Difference between old and new software stacks on Euler

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We are using this page to track the difference between the old (environment modules) and new (LMOD modules) software stacks. The list contains all software that is available in the old software stack but not in the new one.

Software not currently available in the new software stack

  • abinit
  • afni
  • agi_photoscan
  • alps
  • amber
  • amdis
  • ants
  • auto07p
  • bioconductor
  • cantera
  • cdo
  • cellprofiler
  • charmm
  • cst_microwave
  • cyana
  • dalton
  • dirac
  • elpa
  • express
  • falcon
  • fix
  • fox
  • freefem
  • ga
  • gamess
  • gmt
  • gradle
  • guse
  • idl
  • imsl
  • jython
  • leptonica
  • lifev
  • lsf_drmaa
  • materialsstudio
  • maxwell
  • maxwellrender
  • molden
  • molpro
  • movipac
  • mpifileutils
  • mrtrix3
  • mvapich2
  • myrimatch
  • nbo
  • ncview
  • netlogo
  • netMHCIIpan
  • node
  • ntl
  • nwchem
  • nxnastran
  • octave
  • omssa
  • openbabel
  • openfoam
  • openmesh
  • openms
  • pcl
  • pnetcdf
  • psi4
  • pwiz
  • pyferret
  • qgis
  • quantum_espresso
  • rosetta
  • sage
  • saint
  • samri
  • sprng
  • sumo
  • swmm
  • tandem
  • tesseract
  • tpp
  • transat
  • vasp
  • wgrib2
  • xquest


GDC software not currently available in the new software stack

  • admixtools
  • allmaps
  • amrfinderplus
  • bayescan
  • bfc
  • bioconductor
  • biojava
  • blasr
  • blasr_bam
  • blobtools
  • braker
  • busco
  • circos
  • crisp
  • defusion
  • docent
  • epiteome
  • examl
  • falcon
  • falcon_phase
  • fasta
  • fastme
  • fastp
  • fastqscreen
  • faststructure
  • flappie
  • fraggenescan
  • freebayes
  • gargammel
  • gemma
  • genemark
  • genemark_es
  • genomemapper
  • genomethreader
  • genometools
  • genotan
  • ghostz
  • gmap
  • graphmap
  • gtdb-tk
  • guppy
  • halc
  • hyphy
  • imr
  • instruct
  • itsx
  • jellyfish
  • jitterbug
  • kaiju
  • kallisto
  • kat
  • kraken
  • lastz
  • ldhat
  • ldhelmet
  • ldhot
  • lfmm
  • lofreq
  • lordec
  • lorte
  • ltrfinder
  • macse
  • maker
  • masurca
  • mccortex
  • megahit
  • meme
  • meshclust2
  • metabat
  • metaphlan
  • metavelvet
  • metaxa2
  • methyldackel
  • migrate
  • miniasm
  • mmseqs2
  • mocat
  • mrbayes
  • msmc
  • msmc2
  • mummer
  • nanocall
  • nanopolish
  • ngsep
  • ngsrelate
  • ngstools
  • opam
  • ortho_finder
  • pasapipeline
  • pbmm2
  • pcangsd
  • phyla_amphora
  • phylosift
  • picard-tools
  • pindel
  • popoolation
  • popoolation2
  • primer3
  • prinseq-lite
  • prokka
  • proovread
  • qualimap
  • quast
  • quickmerge
  • racon
  • rad_haplotyper
  • raxml-ng
  • reads2snp
  • redundans
  • repeatmasker
  • repeatmodeler
  • ribopicker
  • rmblast
  • rsem
  • rtg-tools
  • salmon
  • salmonte
  • salsa
  • samblaster
  • segemehl
  • se-mei
  • seqkit
  • seqprep
  • sga
  • shapeit
  • shore
  • smrt_analysis
  • smrt_link
  • snap
  • snippy
  • snpeff
  • snpgenie
  • soapdenovo2
  • sonics
  • sortmerna
  • spaunge
  • sra-tools
  • stacks
  • stampy
  • stringtie
  • structure
  • supernova
  • tadbit
  • tlex
  • transdecoder
  • trim_galore
  • trinity
  • tulip
  • twisst
  • vcflib
  • vsearch
  • vt
  • yaha