M3 User Guide

Software on M3

M3 uses a modular system to manage software.

Modules

Modules is software installed on M3 that provides an easy mechanism for updating your environment variables, so that your environment uses the correct version of software and libraries installed on M3.

Installed software modules

------------------------ /usr/share/Modules/modulefiles ------------------------
dot         module-git  module-info modules     null        use.own

------------------------ /usr/local/Modules/modulefiles ------------------------
3daprecon/0.0.1
3daprecon/1.0
3depict/0.0.15
3dslicer/4.6.0
3dslicer/4.8.1
abaqus/6.14
abinit/8.8.3
abyss/2.0.2
adxv/1.9.12
afni/16.2.16
afni/17.0.11
align2rawsignal/2.0
amber/18-multi-gpus
amber/18-parallel
amber/18-serial
amber/18-single-gpu
amira/6.3.0
amira/6.4.0
amira/6.5.0
anaconda/2018.12-Python3.7-gcc6
anaconda/2019.03-Python3.7-gcc5
anaconda/4.3.1-Python3.5
anaconda/4.3.1-Python3.5-gcc5
anaconda/5.0.1-Python2.7-gcc5
anaconda/5.0.1-Python3.5-gcc5
anaconda/5.0.1-Python3.6-gcc5
anaconda/5.1.0-Python3.6-gcc5
analyze/12.0
ansys/18.1
ansys/19.1
ants/1.9.v4
ants/2.2.0
apr/1.6.5
apr-util/1.6.1
argos/3.0.0-beta52
ariba/2.12.1
armadillo/9.200-rc1
arpack/2.1
arpack/3.1.3-2
ascp/3.5.4
atlas/3.10.2-gcc4
atlas/3.10.2-gcc5
atomprobedevcode/1.0.0(default)
attr/2.4.46-12
autodock_vina/1.1.2
avizo/9.0.1
avizo/9.3.0
avizo/9.3.0.1
avizo/9.4.0
avizo/9.5.0
avizo/9.7
axel/2.12
bamtools/2.4.1
barrnap/0.9
bart/0.4.04
bayenv/2.0
bayesass/1.3
bayesass/3.04
bbcp/17.12
bcbtoolkit/4.0.0
bcftools/1.6
bcftools/1.7
bcftools/1.8
bcl2fastq/2.19.1
beagle/2.1.2
beast1/1.10.0
beast1/1.8.4
beast2/2.4.7
beast2/2.4.8
beast2/2.5.0
bedtools/2.26.0
bedtools/2.26.0-gcc5
bedtools/2.27.1-gcc5
bids-validator/2019.01
bigdatascript/v0.99999e
bigwigtowig/377-0
biscuit/0.2.2
biscuit/0.3.8.20180515
bismark/v0.19.1
bison/2.7.1
blas/3.8.0-gcc5
blas/3.8.0-gcc5-pic
blast/2.2.30
blast/2.3.0
blast/2.7.1(default)
boost/1.46.0-gcc5
boost/1.46.1-gcc5
boost/1.52.0-gcc5
boost/1.58.0
boost/1.58.0-gcc5
boost/1.62.0
boost/1.62.0-gcc4
boost/1.67.0-gcc5
bowtie/1.1.2
bowtie2/2.2.9
bowtie2/2.3.5
brain_age/v1.0_18Jan2018
breseq/0.29.0
breseq/0.33.2
bsoft/1.9.2
bsoft/2.0(default)
buster/20170508
bwa/0.7.12
bwa/0.7.17-gcc5
bzip2/1.0.6
caffe/1.0.0
caffe/1.0.0-protbuf32
caffe/caffe-matlab
caffe/caffe-tsn
caffe/deepvistool
caffe/latest(default)
caffe/rc4
caffe2/0.8.1
caffe_enet/1.0
caffe_unet/1.0
caffe_unet/2.0
canu/1.7.1
caret/5.65
caw/0.2.4(default)
cblas/20032302-gcc5
ccp4/7.0
ccp4/7.0.072
ccp4/ccp4i
ccp4/ccp4i2
ccp4/ccp4mg
ccp4/coot
ccp-em/1.3.0
cellprofiler/2.2.0
cellprofiler/3.1.5
cellprofileranalyst/2.2.0
cellranger/2.0.1
cellranger/3.0.2
centrifuge/1.0.4-beta
chimera/1.10.2
chimera/1.11
chimerax/0.6
chimerax/0.8
chrome/68
chrome/69
chrome/default
circos/0.69-6
cistem/1.0.0-beta
clamms/1.1
clonalframeml/1.11
cloudstor/2.3.1-1.1
cloudstor/2.4.1
cloudstor/2.4.2
cmake/2.8.12.2
cmake/2.8.12.2-gcc5
cmake/3.10.2-gcc4
cmake/3.10.2-gcc4-system
cmake/3.10.2-gcc5
cmake/3.5.2
cmake/3.5.2-gcc4
cmake/3.5.2-gcc5
cmkl/9.1.023
cnvkit/0.9.5
comsol/5.2a
connectome/1.2.3
convert3d/1.0.0
coventormp/1.002
cp2k/6.1.0
cplex/12.6
cplex/12.6.3
cplex/12.7.1
cplex/12.8.0
cpmd/3.17.1
crisprcasfinder/1.05
crispresso/1.0.13-gcc5
cryo-em-processing-tool/0.1
cryolo/1.0.0
cryolo/1.1.3
cryolo/1.3.1
cryosparc/beta
cryosparc/v2
crystallography/0.0.3(default)
cst/2017
ctffind/4.0.17
ctffind/4.1.10
ctffind/4.1.3
ctffind/4.1.4
ctffind/4.1.8
cuda/10.0
cuda/4.1
cuda/4.1.bajk
cuda/6.0
cuda/7.0
cuda/7.5
cuda/8.0
cuda/8.0.61
cuda/8.0-DL
cuda/9.0
cuda/9.1
cudadeconv/1.0
cudalibs8to9/0.1
cudnn/5.1
cudnn/5.1-DL
cudnn/7.1.2-cuda8
cudnn/7.1.3-cuda9
cudnn/7.3.0-cuda9
cufflinks/2.2.1
cunit/2.1.3
cutadapt/0.16
cytoscape/3.4.0
daris-utils/1.0
darknet/alexey
darknet/darknet_yolo_v3
darknet/latest
dcmtk/3.6.3
deep-complex-networks/2017
deepmedic/0.6.1
deepmedic/0.7.0
deeptools/3.1.2
deeptools/3.1.3
dense3dcrf/20160527
detectron/20180322
dials/1.12.1
dials/1.5.1
diamond/0.9.22
dicomnifti/2.32.1
diyabc/2.1.0
dmtcp/2.5.2
dos2unix/7.4.0
dragondisk/1.0.5
drishti/2.6.3
drishti/2.6.4
drmaa/1.0.7
drmaa/1.1.0
dti-tk/2.3.1
dtk/0.6.4.1
dynamo/1.1.178
dynet/2.1-cpu
dynet/2.1-gpu
ea-utils/1.1.2
ea-utils/1.1.2-gcc5
eclipse/4.7.3a
eclipse/4.8
effoff/0.2.1(default)
eigen/2.0.17
eigen/3.2.9
eigen/3.3.0
eigensoft/7.2.1
eiger2cbf/1.0
elf/1.0
eman/2.12
eman/2.2
eman/2.22
eman/2.3
emapaccess/1.0(default)
emap-galaxy-shortcut/1.0.0(default)
emap-mytardis-shortcut/1.0.0(default)
emap-wiki-shortcut/0.0.1(default)
emboss/6.6.0
emspring/spring_v0-84-1470
emspring/spring_v0-84-1470_mlx
exciting/nitrogen
exploredti/4.8.6
fastani/1.1
fastml/3.1
fastqc/0.11.7
fastQValidator/0.1.1a
fastspar/0.0.7
fasttree/2.1.10
fastx-toolkit/0.0.13
fcsalyzer/0.9.12
feedback/1.0.1(default)
ffmpeg/3.4.2
fftw/3.3.4-gcc
fftw/3.3.5-gcc
fftw/3.3.5-gcc5
fgbio/0.9.0
figtree/1.4.3
fiji/20160808
fiji/20170223
fiji/20170530
fiji/current
fiji/MMI-MHTP
fix/1.064
flash/1.2.11-gcc5
flexbar/3.4.0
flye/2.3.5
fmriprep/1.0.15
fmriprep/1.1.1
fmriprep/1.2.5
fmriprep/1.3.0_post2
foma/0.9.18
fooof/0.1.3
fouriertransform/0.2.3(default)
freesurfer/20160922
freesurfer/5.3
freesurfer/6.0
freesurfer/6.0-patch
freesurfer/devel-20171013
freesurfer/devel-20180612
freesurfer/devel-20190128
fsl/5.0.11
fsl/5.0.9
fsl/6.0.0
fsl/6.0.1
fsleyes/0.22.4
fsleyes/0.23.0
fsleyes/0.24.3
ftgl/2.1
gamess/16srs1
gamess/16srs1-v2
gamess/2018r3
gap/4.8.10
gatk/3.4
gatk/3.7
gatk/4.0.1.1
gatk/4.0.11.0
gauss/11.0
gauss/9.0
gaussian/g16a03
gautomatch/0.53
gautomatch/0.56
gcat/e48bf8b
gcc/4.9.3
gcc/5.4.0
gcc/6.1.0
gcc/8.1.0
gctf/0.50
gctf/0.66
gctf/1.06
gctf/1.06_cuda8
gctf/1.08_cuda8
gctf/1.18
gctf/1.18_b2
gctf/1.18_b2_cuda9
gctf/1.18_cuda8
gctf/1.18_cuda91
gdal/2.2.4
gdal/2.3.1
gdb/8.2.1
gdcm/2.6.6-gcc4
gdcm/2.6.6-gcc5
gd-devel/2.0.35
geant4/10.02.p03
geant4/10.03.p01
gem/3.3
geos/3.6
gflags/master
gflags/master-gcc4
gimp/2.8
gimp/2.8.22
gingerale/2.3.6
git/2.17.0
git/2.19.0
git/2.8.1
git-annex/6.20180227
glew/2.0-gcc4
glew/2.0-gcc5
glm/0.9.9.5
glog/master
glog/master-gcc4
glpk/4.60
gmp/6.1.2
gmsh/3.0.3
gnuparallel/20160822
gnuparallel/20190122
gnuplot/5.2.1
go/1.11.1
goctf/1.1.0
gpu_burn/0.9
gpu_burn/1.0
gpucomputingsdk/4.0.17
graphviz/2.30.1
gromacs/2016.3-openmpi-cuda8.0
gromacs/2016.4-openmpi-cuda8.0
gromacs/2016.5-openmpi-cuda8.0-plumed
gromacs/2018.4-openmpi-cuda8.0
gromacs/2018-openmpi-cuda8.0
gromacs/2018-openmpi-cuda8.0-NVML(default)
gromacs/5.1.4
gsl/1.15.13-system
gsl/2.2-gcc4(default)
gsl/2.2-gcc5
gsl/2.2-system
gsl/2.5-gcc4
gst-devel/1.4.5
gst-libav/1.10.4
gst-libav/1.4.5
gubbins/2.3.2
gurobi/7.5.1
gurobi/8.0.0
h5toxds/1.1.0
hdf5/1.10.0-patch1
hdfview/3.0
hisat2/2.1.0
hmmer/2.4i
hmmer/3.2.1
hotspot/4.0.0
htop/2.0.1
htseq/0.10.0
htslib/1.7
htslib/1.9
htslib/1.9-gcc5
huygens/16.10.1-p1
hypre/2.11.2
hypre/2.15.0
icm/3.7-3b
icm/3.8.7
idl/8.6
idr/2.0.3
igv/2.3.81
igv/2.4.19
ihrsr++/v1.5
ilastik/1.2.0
illumina-utils/2.6
illumina-utils/2.6-python3.7
imagemagick/7.0.5-7
imagemagick/7.0.8-23
imagemagick/7.0.8.23-native
imagescope/11.2.0.780
imblproc/20190405
imod/4.8.54
imod/4.9.9
imod-raza/4.7.12
imosflm/7.2.1
imosflm/7.2.2
impute2/2.3.1
intel/2015.0.090
intel/2016
intel/2017u4
intel/2018test
intel/2018u3
iqtree/1.5.3
iqtree/1.6.2
ismapper/2.0
itk/4.10.0-gcc4
itk/4.10.0-gcc5
itk/4.10.0-gcc5-p1
itk/4.13.0-gcc4
itk/4.13.1-gcc4
itk/4.8.2-gcc4
itk/4.8.2-gcc5
itksnap/3.3.x(default)
jags/3.3.0
jags/3.4.0
jags/4.3.0
java/1.7.0_67
java/1.8.0_77
jdk/10-20180320
jspr/2017-7-20
kallisto/0.43.0
kaptive/0.5.1
kilosort/1.0
king/2.1.6
kleborate/0.2.0
kleborate/0.3.0
kraken2/2.0.7-beta
lammps/20180510(default)
lammps/20181212
lapack/3.6.1-gcc4
lapack/3.6.1-gcc4-opt
lapack/3.6.1-gcc5
lapack/3.8.0-gcc5
lapack/3.8.0-gcc5-pic
ldmap/28apr15
leveldb/master
leveldb/master-gcc4
levelset/0.0.2(default)
libffi/3.2.1
libffi-devel/3.0.13
libgd/2.2.4
libgeotiff/1.4.2
libharu/2.2.1
libint/1.1.4
libjpeg-turbo/1.4.2
libjpeg-turbo/1.5.1
libsmm/20150702
libtiff/3.9.7
libuuid/2.23.2-43
libxc/4.1.0
libxsmm/1.9
libzip/0.10.1-8
lmdb/latest
lofreq/2.1.3.1
lsd/0.3beta
macs2/2.1.1.20160309
mafft/7.310
magma/1.6.1
magma/2.0.2
mango/4.0.1
manta/1.5.0-gcc5
mantid/3.13.0
mantid/3.8.0
mantid/3.9.0
mash/2.1(default)
materialsstudio/18.1.0
mathematica/11.0.1
mathgl/1.11.2
mathgl/2.0.3(default)
mathgl/2.3.3
matlab/r2012b
matlab/r2014a
matlab/r2015b
matlab/r2016a
matlab/r2017a
matlab/r2017b
matlab/r2017b-caffe
matlab/r2018a
mauve/20150213
maven/3.3.9
maxquant/1.6.5.0
mc/4.8.21
mcr2010b/1.0
meme/5.0.1
merantk/1.2.1
mercurial/4.7.1
mesa/13.0.5
mesa/default
meshlab/2016.12-gcc5
meshlab/2019.03
metaplotr/2018_09
metawrap/1.1.3
mevislab/2.8.1-gcc-64bit
miakat/4.2.6
minc-lib/2.2-git-gcc4
minc-tools/2.2
miniconda3/4.1.11-python3.5
minizinc/2
mkl/2018u3
mlst/2.15
mne/TF-201804
molden/5.7
mono/5.20.1.19
moose/1.0
morphind/1.4
motioncor2/20180924
motioncor2/20181020
motioncor2/20181020-cuda91
motioncor2/2.1
motioncor2/2.1.10-cuda8
motioncor2/2.1.10-cuda9.1
motioncorr/2.1
motioncorr2/20160822
mpfr/3.1.5
mpifileutils/20170922
mrbayes/3.2.6
mrbayes/3.2.6-mpi
mrf/0.2.2(default)
mriconvert/2.1.0
mricrogl/1.0.20170207
mricron/06.2013
mricron/30apr2016
mriqc/0.14.2
mriqc/0.9.7
mrtrix/0.3.15-gcc4
mrtrix/0.3.15-gcc5
mrtrix/0.3.16
mrtrix/20170712
mrtrix/3.0_rc3
msm_hocr/3.0
mummer/3.23-gcc5
mummer/4.0.0.beta2-gcc5
muscle/3.8.31
mustem/5.3
mxtools/0.1
mytardis/0.1(default)
namd/2.12-ibverbs-smp-cuda
namd/2.12-multicore
namd/2.13-multicore-CUDA
nanofilt/201807
nanopolish/0.10.1
nanopolish/0.11.1
nccl/master
nccl/master-gcc4
netcdf/4.4.1.1(default)
netcdf/4.4.1.1-openmpi-1.10.7-mlx
neuro_workflow/2017v2
ngsqctoolkit/2.3.3
niftilib/2.0.0
niistat/9.oct.2016
nis-elements-viewer/4.20
nn/0.2.4(default)
novactf/03.2018
objexport/0.0.4(default)
octopus/8.4
openblas/0.2.20
opencv/3.4.1
opencv/3.4.1-gcc4
openfoam/4.1
openfoam/5.x
openjpeg/2.3.0
openmpi/1.10.3-gcc4-mlx
openmpi/1.10.3-gcc4-mlx-cuda75
openmpi/1.10.3-gcc4-mlx-verbs
openmpi/1.10.3-gcc4-mlx-verbs-cuda75
openmpi/1.10.3-gcc5
openmpi/1.10.3-gcc5-mlx
openmpi/1.10.7-1.mlx
openmpi/1.10.7-intel
openmpi/1.10.7-mlx(default)
opennmt-py/0.7.0
openrefine/3.1
orca/4.0.1
packer/1.3.5
paml/4.9
paraview/4.0.1
paraview/5.6.0
pastml/1.0
pbzip2/1.1.13
peakseq/1.3.1
perl/5.24.0
perl/5.28.0
petsc/3.10.1-gcc5
pgi/19.4
pgi/2019
phenix/1.11.1
phenix/1.15.1
phenix/1.15.2
phreeqc/3.5.0
phyml/3.1
picard/2.19.0
picard/2.9.2
pigz/2.3.3
pigz/2.3.4
pilon/1.22
pindel/0.6.3-gcc5
plink/1.7
plink/1.9
plinkseq/0.10
plumed/2.5.0
pmix/4.0.0
pmix/v2.2
pointless/1.10.28
posgen/0.0.1(default)
posminus/0.2.3(default)
prodigal/2.6.3
proj/4.9.3
proj/5.1.0
prokka/1.13.3
protobuf/master
protobuf/master-gcc4
psi4/v1.1
pv/1.6.6
pycharm/2018.3.3
pydeface/1.1.0
pyem/v0.1
pyem/v0.1-201806
pyem/v0.3
pymol/1.8.2.1
pymol/1.8.6
pymol/2.4.0a0
pypy/7.0.0-3.6
python/2.7.11-gcc
python/2.7.12-gcc4(default)
python/2.7.12-gcc5
python/2.7.15-gcc5
python/3.5.2-gcc
python/3.5.2-gcc4
python/3.5.2-gcc5
python/3.6.2
python/3.6.2-static
python/3.6.6-gcc5
python/3.7.2-gcc6
python/3.7.3-system
pytorch/1.0-cuda10
pyxnat/20170308
qatools/1.2
qhull/2003.1
qhull/2015.2
qiaseq-dna/1.0
qiime1/1.9.1
qiime2/2017.9
qiime2/2018.11
qiime2/2018.2
qiime2/2018.4
qiime2/2019.1
qt/5.7.1-gcc5
qt5-qtwebkit/5.9.1
quit/1.1
quit/2.0.2
R/3.3.1
R/3.4.3
R/3.5.0
R/3.5.1
R/3.5.2-openblas
R/3.5.3-mkl
racon/1.3.1
raxml/8.2.12
raxml/8.2.9
razers3/3.5.8
rdf-kd/0.0.1(default)
relion/1.4
relion/2.02
relion/2.0.6
relion/2.0beta
relion/2.1(default)
relion/2.1.b1
relion/2.1.b2
relion/2.1-openmpi-1.10.7-mlx
relion/3.0-20181109-cuda80
relion/3.0-20181109-cuda91
relion/3.0-20190115
relion/3.0.5
relion/3.0.5-uow
relion/3.0-beta
relion/3.0-stable
relion/3.0-stable-cuda91
relion/3.0-stable-uow
relion/3.0-uow-20180904
relion/3.0-uow-20180917
relion/3.0-uow-20181109-cuda80
relion/3.0-uow-20181109-cuda91
relion/3.0-uow-20190115
resmap/1.1.4
resmap/1.1.5
resmap/1.9.5
rest/1.8
rest/1.8-matlab2017a.r6685
rings/1.3.3
r-launcher/0.0.1(default)
rnammer/1.2
roary/3.11.2
root/5.34.32
rosetta/2018.09
rsem/1.3.0
rstudio/1.0.143
rstudio/1.0.44
rstudio/1.1.414
rstudio/1.1.463
rstudio/1.1.463-r3.5.3-mkl
rstudioserver_epigenetics/1.0
rstudioserver_epigenetics/1.0-20171101
rsync/3.1.3
salome/9.2.0
samtools/0.1.18
samtools/1.3.1
samtools/1.6
samtools/1.7
samtools/1.7-gcc5
samtools/1.9
samtools/1.9-gcc5
sas/9.4
sbt/0.13.15
sbt/1.2.1
scalapack/2.0.2
scipion/devel
scipion/devel-20170327
scipion/v1.0.1_2016-06-30
scipion/v1.1
scipion/v1.1.1
scipion/v1.2
scipion/v1.2.1
scipion/v1.2.1_2018-10-01
scrappie/1.4.1
sdm_1d_calculate/2.0.2(default)
sdm_1d_plot/0.0.4(default)
sdm_2d_calculate/2.0.2(default)
sdm_2d_plot/0.0.4(default)
seqgen/1.3.4
seqtk/1.3
shapeit/v2_r837
simnibs/2.0.1g
simple/2.1
simple/2.5
singlem/0.12.1
singularity/2.3.1
singularity/2.4.2
singularity/2.4.5
singularity/2.5.2(default)
singularity/3.0
singularity/3.0.1
singularity/3.0.2
singularity/3.1.0
singularity/3.2.0
singularity/d3d0f3fdc4390c7e14a6065543fc85dd69ba42b7
ska/1.0-e1968f0
skesa/2.2.1
skewer/20170212
slim/3.2
slurm/17.11.4
smux/0.0.1
snappy/master
snappy/master-gcc4
snpeff/4.3t
snpm/13
soapdenovo2/2.04-r241
sourcetracker/2.0.1
spades/3.12.0
sparseassembler/1.0
sparsehash/2.0.3
spider/21.11
spm12/matlab2015b.r6685
spm12/matlab2018a.r6685
spm12/matlab2018a.r7487
spm8/matlab2015b.r6685
spm8/matlab2017a.r6685
squashfs-tools/4.3-0.21
squashfuse/0.1.103
sra-tools/2.7.0
sra-tools/2.9.2
sra-tools/2.9.4
srst2/0.2.0
srst2/0.2.0-2019
stacks/2.4
star/2.5.2b
stata/14
stisuite/3.0
strelka/2.8.4
stringtie/1.3.5
stringtie/1.3.6
structure/2.3.4
subread/1.5.1
subversion/1.9.5
surfice/7_feb_2017
svd/1.4
swig/3.0.12
synopsys/3.1(default)
tannertools/2016.1
tannertools/2016.2
tapsim/v1.0b_r766
tbb/20180312oss
tempest/1.5
tensorflow/1.0.0-python2.7.12-gcc5
tensorflow/1.10.0-pytorch
tensorflow/1.10.0-pytorch-all
tensorflow/1.10.0-pytorch-keras
tensorflow/1.12.0-python2.7.12-gcc5
tensorflow/1.12.0-python3.6-gcc5
tensorflow/1.3.0-python2.7.12-gcc5
tensorflow/1.4.0-python2.7.12-gcc5
tensorflow/1.4.0-python3.6-gcc5
terastitcher/20171106
texlive/2017
tiff/4.0.8
tigervnc/1.8.0
tmap/3.0.1
toothmaker/0.64
topaz/1.0
tophat/2.1.1
tracer/1.6
trackvis/0.6.1
trim_galore/0.4.5
trim_galore/0.5.0
trimmomatic/0.38
turbovnc/2.0.2(default)
turbovnc/2.1.0
ucsc-genome-tools/201806
umap/0.3.8
umi-tools/0.5.5-python2
umi-tools/0.5.5-python3
unblur/1.0.2
underworld/2.3.0
unicycler/0.4.7
unimelb-mf-clients/0.2.7
unrar/5.0
valgrind/3.13
varscan/2.3.9
vcftools/0.1.15
velvet/1.2.10
vep/90(default)
vep/94
vigra/1.9.0
vim/8.0.0596
virtualgl/2.5.0(default)
virtualgl/2.5.2
visit/2.12.3
vmd/1.9.3
volview/3.4
voro++/0.4.6
vt/0.57
vtk/5.10.1
vtk/5.10.1-gcc4
vtk/7.0.0
vtk/7.0.0-gcc5
wasp/0.3.0
wfu_pickatlas/3.0.5b
workspace/4.0.2
wxgtk/3.0.2
wxwidgets/3.0.3
xds/20170302
xds/monash(default)
xds/mxbeamteam
xjview/9.0
xjview/9.6
xnat-desktop/0.96
xnat-utils/0.2.1
xnat-utils/0.2.5
xnat-utils/0.2.6
xnat-utils/0.4.5
xnat-utils/0.4.6
xnat-utils/0.4.9
xvfb/1.19.3
yade/1.20.0-cpu
yade/1.20.0-gpu
yade/yade-daily-may-2019
yasm/1.2.0-4
zetastitcher/0.3.3
zlib/1.2.11

Requesting an install

If you require additional software please email help@massive.org.au with the following details:

  • software
  • version
  • URL for download
  • urgency
  • if there are any licensing restrictions we need to impose

Docker based work flows

Many fields are beginning to distribute fully self contained pieces of software in a container format known as docker. Unfortunately docker is unsuited as a container format for shared user systems, however it is relatively easy to convert most docker containers for scientific work flows to the Singularity format. If you wish to run software based on a Docker container, please email help@massive.org.au and let us know where we can obtain the container and we will be happy to convert it for you.

Running QIIME on M3

QIIME (Quantitative Insights Into Microbial Ecology) 2 is installed on M3. To use this software:

 # Loading module
 module load qiime2/2017.9

# Unloading module
 module unload qiime2/2017.9

If you encounter issues with this install, please contact help@massive.org.au