[{"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/media?parent=1890"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}