diff --git a/smoke_test/application_list.txt b/smoke_test/application_list.txt
new file mode 100644
index 0000000000000000000000000000000000000000..9e18d0994823fd078299c53be18e9c5e55077506
--- /dev/null
+++ b/smoke_test/application_list.txt
@@ -0,0 +1,1504 @@
+3daprecon/0.0.1
+3daprecon/1.0
+3depict/0.0.15
+3dslicer/4.10.2
+3dslicer/4.6.0
+3dslicer/4.8.1
+abaqus/2016
+abaqus/2019
+abaqus/6.14
+abinit/8.8.3
+abricate/0.8.13
+abyss/2.0.2
+adapterremoval/2.3.1
+adf/2019.104
+adxv/1.9.12
+afni/16.2.16
+afni/17.0.11
+align2rawsignal/2.0
+allpathslg/52488
+amber/18-multi-gpus
+amber/18-parallel
+amber/18-parallel-pmemd.gem
+amber/18-serial
+amber/18-single-gpu
+amide/1.0.5
+amira/2020.2
+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/2020.07-Python3.8-gcc8
+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
+analyze-temp/12.0
+angsd/0.931
+angsd/0.931-realsfs
+ansys/18.1
+ansys/19.1
+ansys/19.2
+ansys/20r2
+ants/1.9.v4
+ants/20190910
+ants/2.2.0
+ants/2.3.1
+ants/2.3.4
+any2fasta/0.4.2
+apbs/3.0.0
+apex/latest
+apr/1.6.5
+apr-util/1.6.1
+argos/3.0.0-beta52
+ariba/2.12.1
+ariba/2.14.4
+armadillo/9.200-rc1
+arpack/2.1
+arpack/3.1.3-2
+arrayfire/3.7.1
+ascp/3.5.4
+ashs/1.0.0
+astra-toolbox/1.9.9.dev4
+atlas/3.10.2-gcc4
+atlas/3.10.2-gcc5
+atom/1.39.1
+atomprobedevcode/1.0.0
+attr/2.4.46-12
+augustus/3.3.3
+autodock_vina/1.1.2
+automake/1.16.1
+automake/1.4-p6
+autometa/2019-09
+avizo/2020.2
+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
+bamsurgeon/1.2
+bamtofastq/1.2.0
+bamtools/2.4.1
+barrnap/0.9
+bart/0.4.04
+bart/0.4.04-cuda9.0
+bayenv/2.0
+bayesass/1.3
+bayesass/3.04
+bayesass/3.0.4-snps
+bayescan/2.1
+baypass/2.2
+bbcp/17.12
+bbmap/38.81
+bcbtoolkit/4.0.0
+bcftools/1.11
+bcftools/1.6
+bcftools/1.7
+bcftools/1.8
+bcl2fastq/2.19.1
+beagle/2.1.2
+beagle/3.1.2
+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
+bedtools/2.29.2
+bgen/1.1.4
+bidscoin/2.2
+bidscoin/3
+bids-validator/1.3.1
+bids-validator/2019.01
+bigdatascript/v0.99999e
+bigwigtowig/377-0
+bilm-tf/1.0
+biobambam/0.0.191
+biobambam2/2.0.146
+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
+blast+/2.9.0
+blender/2.81
+blender/2.90.1
+bolt-lmm/2.3.2
+bolt-lmm/2.3.4
+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
+boost/1.72.0-gcc8
+bowtie/1.1.2
+bowtie2/2.2.9
+bowtie2/2.3.5
+bracken/2.5
+brain_age/v1.0_18Jan2018
+breseq/0.29.0
+breseq/0.33.2
+bsoft/1.9.2
+bsoft/2.0
+busco/3.0.2
+buster/20170508
+bwa/0.7.12
+bwa/0.7.17-gcc5
+bwa-meth/0.2.2
+bzip2/1.0.6
+cactus/1.0.0
+caffe/1.0.0
+caffe/1.0.0-protbuf32
+caffe/caffe-matlab
+caffe/caffe-tsn
+caffe/deepvistool
+caffe/latest
+caffe/rc4
+caffe2/0.8.1
+caffe_enet/1.0
+caffe_unet/1.0
+caffe_unet/18.04
+caffe_unet/2.0
+camino/2020-09-21
+canu/1.7.1
+caret/5.65
+caw/0.2.4
+cblas/20032302-gcc5
+ccp4/7.0
+ccp4/7.0.072
+ccp4/ccp4i
+ccp4/ccp4i2
+ccp4/ccp4mg
+ccp4/coot
+ccp-em/1.3.0
+cdhit/4.8.1
+cdo/1.9.8
+cellprofiler/2.2.0
+cellprofiler/3.1.5
+cellprofiler/3.1.9
+cellprofileranalyst/2.2.0
+cellranger/2.0.1
+cellranger/3.0.2
+centrifuge/1.0.4-beta
+checkm/1.1.3
+checkv/0.7.0
+chimera/1.10.2
+chimera/1.11
+chimera/1.13
+chimera/1.14
+chimerax/0.6
+chimerax/0.8
+chimerax/0.91
+chimerax/0.93
+chrome/68
+chrome/69
+chrome/75
+chrome/77
+chrome/78
+chrome/80
+chrome/80.0.3987.163
+chrome/88.0.4324
+chrome/default
+chuffed/0.10.3
+circos/0.69-6
+cistem/1.0.0-beta
+clairvoyante/1.02
+clamms/1.1
+clonalframeml/1.11
+cloudcompare/2.11.2
+cloudstor/2.3.1-1.1
+cloudstor/2.4.1
+cloudstor/2.4.2
+clustal-omega/1.2.4
+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/3.15.1-gcc4-system
+cmake/3.15.1-gcc5
+cmake/3.15.4-gcc8
+cmake/3.5.2
+cmake/3.5.2-gcc4
+cmake/3.5.2-gcc5
+cmkl/9.1.023
+cnvkit/0.9.5
+cnvnator/0.4.1
+colmap/3.6
+comsol/5.2a
+comsol/5.4
+comsol/5.4-ee
+conda-install/latest
+connectome/1.2.3
+convert3d/1.0.0
+coot/0.8.9.1
+coventormp/1.002
+cp2k/5.1.0
+cp2k/6.1.0
+cp2k/8.1.0
+cplex/12.10.0
+cplex/12.6
+cplex/12.6.3
+cplex/12.7.1
+cplex/12.8.0
+cpmd/3.17.1
+cpmd/4.3
+crisprcasfinder/1.05
+crispresso/1.0.13-gcc5
+crossmap/0.3.5
+crossmap/0.3.6
+cryoef/1.1.0
+cryo-em-processing-tool/0.1
+cryolo/1.0.0
+cryolo/1.1.3
+cryolo/1.3.1
+cryolo/1.4.0
+cryolo/1.4.1
+cryolo/1.5.3
+cryolo/1.5.6
+cryolo/1.6.0
+cryolo/1.7.2
+cryosparc/beta
+cryosparc/cryosparc-cluster
+cryosparc/v2
+crystallography/0.0.3
+cst/2017
+ctffind/4.0.17
+ctffind/4.1.10
+ctffind/4.1.13
+ctffind/4.1.14
+ctffind/4.1.3
+ctffind/4.1.4
+ctffind/4.1.8
+ctftilt/latest
+cuda/10.0
+cuda/10.1
+cuda/11.0
+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
+cudnn/7.6.5.32-cuda10
+cudnn/7.6.5-cuda10.1
+cudnn/8.0.5-cuda10.1
+cudnn/8.0.5-cuda11
+cufflinks/2.2.1
+cunit/2.1.3
+cutadapt/0.16
+cutadapt/2.5
+cutadapt/2.7
+cytoscape/3.4.0
+dada2/1.14
+daris-utils/1.0
+darknet/alexey
+darknet/darknet_yolo_v3
+darknet/latest
+dcm2niix/1.0.20200331
+dcm2niix/latest
+dcmtk/3.6.3
+deep-complex-networks/2017
+deepemhancer/2020-09-09
+deepgraph/0.2.3
+deeplabcut/latest
+deepmedic/0.6.1
+deepmedic/0.7.0
+deeptools/3.1.2
+deeptools/3.1.3
+deepvariant/0.8-cpu
+deepvariant/0.8-gpu
+dense3dcrf/20160527
+detectron/20180322
+dftbplus/18.2
+dftd3/0.9
+dials/1.12.1
+dials/1.5.1
+diamond/0.9.22
+dicomnifti/2.32.1
+diyabc/2.1.0
+dke/latest
+dke/latest-ft
+dlib/19.20
+dmtcp/2.5.2
+dominate/2.3.5
+dos2unix/7.4.0
+dragondisk/1.0.5
+drishti/2.6.3
+drishti/2.6.4
+drishti/ansto
+drmaa/1.0.7
+drmaa/1.1.0
+dsistudio/latest
+dti-tk/2.3.1
+dtk/0.6.4.1
+dynamo/1.1.178
+dynamo/1.1.451
+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
+eigen/2.0.17
+eigen/3.2.9
+eigen/3.3.0
+eigen/3.3.7
+eigensoft/7.2.1
+eiger2cbf/1.0
+elastix/5.0.0
+elf/1.0
+eman/2.12
+eman/2.2
+eman/2.22
+eman/2.3
+eman/2.3.1
+eman/2.9
+emapaccess/1.0
+emap-galaxy-shortcut/1.0.0
+emap-mytardis-shortcut/1.0.0
+emap-wiki-shortcut/0.0.1
+emboss/6.6.0
+emclarity/1.0.0
+emclarity/1.4.3
+emspring/spring_v0-84-1470
+emspring/spring_v0-84-1470_mlx
+epacts/3.3.2
+exciting/nitrogen
+exonerate/2.4.0
+exploredti/4.8.6
+fastani/1.1
+fastml/3.1
+fastml/3.11
+fastp/0.20.0
+fastqc/0.11.7
+fastqc/0.11.9
+fastQValidator/0.1.1a
+fastspar/0.0.7
+faststructure/1.0
+fastsurfer/c5894bd
+fasttree/2.1.10
+fastx-toolkit/0.0.13
+fcsalyzer/0.9.12
+fdtd/2020a-r1
+fdtd/8.21.1933
+feedback/1.0.1
+ffmpeg/3.4.2
+ffmpeg/4.3.1
+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/current.bak
+fiji/fiji-super-res
+fiji/MMI-MHTP
+filtlong/0.2.0
+fix/1.064
+fix/1.068
+flash/1.2.11-gcc5
+flashpca/2.0
+flexbar/3.4.0
+flye/2.3.5
+flye/2.8
+fmriprep/1.0.15
+fmriprep/1.1.1
+fmriprep/1.2.5
+fmriprep/1.3.0_post2
+fmriprep/1.4.0
+fmriprep/1.4.1
+fmriprep/1.5.8
+fmriprep/20.2.1
+foma/0.9.18
+fooof/0.1.3
+fooof/1.0.0
+fouriertransform/0.2.3
+fox/1.6.57
+fpart/1.2.0
+freebayes/0.9.9
+freesurfer/20160922
+freesurfer/5.3
+freesurfer/6.0
+freesurfer/6.0.0-brainvolstatsfixed
+freesurfer/6.0-patch
+freesurfer/7.1.0
+freesurfer/devel-20171013
+freesurfer/devel-20180612
+freesurfer/devel-20190128
+frustum/xflx1992
+fsl/5.0.11
+fsl/5.0.9
+fsl/6.0.0
+fsl/6.0.1
+fsl/6.0.3
+fsleyes/0.22.4
+fsleyes/0.23.0
+fsleyes/0.24.3
+fsleyes/0.32.0
+ftgl/2.1
+fxtract/2.3
+gamess/16srs1
+gamess/16srs1-v2
+gamess/2018r3
+ganon/0.3.3
+gap/4.8.10
+gatan/free
+gatan/uwa
+gatk/3.4
+gatk/3.7
+gatk/4.0.1.1
+gatk/4.0.11.0
+gatk/4.1.2.0
+gatk/4.1.9.0
+gatktool/0.0.1
+gauss/11.0
+gauss/9.0
+gaussian/g16a03
+gaussian/g16a03_local
+gautomatch/0.53
+gautomatch/0.56
+gautomatch/0.56_cuda10.1
+gcat/e48bf8b
+gcc/4.9.3
+gcc/5.4.0
+gcc/6.1.0
+gcc/8.1.0
+gcta/1.92.2beta
+gctf/0.50
+gctf/0.66
+gctf/1.06
+gctf/1.06_cuda8
+gctf/1.06_cuda8-uow
+gctf/1.08_cuda8
+gctf/1.18
+gctf/1.18_b2
+gctf/1.18_b2_cuda9
+gctf/1.18_cuda10.1
+gctf/1.18_cuda8
+gctf/1.18_cuda8-uow
+gctf/1.18_cuda91
+gdal/2.2.4
+gdal/2.3.1
+gdal/3.0.2
+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
+geant4/10.05.p01
+geant4/10.6
+gem/3.3
+gemini/0.30.1
+genemark/4.30
+genesis/1.5.1
+genesis/1.5.1-cpu
+gengetopt/2.10
+genometools/1.6.1
+genomicconsensus/2.3.3
+genotypeharmonizer/1.4.20
+genrich/v0.6
+geos/3.6
+geos/3.6.4
+geos/3.7.2
+gephi/0.9.2
+gflags/master
+gflags/master-gcc4
+ghostscript/9.26
+gimp/2.8
+gimp/2.8.22
+gingerale/2.3.6
+git/2.17.0
+git/2.19.0
+git/2.25.2
+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
+go/1.13.8
+go/1.14.2
+goctf/1.1.0
+gpu_burn/0.9
+gpu_burn/1.0
+gpucomputingsdk/4.0.17
+graphviz/2.30.1
+graphviz/2.40.1
+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/2018.7-openmpi-cpu-only
+gromacs/2018.7-openmpi-cuda-plumed
+gromacs/2018-openmpi-cuda8.0
+gromacs/2018-openmpi-cuda8.0-NVML
+gromacs/2019.4-openmpi-cuda10.0
+gromacs/2020.1-openmpi-cuda10.1
+gromacs/5.1.4
+groot/0.8.6
+groot/1.0.2
+gsl/1.15.13-system
+gsl/2.2-gcc4
+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
+gtdb-tk/0.3.2
+gtdb-tk/1.3.0
+gubbins/2.3.2
+gubbins/2.4.1
+guppy/3.1.5-1
+guppy/3.2.4
+guppy/3.5.2-gpu
+guppy/4.0.14-gpu
+guppy/container
+gurobi/7.5.1
+gurobi/8.0.0
+gurobi/9.0.0
+gurobi/9.0.1
+gurobi/9.1.0
+gvcftools/0.17.0
+h5toxds/1.1.0
+hal/2.1
+halper/2020-08-06
+hapflk/1.4
+haplomerger2/20180603
+haystack_bio/0.5.5
+hddm/0.6.0
+hdf5/1.10.0-patch1
+hdf5/1.10.5
+hdfview/3.1.1
+heudiconv/0.5.4
+hisat2/2.1.0
+hmmer/2.4i
+hmmer/3.2.1
+hmmer/3.3.1
+holt-lab/20210205
+horovod/0.16.4
+hotspot/4.0.0
+hpcx/2.5.0-redhat7.6
+hpcx/2.5.0-redhat7.7
+htop/2.0.1
+htseq/0.10.0
+htslib/1.7
+htslib/1.9
+htslib/1.9-gcc5
+humann/2.0
+huygens/16.10.1-p1
+hyperspy/1.4
+hyphy/2.5.0
+hypre/2.11.2
+hypre/2.15.0
+icm/3.7-3b
+icm/3.8.7
+idl/8.6
+idl/8.7
+idl/8.7-nov
+idl/8.8
+idr/2.0.3
+igv/2.3.81
+igv/2.4.19
+ihrsr++/v1.5
+ilastik/1.2.0
+ilastik/1.3.3
+ilastik/1.3.3post3
+ilastik/1.4.0b5
+illumina-utils/2.6
+illumina-utils/2.6-python3.7
+imagej/20160205
+imagemagick/7.0.5-7
+imagemagick/7.0.8-23
+imagemagick/7.0.8.23-native
+imagemagick/7.0.9-27-gcc8
+imagescope/11.2.0.780
+imblproc/20190405
+imod/4.8.54
+imod/4.9.12
+imod/4.9.9
+imod-raza/4.7.12
+imosflm/7.2.1
+imosflm/7.2.2
+impute2/2.3.1
+infernal/1.1.4
+intel/2015.0.090
+intel/2016
+intel/2017u4
+intel/2018test
+intel/2018u3
+ior/3.2.1
+iqtree/1.5.3
+iqtree/1.6.10
+iqtree/1.6.2
+iqtree/2.0.4-rc
+iqtree/2.0-rc1
+ismapper/2.0
+itasser/5.1
+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
+itk/ansto
+itksnap/3.3.x
+itksnap/3.8.0
+itksnap/3.8.0-beta
+jags/3.3.0
+jags/3.4.0
+jags/4.3.0
+janni/0.2
+java/openjdk-1.14.02
+java/openjdk-1.8.0_242
+jbigkit/2.1
+jdk/10-20180320
+jdk/14
+jellyfish/1.1.12
+jellyfish/2.3.0
+jellyfish/2.3.0-gcc5
+jspr/2017-7-20
+juicer/1.6.2
+julia/0.6.4
+julia/1.3.1
+julia/1.5.3
+kallisto/0.43.0
+kaptive/0.5.1
+kilosort/1.0
+kindel/0.4.2
+king/2.1.6
+kleborate/0.2.0
+kleborate/0.3.0
+kma/1.3.0
+kraken/1.1.1
+kraken2/2.0.7-beta
+krakenuniq/0.5.8
+kronatools/2.7.1
+kul_vbg/20201103
+kul_vbg/e46effe
+lammps/20180510
+lammps/20181212
+lammps/20200303
+lammps/20200303-python3
+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
+ldpred/1.0.6
+leveldb/master
+leveldb/master-gcc4
+levelset/0.0.2
+libcublas/10.2.1.243-cuda10
+libertem/0.5.1
+libertem/20190521
+libffi/3.2.1
+libffi-devel/3.0.13
+libfuse/3.6.1
+libgd/2.2.4
+libgeotiff/1.4.2
+libgit2/1.1.0
+libharu/2.2.1
+libint/1.1.4
+libjpeg-turbo/1.4.2
+libjpeg-turbo/1.5.1
+libjpeg-turbo/1.5.1-shared
+libmaus/0.0.196
+libmaus2/2.0.704
+libsmm/20150702
+libssh2/1.9.0
+libtiff/3.9.7
+libtiff/4.0.10
+libunwind/1.3.1
+libuuid/2.23.2-43
+libxc/4.1.0
+libxp/1.0.2
+libxsmm/1.9
+libzip/0.10.1-8
+liggghts/3.8.0
+lighter/1.1.2
+lkh/2.0.9
+lmdb/latest
+locarna/1.9.2.3
+locuszoom/1.4
+locuszoom/1.4.fixed
+lofreq/2.1.3.1
+lsd/0.3beta
+lumpy-sv/0.2.13
+macs/3.0.0a5
+macs2/2.1.1.20160309
+mafft/7.310
+mageck/0.5.9.4
+magicblast/1.5.0
+magic-impute/1.5.5
+magma/1.6.1
+magma/2.0.2
+mainmast/1.0
+maker/3.01.03
+mango/4.0.1
+manta/1.5.0-gcc5
+mantid/3.13.0
+mantid/3.8.0
+mantid/3.9.0
+mapdamage/2.0.9
+mapdamage/2.0.9-u1
+mash/2.1
+mash/2.1.1
+mash/2.2
+materialsstudio/18.1.0
+mathematica/12.1.1
+mathgl/1.11.2
+mathgl/2.0.3
+mathgl/2.3.3
+matlab/r2012b
+matlab/r2014a
+matlab/r2014b
+matlab/r2015b
+matlab/r2016a
+matlab/r2017a
+matlab/r2017b
+matlab/r2017b-caffe
+matlab/r2018a
+matlab/r2019a
+matlab/r2019b
+matlab/r2020a
+mauve/20150213
+maven/3.3.9
+maxquant/1.6.5.0
+mc/4.8.21
+mcl/11-294
+mcr2010b/1.0
+megahit/1.1.3
+megahit/1.2.4-beta
+megahit/1.2.9
+meld/0.4.14
+melt/2.2.2
+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
+meson/0.51.0
+metabat/2.15.5
+metabolic/4.0
+metacache/1.1.1
+metal/2011
+metaphlan/2.0
+metaphlan/3.0-sif
+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
+miniasm/0.3
+miniconda3/4.1.11-python3.5
+miniconda3/4.8.3-python3.8
+minimap2/2.17-r954-dirty
+minipolish/0.1.3
+minizinc/2
+minizinc/2.3.1
+minizinc/2.5.2
+mixcr/3.0.7
+mkl/2018u3
+mlst/2.15
+mne/TF-201804
+molden/5.7
+mono/5.20.1.19
+moose/1.0
+moose/1.0-vtk
+morphind/1.4
+motif/2.3.4
+motioncor2/20180924
+motioncor2/20181020
+motioncor2/20181020-cuda91
+motioncor2/2.1
+motioncor2/2.1.10-cuda8
+motioncor2/2.1.10-cuda9.1
+motioncor2/2.1.3.0-cuda101
+motioncor2/2.1.3.0-cuda80
+motioncor2/2.1.4.0-cuda101
+motioncorr/2.1
+motioncorr2/20160822
+mpfr/3.1.5
+mpifileutils/20170922
+mpifileutils/20200701
+mpip/3.4.1
+mrbayes/3.2.6
+mrbayes/3.2.6-mpi
+mrf/0.2.2
+mriconvert/2.1.0
+mricrogl/1.0.20170207
+mricrogl/20180623
+mricron/06.2013
+mricron/30apr2016
+mriqc/0.14.2
+mriqc/0.15.2.rc1
+mriqc/0.9.7
+mrpeek/preview2
+mrtrix/0.3.15-gcc4
+mrtrix/0.3.15-gcc5
+mrtrix/0.3.16
+mrtrix/20170712
+mrtrix/3.0.0
+mrtrix/3.0.1
+mrtrix/3.0.2
+mrtrix/3.0_rc3
+mrtrix/3.0_rc3_latest
+mrtrix3tissue/5.2.8
+mrtrix3tissue/5.2.8-ubuntu
+msm_hocr/3.0
+multiwfn/3.8
+mummer/3.23-gcc5
+mummer/4.0.0.beta2-gcc5
+muscle/3.8.31
+mustem/5.3
+mxtools/0.1
+mydata/0.9.2
+mydata/0.9.2-20201020
+mydata-python/20200603
+mykrobe/0.8.1
+mytardis/0.1
+namd/2.12-ibverbs-smp-cuda
+namd/2.12-multicore
+namd/2.13-multicore
+namd/2.13-multicore-CUDA
+namd/2.14-multicore
+namd/2.14-multicore-cuda
+nanconvert/latest
+nanofilt/201807
+nanopolish/0.10.1
+nanopolish/0.11.1
+nasm/2.15.03
+nccl/2.4.7-cuda10.0
+nccl/2.4.7-cuda9.1
+nccl/master
+nccl/master-gcc4
+netcdf/4.4.1.1
+netcdf/4.4.1.1-openmpi-1.10.7-mlx
+netcdf/4.7.0
+netcdf/4.7.1-intel
+neuro_workflow/2017v2
+neuro-workshop/20191115
+new-fugue/2010-06-02
+newick-utils/1.6
+nextgenmap/0.5.5
+ngsqctoolkit/2.3.3
+nibabel/2.3.3
+niftilib/2.0.0
+nighres/1.1.0b1
+niistat/9.oct.2016
+nilearn/0.6.2
+ninja/1.9.0
+nis-elements-viewer/4.20
+nlopt/2.6.1
+nlopt/2.6.1-gcc4
+nlopt/2.6.1-gcc5
+nn/0.2.4
+novactf/03.2018
+nsight/2019.5.0
+nullarbor/2.0.20181010
+objexport/0.0.4
+octave/4.2.2
+octopus/8.4
+octopus/8.4-parallel
+omero.insight/5.5.10
+omsimulator/2.0.1
+openbabel/2.4.1
+openblas/0.2.20
+openbugs/3.2.3
+opencv/3.4.1
+opencv/3.4.10-gcc5
+opencv/3.4.11
+opencv/3.4.1-gcc4
+opencv/4.1.0
+opencv/4.4.0
+openface/2.2.0
+openfoam/4.1
+openfoam/5-paraview54
+openfoam/5.x
+openfoam/v1912
+openjpeg/2.3.0
+openjpeg/2.3.1
+openmodelica/1.14.2
+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
+openmpi/1.10.7-mlx-intel
+openmpi/2.1.6-mlx-intel
+openmpi/3.1.4-mlx
+openmpi/3.1.6-ucx
+opennmt-py/0.7.0
+openpose/1.6.0
+openrefine/3.1
+openslide/3.4.1
+orange3/ansto
+orca/4.0.1
+orca/4.2.1
+orca/4.2.1-216
+orfm/v0.7.1
+osg/3.6.5
+otpo/1.0
+packer/1.3.5
+paleomix/1.2.13.4-python2
+paml/4.9
+panaroo/1.1.2
+panaroo/1.2.4
+pandoc/2.7.3
+paraview/4.0.1
+paraview/5.6.0
+paraview/ansto
+parliament2/0.1.11
+parsyncfp/1.67
+partitionfinder2/2.1.1
+pastml/1.0
+pbh5tools/2018-12-13
+pbzip2/1.1.13
+peakseq/1.3.1
+perl/5.24.0
+perl/5.28.0
+perl/5.30.1
+petsc/3.10.1-gcc5
+petsc/3.12.1
+petsc/3.13.2-gcc5
+pgap/3958
+pgi/2019
+pgi/2020
+phate/0.4.4
+phenix/1.11.1
+phenix/1.15.1
+phenix/1.15.2
+phenix/1.18.2
+phreeqc/3.5.0
+phyloflash/3.4
+phyml/3.1
+picard/2.19.0
+picard/2.9.2
+picrust2/2.1.4_b
+picrust2/2.2.0_b
+pigz/2.3.3
+pigz/2.3.4
+pilon/1.22
+pindel/0.6.3-gcc5
+plasmidfinder/2.1
+plink/1.7
+plink/1.9
+plink/1.90b6.10
+plink/2.0-alpha
+plinkseq/0.10
+plumed/2.5.0
+pmix/3.1.2
+pmix/v2.2
+pointless/1.10.28
+posgen/0.0.1
+posminus/0.2.3
+pplacer/v1.1.alpha19
+prank/170427
+prismatic/1.1
+prismatic-cpu/1.1
+prodigal/2.6.3
+proj/4.9.3
+proj/5.1.0
+proj/6.2.1
+prokka/1.13.3
+prokka/1.14.5
+prokka/1.14.6
+protobuf/master
+protobuf/master-gcc4
+protomo/2.4.2
+psi4/v1.1
+psi4/v1.3.2
+psortb/3.0
+psortm/3.0
+pulchra/3.06
+purge_haplotigs/1.1.0
+pv/1.6.6
+py4dstem/0.11.5
+py4dstem/0.3
+pybids/0.9.1
+pycharm/2018.3.3
+pydeface/1.1.0
+pyem/v0.1
+pyem/v0.1-201806
+pyem/v0.3
+pyem/v0.5
+pymol/1.8.2.1
+pymol/1.8.6
+pymol/2.4.0a0
+pyprismatic/1.1.16
+pyprismatic/1.2.1
+pypy/7.0.0-3.6
+pysam/0.15.2-python2
+python/2.7.11-gcc
+python/2.7.12-gcc4
+python/2.7.12-gcc5
+python/2.7.15-gcc5
+python/2.7.17-gcc8
+python/2.7.18-gcc5
+python/2.7.18-ucs4-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
+python/3.8.5
+python/3.8.5-gcc8
+python/3.8.5-gcc8-static
+pytom/0.971
+pytorch/1.0-cuda10
+pytorch/1.1-cuda10
+pytorch/1.3-cuda10
+pytorch/1.5-cuda10
+pytorch/1.6-cuda10
+pyxnat/1.1.0.2
+pyxnat/20170308
+qatools/1.2
+qctools/v2.0-beta
+qgis/3.9.0
+qhull/2003.1
+qhull/2015.2
+qiaseq-dna/1.0
+qiaseq-dna/14.1
+qiime1/1.9.1
+qiime2/2017.9
+qiime2/2018.11
+qiime2/2018.2
+qiime2/2018.4
+qiime2/2019.1
+qiime2/2019.4
+qiime2/2019.7-q2_scnic
+qiime2/2019.7-q2_scnic_2
+qiime2/2020.8
+qit/2148
+qt/5.7.1-gcc5
+qt5-qtwebkit/5.9.1
+quicktree/2.0
+quicktree/2.5
+quit/1.1
+quit/2.0.2
+qupath/0.2.0-m4
+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
+R/3.6.0-mkl
+R/3.6.2-mkl
+R/4.0.0-openblas
+racon/1.3.1
+raremetal/4.15.1
+raven/1.1.10
+raxml/8.2.12
+raxml/8.2.9
+raxml-ng/1.0.0
+razers3/3.5.8
+rclone/1.49.3
+rdf-kd/0.0.1
+rdkit/2019.03.3.0
+readline/7.0
+relion/1.4
+relion/2.02
+relion/2.0.6
+relion/2.0beta
+relion/2.1
+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/3.0.6
+relion/3.0.6-uow
+relion/3.0.7
+relion/3.0.7-uow
+relion/3.0.7-uow-cuda10.1
+relion/3.0.7-uow-mc2.1.3.0
+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
+relion/3.1.0
+relion/3.1.0-uow
+relion/3.1.0-uow-v2
+relion/3.1_beta
+relion/3.1_beta-20191105
+relion/3.1_beta-20191113
+relion/3.1_beta-20200109
+relion/3.1_beta-latest
+relion/ver3.1_20200904
+relion/ver3.1_20200925
+relion/ver3.1_20201028
+relion/ver3.1_20201102
+repeatmasker/4.1.1
+resmap/1.1.4
+resmap/1.1.5
+resmap/1.9.5
+rest/1.8
+rest/1.8-matlab2017a.r6685
+retools/1.3
+rgi/5.1.0
+rings/1.3.3
+r-launcher/0.0.1
+rmblast/2.10.0
+rnammer/1.2
+roary/3.11.2
+roary/3.12.0
+robex/1.2
+root/5.34.32
+root/6.22.02
+rosetta/2018.09
+rosetta/2020.08
+rosetta/2020.37-mpi
+rsem/1.3.0
+rseqc/3.0.0
+rstudio/1.0.143
+rstudio/1.0.44
+rstudio/1.1.414
+rstudio/1.1.463
+rstudio/1.1.463-r3.5.3-mkl
+rstudio/1.1.463-r3.6.0-mkl
+rstudioserver_epigenetics/1.0
+rstudioserver_epigenetics/1.0-20171101
+rsync/3.1.3
+rtk/ansto
+saintexpress/3.6.3
+salmon/0.14.1
+salome/9.2.0
+sambamba/0.8.0
+samblaster/0.1.26
+samclip/0.2
+samtools/0.1.18
+samtools/1.10
+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/2.0
+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
+sdm_1d_plot/0.0.4
+sdm_2d_calculate/2.0.2
+sdm_2d_plot/0.0.4
+seacr/1.3
+segadapter/1.9
+seqgen/1.3.4
+seqtk/1.3
+shapeit/v2_r837
+shapeit/v2_r904
+shovill/1.0.4
+sidesplitter/120220
+sidesplitter/20201028
+simnibs/2.0.1g
+simnibs/3.1.2
+simple/2.1
+simple/2.5
+simul-atrophy/12-09-2017
+simul-atrophy/rjbcompilepetscmaster-04032020
+simul-atrophy/RJBCompilePetscMaster-190220
+singlem/0.12.1
+singularity/2.3.1
+singularity/2.4.2
+singularity/2.4.5
+singularity/2.5.2
+singularity/3.0
+singularity/3.0.1
+singularity/3.0.2
+singularity/3.1.0
+singularity/3.2.0
+singularity/3.2.1
+singularity/3.4.0
+singularity/3.5.2
+singularity/3.5.3
+singularity/3.7.1
+singularity/d3d0f3fdc4390c7e14a6065543fc85dd69ba42b7
+situs/3.1
+ska/1.0-e1968f0
+skesa/2.2.1
+skesa/2.3
+skewer/20170212
+slamdunk/latest
+slim/3.2
+slim/3.3.1
+slurm/17.11.4
+smafa/0.5.0
+smcounter/10apr2017
+smux/0.0.1
+snap/2013-11-29
+snappy/master
+snappy/master-gcc4
+snippy/4.3.8
+snippy/4.4.5
+snoscan/1.0
+snp-dists/0.6.3
+snpeff/4.3t
+snpm/13
+snp-sites/2.5.1
+soapdenovo2/2.04-r241
+sortmerna/2.1b
+sourcetracker/2.0.1
+spades/3.12.0
+spades/3.13.1
+sparseassembler/1.0
+sparsehash/2.0.3
+spectra/0.8.1
+speedseq/0.1.2
+spider/21.11
+spm12/matlab2015b.r6685
+spm12/matlab2018a.r6685
+spm12/matlab2018a.r7487
+spm8/matlab2015b.r6685
+spm8/matlab2017a.r6685
+spring/0.86.1661
+spss/26
+sqlite3/3.30.1
+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
+sra-tools/2.9.6
+srst2/0.2.0
+srst2/0.2.0-2019
+stacks/2.4
+star/2.5.2b
+star-fusion/1.9.1
+stata/14
+stata/14.2
+stata/16
+stisuite/3.0
+strelka/2.8.4
+stringtie/1.3.5
+stringtie/1.3.6
+structure/2.3.4
+subread/1.5.1
+subread/2.0.1
+subversion/1.9.5
+suitesparse/5.4.0
+sumo/1.5.0
+superlu/3.1
+surfice/7_feb_2017
+svd/1.4
+svs/8.8.3
+swig/3.0.12
+swig/4.0.1
+synopsys/3.1
+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/1.13.1-gdal
+tensorflow/1.14.0-keras
+tensorflow/1.14.0-keras-pydicom
+tensorflow/1.15.2-gpu
+tensorflow/1.15.2-python3.7.3-gcc8
+tensorflow/1.3.0-python2.7.12-gcc5
+tensorflow/1.4.0-python2.7.12-gcc5
+tensorflow/1.4.0-python3.6-gcc5
+tensorflow/2.0.0-beta1
+tensorflow/2.0.0-gpu
+tensorflow/2.2.0
+tensorflow/2.3.0
+tensorflow/2.4.1
+tensorrt/6.0.1.5-cuda10
+tensorrt/7.0.0.11-cuda10
+tensorrt/7.2.1
+terastitcher/20171106
+texlive/2017
+tiff/4.0.8
+tigervnc/1.8.0
+tmap/3.0.1
+tomowarp2/03f3ee8
+toothmaker/0.64
+topaz/1.0
+topaz/latest
+tophat/2.1.1
+tracer/1.6
+trackvis/0.6.1
+tractseg/2.0
+transdecoder/5.5.0
+trf/4.09.1
+trim_galore/0.4.5
+trim_galore/0.5.0
+trimmomatic/0.38
+trinity/2.8.5
+trinity/2.8.5-gcc5
+turbovnc/2.0.2
+turbovnc/2.1.0
+tvips-tools/0.0.3
+ucsc-genome-tools/201806
+ucx/1.6.1
+udunits2/2.2.20-2
+ufo-kit/ansto
+umap/0.3.8
+umi-tools/0.5.5-python2
+umi-tools/0.5.5-python3
+unblur/1.0.2
+underworld/2.3.0
+underworld/2.8.0b
+underworld/2.9.1b
+underworld/2.9.4b
+unicycler/0.4.7
+unimelb-mf-clients/0.2.7
+unimelb-mf-clients/0.3.2
+unrar/5.0
+v8/3.14.5.10-25
+vaa3d/3.601
+valgrind/3.13
+varscan/2.3.9
+vasp/5.4.4
+vasp/5.4.4.eyk
+vcftools/0.1.15
+vdjtools/1.2.1
+vegas2/v02
+velvet/1.2.10
+velvet/1.2.10-modified
+vep/90
+vep/94
+viennarna/2.4.15
+vigra/1.9.0
+vim/8.0.0596
+vim/8.2
+vim/8.2-container
+viptreegen/1.1.2
+virsorter/1.0.6
+virtualgl/2.5.0
+virtualgl/2.5.2
+virtualgl/2.6.2
+visit/2.12.3
+vmd/1.9.3
+vmd/1.9.4
+volview/3.4
+voro++/0.4.6
+vscode/1.39.2
+vscode/1.53.2
+vsearch/2.13.6
+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
+weblogo/3.7
+wfu_pickatlas/3.0.5b
+wgsim/0.3.1-r13
+workspace/4.0.2
+wtdbg2/2.5
+wxgtk/3.0.2
+wxwidgets/3.0.3
+x2goclient/4.1.2.1
+x2goclient/4.1.2.2
+xcpengine/1.2.3
+xds/20170302
+xds/monash
+xds/mxbeamteam
+xjview/9.0
+xjview/9.6
+xjview/9.7
+xnat-desktop/0.96
+xnat-desktop/1.0.40
+xnatpy/0.3.18
+xnat-upload-assistant/1.1.3
+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
+xnat-utils/0.5.3
+xnat-utils/0.5.5
+xvfb/1.19.3
+yade/1.20.0-cpu
+yade/1.20.0-gpu
+yade/2019-06-20
+yade/2019-06-20-cpu
+yade/yade-daily-may-2019
+yasm/1.2.0-4
+yasm/1.3.0
+zetastitcher/0.3.3
+zlib/1.2.11
+zoem/11-166
+zoltan/3.83
+zopfli/1.0.3
+zstd/1.4.0
diff --git a/smoke_test/batch_app_report b/smoke_test/batch_app_report
new file mode 100755
index 0000000000000000000000000000000000000000..0ca17eb4724a4146ccad15801e4835a0d2d42888
--- /dev/null
+++ b/smoke_test/batch_app_report
@@ -0,0 +1,6 @@
+#!/bin/bash
+inputfile=$1
+for app in $(cat $inputfile); do
+ version=$(ls /usr/local/Modules/modulefiles/$app)
+ mtime=360 ./application_report $app $version
+done
diff --git a/smoke_test/generate_bin_test b/smoke_test/generate_bin_test
index de567fa839cd69d4be707b0578560ec0d72fa69b..dc3d0bb0cd81c0bde8f6fe030e83e16c4997c0d7 100755
--- a/smoke_test/generate_bin_test
+++ b/smoke_test/generate_bin_test
@@ -1,13 +1,16 @@
#!/bin/bash
-NUM_MODULE=${2:-100}
+# NUM_MODULE does not necessarily corresponds to the output of `ls -l $TESTCASE_DIR | wc -l` because
+# 1. one folder is created for each software but NUM_MODULE pick combinations of from software/version
+# 2. if a software does not modify PATH variable then there is no bintest generated for them, the number of those softwares are printed at the end
+NUM_MODULE=${1:-100}
TESTCASE_DIR='./tests'
-
-USAGE_REPORT=software_usage.txt
-if [ ! -f $USAGE_REPORT ]; then
- software_usage $USAGE_REPORT
-fi
+APPLICATION_LIST='./application_list.txt'
+# USAGE_REPORT=software_usage.txt
+# if [ ! -f $USAGE_REPORT ]; then
+# software_usage $USAGE_REPORT
+# fi
echo '#!/bin/bash
name=$( realpath $0 | xargs dirname | xargs basename )
ver=${1:-"default"}
@@ -15,7 +18,7 @@ bin_dirs=$(module show $name/$ver 2>&1 | sed -n "s/.* PATH \(.*\)/\1/p")
NAME_EXEC_EXIST=false
for bin in $bin_dirs; do
for i in $(find $bin -maxdepth 1 -executable -type f ); do
- if [[ $(basename $i) == $name ]]; then
+ if [[ $(basename $i) == $name ]]; then
$i --version;
exit $?
fi
@@ -24,17 +27,28 @@ done
' > $TESTCASE_DIR/bintest
+echo "Starting generate bintest for $NUM_MODULE softwares"
+declare -i NUM_LIB=0
+declare -i GENERATED_NUM=0
+
+
IFS_orig=$IFS
IFS=$'\n'
-for i in $(head -n $NUM_MODULE $USAGE_REPORT); do
- m=$(sed -n 's/\(.*\)\/\(.*\) - \(.*\)/\1 \2/p' <<< $i)
+for i in $(head -n $NUM_MODULE $APPLICATION_LIST); do
+ m=$(sed -n 's/\(.*\)\/\(.*\)/\1 \2/p' <<< $i)
name=$(cut -f1 -d' ' <<< $m)
ver=$(cut -f2 -d' ' <<< $m)
- MODIFED_PATH=$(module show $name/$ver 2>&1 | sed -n 's/.* PATH \(.*\)/\1/p')
- if [ -z ${MODIFIED_PATH+_} ]; then
+ MODIFIED_PATH=$(module show $name/$ver 2>&1 | sed -n 's/.* PATH \(.*\)/\1/p')
+ if ! [ -z "${MODIFIED_PATH}" ]; then
mkdir -p $TESTCASE_DIR/$name
cp $TESTCASE_DIR/bintest $TESTCASE_DIR/$name/bintest
chmod u+x $TESTCASE_DIR/$name/bintest
+ GENERATED_NUM+=1
+ else
+ NUM_LIB+=1
fi
+
done
IFS=$IFS_orig
+echo "Successfully generated bintests for $GENERATED_NUM applications"
+echo "There are $NUM_LIB libraries (does not modify PATH), no testcases generated for them"
diff --git a/smoke_test/generate_modules_list b/smoke_test/generate_modules_list
new file mode 100755
index 0000000000000000000000000000000000000000..2ce22a5cb1295f460aa6918c195184fc21c8a0d6
--- /dev/null
+++ b/smoke_test/generate_modules_list
@@ -0,0 +1,14 @@
+#!/bin/bash
+TARGET_MODULEPATH="/usr/local/Modules/modulefiles"
+OUTPUT_PATH="application_list.txt"
+echo "" > $OUTPUT_PATH
+MODULEPATH=$TARGET_MODULEPATH module avail -t 2>&1 | python -c "
+import sys
+with open('$OUTPUT_PATH', 'w') as fout:
+ for line in sys.stdin:
+ linelist = line.split('/')
+ if len(linelist) != 2:
+ continue
+ linelist[-1] = linelist[-1].replace('(default)','')
+ fout.write('/'.join(linelist))
+"
\ No newline at end of file
diff --git a/smoke_test/python/avg_install.py b/smoke_test/python/avg_install.py
new file mode 100755
index 0000000000000000000000000000000000000000..91ea457f8bd87e14122bf4220b0918f14158a627
--- /dev/null
+++ b/smoke_test/python/avg_install.py
@@ -0,0 +1,32 @@
+#!/usr/bin/env python3
+# run module load python/3.8.5-gcc8-static first
+from pathlib import Path
+import os
+import pandas as pd
+import time
+import datetime
+import collections
+import numpy as np
+nweek = 12
+
+modulepath = Path('/usr/local/Modules/modulefiles')
+softwares = list(modulepath.glob('*/'))
+modulefiles = [list(i.glob('**/[!.]*')) for i in softwares if i.is_dir() and os.access(i, os.R_OK)]
+lastm = {datetime.datetime.fromtimestamp(j.stat().st_mtime): j for i in modulefiles for j in i}
+today = datetime.date.today()
+week = datetime.timedelta(weeks=1)
+
+interval = np.array([today - week*i for i in range(nweek+1)][::-1])
+def quantize_week(date):
+ week = interval[:-1][(interval[:-1] <= date) & (date < interval[1:])]
+ return week.item()
+
+
+byweek = collections.defaultdict(list)
+for k, v in lastm.items():
+ mod_day = datetime.date(*k.timetuple()[:3])
+ if mod_day >= interval[0]:
+ byweek[quantize_week(mod_day)].append(v)
+
+avg_install = np.mean([len(i) for i in byweek.values()])
+print(avg_install)
diff --git a/smoke_test/smoke_test b/smoke_test/smoke_test
index 9cffca72140c008e6a9f67475d2d9745fdb06e91..40483565f6c507205f1b23c6a4e3f5c035cdd4a7 100755
--- a/smoke_test/smoke_test
+++ b/smoke_test/smoke_test
@@ -1,74 +1,159 @@
#!/bin/bash
# each application will create a folder under OUTPUT_DIR
-OUTPUT_DIR=${1:-output_dir}
+declare -i NUM_MODULE
+declare -i DEFAULT_NUM_MODULE
+declare -i TIMEOUT
+declare -i DEFAULT_TIMEOUT
+DEFAULT_OUTPUT_DIR='./output_dir'
+DEFAULT_NUM_MODULE=100
+DEFAULT_TESTCASE_DIR='./tests'
+DEFAULT_TIMEOUT=10
+DEFAULT_APPLICATION_LIST='./application_list.txt'
+function usage {
+ echo "Run smoke test"
+ echo "Usage: $0"
+ echo " -a <list of applications to test>. This should point to a file with lines of '<name>/<version>', it can be generated using either generate_modules_list or software_usage.default: $DEFAULT_APPLICATION_LIST"
+ echo " -n <number of modules to test>. Specify a large number to test all softwares, default: $DEFAULT_NUM_MODULE"
+ echo " -o <output directory>, Output file will be generated at OUTPUT_DIR/report.txt, default: $DEFAULT_OUTPUT_DIR"
+ echo " -t <testcases directories>.Testcases will be loaded from this directory. default: $DEFAULT_TESTCASE_DIR"
+ echo " -T <timout period in seconds>, default: $DEFAULT_TIMEOUT"
+ exit 1
+}
+while getopts ":n:a:o:t:T:" opt; do
+ case "$opt" in
+ a)
+ APPLICATION_LIST=$OPTARG
+ ;;
+ o)
+ OUTPUT_DIR="$OPTARG"
+ ;;
+ n)
+ NUM_MODULE=$OPTARG
+ ;;
+ t)
+ TESTCASE_DIR=$OPTARG
+ ;;
+ T)
+ TIMEOUT=$OPTARG
+ ;;
+ *)
+ usage
+ ;;
+ esac
+done
+if [ -z $APPLICATION_LIST ]; then
+ APPLICATION_LIST=$(realpath $DEFAULT_APPLICATION_LIST)
+fi
-# select top 50 most used module by default
-NUM_MODULE=${2:-30}
+if [ -z $OUTPUT_DIR ]; then
+ OUTPUT_DIR=$(realpath $DEFAULT_OUTPUT_DIR)
+fi
+if [ -z $NUM_MODULE ]; then
+ NUM_MODULE=$DEFAULT_NUM_MODULE
+fi
+if [ -z $TESTCASE_DIR ]; then
+ TESTCASE_DIR=$(realpath $DEFAULT_TESTCASE_DIR)
+fi
+if [ -z $TIMEOUT]; then
+ TIMEOUT=$DEFAULT_TIMEOUT
+fi
-declare -i TIMELIMIT
BINTEST=true
-TIMELIMIT=10
-TESTCASE_DIR=$(realpath './tests')
-OUTPUT_DIR=$(realpath $OUTPUT_DIR)
-REPORT=$OUTPUT_DIR/'report.txt'
+
+
+REPORT="$OUTPUT_DIR/report.txt"
+FAILED_MODULE_LOGS="$OUTPUT_DIR/failed_modules.txt"
+echo '' > $FAILED_MODULE_LOGS
+echo '' > $REPORT
declare -i num_success=0
declare -i num_failed=0
declare -i num_notest=0
declare -i minor_error=0
+function generate_output_directory {
+ mkdir -p $OUTPUT_DIR
+ touch $REPORT
+ echo '' > $REPORT
+ echo "Test report created at $REPORT"
+
+}
+
+
+# function generate_software_usage {
+# SOFTWARE_USAGE_PATH=software_usage.txt
+# if [ ! -f $SOFTWARE_USAGE_PATH ]; then
+# ./software_usage $SOFTWARE_USAGE_PATH
+# fi
+# }
-mkdir -p $OUTPUT_DIR
-touch $REPORT
-echo $REPORT
-echo '' > $REPORT
-USAGE_REPORT=software_usage.txt
-if [ ! -f $USAGE_REPORT ]; then
- ./software_usage $USAGE_REPORT
-fi
-declare -a modules
+
+generate_output_directory
+
+
IFS_orig=$IFS
IFS=$'\n'
-for i in $(head -n $NUM_MODULE $USAGE_REPORT); do
- m=$(sed -n 's/\(.*\)\/\(.*\) - \(.*\)/\1 \2/p' <<< $i)
+
+
+for i in $(head -n $NUM_MODULE $APPLICATION_LIST); do
+ # m=$(sed -n 's/\(.*\)\/\(.*\) - \(.*\)/\1 \2/p' <<< $i)
+ m=$(sed -n 's/\(.*\)\/\(.*\)/\1 \2/p' <<< $i)
name=$(cut -f1 -d' ' <<< $m)
ver=$(cut -f2 -d' ' <<< $m)
+ printf "\n\n=========================\n"
+ if [ -z $name ]; then
+ continue
+ fi
+
+ echo "Testing $name/$ver ... "
+
+
+ module purge
module load $name/$ver
mkdir -p $OUTPUT_DIR/$name
echo '' > $OUTPUT_DIR/$name/$ver
if [ ! -d $TESTCASE_DIR/$name ]; then
echo "No testcase for $m found" | tee -a $REPORT
- num_notest+=1
+ num_notest+=1
else
ALL_EXEC=$(find $TESTCASE_DIR/$name -maxdepth 1 -executable -type f)
+ module_failed=false
for t_case in ${ALL_EXEC}; do
if [ $i == 'bintest' ] && ! $BINTEST;then break;fi
orig_dir=$PWD
cd $(dirname $t_case) # in case the testcase need to compile some source from the directory
- timeout $TIMELIMIT $t_case $ver &> $OUTPUT_DIR/$name/$ver
+ timeout $TIMEOUT $t_case $ver &> $OUTPUT_DIR/$name/$ver
exitcode=$?
cd $orig_dir
if [ $exitcode -eq 0 ]; then
num_success+=1
else
- if [ $exitcode -eq 1 ]; then
+ if [ $exitcode -eq 1 ]; then
minor_error+=1
else
num_failed+=1
+ module_failed=true
fi
echo "$m return non-zero exitcode $exitcode for testcase $t_case" 2>&1 | tee -a $REPORT
fi
done
+ if $module_failed ; then
+ echo "$name/$ver failed"
+ echo "$name/$ver" >> $FAILED_MODULE_LOGS
+ fi
fi
- module purge
+ module unload $name/$ver
+
+ printf "Done"
+
done
IFS=$IFS_orig
-echo "Summary" 2>&1 | tee -a $REPORT
+echo "Testcase summary" 2>&1 | tee -a $REPORT
echo "Failed: $num_failed" 2>&1 | tee -a $REPORT
echo "Success: $num_success" 2>&1 | tee -a $REPORT
echo "minor error: $minor_error, this is often due to executable not having --version option" 2>&1 | tee -a $REPORT
@@ -78,5 +163,4 @@ if [ "$num_success" -lt $(( $NUM_MODULE / 2 )) ]; then
echo "Failing because not enough tests succeeded" 2>&1 | tee -a $REPORT
exit 2
fi
-[ -f TAIR10_chr1.fas ] && rm TAIR10_chr1.fas
[ "$num_failed" -eq "0" ]
diff --git a/smoke_test/software_usage.txt b/smoke_test/software_usage.txt
new file mode 100644
index 0000000000000000000000000000000000000000..f0dd51a9cb584accf0ef93577856f05b1a838f1c
--- /dev/null
+++ b/smoke_test/software_usage.txt
@@ -0,0 +1,1201 @@
+libjpeg-turbo/1.4.2 - 5855
+gcc/5.4.0 - 5723
+virtualgl/2.5.0 - 5586
+tigervnc/1.8.0 - 5061
+openmpi/1.10.7-mlx - 2368
+gcc/8.1.0 - 2162
+gcc/4.9.3 - 2063
+anaconda/5.1.0-Python3.6-gcc5 - 1635
+openblas/0.2.20 - 1510
+fftw/3.3.5-gcc5 - 1419
+hdf5/1.10.0-patch1 - 1301
+atlas/3.10.2-gcc5 - 1299
+singularity/3.2.1 - 1198
+gcc/6.1.0 - 1181
+fftw/3.3.4-gcc - 1155
+fftw/3.3.5-gcc - 1072
+fsl/6.0.3 - 1025
+lapack/3.6.1-gcc5 - 1023
+cuda/7.5 - 1018
+atlas/3.10.2-gcc4 - 936
+geos/3.6 - 912
+python/3.7.3-system - 889
+lapack/3.6.1-gcc4 - 841
+htslib/1.9-gcc5 - 836
+samtools/1.9-gcc5 - 820
+mpfr/3.1.5 - 785
+gmp/6.1.2 - 780
+picard/2.9.2 - 779
+libtiff/3.9.7 - 774
+fsl/5.0.11 - 771
+gsl/2.2-system - 740
+deeptools/3.1.2 - 731
+bowtie2/2.2.9 - 710
+gsl/2.2-gcc4 - 709
+python/3.6.6-gcc5 - 705
+cuda/10.1 - 700
+cutadapt/0.16 - 699
+bismark/v0.19.1 - 663
+openmpi/1.10.3-gcc4-mlx-verbs - 657
+fastqc/0.11.7 - 620
+bedtools/2.26.0 - 608
+htseq/0.10.0 - 601
+htslib/1.9 - 561
+cuda/8.0.61 - 557
+samtools/1.9 - 551
+cuda/9.1 - 540
+anaconda/2019.03-Python3.7-gcc5 - 533
+samtools/1.7 - 516
+wxwidgets/3.0.3 - 507
+python/2.7.12-gcc4 - 502
+matlab/r2018a - 490
+ctffind/4.1.8 - 471
+cuda/10.0 - 464
+openmpi/1.10.3-gcc5-mlx - 461
+matlab/r2019b - 459
+perl/5.28.0 - 456
+cmake/3.5.2-gcc5 - 456
+anaconda/5.0.1-Python2.7-gcc5 - 451
+merantk/1.2.1 - 440
+gsl/2.2-gcc5 - 438
+python/3.6.2 - 433
+libmaus/0.0.196 - 433
+biobambam/0.0.191 - 432
+cmake/3.5.2 - 418
+singularity/3.5.2 - 412
+bcftools/1.8 - 392
+ucsc-genome-tools/201806 - 391
+qt/5.7.1-gcc5 - 386
+python/2.7.15-gcc5 - 383
+R/3.6.0-mkl - 382
+singularity/3.1.0 - 369
+ants/20190910 - 369
+python/3.7.2-gcc6 - 354
+bwa/0.7.17-gcc5 - 354
+mrtrix/3.0_rc3_latest - 348
+mesa/default - 343
+blast/2.7.1 - 338
+boost/1.67.0-gcc5 - 330
+freesurfer/6.0 - 327
+fsl/6.0.1 - 320
+python/3.5.2-gcc4 - 316
+matlab/r2015b - 315
+gctf/1.06_cuda8 - 300
+mrtrix/3.0_rc3 - 279
+cuda/9.0 - 278
+trim_galore/0.4.5 - 275
+matlab/r2019a - 275
+freesurfer/devel-20190128 - 269
+spm12/matlab2018a.r7487 - 267
+squashfs-tools/4.3-0.21 - 263
+cufflinks/2.2.1 - 259
+macs2/2.1.1.20160309 - 257
+eigen/3.3.7 - 257
+molden/5.7 - 251
+bwa/0.7.12 - 240
+virtualgl/2.5.2 - 229
+trim_galore/0.5.0 - 227
+spm12/matlab2015b.r6685 - 227
+tiff/4.0.8 - 222
+mrtrix3tissue/5.2.8 - 221
+ants/2.2.0 - 221
+mricron/30apr2016 - 218
+eigen/3.3.0 - 218
+vmd/1.9.4 - 211
+mrtrix3tissue/5.2.8-ubuntu - 208
+motioncor2/2.1.10-cuda8 - 208
+squashfuse/0.1.103 - 205
+fsl/5.0.9 - 204
+cuda/8.0 - 202
+miniconda3/4.1.11-python3.5 - 199
+bedtools/2.27.1-gcc5 - 199
+singularity/3.5.3 - 198
+python/3.6.2-static - 198
+cudnn/7.3.0-cuda9 - 196
+motioncor2/2.1.3.0-cuda101 - 189
+zlib/1.2.11 - 182
+bowtie2/2.3.5 - 179
+singularity/2.5.2 - 177
+spades/3.12.0 - 176
+fasttree/2.1.10 - 174
+pigz/2.3.4 - 172
+seqtk/1.3 - 170
+emboss/6.6.0 - 169
+python/3.5.2-gcc5 - 160
+pycharm/2018.3.3 - 160
+pilon/1.22 - 160
+lmdb/latest - 158
+xnat-utils/0.5.5 - 157
+mafft/7.310 - 157
+cudnn/7.6.5-cuda10.1 - 157
+protobuf/master - 154
+cmake/3.10.2-gcc5 - 154
+picard/2.19.0 - 151
+matlab/r2017a - 150
+afni/17.0.11 - 149
+singularity/3.4.0 - 148
+python/2.7.12-gcc5 - 146
+fsleyes/0.32.0 - 146
+trimmomatic/0.38 - 142
+mc/4.8.21 - 140
+gnuplot/5.2.1 - 140
+cblas/20032302-gcc5 - 139
+cudnn/7.6.5.32-cuda10 - 137
+anaconda/2018.12-Python3.7-gcc6 - 135
+mricrogl/1.0.20170207 - 134
+prokka/1.13.3 - 133
+intel/2018u3 - 133
+relion/3.1_beta-latest - 130
+R/3.5.1 - 130
+mash/2.1.1 - 128
+chrome/default - 128
+gaussian/g16a03 - 126
+freesurfer/5.3 - 126
+mricrogl/20180623 - 124
+vt/0.57 - 123
+matlab/r2016a - 122
+skesa/2.3 - 120
+gnuparallel/20190122 - 116
+fiji/current - 115
+mkl/2018u3 - 111
+cmake/3.15.1-gcc5 - 111
+chimera/1.11 - 111
+gflags/master - 110
+glog/master - 109
+singularity/3.2.0 - 108
+cmake/3.10.2-gcc4 - 108
+cdhit/4.8.1 - 108
+velvet/1.2.10 - 107
+anaconda/5.0.1-Python3.6-gcc5 - 107
+snippy/4.3.8 - 104
+mlst/2.15 - 104
+flash/1.2.11-gcc5 - 103
+shovill/1.0.4 - 102
+freebayes/0.9.9 - 102
+python/2.7.11-gcc - 101
+lighter/1.1.2 - 100
+gpucomputingsdk/4.0.17 - 100
+cryosparc/v2 - 100
+blas/3.8.0-gcc5 - 100
+kraken2/2.0.7-beta - 99
+boost/1.72.0-gcc8 - 99
+rstudio/1.1.463-r3.6.0-mkl - 98
+boost/1.62.0-gcc4 - 96
+avizo/9.5.0 - 96
+ants/2.3.1 - 96
+abricate/0.8.13 - 96
+itk/4.10.0-gcc4 - 95
+avizo/9.7 - 95
+tensorflow/2.0.0-gpu - 94
+muscle/3.8.31 - 94
+megahit/1.1.3 - 93
+R/3.5.2-openblas - 92
+samclip/0.2 - 91
+cutadapt/2.7 - 90
+libcublas/10.2.1.243-cuda10 - 89
+atom/1.39.1 - 89
+lapack/3.8.0-gcc5 - 88
+git/2.8.1 - 88
+singularity/3.0 - 85
+kraken/1.1.1 - 85
+freesurfer/6.0-patch - 85
+pytorch/1.3-cuda10 - 84
+matlab/r2017b - 84
+fsleyes/0.24.3 - 84
+snappy/master - 83
+singularity/2.4.5 - 83
+perl/5.24.0 - 83
+vtk/7.0.0 - 82
+deeptools/3.1.3 - 82
+nullarbor/2.0.20181010 - 81
+fiji/20160808 - 81
+chimera/1.13 - 81
+relion/3.0-stable - 80
+imod/4.9.9 - 80
+openmpi/3.1.4-mlx - 79
+rdkit/2019.03.3.0 - 78
+matlab/r2019b-container - 78
+fsl/6.0.0 - 77
+blast+/2.9.0 - 77
+snp-dists/0.6.3 - 76
+newick-utils/1.6 - 76
+dcm2niix/latest - 76
+dsistudio/latest - 74
+connectome/1.2.3 - 74
+centrifuge/1.0.4-beta - 73
+jellyfish/1.1.12 - 72
+avizo/9.0.1 - 72
+anaconda/5.0.1-Python3.5-gcc5 - 72
+relion/3.1_beta - 71
+chimera/1.14 - 71
+vcftools/0.1.15 - 70
+R/3.5.3-mkl - 70
+convert3d/1.0.0 - 70
+3dslicer/4.10.2 - 70
+maven/3.3.9 - 69
+itk/ansto - 69
+apex/latest - 69
+R/3.4.3 - 68
+hdf5/1.10.5 - 68
+gatk/4.1.2.0 - 68
+mrtrix/0.3.15-gcc4 - 67
+minimap2/2.17-r954-dirty - 67
+prank/170427 - 66
+itksnap/3.3.x - 66
+relion/2.1 - 65
+quicktree/2.5 - 65
+mrtrix/3.0.0 - 65
+R/3.5.0 - 64
+opencv/3.4.1 - 63
+leveldb/master - 63
+cmake/3.10.2-gcc4-system - 63
+spm12/matlab2018a.r6685 - 62
+pytorch/1.1-cuda10 - 61
+mcl/11-294 - 61
+cmake/3.15.4-gcc8 - 61
+sra-tools/2.9.6 - 60
+rstudio/1.1.463 - 60
+roary/3.11.2 - 60
+iqtree/1.6.10 - 60
+R/3.6.2-mkl - 59
+sqlite3/3.30.1 - 58
+mash/2.1 - 58
+roary/3.12.0 - 57
+openmpi/1.10.3-gcc4-mlx - 56
+tractseg/2.0 - 55
+imagemagick/7.0.8.23-native - 55
+amira/6.5.0 - 55
+racon/1.3.1 - 54
+gdb/8.2.1 - 54
+tophat/2.1.1 - 53
+mriconvert/2.1.0 - 53
+motioncor2/2.1 - 53
+unicycler/0.4.7 - 52
+tensorrt/6.0.1.5-cuda10 - 52
+ea-utils/1.1.2-gcc5 - 52
+qsiprep/.0.8.0 - 50
+intel/2017u4 - 50
+blast/2.2.30 - 50
+avizo/9.4.0 - 50
+vtk/7.0.0-gcc5 - 49
+singularity/3.0.1 - 49
+plink/1.9 - 49
+itk/4.10.0-gcc5 - 49
+eman/2.3.1 - 49
+cryosparc/beta - 49
+chimerax/0.8 - 49
+ants/1.9.v4 - 49
+motioncor2/20181020 - 48
+avizo/9.3.0 - 48
+voro++/0.4.6 - 47
+raxml/8.2.9 - 47
+R/3.3.1 - 47
+xnat-utils/0.5.3 - 46
+virtualgl/2.6.2 - 46
+netcdf/4.4.1.1-openmpi-1.10.7-mlx - 46
+eman/2.2 - 46
+bcftools/1.6 - 46
+relion/3.0-stable-cuda91 - 45
+relion/3.0-beta - 45
+quit/2.0.2 - 45
+motioncor2/20181020-cuda91 - 45
+freesurfer/7.1.0 - 45
+ffmpeg/3.4.2 - 45
+tensorflow/1.12.0-python3.6-gcc5 - 44
+pysam/0.15.2-python2 - 44
+fmriprep/1.5.8 - 44
+texlive/2017 - 43
+namd/2.13-multicore-CUDA - 43
+minc-tools/2.2 - 43
+hdfview/3.0 - 43
+chimerax/0.91 - 43
+nanconvert/latest - 42
+mrtrix/.3.0.0 - 42
+mango/4.0.1 - 42
+cudnn/5.1 - 42
+intel/2015.0.090 - 41
+hmmer/3.2.1 - 41
+gamess/16srs1-v2 - 41
+cmake/3.5.2-gcc4 - 41
+vim/8.0.0596 - 40
+leveldb/master-gcc4 - 40
+daris-utils/1.0 - 40
+tensorflow/2.0.0-beta1 - 39
+star/2.5.2b - 39
+samtools/1.3.1 - 39
+lapack/3.8.0-gcc5-pic - 39
+imod/4.9.12 - 39
+bzip2/1.0.6 - 39
+gctf/1.18_cuda91 - 38
+udunits2/2.2.20-2 - 37
+skewer/20170212 - 37
+rclone/1.49.3 - 37
+prokka/1.14.6 - 37
+cuda/7.0 - 37
+cmake/3.15.1-gcc4-system - 37
+blas/3.8.0-gcc5-pic - 37
+tensorflow/1.14.0-keras - 36
+spm8/matlab2017a.r6685 - 36
+python/3.5.2-gcc - 36
+cudnn/5.1-DL - 36
+pgi/2019 - 35
+mrtrix/20170712 - 35
+itksnap/3.8.0 - 35
+eman/2.3 - 35
+python/2.7.17-gcc8 - 34
+motioncorr2/20160822 - 34
+tensorflow/1.4.0-python3.6-gcc5 - 33
+git/2.19.0 - 33
+dti-tk/2.3.1 - 33
+cuda/8.0-DL - 33
+singularity/2.3.1 - 32
+prodigal/2.6.3 - 32
+netcdf/4.4.1.1 - 32
+itk/4.13.0-gcc4 - 32
+analyze/12.0 - 32
+paraview/4.0.1 - 31
+igv/2.4.19 - 31
+gautomatch/0.56 - 31
+amber/18-parallel - 31
+tbb/20180312oss - 30
+rest/1.8 - 30
+openmpi/1.10.7-intel - 30
+opencv/4.1.0 - 30
+mathematica/12.0.0 - 30
+gatk/3.7 - 30
+fastx-toolkit/0.0.13 - 30
+cudnn/7.1.3-cuda9 - 30
+boost/1.46.0-gcc5 - 30
+bcl2fastq/2.19.1 - 30
+amira/6.3.0 - 30
+3dslicer/4.8.1 - 30
+vmd/1.9.3 - 29
+samtools/0.1.18 - 29
+imod/4.8.54 - 29
+cryolo/1.5.3 - 29
+vep/90 - 28
+tensorflow/1.3.0-python2.7.12-gcc5 - 28
+subread/1.5.1 - 28
+spm8/matlab2015b.r6685 - 28
+pytorch/1.5-cuda10 - 28
+openmpi/3.1.6-ucx - 28
+kleborate/0.3.0 - 28
+gurobi/9.0.0 - 28
+geant4/10.05.p01 - 28
+srst2/0.2.0-2019 - 27
+simnibs/2.0.1g - 27
+megahit/1.2.4-beta - 27
+java/1.7.0_67 - 27
+gromacs/2018-openmpi-cuda8.0-NVML - 27
+cryo-em-processing-tool/0.1 - 27
+crossmap/0.3.5 - 27
+ccp4/7.0 - 27
+amber/18-single-gpu - 27
+lammps/20180510 - 26
+gatk/3.4 - 26
+niftilib/2.0.0 - 25
+gdal/3.0.2 - 25
+gctf/1.06_cuda8-uow - 25
+gautomatch/0.53 - 25
+diamond/0.9.22 - 25
+cryolo/1.6.0 - 25
+anaconda/4.3.1-Python3.5 - 25
+rstudio/1.1.463-r3.5.3-mkl - 24
+psi4/v1.1 - 24
+mriqc/0.9.7 - 24
+iqtree/1.5.3 - 24
+imagemagick/7.0.5-7 - 24
+fiji/MMI-MHTP - 24
+bowtie/1.1.2 - 24
+xnat-desktop/0.96 - 23
+tensorflow/1.13.1-gdal - 23
+prokka/1.14.5 - 23
+openmpi/1.10.3-gcc5 - 23
+octopus/8.4-parallel - 23
+nccl/2.4.7-cuda10.0 - 23
+mricron/06.2013 - 23
+julia/1.3.1 - 23
+iqtree/2.0-rc1 - 23
+graphviz/2.30.1 - 23
+bamtools/2.4.1 - 23
+afni/16.2.16 - 23
+vasp/5.4.4 - 22
+strelka/2.8.4 - 22
+nibabel/2.3.3 - 22
+magma/1.6.1 - 22
+fxtract/2.3 - 22
+fiji/fiji-super-res - 22
+eman/2.12 - 22
+beagle/2.1.2 - 22
+xds/monash - 21
+vscode/1.39.2 - 21
+singularity/3.0.2 - 21
+relion/2.0beta - 21
+qiime2/2019.4 - 21
+openmpi/2.1.6-mlx-intel - 21
+geos/3.7.2 - 21
+clamms/1.1 - 21
+boost/1.58.0-gcc5 - 21
+anaconda/4.3.1-Python3.5-gcc5 - 21
+wxgtk/3.0.2 - 20
+relion/3.1.0 - 20
+lammps/20181212 - 20
+gubbins/2.3.2 - 20
+gromacs/2018-openmpi-cuda8.0 - 20
+gd-devel/2.0.35 - 20
+drishti/2.6.4 - 20
+circos/0.69-6 - 20
+canu/1.7.1 - 20
+xnat-utils/0.4.6 - 19
+smcounter/10apr2017 - 19
+root/5.34.32 - 19
+python/.2.7.12-gcc5-sm - 19
+orca/4.0.1 - 19
+opencv/3.4.10-gcc5 - 19
+openbabel/2.4.1 - 19
+new-fugue/2010-06-02 - 19
+gatk/4.0.11.0 - 19
+cloudstor/2.4.2 - 19
+bamtofastq/1.2.0 - 19
+varscan/2.3.9 - 18
+simul-atrophy/12-09-2017 - 18
+relion/3.0-uow-20190115 - 18
+mrtrix/0.3.15-gcc5 - 18
+graphviz/2.40.1 - 18
+glew/2.0-gcc5 - 18
+fsleyes/0.22.4 - 18
+amber/18-serial - 18
+xnat-utils/0.4.9 - 17
+tensorflow/1.12.0-python2.7.12-gcc5 - 17
+rstudio/1.1.414 - 17
+relion/3.0.7-uow - 17
+proj/6.2.1 - 17
+openmpi/1.10.3-gcc4-mlx-verbs-cuda75 - 17
+mxtools/0.1 - 17
+libtiff/4.0.10 - 17
+fmriprep/1.4.1 - 17
+dos2unix/7.4.0 - 17
+dcmtk/3.6.3 - 17
+cnvkit/0.9.5 - 17
+chimerax/0.6 - 17
+beast1/1.10.0 - 17
+sumo/1.5.0 - 16
+pplacer/v1.1.alpha19 - 16
+perl/5.30.1 - 16
+orca/4.2.1 - 16
+iqtree/1.6.2 - 16
+hisat2/2.1.0 - 16
+gurobi/8.0.0 - 16
+gemini/0.30.1 - 16
+fooof/0.1.3 - 16
+fmriprep/1.4.0 - 16
+dynamo/1.1.178 - 16
+snp-sites/2.5.1 - 15
+simple/2.5 - 15
+rstudio/1.0.143 - 15
+relion/3.0.7 - 15
+qiaseq-dna/1.0 - 15
+paraview/5.6.0 - 15
+octave/4.2.2 - 15
+motioncor2/2.1.10-cuda9.1 - 15
+idl/8.6 - 15
+hdf5/1.10.6p - 15
+gromacs/2018.4-openmpi-cuda8.0 - 15
+fsleyes/0.23.0 - 15
+fmriprep/1.1.1 - 15
+emclarity/.1.4.3 - 15
+eman/2.22 - 15
+dke/latest - 15
+connectome/.1.4.2 - 15
+blast/2.3.0 - 15
+bedtools/2.26.0-gcc5 - 15
+vim/8.2 - 14
+spades/3.13.1 - 14
+snippy/4.4.5 - 14
+smafa/0.5.0 - 14
+raxml/8.2.12 - 14
+R/4.0.0-openblas - 14
+openfoam/5.x - 14
+mrtrix/0.3.16 - 14
+jdk/14 - 14
+itk/4.13.1-gcc4 - 14
+ilastik/1.3.3 - 14
+ascp/3.5.4 - 14
+amber/18-parallel-pmemd.gem - 14
+wgsim/0.3.1-r13 - 13
+singularity/2.4.2 - 13
+relion/3.0-stable-uow - 13
+relion/3.0.7-uow-cuda10.1 - 13
+qiime2/2019.7-q2_scnic_2 - 13
+pytorch/1.0-cuda10 - 13
+pyem/v0.3 - 13
+pmix/v2.2 - 13
+panaroo/1.1.2 - 13
+openmpi/1.10.7-mlx-intel - 13
+igv/2.3.81 - 13
+drishti/2.6.3 - 13
+buster/20170508 - 13
+umap/0.3.8 - 12
+topaz/latest - 12
+ska/1.0-e1968f0 - 12
+relion/3.0.7-uow-mc2.1.3.0 - 12
+python/.2.7.17 - 12
+plumed/2.5.0 - 12
+plink/2.0-alpha - 12
+neuro-workshop/20191115 - 12
+mummer/4.0.0.beta2-gcc5 - 12
+libjpeg-turbo/1.5.1 - 12
+idl/8.7 - 12
+fastani/1.1 - 12
+ctffind/4.1.4 - 12
+ccp4/coot - 12
+ccp4/7.0.072 - 12
+caffe/latest - 12
+armadillo/9.200-rc1 - 12
+w2mhs/.matlab2018a.v2.1 - 11
+spss/26 - 11
+samtools/1.7-gcc5 - 11
+paleomix/1.2.13.4-python2 - 11
+namd/2.12-multicore - 11
+mono/5.20.1.19 - 11
+meshlab/2016.12-gcc5 - 11
+gurobi/9.0.1 - 11
+gimp/2.8 - 11
+dke/latest-ft - 11
+cryolo/1.7.2 - 11
+cryolo/1.3.1 - 11
+cmake/2.8.12.2-gcc5 - 11
+cistem/1.0.0-beta - 11
+chrome/80 - 11
+3dslicer/4.6.0 - 11
+xjview/9.7 - 10
+tvips-tools/0.0.3 - 10
+tbb/.2020.0 - 10
+sourcetracker/2.0.1 - 10
+simnibs/3.1.2 - 10
+scipion/v1.0.1_2016-06-30 - 10
+rstudio/1.0.44 - 10
+orfm/v0.7.1 - 10
+locuszoom/1.4.fixed - 10
+gatan/free - 10
+cryolo/1.5.6 - 10
+cplex/12.8.0 - 10
+blender/2.81 - 10
+zstd/1.4.0 - 9
+x2goclient/4.1.2.2 - 9
+tannertools/2016.2 - 9
+scipion/2.0 - 9
+rsem/1.3.0 - 9
+relion/3.0-20181109-cuda91 - 9
+qiime2/2019.1 - 9
+pymol/1.8.6 - 9
+pindel/0.6.3-gcc5 - 9
+neuro_workflow/2017v2 - 9
+meshlab/2019.03 - 9
+meme/5.0.1 - 9
+mauve/20150213 - 9
+mathematica/11.0.1 - 9
+locuszoom/1.4 - 9
+libfuse/3.6.1 - 9
+itk/4.8.2-gcc5 - 9
+imagej/20160205 - 9
+gromacs/2019.4-openmpi-cuda10.0 - 9
+glog/master-gcc4 - 9
+fastml/3.1 - 9
+caffe-segnet/.1.0.0-rc3 - 9
+bracken/2.5 - 9
+vtk/5.10.1-gcc4 - 8
+vep/94 - 8
+vdjtools/1.2.1 - 8
+sra-tools/2.9.4 - 8
+slurm/17.11.4 - 8
+slim/3.3.1 - 8
+quicktree/2.0 - 8
+pytorch/.1.5-cuda10 - 8
+octopus/8.4 - 8
+novactf/03.2018 - 8
+mriqc/0.14.2 - 8
+matlab/r2014b - 8
+matlab/r2012b - 8
+lofreq/2.1.3.1 - 8
+kronatools/2.7.1 - 8
+ismapper/2.0 - 8
+ilastik/1.2.0 - 8
+heudiconv/0.5.4 - 8
+flye/2.3.5 - 8
+fix/1.068 - 8
+fastp/0.20.0 - 8
+cmake/2.8.12.2 - 8
+caffe_unet/18.04 - 8
+beast2/2.5.0 - 8
+angsd/0.931 - 8
+amber/18-multi-gpus - 8
+adapterremoval/2.3.1 - 8
+xnatpy/0.3.18 - 7
+vtk/5.10.1 - 7
+visit/2.12.3 - 7
+tensorflow/1.4.0-python2.7.12-gcc5 - 7
+tensorflow/1.15.2-gpu - 7
+tensorflow/1.14.0-keras-pydicom - 7
+svs/8.8.3 - 7
+sra-tools/2.9.2 - 7
+singlem/0.12.1 - 7
+seqgen/1.3.4 - 7
+relion/3.0-uow-20181109-cuda91 - 7
+relion/3.0-uow-20181109-cuda80 - 7
+relion/2.1.b1 - 7
+relion/1.4 - 7
+pyem/v0.1-201806 - 7
+parliament2/0.1.11 - 7
+openfoam/5-paraview54 - 7
+netcdf/4.7.1-intel - 7
+mykrobe/0.8.1 - 7
+manta/1.5.0-gcc5 - 7
+imagescope/11.2.0.780 - 7
+hpcx/2.5.0-redhat7.7 - 7
+haystack_bio/0.5.5 - 7
+goctf/1.1.0 - 7
+go/1.13.8 - 7
+genrich/v0.6 - 7
+exonerate/2.4.0 - 7
+cytoscape/3.4.0 - 7
+cudalibs8to9/0.1 - 7
+cst/2017 - 7
+coot/0.8.9.1 - 7
+bsoft/2.0 - 7
+beast2/2.4.7 - 7
+ansys/19.2 - 7
+ansys/19.1 - 7
+x2goclient/.4.1.2.1 - 6
+workspace/4.0.2 - 6
+virtualgl/.2.6.3 - 6
+velvet/1.2.10-modified - 6
+valgrind/3.13 - 6
+turbovnc/2.0.2 - 6
+tensorflow/1.10.0-pytorch-keras - 6
+subversion/1.9.5 - 6
+sqlite3/.3.30.1 - 6
+relion/3.0.5-uow - 6
+qiime1/1.9.1 - 6
+pagmo/.2.13.0 - 6
+orca/4.2.1-216 - 6
+openfoam/v1912 - 6
+openbugs/.3.2.3 - 6
+omero.insight/5.5.10 - 6
+nlopt/2.6.1-gcc4 - 6
+ninja/1.9.0 - 6
+netcdf/4.7.0 - 6
+nccl/master - 6
+mixcr/3.0.7 - 6
+mesa/13.0.5 - 6
+mcr2010b/1.0 - 6
+imagemagick/7.0.9-27 - 6
+htslib/1.7 - 6
+gtdb-tk/0.3.2 - 6
+gromacs/2019.3-openmpi-cuda9.1 - 6
+glm/0.9.9.5 - 6
+git-annex/6.20180227 - 6
+ghostscript/9.26 - 6
+gflags/master-gcc4 - 6
+fmriprep/1.2.5 - 6
+fgbio/0.9.0 - 6
+eigen/2.0.17 - 6
+eclipse/4.8 - 6
+dtk/0.6.4.1 - 6
+ctffind/4.1.10 - 6
+comsol/5.4-ee - 6
+cellranger/3.0.2 - 6
+cellprofiler/3.1.5 - 6
+caffe/1.0.0 - 6
+boost/1.58.0 - 6
+biobambam2/2.0.146 - 6
+bids-validator/2019.01 - 6
+ashs/1.0.0 - 6
+apr-util/1.6.1 - 6
+adxv/1.9.12 - 6
+abaqus/6.14 - 6
+vaa3d/3.601 - 5
+tensorrt/7.0.0.11-cuda10 - 5
+tensorflow/1.15.2-python3.7.3-gcc8 - 5
+tensorflow/1.10.0-pytorch - 5
+snpeff/4.3t - 5
+sidesplitter/120220 - 5
+scipion/v1.2.1_2018-10-01 - 5
+resmap/1.9.5 - 5
+relion/3.1_beta-20200109 - 5
+relion/3.1_beta-20191105 - 5
+relion/.3.1.0 - 5
+relion/.2.1-uow - 5
+python/.2.7.17-gcc8 - 5
+pymol/2.4.0a0 - 5
+psi4/v1.3.2 - 5
+proj/5.1.0 - 5
+openmpi/1.10.7-1.mlx - 5
+nlopt/.2.6.1-gcc5 - 5
+nis-elements-viewer/4.20 - 5
+nilearn/.0.6.2 - 5
+motioncor2/2.1.3.0-cuda80 - 5
+minizinc/2.3.1 - 5
+metaphlan/2.0 - 5
+kindel/0.4.2 - 5
+jags/4.3.0 - 5
+groot/0.8.6 - 5
+gromacs/2018.7-openmpi-cuda-plumed - 5
+gromacs/2016.4-openmpi-cuda8.0 - 5
+go/1.11.1 - 5
+git/2.25.2 - 5
+geant4/10.02.p03 - 5
+gctf/1.18_b2_cuda9 - 5
+fix/1.064 - 5
+emclarity/1.0.0 - 5
+darknet/alexey - 5
+cp2k/6.1.0 - 5
+cellprofileranalyst/2.2.0 - 5
+ccp-em/1.3.0 - 5
+bison/2.7.1 - 5
+avizo/2020.2 - 5
+ansys/18.1 - 5
+zoem/11-166 - 4
+yade/2019-06-20 - 4
+weblogo/3.7 - 4
+vasp/5.4.4-ucx - 4
+unblur/1.0.2 - 4
+srst2/0.2.0 - 4
+smux/0.0.1 - 4
+slim/3.2 - 4
+slamdunk/latest - 4
+skesa/2.2.1 - 4
+simul-atrophy/RJBCompilePetscMaster-190220 - 4
+simul-atrophy/rjbcompilepetscmaster-04032020 - 4
+roary/3.x - 4
+roary/3.11.4 - 4
+relion/3.1_beta-20191113 - 4
+relion/3.0.5 - 4
+qiime2/2018.4 - 4
+qgis/3.9.0 - 4
+pypy/7.0.0-3.6 - 4
+picrust2/2.2.0_b - 4
+paraview/ansto - 4
+paml/4.9 - 4
+openfoam/4.1 - 4
+opendronemap/.1.3.3 - 4
+nighres/1.1.0b1 - 4
+mummer/3.23-gcc5 - 4
+mriqc/.0.9.7 - 4
+metal/2011 - 4
+matlab/r2020a - 4
+mapdamage/2.0.9-u1 - 4
+libffi/3.2.1 - 4
+jags/3.4.0 - 4
+itk/.4.13.2-gcc5 - 4
+imagemagick/7.0.9-27-gcc8 - 4
+huygens/16.10.1-p1 - 4
+htop/2.0.1 - 4
+gsl/2.5-gcc4 - 4
+groot/1.0.2 - 4
+geant4/.10.6 - 4
+gctf/1.18 - 4
+gauss/9.0 - 4
+gatan/uwa - 4
+gamess/19srs - 4
+fox/1.6.57 - 4
+fastml/3.11 - 4
+darknet/darknet_yolo_v3 - 4
+dada2/1.14 - 4
+cloudstor/2.5.4 - 4
+cloudstor/2.3.1-1.1 - 4
+cloudcompare/.2.10.2 - 4
+chrome/80.0.3987.163 - 4
+chrome/79 - 4
+chimerax/0.93 - 4
+cellprofiler/2.2.0 - 4
+caffe_unet/2.0 - 4
+caffe2/0.8.1 - 4
+boost/1.62.0 - 4
+beast1/1.8.4 - 4
+automake/1.4-p6 - 4
+atomprobe/MCbyGMSRO - 4
+atomprobe/fouriertransform - 4
+ariba/2.12.1 - 4
+amira/2020.2 - 4
+zopfli/1.0.3 - 3
+yade/2019-06-20-cpu - 3
+xnat-utils/0.2.1 - 3
+x2goclient/.4.1.1.1 - 3
+volview/3.4 - 3
+vegas2/v02 - 3
+tracer/1.6 - 3
+tmap/3.0.1 - 3
+tigervnc/.1.9.0 - 3
+terastitcher/20171106 - 3
+tensorflow/.1.15.2-python3.7.3-gcc8 - 3
+tensorflow/1.10.0-pytorch-all - 3
+tempest/1.5 - 3
+swig/3.0.12 - 3
+svd/1.4 - 3
+stringtie/1.3.6 - 3
+spectra/0.8.1 - 3
+samtools/1.6 - 3
+salome/9.2.0 - 3
+rsync/3.1.3 - 3
+rstudio/1.2.1335 - 3
+roary/db170bf - 3
+r-launcher/0.0.1 - 3
+retools/1.3 - 3
+relion/.3.1.0-uow - 3
+relion/3.0-20190115 - 3
+relion/3.0-20181109-cuda80 - 3
+relion/2.1.b2 - 3
+qupath/0.2.0-m4 - 3
+qiime2/2017.9 - 3
+qiaseq-dna/14.1 - 3
+qhull/2015.2 - 3
+python/3.7.3-static - 3
+prismatic/1.1 - 3
+plinkseq/0.10 - 3
+phenix/1.11.1 - 3
+pgi/19.4 - 3
+petsc/3.10.1-gcc5 - 3
+pandoc/2.7.3 - 3
+openmm/.7.4 - 3
+openbugs/3.2.3 - 3
+nlopt/2.6.1 - 3
+mrtrix/3.0.1 - 3
+mpifileutils/20170922 - 3
+metawrap/1.1.3 - 3
+meson/0.51.0 - 3
+maxquant/1.6.5.0 - 3
+mathematica/.12.1.1 - 3
+mantid/3.9.0 - 3
+lsd/0.3beta - 3
+libjpeg-turbo/1.5.1-shared - 3
+ldmap/28apr15 - 3
+kleborate/0.2.0 - 3
+jags/3.3.0 - 3
+itksnap/.3.8.0 - 3
+iqtree/2.0.4-rc - 3
+ior/3.2.1 - 3
+intel/2018test - 3
+impute2/2.3.1 - 3
+imosflm/7.2.2 - 3
+ilastik/1.3.3post3 - 3
+hypre/2.15.0 - 3
+humann/2.0 - 3
+hpcx/2.5.0-redhat7.6 - 3
+hotspot/4.0.0 - 3
+hapflk/.1.4 - 3
+gromacs/5.1.4 - 3
+gromacs/2020.1-openmpi-cuda10.1 - 3
+gromacs/2018.7-openmpi-cpu-only - 3
+gromacs/2016.5-openmpi-cuda8.0-plumed - 3
+gromacs/2016.3-openmpi-cuda8.0 - 3
+gpu_burn/0.9 - 3
+gimp/2.8.22 - 3
+gephi/0.9.2 - 3
+gem/3.3 - 3
+gdal/2.3.1 - 3
+gamess/2018r3 - 3
+foma/0.9.18 - 3
+fmriprep/1.3.0_post2 - 3
+flashpca/2.0 - 3
+emclarity/1.4.3 - 3
+dragondisk/1.0.5 - 3
+dicomnifti/2.32.1 - 3
+cutadapt/2.5 - 3
+cuda/4.1 - 3
+cryolo/1.1.3 - 3
+cplex/12.6 - 3
+cellranger/2.0.1 - 3
+caffe/rc4 - 3
+breseq/0.33.2 - 3
+bbmap/38.81 - 3
+bbcp/17.12 - 3
+bart/0.4.04 - 3
+barrnap/0.9 - 3
+bamsurgeon/1.2 - 3
+axel/2.12 - 3
+autometa/2019-09 - 3
+atomprobe/tapsim - 3
+atomprobe/SpatialAccuracy - 3
+atomprobe/SDM_2D_plot - 3
+atomprobe/CompTool - 3
+atomprobe/CompAnalysis - 3
+ariba/.2.14.4 - 3
+abinit/8.8.3 - 3
+yade/yade-daily-may-2019 - 2
+xnat-utils/0.2.6 - 2
+xnat-desktop/1.0.40 - 2
+xjview/9.6 - 2
+xjview/9.0 - 2
+x2goclient/.4.1.2.2 - 2
+x2goclient/4.1.2.1 - 2
+vsearch/2.13.6 - 2
+unrar/5.0 - 2
+unimelb-mf-clients/0.2.7 - 2
+tbb/.2020.0-gcc8 - 2
+swig/4.0.1 - 2
+structure/2.3.4 - 2
+stringtie/1.3.5 - 2
+sparsehash/2.0.3 - 2
+singularity/d3d0f3fdc4390c7e14a6065543fc85dd69ba42b7 - 2
+singularity/.3.5.3 - 2
+scipion/v1.2.1 - 2
+sas/9.4 - 2
+salmon/0.14.1 - 2
+rings/1.3.3 - 2
+rgi/.5.1.0 - 2
+relion/3.0-uow-20180917 - 2
+relion/3.0-uow-20180904 - 2
+relion/3.0.6-uow - 2
+relion/3.0.6 - 2
+relion/2.1-openmpi-1.10.7-mlx - 2
+relion/2.0.6 - 2
+relion/2.02 - 2
+razers3/3.5.8 - 2
+qhull/2003.1 - 2
+pytom/0.971 - 2
+python/2.7.18-gcc5 - 2
+pymol/1.8.2.1 - 2
+pv/1.6.6 - 2
+purge_haplotigs/1.1.0 - 2
+picrust2/2.1.4_b - 2
+phreeqc/3.5.0 - 2
+phenix/1.15.2 - 2
+pgap/3958 - 2
+pbzip2/1.1.13 - 2
+openrefine/3.1 - 2
+openpose/1.6.0 - 2
+openface/2.2.0 - 2
+opencv/3.4.1-gcc4 - 2
+nccl/master-gcc4 - 2
+nccl/2.4.7-cuda9.1 - 2
+namd/2.13-multicore - 2
+namd/.2.13-mpi - 2
+minc-lib/2.2-git-gcc4 - 2
+metaphlan/.3.0 - 2
+megahit/1.2.9 - 2
+mathematica/12.1.1 - 2
+mantid/3.13.0 - 2
+libgd/2.2.4 - 2
+libarchive/.3.3.2 - 2
+ldpred/1.0.6 - 2
+king/2.1.6 - 2
+kaptive/0.5.1 - 2
+itksnap/3.8.0-beta - 2
+itasser/5.1 - 2
+intel/2016 - 2
+illumina-utils/2.6-python3.7 - 2
+illumina-utils/2.6 - 2
+hyphy/2.5.0 - 2
+hpcx - 2
+horovod/0.16.4 - 2
+hdf5/.1.10.6p - 2
+gvcftools/0.17.0 - 2
+guppy/3.2.4 - 2
+gpu_burn/1.0 - 2
+gnuparallel/20160822 - 2
+git/.2.25.2 - 2
+gctf/1.18_cuda8 - 2
+gatktool/0.0.1 - 2
+fsl/.6.0.3-slurm - 2
+freesurfer/devel-20180612 - 2
+freesurfer/20160922 - 2
+fouriertransform/0.2.3 - 2
+fiji/current.bak - 2
+fcsalyzer/0.9.12 - 2
+exploredti/4.8.6 - 2
+emap-mytardis-shortcut/1.0.0 - 2
+drishti/ansto - 2
+dlib/19.20 - 2
+diamond/.0.9.31 - 2
+deep-complex-networks/2017 - 2
+cudnn/7.1.2-cuda8 - 2
+cudann/7.6.5.32-cuda10 - 2
+cryolo/.1.7.3b2 - 2
+cryolo/1.4.0 - 2
+crisprcasfinder/1.05 - 2
+cpmd/3.17.1 - 2
+colmap/3.6 - 2
+chrome/77 - 2
+chimera/.1.14 - 2
+cellprofiler/3.1.9 - 2
+caffe/1.0.0-protbuf32 - 2
+cactus/1.0.0 - 2
+bids-validator/1.3.1 - 2
+bart/0.4.04-cuda9.0 - 2
+automake/1.16.1 - 2
+attr/2.4.46-12 - 2
+arpack/3.1.3-2 - 2
+ariba/2.14.4 - 2
+ants/.20190910 - 2
+antismash/5.1.1 - 2
+angsd/.0.931 - 2
+analyze-temp/12.0 - 2
+abyss/2.0.2 - 2
+yasm/1.2.0-4 - 1
+yade/1.20.0-gpu - 1
+yade/1.20.0-cpu - 1
+xds/mxbeamteam - 1
+xds/20170302 - 1
+vasp/.5.4.4-ucx - 1
+vasp/5.4.4.eyk - 1
+unimelb-mf-clients/0.3.2 - 1
+umi-tools/0.5.5-python3 - 1
+topaz/1.0 - 1
+tensorflow/1.0.0-python2.7.12-gcc5 - 1
+synopsys/3.1 - 1
+surfice/7_feb_2017 - 1
+spider/21.11 - 1
+spades/.3.14.0 - 1
+snpm/13 - 1
+snappy/master-gcc4 - 1
+situs/3.1 - 1
+shapeit/v2_r904 - 1
+shapeit/v2_r837 - 1
+scrappie/1.4.1 - 1
+sbt/1.2.1 - 1
+sbt/0.13.15 - 1
+samtools/1.8 - 1
+salmon/.0.14.1 - 1
+rseqc/3.0.0 - 1
+rosetta/2020.08 - 1
+rosetta/2018.09 - 1
+rnammer/1.2 - 1
+relion/.3.1_beta - 1
+relion/.3.1.0_openmpi-3.1.6-ucx - 1
+raspa2/.2.0.37 - 1
+raremetal/4.15.1 - 1
+qt5-qtwebkit/5.9.1 - 1
+qiime2/2019.7-q2_scnic - 1
+qiime2/2018.11 - 1
+qatools/1.2 - 1
+pytorch/1.0-cuda9 - 1
+python/2.7.18-ucs4-gcc5 - 1
+pyprismatic/1.1.16 - 1
+pulchra/3.06 - 1
+proj/4.9.3 - 1
+ppanggolin/.0.1.0 - 1
+pointless/1.10.28 - 1
+plink/1.90b6.10 - 1
+plink/1.7 - 1
+plasmidfinder/2.1 - 1
+pigz/2.3.3 - 1
+phyml/3.1 - 1
+phenix/1.15.1 - 1
+peakseq/1.3.1 - 1
+pastml/1.0 - 1
+parliament2/.0.1.11 - 1
+packer/1.3.5 - 1
+openmpi/.4.0.2-gcc5-mlx - 1
+openmpi/3.1.4-ucx - 1
+openmpi/.2.1.2-gcc5 - 1
+nsight/2019.5.0 - 1
+ngsqctoolkit/2.3.3 - 1
+nanopolish/0.11.1 - 1
+nanopolish/0.10.1 - 1
+namd/2.12-ibverbs-smp-cuda - 1
+msm_hocr/3.0 - 1
+mriqc/0.15.2.rc1 - 1
+mpip/3.4.1 - 1
+mpifileutils/20200701 - 1
+minizinc/2 - 1
+meld/0.4.14 - 1
+matlab/r2017b-caffe - 1
+manta/.1.6.0 - 1
+magic-impute/1.5.5 - 1
+libunwind/1.3.1 - 1
+krakenuniq/0.5.8 - 1
+kma/1.3.0 - 1
+kallisto/0.43.0 - 1
+julia/0.6.4 - 1
+jellyfish/2.3.0-gcc5 - 1
+jellyfish/2.3.0 - 1
+jdk/10-20180320 - 1
+imosflm/7.2.1 - 1
+imagemagick/7.0.8-23 - 1
+ilastik/1.4.0b5 - 1
+idr/2.0.3 - 1
+icm/3.8.7 - 1
+hyperspy/1.4 - 1
+hpcx/.2.6.0-redhat7.6 - 1
+hmmer/2.4i - 1
+guppy/3.5.2-gpu - 1
+guppy/3.1.5-1 - 1
+gubbins/.2.4.1 - 1
+gst-libav/1.4.5 - 1
+go/1.14.2 - 1
+gmsh/3.0.3 - 1
+git/2.17.0 - 1
+gengetopt/2.10 - 1
+geant4/10.6 - 1
+gdcm/2.6.6-gcc5 - 1
+gdcm/2.6.6-gcc4 - 1
+gctf/1.06 - 1
+gcat/e48bf8b - 1
+gatk/4.0.1.1 - 1
+freec/.11.5 - 1
+fmriprep/1.0.15 - 1
+flexbar/3.4.0 - 1
+fiji/20170530 - 1
+figtree/1.4.3 - 1
+fdtd/8.21.1933 - 1
+fdtd/2020a-r1 - 1
+fastspar/0.0.7 - 1
+fastQValidator/0.1.1a - 1
+epacts/3.3.2 - 1
+eiger2cbf/1.0 - 1
+eigensoft/7.2.1 - 1
+eigen/3.2.9 - 1
+eclipse/4.7.3a - 1
+dti-tk/2.3.1-jay - 1
+diyabc/2.1.0 - 1
+dftd3/0.9 - 1
+dftbplus/18.2 - 1
+deepmedic/0.7.0 - 1
+deeplabcut/latest - 1
+darknet/latest - 1
+ctftilt/latest - 1
+ctffind/4.1.3 - 1
+ctffind/4.1.13 - 1
+ctffind/4.0.17 - 1
+cryosparc/cryosparc-cluster - 1
+cryolo/1.4.1 - 1
+cp2k/5.1.0 - 1
+coventormp/1.002 - 1
+comsol/5.4 - 1
+comsol/5.2a - 1
+cloudstor/2.4.1 - 1
+chrome/78 - 1
+chrome/75 - 1
+chimera/.1.14.test - 1
+ccp4/ccp4i - 1
+casa/.5.6.1-8 - 1
+caret/5.65 - 1
+caffe_enet/1.0 - 1
+caffe/deepvistool - 1
+caffe/caffe-tsn - 1
+caffe/caffe-matlab - 1
+bwa/v0.7.15 - 1
+bwa/0.6.2 - 1
+busco/3.0.2 - 1
+breseq/0.29.0 - 1
+bolt-lmm/2.3.4 - 1
+biscuit/0.3.8.20180515 - 1
+biscuit/0.2.2 - 1
+bidscoin/3 - 1
+bcftools/1.7 - 1
+baypass/2.2 - 1
+bayescan/2.1 - 1
+bayesass/3.0.4-snps - 1
+bayesass/3.04 - 1
+avizo/.2020.2 - 1
+augustus/3.3.3 - 1
+atomprobe/SDM_1D_plot - 1
+atomprobe/NN - 1
+atomprobedevcode/1.0.0 - 1
+ariba/.2.14.2 - 1
+argos/3.0.0-beta52 - 1
+angsd/0.931-realsfs - 1
+angsd/.0.931-realsfs - 1
+amide/1.0.5 - 1
+align2rawsignal/2.0 - 1