- Created by Mariana Buongermino Pereira, last modified by Matthieu Vizuete-Forster on Oct 13, 2021
This page is correct as of .
If you require additional tools, please raise a service desk ticket with the subject line "RE Additional Tools required in Helix" (Service Desk).
Please note that it is possible to obtain a current list of modules by logging in to the HPC and typing "module avail" to retrieve a list of available modules.
List of Service Modules available in the Helix HPC
Service Modules
| Tool | Version | Module Load |
|---|---|---|
| EasyBuild | 3.9.2 | EasyBuild/3.9.3 |
| TurboVNC | 2.2.2 | TurboVNC/2.2.2 |
| autotools | autotools | |
| charliecloud | 0.9.7 | charliecloud/0.9.7 |
| clustershell | 1.8.1 | clustershell/1.8.1 |
| cmake | 3.14.3 | cmake/3.14.3 |
| gnu | 5.4.0 | gnu/5.4.0 |
| gnu7 | 7.3.0 | gnu7/7.3.0 |
| gnu8 | 8.3.0 | gnu8/8.3.0 |
| hwloc | 2.0.3 | hwloc/2.0.3 |
| llvm4 | 4.0.1 | llvm4/4.0.1 |
| llvm5 | 5.0.1 | llvm5/5.0.1 |
| papi | 5.7.0 | papi/5.7.0 |
| paraver | 4.8.1 | paraver/4.8.1 |
| pmix | 2.2.2 | pmix/2.2.2 |
| prun | 1.3 | prun/1.3 |
| rstudio-server | 1.1.463 | rstudio-server/1.1.463 |
| rstudio_singularity | 1 | rstudio_singularity/1 |
| singularity | 3.2.1 | singularity/3.2.1 |
| valgrind | 3.15.0 | valgrind/3.15.0 |
| websockify | 0.8.0 | websockify/0.8.0 |
List of Environment Modules available in the Helix HPC
Environment Modules
The tools within this section can be used either in an interactive session or within batch job submission scripts by using the command module load <Module Load>
| Tool | Version | Default | Module Load | Tool | Version | Default | Module Load | Tool | Version | Default | Module Load |
|---|---|---|---|---|---|---|---|---|---|---|---|
| APBS | 1.4-linux-static-x86_64 | bio/APBS/1.4-linux-static-x86_64 | M4 | 1.4.18-GCCcore-8.3.0 | devel/M4/1.4.18-GCCcore-8.3.0 | METIS | 5.1.0-GCCcore-8.2.0 | math/METIS/5.1.0-GCCcore-8.2.0 | |||
| AdapterRemoval | 2.2.2-foss-2018b | bio/AdapterRemoval/2.2.2-foss-2018b | M4 | 1.4.18-GCCcore-9.1.0 | (D) | devel/M4/1.4.18-GCCcore-9.1.0 | MPFR | 4.0.2-GCCcore-8.2.0 | math/MPFR/4.0.2-GCCcore-8.2.0 | ||
| AutoDock_Vina | 1.1.2_linux_x86 | bio/AutoDock_Vina/1.1.2_linux_x86 | Mako | 1.0.4-foss-2016b-Python-2.7.12 | devel/Mako/1.0.4-foss-2016b-Python-2.7.12 | NetLogo | 6.0.4-64 | math/NetLogo/6.0.4-64 | |||
| BCFtools | 1.6-foss-2017b | bio/BCFtools/1.6-foss-2017b | Mako | 1.0.7-foss-2018b-Python-2.7.15 | devel/Mako/1.0.7-foss-2018b-Python-2.7.15 | Pyomo | 5.5.0-foss-2018b-Python-3.6.6 | math/Pyomo/5.5.0-foss-2018b-Python-3.6.6 | |||
| BCFtools | 1.9-foss-2018b | bio/BCFtools/1.9-foss-2018b | Mako | 1.0.8-GCCcore-8.2.0 | devel/Mako/1.0.8-GCCcore-8.2.0 | numexpr | 2.6.5-foss-2018b-Python-3.6.6 | math/numexpr/2.6.5-foss-2018b-Python-3.6.6 | |||
| BCFtools | 1.9-foss-2019b | bio/BCFtools/1.9-foss-2019b | Mako | 1.1.0-GCCcore-8.3.0 | (D) | devel/Mako/1.1.0-GCCcore-8.3.0 | spectra | 0.8.1 | math/spectra/0.8.1 | ||
| BCFtools | 1.10.2-GCC-8.3.0 | bio/BCFtools/1.10.2-GCC-8.3.0 | Maven | 3.6.0 | devel/Maven/3.6.0 | MPICH | 3.2-GCC-7.2.0-2.29 | mpi/MPICH/3.2-GCC-7.2.0-2.29 | |||
| BCFtools | 1.11-GCC-8.3.0 | (D) | bio/BCFtools/1.11-GCC-8.3.0 | PCRE | 8.39-foss-2016b | devel/PCRE/8.39-foss-2016b | MPICH2 | 1.1-GCC-4.8.1 | mpi/MPICH2/1.1-GCC-4.8.1 | ||
| BEDOPS | 2.4.26 | bio/BEDOPS/2.4.26 | PCRE | 8.41-GCCcore-7.3.0 | devel/PCRE/8.41-GCCcore-7.3.0 | OpenCoarrays | 2.2.0-gompi-2018b | mpi/OpenCoarrays/2.2.0-gompi-2018b | |||
| BEDTools | 2.27.1-foss-2018b | bio/BEDTools/2.27.1-foss-2018b | PCRE | 8.43-GCCcore-8.2.0 | devel/PCRE/8.43-GCCcore-8.2.0 | OpenMPI | 1.6.5-GCC-4.8.2 | mpi/OpenMPI/1.6.5-GCC-4.8.2 | |||
| BLAST+ | 2.7.1-foss-2018b | bio/BLAST+/2.7.1-foss-2018b | PCRE | 8.43-GCCcore-8.3.0 | (D) | devel/PCRE/8.43-GCCcore-8.3.0 | OpenMPI | 1.10.2-GCC-4.9.3-2.25 | mpi/OpenMPI/1.10.2-GCC-4.9.3-2.25 | ||
| BLAST+ | 2.9.0-gompi-2019a | (D) | bio/BLAST+/2.9.0-gompi-2019a | PCRE2 | 10.33-GCCcore-8.3.0 | devel/PCRE2/10.33-GCCcore-8.3.0 | OpenMPI | 1.10.3-GCC-5.4.0-2.26 | mpi/OpenMPI/1.10.3-GCC-5.4.0-2.26 | ||
| BLAT | 3.5-foss-2018b | bio/BLAT/3.5-foss-2018b | SQLite | 3.13.0-foss-2016b | devel/SQLite/3.13.0-foss-2016b | OpenMPI | 2.0.2-GCC-6.3.0-2.27 | mpi/OpenMPI/2.0.2-GCC-6.3.0-2.27 | |||
| BWA | 0.7.16a-foss-2016b | bio/BWA/0.7.16a-foss-2016b | SQLite | 3.21.0-GCCcore-6.4.0 | devel/SQLite/3.21.0-GCCcore-6.4.0 | OpenMPI | 2.1.1-GCC-6.4.0-2.28 | mpi/OpenMPI/2.1.1-GCC-6.4.0-2.28 | |||
| BWA | 0.7.17-foss-2018b | (D) | bio/BWA/0.7.17-foss-2018b | SQLite | 3.24.0-GCCcore-7.3.0 | devel/SQLite/3.24.0-GCCcore-7.3.0 | OpenMPI | 2.1.2-GCC-6.4.0-2.28 | mpi/OpenMPI/2.1.2-GCC-6.4.0-2.28 | ||
| BamTools | 2.5.1-foss-2018b | bio/BamTools/2.5.1-foss-2018b | SQLite | 3.27.2-GCCcore-8.2.0 | devel/SQLite/3.27.2-GCCcore-8.2.0 | OpenMPI | 3.1.1-GCC-7.3.0-2.30 | mpi/OpenMPI/3.1.1-GCC-7.3.0-2.30 | |||
| Bio-DB-HTS | 2.11-foss-2017b-Perl-5.26.0 | bio/Bio-DB-HTS/2.11-foss-2017b-Perl-5.26.0 | SQLite | 3.29.0-GCCcore-8.3.0 | (D) | devel/SQLite/3.29.0-GCCcore-8.3.0 | OpenMPI | 3.1.1-gcccuda-2018b | mpi/OpenMPI/3.1.1-gcccuda-2018b | ||
| Bio-DB-HTS | 2.11-foss-2018b-Perl-5.28.0 | bio/Bio-DB-HTS/2.11-foss-2018b-Perl-5.28.0 | SWIG | 3.0.12-foss-2018b-Python-3.6.6 | devel/SWIG/3.0.12-foss-2018b-Python-3.6.6 | OpenMPI | 3.1.3-GCC-8.2.0-2.31.1 | mpi/OpenMPI/3.1.3-GCC-8.2.0-2.31.1 | |||
| Bio-DB-HTS | 3.01-GCC-8.2.0-2.31.1-Perl-5.28.1 | (D) | bio/Bio-DB-HTS/3.01-GCC-8.2.0-2.31.1-Perl-5.28.1 | SWIG | 3.0.12-GCCcore-8.2.0-Python-2.7.15 | (D) | devel/SWIG/3.0.12-GCCcore-8.2.0-Python-2.7.15 | OpenMPI | 3.1.3-gcccuda-2019a | mpi/OpenMPI/3.1.3-gcccuda-2019a | |
| BioPerl | 1.7.2-foss-2017b-Perl-5.26.0 | bio/BioPerl/1.7.2-foss-2017b-Perl-5.26.0 | ant | 1.10.5-Java-1.8 | devel/ant/1.10.5-Java-1.8 | OpenMPI | 3.1.4-GCC-8.3.0 | mpi/OpenMPI/3.1.4-GCC-8.3.0 | |||
| BioPerl | 1.7.2-foss-2018b-Perl-5.28.0 | bio/BioPerl/1.7.2-foss-2018b-Perl-5.28.0 | gperf | 3.1-GCCcore-6.4.0 | devel/gperf/3.1-GCCcore-6.4.0 | OpenMPI | 4.0.1-GCC-8.3.0-2.32 | (D) | mpi/OpenMPI/4.0.1-GCC-8.3.0-2.32 | ||
| BioPerl | 1.7.2-GCCcore-8.2.0-Perl-5.28.1 | (D) | bio/BioPerl/1.7.2-GCCcore-8.2.0-Perl-5.28.1 | gperf | 3.1-GCCcore-7.3.0 | devel/gperf/3.1-GCCcore-7.3.0 | CLHEP | 2.4.1.0-foss-2018b | numlib/CLHEP/2.4.1.0-foss-2018b | ||
| Bowtie2 | 2.3.4.3-foss-2017b | bio/Bowtie2/2.3.4.3-foss-2017b | gperf | 3.1-GCCcore-8.2.0 | devel/gperf/3.1-GCCcore-8.2.0 | FFTW | 3.3.4-gompi-2016a | numlib/FFTW/3.3.4-gompi-2016a | |||
| CADD | 1.5-Anaconda3_2019.03 | bio/CADD/1.5-Anaconda3_2019.03 | gperf | 3.1-GCCcore-8.3.0 | (D) | devel/gperf/3.1-GCCcore-8.3.0 | FFTW | 3.3.4-gompi-2016b | numlib/FFTW/3.3.4-gompi-2016b | ||
| CADD | 1.6-Anaconda3_2019.03 | bio/CADD/1.6-Anaconda3_2019.03 | intltool | 0.51.0-foss-2016b-Perl-5.24.0 | devel/intltool/0.51.0-foss-2016b-Perl-5.24.0 | FFTW | 3.3.6-gompi-2017a | numlib/FFTW/3.3.6-gompi-2017a | |||
| CNVnator | 0.3.3-foss-2016b | bio/CNVnator/0.3.3-foss-2016b | intltool | 0.51.0-GCCcore-6.3.0-Perl-5.24.1 | devel/intltool/0.51.0-GCCcore-6.3.0-Perl-5.24.1 | FFTW | 3.3.6-gompi-2017b | numlib/FFTW/3.3.6-gompi-2017b | |||
| CaVEMan | 1.13.2-foss-2018a | bio/CaVEMan/1.13.2-foss-2018a | intltool | 0.51.0-GCCcore-6.4.0-Perl-5.26.0 | devel/intltool/0.51.0-GCCcore-6.4.0-Perl-5.26.0 | FFTW | 3.3.7-gompi-2018a | numlib/FFTW/3.3.7-gompi-2018a | |||
| Canvas | 1.39.0.1598 | bio/Canvas/1.39.0.1598 | intltool | 0.51.0-GCCcore-7.3.0-Perl-5.28.0 | devel/intltool/0.51.0-GCCcore-7.3.0-Perl-5.28.0 | FFTW | 3.3.8-gompi-2018b | numlib/FFTW/3.3.8-gompi-2018b | |||
| Centrifuge | 1.0.4-beta-foss-2018b | bio/Centrifuge/1.0.4-beta-foss-2018b | intltool | 0.51.0-GCCcore-8.2.0 | devel/intltool/0.51.0-GCCcore-8.2.0 | FFTW | 3.3.8-gompi-2019a | numlib/FFTW/3.3.8-gompi-2019a | |||
| Circos | 0.69-6-GCCcore-7.3.0-Perl-5.28.0 | bio/Circos/0.69-6-GCCcore-7.3.0-Perl-5.28.0 | intltool | 0.51.0-GCCcore-8.3.0 | (D) | devel/intltool/0.51.0-GCCcore-8.3.0 | FFTW | 3.3.8-gompi-2019b | numlib/FFTW/3.3.8-gompi-2019b | ||
| Clustal-Omega | 1.2.4-foss-2018b | bio/Clustal-Omega/1.2.4-foss-2018b | make | 4.2.1-GCCcore-8.3.0 | devel/make/4.2.1-GCCcore-8.3.0 | FFTW | 3.3.8-gompic-2018b | (D) | numlib/FFTW/3.3.8-gompic-2018b | ||
| EIGENSOFT | 6.1.4-foss-2016b | bio/EIGENSOFT/6.1.4-foss-2016b | ncurses | 5.9 | devel/ncurses/5.9 | GSL | 2.1-foss-2016b | numlib/GSL/2.1-foss-2016b | |||
| FASTX-Toolkit | 0.0.14-foss-2016b | bio/FASTX-Toolkit/0.0.14-foss-2016b | ncurses | 6.0-foss-2016a | devel/ncurses/6.0-foss-2016a | GSL | 2.3-foss-2016b | numlib/GSL/2.3-foss-2016b | |||
| FastQC | 0.11.8-Java-1.8 | bio/FastQC/0.11.8-Java-1.8 | ncurses | 6.0-foss-2016b | devel/ncurses/6.0-foss-2016b | GSL | 2.4-GCCcore-6.4.0 | numlib/GSL/2.4-GCCcore-6.4.0 | |||
| FlashPCA2 | 2.0-foss_2018b | bio/FlashPCA2/2.0-foss_2018b | ncurses | 6.0-GCCcore-6.3.0 | devel/ncurses/6.0-GCCcore-6.3.0 | GSL | 2.5-GCC-7.3.0-2.30 | numlib/GSL/2.5-GCC-7.3.0-2.30 | |||
| GATK | 4.0.4.0-GCCcore-8.3.0-Java-1.8 | bio/GATK/4.0.4.0-GCCcore-8.3.0-Java-1.8 | ncurses | 6.0-GCCcore-6.4.0 | devel/ncurses/6.0-GCCcore-6.4.0 | GSL | 2.5-GCC-8.2.0-2.31.1 | numlib/GSL/2.5-GCC-8.2.0-2.31.1 | |||
| GATK | 4.1.0.0-foss-2018b-Python-3.6.6 | bio/GATK/4.1.0.0-foss-2018b-Python-3.6.6 | ncurses | 6 | devel/ncurses/6.0 | GSL | 2.6-GCC-8.3.0 | (D) | numlib/GSL/2.6-GCC-8.3.0 | ||
| GATK | 4.1.4.0-GCCcore-8.3.0-Java-1.8 | bio/GATK/4.1.4.0-GCCcore-8.3.0-Java-1.8 | ncurses | 6.1-GCCcore-7.3.0 | devel/ncurses/6.1-GCCcore-7.3.0 | NLopt | 2.4.2-GCCcore-7.3.0 | numlib/NLopt/2.4.2-GCCcore-7.3.0 | |||
| GATK | 4.1.4.1-GCCcore-8.3.0-Java-1.8 | bio/GATK/4.1.4.1-GCCcore-8.3.0-Java-1.8 | ncurses | 6.1-GCCcore-8.2.0 | devel/ncurses/6.1-GCCcore-8.2.0 | NLopt | 2.6.1-GCCcore-8.2.0 | numlib/NLopt/2.6.1-GCCcore-8.2.0 | |||
| GATK | 4.1.9.0-GCCcore-8.3.0-Java-1.8 | (D) | bio/GATK/4.1.9.0-GCCcore-8.3.0-Java-1.8 | ncurses | 6.1-GCCcore-8.3.0 | (D) | devel/ncurses/6.1-GCCcore-8.3.0 | NLopt | 2.6.1-GCCcore-8.3.0 | (D) | numlib/NLopt/2.6.1-GCCcore-8.3.0 |
| GD | 2.69-GCCcore-7.3.0-Perl-5.28.0 | bio/GD/2.69-GCCcore-7.3.0-Perl-5.28.0 | pkg-config | 0.29.1-foss-2016b | devel/pkg-config/0.29.1-foss-2016b | OpenBLAS | 0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0 | numlib/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0 | |||
| GISTIC | 2.0.23 | bio/GISTIC/2.0.23 | pkg-config | 0.29.1-GCCcore-6.3.0 | devel/pkg-config/0.29.1-GCCcore-6.3.0 | OpenBLAS | 0.2.18-GCC-5.4.0-2.26-LAPACK-3.6.1 | numlib/OpenBLAS/0.2.18-GCC-5.4.0-2.26-LAPACK-3.6.1 | |||
| GMAP-GSNAP | 2019-03-15-foss-2018b | bio/GMAP-GSNAP/2019-03-15-foss-2018b | pkg-config | 0.29.2-GCCcore-6.3.0 | devel/pkg-config/0.29.2-GCCcore-6.3.0 | OpenBLAS | 0.2.19-GCC-6.3.0-2.27-LAPACK-3.7.0 | numlib/OpenBLAS/0.2.19-GCC-6.3.0-2.27-LAPACK-3.7.0 | |||
| HISAT2 | 2.1.0-foss-2018b | bio/HISAT2/2.1.0-foss-2018b | pkg-config | 0.29.2-GCCcore-6.4.0 | devel/pkg-config/0.29.2-GCCcore-6.4.0 | OpenBLAS | 0.2.20-GCC-6.4.0-2.28 | numlib/OpenBLAS/0.2.20-GCC-6.4.0-2.28 | |||
| HLA-LA | 1.0.1-foss_2018b | (D) | bio/HLA-LA/1.0.1-foss_2018b | pkg-config | 0.29.2-GCCcore-7.3.0 | devel/pkg-config/0.29.2-GCCcore-7.3.0 | OpenBLAS | 0.3.1-GCC-7.3.0-2.30 | numlib/OpenBLAS/0.3.1-GCC-7.3.0-2.30 | ||
| HTSlib | 1.6-foss-2017b | bio/HTSlib/1.6-foss-2017b | pkg-config | 0.29.2-GCCcore-8.2.0 | devel/pkg-config/0.29.2-GCCcore-8.2.0 | OpenBLAS | 0.3.5-GCC-8.2.0-2.31.1 | numlib/OpenBLAS/0.3.5-GCC-8.2.0-2.31.1 | |||
| HTSlib | 1.9-foss-2018b | bio/HTSlib/1.9-foss-2018b | pkg-config | 0.29.2-GCCcore-8.3.0 | devel/pkg-config/0.29.2-GCCcore-8.3.0 | OpenBLAS | 0.3.7-GCC-8.3.0 | (D) | numlib/OpenBLAS/0.3.7-GCC-8.3.0 | ||
| HTSlib | 1.9-GCC-6.4.0-2.28 | bio/HTSlib/1.9-GCC-6.4.0-2.28 | pkg-config | 0.29.2 | (D) | devel/pkg-config/0.29.2 | ScaLAPACK | 2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0 | numlib/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0 | ||
| HTSlib | 1.9-GCC-8.2.0-2.31.1 | bio/HTSlib/1.9-GCC-8.2.0-2.31.1 | texinfo | 6.5-GCCcore-6.4.0 | devel/texinfo/6.5-GCCcore-6.4.0 | ScaLAPACK | 2.0.2-gompi-2016b-OpenBLAS-0.2.18-LAPACK-3.6.1 | numlib/ScaLAPACK/2.0.2-gompi-2016b-OpenBLAS-0.2.18-LAPACK-3.6.1 | |||
| HTSlib | 1.9-GCC-8.3.0 | bio/HTSlib/1.9-GCC-8.3.0 | texinfo | 6.7-GCCcore-8.3.0 | (D) | devel/texinfo/6.7-GCCcore-8.3.0 | ScaLAPACK | 2.0.2-gompi-2017a-OpenBLAS-0.2.19-LAPACK-3.7.0 | numlib/ScaLAPACK/2.0.2-gompi-2017a-OpenBLAS-0.2.19-LAPACK-3.7.0 | ||
| HTSlib | 1.10.2-foss-2018b | bio/HTSlib/1.10.2-foss-2018b | wget | 1.20.1-GCCcore-7.3.0 | devel/wget/1.20.1-GCCcore-7.3.0 | ScaLAPACK | 2.0.2-gompi-2017b-OpenBLAS-0.2.20 | numlib/ScaLAPACK/2.0.2-gompi-2017b-OpenBLAS-0.2.20 | |||
| HTSlib | 1.10.2-GCC-8.3.0 | bio/HTSlib/1.10.2-GCC-8.3.0 | xorg-macros | 1.19.0-foss-2016b | devel/xorg-macros/1.19.0-foss-2016b | ScaLAPACK | 2.0.2-gompi-2018a-OpenBLAS-0.2.20 | numlib/ScaLAPACK/2.0.2-gompi-2018a-OpenBLAS-0.2.20 | |||
| HTSlib | 1.11-GCC-8.3.0 | (D) | bio/HTSlib/1.11-GCC-8.3.0 | xorg-macros | 1.19.1-GCCcore-6.4.0 | devel/xorg-macros/1.19.1-GCCcore-6.4.0 | ScaLAPACK | 2.0.2-gompi-2018b-OpenBLAS-0.3.1 | numlib/ScaLAPACK/2.0.2-gompi-2018b-OpenBLAS-0.3.1 | ||
| IGV | 2.5.0-Java-11 | bio/IGV/2.5.0-Java-11 | xorg-macros | 1.19.2-GCCcore-7.3.0 | devel/xorg-macros/1.19.2-GCCcore-7.3.0 | ScaLAPACK | 2.0.2-gompi-2019a-OpenBLAS-0.3.5 | numlib/ScaLAPACK/2.0.2-gompi-2019a-OpenBLAS-0.3.5 | |||
| IMPUTE2 | 2.3.2_x86_64_dynamic | bio/IMPUTE2/2.3.2_x86_64_dynamic | xorg-macros | 1.19.2-GCCcore-8.2.0 | devel/xorg-macros/1.19.2-GCCcore-8.2.0 | ScaLAPACK | 2.0.2-gompi-2019b | numlib/ScaLAPACK/2.0.2-gompi-2019b | |||
| Jellyfish | 1.1.12-foss-2018b | bio/Jellyfish/1.1.12-foss-2018b | xorg-macros | 1.19.2-GCCcore-8.3.0 | (D) | devel/xorg-macros/1.19.2-GCCcore-8.3.0 | ScaLAPACK | 2.0.2-gompic-2019a-OpenBLAS-0.3.5 | (D) | numlib/ScaLAPACK/2.0.2-gompic-2019a-OpenBLAS-0.3.5 | |
| Jellyfish | 2.2.6-foss-2016b | (D) | bio/Jellyfish/2.2.6-foss-2016b | Anaconda2 | 4.0.0 | lang/Anaconda2/4.0.0 | SuperLU | 5.1.1-foss-2016a | numlib/SuperLU/5.1.1-foss-2016a | ||
| KNIME | 3.6.2 | bio/KNIME/3.6.2 | Anaconda2 | 2019.03 | (D) | lang/Anaconda2/2019.03 | SuperLU | 5.2.1-foss-2017b | (D) | numlib/SuperLU/5.2.1-foss-2017b | |
| Kraken | 1.1-foss-2018b-Perl-5.28.0 | bio/Kraken/1.1-foss-2018b-Perl-5.28.0 | Anaconda3 | 5.3.0 | lang/Anaconda3/5.3.0 | arpack-ng | 3.5.0-foss-2018b | numlib/arpack-ng/3.5.0-foss-2018b | |||
| Kraken2 | 2.0.9-beta-foss-2018b-Perl-5.28.0 | bio/Kraken2/2.0.9-beta-foss-2018b-Perl-5.28.0 | Anaconda3 | 2019.03 | (D) | lang/Anaconda3/2019.03 | Geant4 | 10.5-foss-2018b | phys/Geant4/10.5-foss-2018b | ||
| LUMPY | 0.2.13-foss-2016b | bio/LUMPY/0.2.13-foss-2016b | Bison | 3.0.3-GCC-4.9.2 | lang/Bison/3.0.3-GCC-4.9.2 | NRGLjubljana | 2.4.3.23-foss-2016b | phys/NRGLjubljana/2.4.3.23-foss-2016b | |||
| MAFFT | 7.305-foss-2016b-with-extensions | bio/MAFFT/7.305-foss-2016b-with-extensions | Bison | 3.0.4-foss-2016b | lang/Bison/3.0.4-foss-2016b | UDUNITS | 2.2.26-foss-2018b | phys/UDUNITS/2.2.26-foss-2018b | |||
| MetaGeneAnnotator | 20080819-x86-64 | bio/MetaGeneAnnotator/20080819-x86-64 | Bison | 3.0.4-GCCcore-4.9.3 | lang/Bison/3.0.4-GCCcore-4.9.3 | UDUNITS | 2.2.26-GCCcore-8.2.0 | phys/UDUNITS/2.2.26-GCCcore-8.2.0 | |||
| MultiQC | 1.7-foss-2018b-Python-3.6.6 | bio/MultiQC/1.7-foss-2018b-Python-3.6.6 | Bison | 3.0.4-GCCcore-5.4.0 | lang/Bison/3.0.4-GCCcore-5.4.0 | UDUNITS | 2.2.26-GCCcore-8.3.0 | (D) | phys/UDUNITS/2.2.26-GCCcore-8.3.0 | ||
| NGS | 2.9.3-foss-2018b-Java-1.8 | bio/NGS/2.9.3-foss-2018b-Java-1.8 | Bison | 3.0.4-GCCcore-6.3.0 | lang/Bison/3.0.4-GCCcore-6.3.0 | CUDA | 9.2.88-GCC-7.3.0-2.30 | system/CUDA/9.2.88-GCC-7.3.0-2.30 | |||
| NextGenMap | 0.5.5-foss-2016b | bio/NextGenMap/0.5.5-foss-2016b | Bison | 3.0.4-GCCcore-6.4.0 | lang/Bison/3.0.4-GCCcore-6.4.0 | CUDA | 10.0.130 | system/CUDA/10.0.130 | |||
| OMA | 2.1.1 | bio/OMA/2.1.1 | Bison | 3.0.4-GCCcore-7.2.0 | lang/Bison/3.0.4-GCCcore-7.2.0 | CUDA | 10.1.105-GCC-8.2.0-2.31.1 | (D) | system/CUDA/10.1.105-GCC-8.2.0-2.31.1 | ||
| OptiType | 1.3.2-foss-2018b-Python-3.6.6 | bio/OptiType/1.3.2-foss-2018b-Python-3.6.6 | Bison | 3.0.4-GCCcore-7.3.0 | lang/Bison/3.0.4-GCCcore-7.3.0 | OpenSSL | 1.1.1b-GCCcore-8.2.0 | system/OpenSSL/1.1.1b-GCCcore-8.2.0 | |||
| OrfM | 0.6.1-foss-2016b | bio/OrfM/0.6.1-foss-2016b | Bison | 3.0.5-GCCcore-6.4.0 | lang/Bison/3.0.5-GCCcore-6.4.0 | file | 5.35-GCCcore-7.3.0 | system/file/5.35-GCCcore-7.3.0 | |||
| PHYLIP | 3.697-GCC-6.4.0-2.28 | bio/PHYLIP/3.697-GCC-6.4.0-2.28 | Bison | 3.0.5-GCCcore-7.2.0 | lang/Bison/3.0.5-GCCcore-7.2.0 | hwloc | 1.8.1-GCC-4.8.2 | system/hwloc/1.8.1-GCC-4.8.2 | |||
| PLINK | 1.9b_4.1-x86_64 | bio/PLINK/1.9b_4.1-x86_64 | Bison | 3.0.5-GCCcore-7.3.0 | lang/Bison/3.0.5-GCCcore-7.3.0 | hwloc | 1.11.2-GCC-4.9.3-2.25 | system/hwloc/1.11.2-GCC-4.9.3-2.25 | |||
| PLINK | 2.00-devel-20200409-x86_64 | (D) | bio/PLINK/2.00-devel-20200409-x86_64 | Bison | 3.0.5-GCCcore-8.2.0 | lang/Bison/3.0.5-GCCcore-8.2.0 | hwloc | 1.11.3-GCC-5.4.0-2.26 | system/hwloc/1.11.3-GCC-5.4.0-2.26 | ||
| Pindel | 0.2.5b9-20170508-GCC-6.4.0-2.28 | bio/Pindel/0.2.5b9-20170508-GCC-6.4.0-2.28 | Bison | 3.0.5 | lang/Bison/3.0.5 | hwloc | 1.11.5-GCC-6.3.0-2.27 | system/hwloc/1.11.5-GCC-6.3.0-2.27 | |||
| Pysam | 0.15.1-foss-2018b-Python-3.6.6 | bio/Pysam/0.15.1-foss-2018b-Python-3.6.6 | Bison | 3.3.2-GCCcore-8.3.0 | lang/Bison/3.3.2-GCCcore-8.3.0 | hwloc | 1.11.7-GCCcore-6.4.0 | system/hwloc/1.11.7-GCCcore-6.4.0 | |||
| Quip | 1.1.8-GCC-4.8.2 | bio/Quip/1.1.8-GCC-4.8.2 | Bison | 3.3.2 | (D) | lang/Bison/3.3.2 | hwloc | 1.11.8-GCCcore-6.4.0 | system/hwloc/1.11.8-GCCcore-6.4.0 | ||
| RTG-Tools | 3.8.4-Java-1.8 | bio/RTG-Tools/3.8.4-Java-1.8 | Java | 1.8.0_131 | lang/Java/1.8.0_131 | hwloc | 1.11.10-GCCcore-7.3.0 | system/hwloc/1.11.10-GCCcore-7.3.0 | |||
| RTG-Tools | 3.9.1-Java-1.8 | bio/RTG-Tools/3.9.1-Java-1.8 | Java | 1.8.0_212 | -1.8 | lang/Java/1.8.0_212 | hwloc | 1.11.11-GCCcore-8.2.0 | system/hwloc/1.11.11-GCCcore-8.2.0 | ||
| RTG-Tools | 3.10.1-Java-1.8 | (D) | bio/RTG-Tools/3.10.1-Java-1.8 | Java | 1.9.0.4 | lang/Java/1.9.0.4 | hwloc | 1.11.12-GCCcore-8.3.0 | system/hwloc/1.11.12-GCCcore-8.3.0 | ||
| SAMtools | 1.9-foss-2018b | bio/SAMtools/1.9-foss-2018b | Java | 11.0.2 | (D:11) | lang/Java/11.0.2 | hwloc | 2.0.3-GCCcore-8.3.0 | (D) | system/hwloc/2.0.3-GCCcore-8.3.0 | |
| SAMtools | 1.11-GCC-8.2.0-2.31.1 | (D) | bio/SAMtools/1.11-GCC-8.2.0-2.31.1 | Mono | 5.4.1.6-foss-2017b | lang/Mono/5.4.1.6-foss-2017b | libpciaccess | 0.14-GCCcore-6.4.0 | system/libpciaccess/0.14-GCCcore-6.4.0 | ||
| SHAPEIT | 2.r904.glibcv2.17 | bio/SHAPEIT/2.r904.glibcv2.17 | NASM | 2.13.03-GCCcore-7.3.0 | lang/NASM/2.13.03-GCCcore-7.3.0 | libpciaccess | 0.14-GCCcore-7.3.0 | system/libpciaccess/0.14-GCCcore-7.3.0 | |||
| SPAdes | 3.9.0-foss-2016b | bio/SPAdes/3.9.0-foss-2016b | NASM | 2.14.02-GCCcore-8.2.0 | lang/NASM/2.14.02-GCCcore-8.2.0 | libpciaccess | 0.14-GCCcore-8.2.0 | system/libpciaccess/0.14-GCCcore-8.2.0 | |||
| SPAdes | 3.13.0-foss-2018b | (D) | bio/SPAdes/3.13.0-foss-2018b | NASM | 2.14.02-GCCcore-8.3.0 | (D) | lang/NASM/2.14.02-GCCcore-8.3.0 | libpciaccess | 0.14-GCCcore-8.3.0 | (D) | system/libpciaccess/0.14-GCCcore-8.3.0 |
| STAR | 2.7.1a-foss-2018b | bio/STAR/2.7.1a-foss-2018b | Net-core | 2.1.8 | lang/Net-core/2.1.8 | foss | 2016a | toolchain/foss/2016a | |||
| SURVIVOR | 1.0.7-foss-2019a | bio/SURVIVOR/1.0.7-foss-2019a | Nim | 0.19.2-GCCcore-7.3.0 | lang/Nim/0.19.2-GCCcore-7.3.0 | foss | 2016b | toolchain/foss/2016b | |||
| SVINT | 1.3_hg19-Perl-5.28.0-BEDTools-2.27.1 | bio/SVINT/1.3_hg19-Perl-5.28.0-BEDTools-2.27.1 | Perl | 5.22.1-foss-2016b | lang/Perl/5.22.1-foss-2016b | foss | 2017a | toolchain/foss/2017a | |||
| SVINT | 1.3_hg38-Perl-5.28.0-BEDTools-2.27.1 | (D) | bio/SVINT/1.3_hg38-Perl-5.28.0-BEDTools-2.27.1 | Perl | 5.24.0-foss-2016b | lang/Perl/5.24.0-foss-2016b | foss | 2017b | toolchain/foss/2017b | ||
| Salmon | 0.8.2-foss-2016b-Python-2.7.12 | bio/Salmon/0.8.2-foss-2016b-Python-2.7.12 | Perl | 5.24.1-GCCcore-6.3.0 | lang/Perl/5.24.1-GCCcore-6.3.0 | foss | 2018a | toolchain/foss/2018a | |||
| Sambamba | 0.6.6 | bio/Sambamba/0.6.6 | Perl | 5.26.0-foss-2017b | lang/Perl/5.26.0-foss-2017b | foss | 2018b | toolchain/foss/2018b | |||
| SeqAn | 2.4.0-foss-2018b | bio/SeqAn/2.4.0-foss-2018b | Perl | 5.26.0-GCCcore-6.4.0 | lang/Perl/5.26.0-GCCcore-6.4.0 | foss | 2019a | toolchain/foss/2019a | |||
| Trimmomatic | 0.38-Java-1.8 | bio/Trimmomatic/0.38-Java-1.8 | Perl | 5.26.1-GCCcore-6.4.0 | lang/Perl/5.26.1-GCCcore-6.4.0 | foss | 2019b | (D) | toolchain/foss/2019b | ||
| UN-CNVc | 1.2-R_3.6.2-BCFtools_1.9 | bio/UN-CNVc/1.2-R_3.6.2-BCFtools_1.9 | Perl | 5.28.0-GCCcore-7.3.0 | lang/Perl/5.28.0-GCCcore-7.3.0 | gcccuda | 2018b | toolchain/gcccuda/2018b | |||
| VCFtools | 0.1.15-foss-2016b-Perl-5.24.0 | bio/VCFtools/0.1.15-foss-2016b-Perl-5.24.0 | Perl | 5.28.1-GCCcore-8.2.0 | lang/Perl/5.28.1-GCCcore-8.2.0 | gcccuda | 2019a | (D) | toolchain/gcccuda/2019a | ||
| VCFtools | 0.1.16-foss-2018b-Perl-5.28.0 | (D) | bio/VCFtools/0.1.16-foss-2018b-Perl-5.28.0 | Perl | 5.30.0-GCCcore-8.3.0 | (D) | lang/Perl/5.30.0-GCCcore-8.3.0 | gompi | 1.5.14 | toolchain/gompi/1.5.14 | |
| VEGAS | 0.8.27 | bio/VEGAS/0.8.27 | Python | 2.7.12-foss-2016b | lang/Python/2.7.12-foss-2016b | gompi | 2016a | toolchain/gompi/2016a | |||
| VEP | 92.6-foss-2019a-Perl-5.28.1 | bio/VEP/92.6-foss-2019a-Perl-5.28.1 | Python | 2.7.14-foss-2018a | lang/Python/2.7.14-foss-2018a | gompi | 2016b | toolchain/gompi/2016b | |||
| VEP | 96.0-foss-2019a-Perl-5.28.1 | bio/VEP/96.0-foss-2019a-Perl-5.28.1 | Python | 2.7.15-foss-2018b | lang/Python/2.7.15-foss-2018b | gompi | 2017a | toolchain/gompi/2017a | |||
| VEP | 98.0-foss-2019a-Perl-5.28.1 | bio/VEP/98.0-foss-2019a-Perl-5.28.1 | Python | 2.7.15-GCCcore-7.3.0-bare | lang/Python/2.7.15-GCCcore-7.3.0-bare | gompi | 2017b | toolchain/gompi/2017b | |||
| VEP | 99.1-foss-2019a-Perl-5.28.1 | (D) | bio/VEP/99.1-foss-2019a-Perl-5.28.1 | Python | 2.7.15-GCCcore-8.2.0 | lang/Python/2.7.15-GCCcore-8.2.0 | gompi | 2018a | toolchain/gompi/2018a | ||
| Velvet | 1.2.10-foss-2018b-mt-kmer_191 | bio/Velvet/1.2.10-foss-2018b-mt-kmer_191 | Python | 2.7.16-GCCcore-8.3.0 | lang/Python/2.7.16-GCCcore-8.3.0 | gompi | 2018b | toolchain/gompi/2018b | |||
| ViennaRNA | 2.4.11-foss-2018b-Python-3.6.6 | bio/ViennaRNA/2.4.11-foss-2018b-Python-3.6.6 | Python | 3.6.6-foss-2018b | lang/Python/3.6.6-foss-2018b | gompi | 2019a | toolchain/gompi/2019a | |||
| alleleCount | 4.0.0-GCCcore-6.4.0 | bio/alleleCount/4.0.0-GCCcore-6.4.0 | Python | 3.7.0-foss-2018b | lang/Python/3.7.0-foss-2018b | gompi | 2019b | (D) | toolchain/gompi/2019b | ||
| bam-readcount | 0.8.0-foss-2018b | bio/bam-readcount/0.8.0-foss-2018b | Python | 3.7.2-GCCcore-8.2.0 | lang/Python/3.7.2-GCCcore-8.2.0 | gompic | 2018b | toolchain/gompic/2018b | |||
| cellbase | 4.7.1-Java-1.8 | (D) | bio/cellbase/4.7.1-Java-1.8 | Python | 3.7.4-GCCcore-8.3.0 | (D) | lang/Python/3.7.4-GCCcore-8.3.0 | gompic | 2019a | (D) | toolchain/gompic/2019a |
| cromwell | 47 | bio/cromwell/47 | R-X11 | 0.1 | lang/R-X11/0.1 | Aspera-CLI | 3.9.0.1326.6985b21 | tools/Aspera-CLI/3.9.0.1326.6985b21 | |||
| cromwell | 51 | bio/cromwell/51 | R-X11 | 1 | (D) | lang/R-X11/1.0 | Aspera-Connect | 3.6.1 | tools/Aspera-Connect/3.6.1 | ||
| cryptsplice | 2018_05_02-Anaconda3_2019.03 | bio/cryptsplice/2018_05_02-Anaconda3_2019.03 | R | 3.5.1-foss-2018b-with-xvfb | lang/R/3.5.1-foss-2018b-with-xvfb | Coreutils | 8.27-GCCcore-5.4.0 | tools/Coreutils/8.27-GCCcore-5.4.0 | |||
| ea-utils | 1.04.807-foss-2016b | bio/ea-utils/1.04.807-foss-2016b | R | 3.5.1-foss-2018b | lang/R/3.5.1-foss-2018b | Coreutils | 8.29-GCCcore-6.4.0 | (D) | tools/Coreutils/8.29-GCCcore-6.4.0 | ||
| fastp | 0.20.0-GCC-8.2.0-2.31.1 | bio/fastp/0.20.0-GCC-8.2.0-2.31.1 | R | 3.6.0-foss-2019a | lang/R/3.6.0-foss-2019a | Emacs | 25.3-GCCcore-7.3.0 | tools/Emacs/25.3-GCCcore-7.3.0 | |||
| gvcfgenotyper | 2019.02.26_master | bio/gvcfgenotyper/2019.02.26_master | R | 3.6.1-foss-2019b | lang/R/3.6.1-foss-2019b | GLPK | 4.65-GCCcore-7.3.0 | tools/GLPK/4.65-GCCcore-7.3.0 | |||
| kallisto | 0.45.0-foss-2018b | bio/kallisto/0.45.0-foss-2018b | R | 3.6.2-foss-2019b | lang/R/3.6.2-foss-2019b | GLPK | 4.65-GCCcore-8.2.0 | (D) | tools/GLPK/4.65-GCCcore-8.2.0 | ||
| liftOver | 1 | bio/liftOver/1.0 | R | 4.0.0-foss-2019b | lang/R/4.0.0-foss-2019b | Ghostscript | 9.23-GCCcore-7.3.0 | tools/Ghostscript/9.23-GCCcore-7.3.0 | |||
| locuszoom | 1.4-R_3.6.2-HTSlib_1.9 | bio/locuszoom/1.4-R_3.6.2-HTSlib_1.9 | R | 4.0.2-foss-2019b | lang/R/4.0.2-foss-2019b | Ghostscript | 9.27-GCCcore-8.2.0 | tools/Ghostscript/9.27-GCCcore-8.2.0 | |||
| meRanTK | 1.1.1b | bio/meRanTK/1.1.1b | R | 4.1.0-foss-2019b | (D) | lang/R/4.1.0-foss-2019b | Ghostscript | 9.50-GCCcore-8.3.0 | (D) | tools/Ghostscript/9.50-GCCcore-8.3.0 | |
| minimap2 | 2.13-foss-2018b | bio/minimap2/2.13-foss-2018b | Ruby | 2.6.3-GCCcore-8.2.0 | lang/Ruby/2.6.3-GCCcore-8.2.0 | IPy | 0.83 | tools/IPy/0.83 | |||
| mosdepth | 0.2.4-foss-2018b | bio/mosdepth/0.2.4-foss-2018b | SciPy-bundle | 2019.03-foss-2019a | lang/SciPy-bundle/2019.03-foss-2019a | Meson | 0.50.0-GCCcore-8.2.0-Python-3.7.2 | tools/Meson/0.50.0-GCCcore-8.2.0-Python-3.7.2 | |||
| ncbi-vdb | 2.9.3-foss-2018b | bio/ncbi-vdb/2.9.3-foss-2018b | Tcl | 8.6.5-foss-2016b | lang/Tcl/8.6.5-foss-2016b | Meson | 0.51.2-GCCcore-8.3.0-Python-3.7.4 | (D) | tools/Meson/0.51.2-GCCcore-8.3.0-Python-3.7.4 | ||
| new_fugue | 02/06/2010 | bio/new_fugue/2010-06-02 | Tcl | 8.6.8-GCCcore-6.4.0 | lang/Tcl/8.6.8-GCCcore-6.4.0 | NEdit | 5.5-Linux-x86 | tools/NEdit/5.5-Linux-x86 | |||
| picard | 2.10.1-Java-1.8.0_131 | bio/picard/2.10.1-Java-1.8.0_131 | Tcl | 8.6.8-GCCcore-7.3.0 | lang/Tcl/8.6.8-GCCcore-7.3.0 | Nextflow | 19.07.0 | tools/Nextflow/19.07.0 | |||
| picard | 2.18.27-Java-1.8 | (D) | bio/picard/2.18.27-Java-1.8 | Tcl | 8.6.9-GCCcore-8.2.0 | lang/Tcl/8.6.9-GCCcore-8.2.0 | Ninja | 1.9.0-GCCcore-8.2.0 | tools/Ninja/1.9.0-GCCcore-8.2.0 | ||
| platypus | 0.8.1-Python-2.7.15-foss-2018b | bio/platypus/0.8.1-Python-2.7.15-foss-2018b | Tcl | 8.6.9-GCCcore-8.3.0 | (D) | lang/Tcl/8.6.9-GCCcore-8.3.0 | Ninja | 1.9.0-GCCcore-8.3.0 | (D) | tools/Ninja/1.9.0-GCCcore-8.3.0 | |
| rvtests | 2.1.0 | bio/rvtests/2.1.0 | Tkinter | 3.6.6-foss-2018b-Python-3.6.6 | lang/Tkinter/3.6.6-foss-2018b-Python-3.6.6 | Pandoc | 2.5 | tools/Pandoc/2.5 | |||
| seqtk | 1.3-foss-2018b | bio/seqtk/1.3-foss-2018b | Tkinter | 3.7.2-GCCcore-8.2.0 | (D) | lang/Tkinter/3.7.2-GCCcore-8.2.0 | Szip | 2.1-foss-2017a | tools/Szip/2.1-foss-2017a | ||
| snptest | 2.5.2 | bio/snptest/2.5.2 | Yasm | 1.3.0-GCCcore-8.2.0 | lang/Yasm/1.3.0-GCCcore-8.2.0 | Szip | 2.1.1-GCCcore-6.4.0 | tools/Szip/2.1.1-GCCcore-6.4.0 | |||
| strelka | 2.9.9-foss-2018b | bio/strelka/2.9.9-foss-2018b | dotNET-Core-Runtime | 2.0.7-GCCcore-6.4.0 | lang/dotNET-Core-Runtime/2.0.7-GCCcore-6.4.0 | Szip | 2.1.1-GCCcore-7.3.0 | tools/Szip/2.1.1-GCCcore-7.3.0 | |||
| tabix | 0.2.6-GCCcore-5.4.0 | bio/tabix/0.2.6-GCCcore-5.4.0 | flex | 2.5.39-GCC-4.9.2 | lang/flex/2.5.39-GCC-4.9.2 | Szip | 2.1.1-GCCcore-8.2.0 | tools/Szip/2.1.1-GCCcore-8.2.0 | |||
| tabix | 0.2.6-GCCcore-6.4.0 | bio/tabix/0.2.6-GCCcore-6.4.0 | flex | 2.5.39-GCCcore-4.9.3 | lang/flex/2.5.39-GCCcore-4.9.3 | Szip | 2.1.1-GCCcore-8.3.0 | (D) | tools/Szip/2.1.1-GCCcore-8.3.0 | ||
| tabix | 0.2.6-GCCcore-7.3.0 | (D) | bio/tabix/0.2.6-GCCcore-7.3.0 | flex | 2.5.39 | lang/flex/2.5.39 | XZ | 5.2.2-foss-2016b | tools/XZ/5.2.2-foss-2016b | ||
| verifyBamID | 1.1.3-foss-2017b | bio/verifyBamID/1.1.3-foss-2017b | flex | 2.6.0-foss-2016b | lang/flex/2.6.0-foss-2016b | XZ | 5.2.3-GCCcore-6.3.0 | tools/XZ/5.2.3-GCCcore-6.3.0 | |||
| vt | 0.57721-foss-2018b | (D) | bio/vt/0.57721-foss-2018b | flex | 2.6.0-GCCcore-5.4.0 | lang/flex/2.6.0-GCCcore-5.4.0 | XZ | 5.2.3-GCCcore-6.4.0 | tools/XZ/5.2.3-GCCcore-6.4.0 | ||
| GATE | 8.2-foss-2018b-Python-2.7.15 | cae/GATE/8.2-foss-2018b-Python-2.7.15 | flex | 2.6.0 | lang/flex/2.6.0 | XZ | 5.2.4-GCCcore-7.3.0 | tools/XZ/5.2.4-GCCcore-7.3.0 | |||
| GCC | 4.8.1 | compiler/GCC/4.8.1 | flex | 2.6.3-GCCcore-6.3.0 | lang/flex/2.6.3-GCCcore-6.3.0 | XZ | 5.2.4-GCCcore-8.2.0 | tools/XZ/5.2.4-GCCcore-8.2.0 | |||
| GCC | 4.8.2 | compiler/GCC/4.8.2 | flex | 2.6.3 | lang/flex/2.6.3 | XZ | 5.2.4-GCCcore-8.3.0 | (D) | tools/XZ/5.2.4-GCCcore-8.3.0 | ||
| GCC | 4.8.4 | compiler/GCC/4.8.4 | flex | 2.6.4-GCCcore-6.4.0 | lang/flex/2.6.4-GCCcore-6.4.0 | ack | 2.14 | tools/ack/2.14 | |||
| GCC | 4.9.2 | compiler/GCC/4.9.2 | flex | 2.6.4-GCCcore-7.2.0 | lang/flex/2.6.4-GCCcore-7.2.0 | binutils | 2.25-GCCcore-4.9.3 | tools/binutils/2.25-GCCcore-4.9.3 | |||
| GCC | 4.9.3-2.25 | compiler/GCC/4.9.3-2.25 | flex | 2.6.4-GCCcore-7.3.0 | lang/flex/2.6.4-GCCcore-7.3.0 | binutils | 2.25 | tools/binutils/2.25 | |||
| GCC | 5.4.0-2.26 | compiler/GCC/5.4.0-2.26 | flex | 2.6.4-GCCcore-8.2.0 | lang/flex/2.6.4-GCCcore-8.2.0 | binutils | 2.26-GCCcore-5.4.0 | tools/binutils/2.26-GCCcore-5.4.0 | |||
| GCC | 6.3.0-2.27 | compiler/GCC/6.3.0-2.27 | flex | 2.6.4-GCCcore-8.3.0 | (D) | lang/flex/2.6.4-GCCcore-8.3.0 | binutils | 2.26 | tools/binutils/2.26 | ||
| GCC | 6.4.0-2.28 | compiler/GCC/6.4.0-2.28 | miniconda3 | 2020.04 | lang/miniconda3/2020.04 | binutils | 2.27-GCCcore-6.3.0 | tools/binutils/2.27-GCCcore-6.3.0 | |||
| GCC | 7.2.0-2.29 | compiler/GCC/7.2.0-2.29 | Blosc | 1.14.4-GCCcore-7.3.0 | lib/Blosc/1.14.4-GCCcore-7.3.0 | binutils | 2.27 | tools/binutils/2.27 | |||
| GCC | 7.3.0-2.30 | compiler/GCC/7.3.0-2.30 | CFITSIO | 3.45-GCCcore-7.3.0 | lib/CFITSIO/3.45-GCCcore-7.3.0 | binutils | 2.28-GCCcore-6.4.0 | tools/binutils/2.28-GCCcore-6.4.0 | |||
| GCC | 8.2.0-2.31.1 | compiler/GCC/8.2.0-2.31.1 | GitPython | 3.0.3-GCCcore-8.2.0-Python-3.7.2 | lib/GitPython/3.0.3-GCCcore-8.2.0-Python-3.7.2 | binutils | 2.28 | tools/binutils/2.28 | |||
| GCC | 8.3.0 | compiler/GCC/8.3.0 | ICU | 61.1-GCCcore-7.3.0 | lib/ICU/61.1-GCCcore-7.3.0 | binutils | 2.29-GCCcore-7.2.0 | tools/binutils/2.29-GCCcore-7.2.0 | |||
| GCC | 8.3.0-2.32 | (D) | compiler/GCC/8.3.0-2.32 | ICU | 64.2-GCCcore-8.2.0 | lib/ICU/64.2-GCCcore-8.2.0 | binutils | 2.29 | tools/binutils/2.29 | ||
| GCCcore | 4.9.3 | compiler/GCCcore/4.9.3 | ICU | 64.2-GCCcore-8.3.0 | lib/ICU/64.2-GCCcore-8.3.0 | binutils | 2.30-GCCcore-7.3.0 | tools/binutils/2.30-GCCcore-7.3.0 | |||
| GCCcore | 5.4.0 | compiler/GCCcore/5.4.0 | ICU | 65.1-GCCcore-8.3.0 | (D) | lib/ICU/65.1-GCCcore-8.3.0 | binutils | 2.3 | tools/binutils/2.30 | ||
| GCCcore | 6.3.0 | compiler/GCCcore/6.3.0 | Judy | 1.0.5-GCCcore-8.2.0 | lib/Judy/1.0.5-GCCcore-8.2.0 | binutils | 2.31.1-GCCcore-8.2.0 | tools/binutils/2.31.1-GCCcore-8.2.0 | |||
| GCCcore | 6.4.0 | compiler/GCCcore/6.4.0 | LMDB | 0.9.22-GCCcore-7.3.0 | lib/LMDB/0.9.22-GCCcore-7.3.0 | binutils | 2.31.1 | tools/binutils/2.31.1 | |||
| GCCcore | 7.2.0 | compiler/GCCcore/7.2.0 | LMDB | 0.9.23-GCCcore-8.2.0 | (D) | lib/LMDB/0.9.23-GCCcore-8.2.0 | binutils | 2.32-GCCcore-8.3.0 | tools/binutils/2.32-GCCcore-8.3.0 | ||
| GCCcore | 7.3.0 | compiler/GCCcore/7.3.0 | LibTIFF | 4.0.9-GCCcore-7.3.0 | lib/LibTIFF/4.0.9-GCCcore-7.3.0 | binutils | 2.32 | (D) | tools/binutils/2.32 | ||
| GCCcore | 8.2.0 | compiler/GCCcore/8.2.0 | LibTIFF | 4.0.10-GCCcore-8.2.0 | lib/LibTIFF/4.0.10-GCCcore-8.2.0 | bzip2 | 1.0.6-foss-2016b | tools/bzip2/1.0.6-foss-2016b | |||
| GCCcore | 8.3.0 | compiler/GCCcore/8.3.0 | LibTIFF | 4.0.10-GCCcore-8.3.0 | (D) | lib/LibTIFF/4.0.10-GCCcore-8.3.0 | bzip2 | 1.0.6-GCCcore-6.3.0 | tools/bzip2/1.0.6-GCCcore-6.3.0 | ||
| GCCcore | 9.1.0 | (D) | compiler/GCCcore/9.1.0 | PROJ | 5.0.0-foss-2018b | lib/PROJ/5.0.0-foss-2018b | bzip2 | 1.0.6-GCCcore-6.4.0 | tools/bzip2/1.0.6-GCCcore-6.4.0 | ||
| LLVM | 6.0.0-GCCcore-7.3.0 | compiler/LLVM/6.0.0-GCCcore-7.3.0 | PROJ | 6.0.0-GCCcore-8.2.0 | lib/PROJ/6.0.0-GCCcore-8.2.0 | bzip2 | 1.0.6-GCCcore-7.3.0 | tools/bzip2/1.0.6-GCCcore-7.3.0 | |||
| LLVM | 7.0.1-GCCcore-8.2.0 | compiler/LLVM/7.0.1-GCCcore-8.2.0 | PROJ | 6.2.1-GCCcore-8.3.0 | (D) | lib/PROJ/6.2.1-GCCcore-8.3.0 | bzip2 | 1.0.6-GCCcore-8.2.0 | tools/bzip2/1.0.6-GCCcore-8.2.0 | ||
| LLVM | 9.0.0-GCCcore-8.3.0 | (D) | compiler/LLVM/9.0.0-GCCcore-8.3.0 | PyYAML | 3.13-foss-2018b-Python-3.6.6 | lib/PyYAML/3.13-foss-2018b-Python-3.6.6 | bzip2 | 1.0.6 | tools/bzip2/1.0.6 | ||
| ispc | 1.10.0 | compiler/ispc/1.10.0 | PyYAML | 5.1-GCCcore-8.2.0 | (D) | lib/PyYAML/5.1-GCCcore-8.2.0 | bzip2 | 1.0.8-GCCcore-8.3.0 | (D) | tools/bzip2/1.0.8-GCCcore-8.3.0 | |
| DBD-mysql | 4.050-foss-2019a-Perl-5.28.1 | data/DBD-mysql/4.050-foss-2019a-Perl-5.28.1 | argtable | 2.13-foss-2018b | lib/argtable/2.13-foss-2018b | cURL | 7.56.0-GCCcore-6.4.0 | tools/cURL/7.56.0-GCCcore-6.4.0 | |||
| GDAL | 2.2.3-foss-2018b-Python-3.6.6 | data/GDAL/2.2.3-foss-2018b-Python-3.6.6 | freeglut | 3.0.0-foss-2018b | lib/freeglut/3.0.0-foss-2018b | cURL | 7.58.0-GCCcore-6.4.0 | tools/cURL/7.58.0-GCCcore-6.4.0 | |||
| GDAL | 3.0.0-foss-2019a-Python-2.7.15 | (D) | data/GDAL/3.0.0-foss-2019a-Python-2.7.15 | future | 0.16.0-foss-2018b-Python-3.6.6 | lib/future/0.16.0-foss-2018b-Python-3.6.6 | cURL | 7.60.0-GCCcore-7.3.0 | tools/cURL/7.60.0-GCCcore-7.3.0 | ||
| HDF5 | 1.8.20-foss-2018a | data/HDF5/1.8.20-foss-2018a | glibc | 2.30-GCCcore-8.3.0 | lib/glibc/2.30-GCCcore-8.3.0 | cURL | 7.63.0-GCCcore-8.2.0 | tools/cURL/7.63.0-GCCcore-8.2.0 | |||
| HDF5 | 1.10.2-foss-2018b | data/HDF5/1.10.2-foss-2018b | jemalloc | 5.0.1-GCCcore-6.4.0 | lib/jemalloc/5.0.1-GCCcore-6.4.0 | cURL | 7.66.0-GCCcore-8.3.0 | (D) | tools/cURL/7.66.0-GCCcore-8.3.0 | ||
| HDF5 | 1.10.5-gompi-2019a | data/HDF5/1.10.5-gompi-2019a | jemalloc | 5.1.0-GCCcore-7.3.0 | lib/jemalloc/5.1.0-GCCcore-7.3.0 | expat | 2.2.0-foss-2016b | tools/expat/2.2.0-foss-2016b | |||
| HDF5 | 1.10.5-gompi-2019b | (D) | data/HDF5/1.10.5-gompi-2019b | jemalloc | 5.2.0-GCCcore-8.2.0 | (D) | lib/jemalloc/5.2.0-GCCcore-8.2.0 | expat | 2.2.0-GCCcore-6.3.0 | tools/expat/2.2.0-GCCcore-6.3.0 | |
| MariaDB | 10.3.14-foss-2019a | data/MariaDB/10.3.14-foss-2019a | libaio | 0.3.111-GCCcore-8.2.0 | lib/libaio/0.3.111-GCCcore-8.2.0 | expat | 2.2.4-GCCcore-6.4.0 | tools/expat/2.2.4-GCCcore-6.4.0 | |||
| PyTables | 3.4.4-foss-2018b-Python-3.6.6 | data/PyTables/3.4.4-foss-2018b-Python-3.6.6 | libdrm | 2.4.92-GCCcore-7.3.0 | lib/libdrm/2.4.92-GCCcore-7.3.0 | expat | 2.2.5-GCCcore-6.4.0 | tools/expat/2.2.5-GCCcore-6.4.0 | |||
| ROOT | 6.14.06-foss-2018b-Python-2.7.15 | data/ROOT/6.14.06-foss-2018b-Python-2.7.15 | libdrm | 2.4.97-GCCcore-8.2.0 | lib/libdrm/2.4.97-GCCcore-8.2.0 | expat | 2.2.5-GCCcore-7.3.0 | tools/expat/2.2.5-GCCcore-7.3.0 | |||
| XML-LibXML | 2.0132-foss-2017b-Perl-5.26.0 | data/XML-LibXML/2.0132-foss-2017b-Perl-5.26.0 | libdrm | 2.4.99-GCCcore-8.3.0 | (D) | lib/libdrm/2.4.99-GCCcore-8.3.0 | expat | 2.2.6-GCCcore-8.2.0 | tools/expat/2.2.6-GCCcore-8.2.0 | ||
| XML-LibXML | 2.0132-GCCcore-7.3.0-Perl-5.28.0 | data/XML-LibXML/2.0132-GCCcore-7.3.0-Perl-5.28.0 | libffi | 3.2.1-foss-2016b | lib/libffi/3.2.1-foss-2016b | expat | 2.2.7-GCCcore-8.3.0 | (D) | tools/expat/2.2.7-GCCcore-8.3.0 | ||
| XML-LibXML | 2.0200-GCCcore-8.2.0-Perl-5.28.1 | (D) | data/XML-LibXML/2.0200-GCCcore-8.2.0-Perl-5.28.1 | libffi | 3.2.1-GCCcore-6.4.0 | lib/libffi/3.2.1-GCCcore-6.4.0 | gettext | 0.19.8 | tools/gettext/0.19.8 | ||
| XML-Parser | 2.44_01-foss-2016b-Perl-5.24.0 | data/XML-Parser/2.44_01-foss-2016b-Perl-5.24.0 | libffi | 3.2.1-GCCcore-7.3.0 | lib/libffi/3.2.1-GCCcore-7.3.0 | gettext | 0.19.8.1-GCCcore-6.3.0 | tools/gettext/0.19.8.1-GCCcore-6.3.0 | |||
| XML-Parser | 2.44_01-GCCcore-6.3.0-Perl-5.24.1 | data/XML-Parser/2.44_01-GCCcore-6.3.0-Perl-5.24.1 | libffi | 3.2.1-GCCcore-8.2.0 | lib/libffi/3.2.1-GCCcore-8.2.0 | gettext | 0.19.8.1-GCCcore-6.4.0 | tools/gettext/0.19.8.1-GCCcore-6.4.0 | |||
| XML-Parser | 2.44_01-GCCcore-6.4.0-Perl-5.26.0 | data/XML-Parser/2.44_01-GCCcore-6.4.0-Perl-5.26.0 | libffi | 3.2.1-GCCcore-8.3.0 | lib/libffi/3.2.1-GCCcore-8.3.0 | gettext | 0.19.8.1-GCCcore-7.3.0 | tools/gettext/0.19.8.1-GCCcore-7.3.0 | |||
| XML-Parser | 2.44_01-GCCcore-7.3.0-Perl-5.28.0 | (D) | data/XML-Parser/2.44_01-GCCcore-7.3.0-Perl-5.28.0 | libffi | 3.2.1 | (D) | lib/libffi/3.2.1 | gettext | 0.19.8.1-GCCcore-8.2.0 | tools/gettext/0.19.8.1-GCCcore-8.2.0 | |
| datamash | 1.3-foss-2018a | data/datamash/1.3-foss-2018a | libgd | 2.2.5-GCCcore-7.3.0 | lib/libgd/2.2.5-GCCcore-7.3.0 | gettext | 0.19.8.1 | tools/gettext/0.19.8.1 | |||
| netCDF-Fortran | 4.4.4-foss-2018b | data/netCDF-Fortran/4.4.4-foss-2018b | libgeotiff | 1.4.2-foss-2018b | lib/libgeotiff/1.4.2-foss-2018b | gettext | 0.20.1-GCCcore-8.3.0 | (D) | tools/gettext/0.20.1-GCCcore-8.3.0 | ||
| netCDF | 4.6.1-foss-2018b | data/netCDF/4.6.1-foss-2018b | libgeotiff | 1.5.1-GCCcore-8.2.0 | (D) | lib/libgeotiff/1.5.1-GCCcore-8.2.0 | gzip | 1.10-GCCcore-8.2.0 | tools/gzip/1.10-GCCcore-8.2.0 | ||
| netCDF | 4.6.2-gompi-2019a | (D) | data/netCDF/4.6.2-gompi-2019a | libgtextutils | 0.7-foss-2016b | lib/libgtextutils/0.7-foss-2016b | help2man | 1.47.4-GCCcore-6.3.0 | tools/help2man/1.47.4-GCCcore-6.3.0 | ||
| savvy | 1.3.0-GCC-8.2.0-2.31.1 | data/savvy/1.3.0-GCC-8.2.0-2.31.1 | libharu | 2.3.0-foss-2016b | lib/libharu/2.3.0-foss-2016b | help2man | 1.47.4-GCCcore-6.4.0 | tools/help2man/1.47.4-GCCcore-6.4.0 | |||
| shrinkwrap | 1.0.0-beta-GCCcore-8.2.0 | data/shrinkwrap/1.0.0-beta-GCCcore-8.2.0 | libidn | 1.35-GCCcore-7.3.0 | lib/libidn/1.35-GCCcore-7.3.0 | help2man | 1.47.4-GCCcore-7.2.0 | tools/help2man/1.47.4-GCCcore-7.2.0 | |||
| GDB | 8.1-foss-2018a-Python-2.7.14 | debugger/GDB/8.1-foss-2018a-Python-2.7.14 | libjpeg-turbo | 2.0.0-GCCcore-7.3.0 | lib/libjpeg-turbo/2.0.0-GCCcore-7.3.0 | help2man | 1.47.4-GCCcore-7.3.0 | tools/help2man/1.47.4-GCCcore-7.3.0 | |||
| Autoconf | 2.69-foss-2016b | devel/Autoconf/2.69-foss-2016b | libjpeg-turbo | 2.0.2-GCCcore-8.2.0 | lib/libjpeg-turbo/2.0.2-GCCcore-8.2.0 | help2man | 1.47.4 | tools/help2man/1.47.4 | |||
| Autoconf | 2.69-GCC-4.8.2 | devel/Autoconf/2.69-GCC-4.8.2 | libjpeg-turbo | 2.0.3-GCCcore-8.3.0 | (D) | lib/libjpeg-turbo/2.0.3-GCCcore-8.3.0 | help2man | 1.47.7-GCCcore-8.2.0 | tools/help2man/1.47.7-GCCcore-8.2.0 | ||
| Autoconf | 2.69-GCC-4.9.3-2.25 | devel/Autoconf/2.69-GCC-4.9.3-2.25 | libpng | 1.6.24-foss-2016b | lib/libpng/1.6.24-foss-2016b | help2man | 1.47.8-GCCcore-8.3.0 | (D) | tools/help2man/1.47.8-GCCcore-8.3.0 | ||
| Autoconf | 2.69-GCC-5.4.0-2.26 | devel/Autoconf/2.69-GCC-5.4.0-2.26 | libpng | 1.6.29-GCCcore-6.3.0 | lib/libpng/1.6.29-GCCcore-6.3.0 | hub | 2.2.2-linux-amd64 | tools/hub/2.2.2-linux-amd64 | |||
| Autoconf | 2.69-GCCcore-5.4.0 | devel/Autoconf/2.69-GCCcore-5.4.0 | libpng | 1.6.32-GCCcore-6.4.0 | lib/libpng/1.6.32-GCCcore-6.4.0 | numactl | 2.0.11-GCC-4.9.3-2.25 | tools/numactl/2.0.11-GCC-4.9.3-2.25 | |||
| Autoconf | 2.69-GCCcore-6.3.0 | devel/Autoconf/2.69-GCCcore-6.3.0 | libpng | 1.6.34-GCCcore-7.3.0 | lib/libpng/1.6.34-GCCcore-7.3.0 | numactl | 2.0.11-GCC-5.4.0-2.26 | tools/numactl/2.0.11-GCC-5.4.0-2.26 | |||
| Autoconf | 2.69-GCCcore-6.4.0 | devel/Autoconf/2.69-GCCcore-6.4.0 | libpng | 1.6.36-GCCcore-8.2.0 | lib/libpng/1.6.36-GCCcore-8.2.0 | numactl | 2.0.11-GCC-6.3.0-2.27 | tools/numactl/2.0.11-GCC-6.3.0-2.27 | |||
| Autoconf | 2.69-GCCcore-7.3.0 | devel/Autoconf/2.69-GCCcore-7.3.0 | libpng | 1.6.37-GCCcore-8.3.0 | (D) | lib/libpng/1.6.37-GCCcore-8.3.0 | numactl | 2.0.11-GCCcore-5.4.0 | tools/numactl/2.0.11-GCCcore-5.4.0 | ||
| Autoconf | 2.69-GCCcore-8.2.0 | devel/Autoconf/2.69-GCCcore-8.2.0 | libreadline | 6.3-foss-2016b | lib/libreadline/6.3-foss-2016b | numactl | 2.0.11-GCCcore-6.4.0 | tools/numactl/2.0.11-GCCcore-6.4.0 | |||
| Autoconf | 2.69-GCCcore-8.3.0 | devel/Autoconf/2.69-GCCcore-8.3.0 | libreadline | 7.0-GCCcore-6.4.0 | lib/libreadline/7.0-GCCcore-6.4.0 | numactl | 2.0.11-GCCcore-7.3.0 | tools/numactl/2.0.11-GCCcore-7.3.0 | |||
| Autoconf | 2.69 | (D) | devel/Autoconf/2.69 | libreadline | 7.0-GCCcore-7.3.0 | lib/libreadline/7.0-GCCcore-7.3.0 | numactl | 2.0.12-GCCcore-8.2.0 | tools/numactl/2.0.12-GCCcore-8.2.0 | ||
| Automake | 1.14.1-GCC-4.8.2 | devel/Automake/1.14.1-GCC-4.8.2 | libreadline | 8.0-GCCcore-8.2.0 | lib/libreadline/8.0-GCCcore-8.2.0 | numactl | 2.0.12-GCCcore-8.3.0 | (D) | tools/numactl/2.0.12-GCCcore-8.3.0 | ||
| Automake | 1.15-foss-2016b | devel/Automake/1.15-foss-2016b | libreadline | 8.0-GCCcore-8.3.0 | (D) | lib/libreadline/8.0-GCCcore-8.3.0 | parallel | 20190222-GCCcore-7.3.0 | tools/parallel/20190222-GCCcore-7.3.0 | ||
| Automake | 1.15-GCC-4.9.3-2.25 | devel/Automake/1.15-GCC-4.9.3-2.25 | libsndfile | 1.0.28-GCCcore-7.3.0 | lib/libsndfile/1.0.28-GCCcore-7.3.0 | perl-app-cpanminus | 1.7039 | tools/perl-app-cpanminus/1.7039 | |||
| Automake | 1.15-GCC-5.4.0-2.26 | devel/Automake/1.15-GCC-5.4.0-2.26 | libsndfile | 1.0.28-GCCcore-8.2.0 | lib/libsndfile/1.0.28-GCCcore-8.2.0 | pip | 8.1.2-foss-2016b-Python-2.7.12 | tools/pip/8.1.2-foss-2016b-Python-2.7.12 | |||
| Automake | 1.15-GCCcore-5.4.0 | devel/Automake/1.15-GCCcore-5.4.0 | libsndfile | 1.0.28-GCCcore-8.3.0 | (D) | lib/libsndfile/1.0.28-GCCcore-8.3.0 | snakemake | 5.7.1-foss-2019a-Python-3.7.2 | tools/snakemake/5.7.1-foss-2019a-Python-3.7.2 | ||
| Automake | 1.15-GCCcore-6.3.0 | devel/Automake/1.15-GCCcore-6.3.0 | libtool | 2.4.6-foss-2016b | lib/libtool/2.4.6-foss-2016b | util-linux | 2.32-GCCcore-7.3.0 | tools/util-linux/2.32-GCCcore-7.3.0 | |||
| Automake | 1.15 | devel/Automake/1.15 | libtool | 2.4.6-GCC-4.9.3-2.25 | lib/libtool/2.4.6-GCC-4.9.3-2.25 | util-linux | 2.33-GCCcore-8.2.0 | tools/util-linux/2.33-GCCcore-8.2.0 | |||
| Automake | 1.15.1-GCCcore-6.4.0 | devel/Automake/1.15.1-GCCcore-6.4.0 | libtool | 2.4.6-GCC-5.4.0-2.26 | lib/libtool/2.4.6-GCC-5.4.0-2.26 | util-linux | 2.34-GCCcore-8.3.0 | (D) | tools/util-linux/2.34-GCCcore-8.3.0 | ||
| Automake | 1.16.1-GCCcore-7.3.0 | devel/Automake/1.16.1-GCCcore-7.3.0 | libtool | 2.4.6-GCCcore-5.4.0 | lib/libtool/2.4.6-GCCcore-5.4.0 | vsc-base | 2.8.3 | tools/vsc-base/2.8.3 | |||
| Automake | 1.16.1-GCCcore-8.2.0 | devel/Automake/1.16.1-GCCcore-8.2.0 | libtool | 2.4.6-GCCcore-6.3.0 | lib/libtool/2.4.6-GCCcore-6.3.0 | vsc-install | 0.11.2 | tools/vsc-install/0.11.2 | |||
| Automake | 1.16.1-GCCcore-8.3.0 | (D) | devel/Automake/1.16.1-GCCcore-8.3.0 | libtool | 2.4.6-GCCcore-6.4.0 | lib/libtool/2.4.6-GCCcore-6.4.0 | vsc-mympirun | 4.1.8 | tools/vsc-mympirun/4.1.8 | ||
| Autotools | 20150215-foss-2016b | devel/Autotools/20150215-foss-2016b | libtool | 2.4.6-GCCcore-7.3.0 | lib/libtool/2.4.6-GCCcore-7.3.0 | GL2PS | 1.4.0-foss-2018b | vis/GL2PS/1.4.0-foss-2018b | |||
| Autotools | 20150215-GCC-4.9.3-2.25 | devel/Autotools/20150215-GCC-4.9.3-2.25 | libtool | 2.4.6-GCCcore-8.2.0 | lib/libtool/2.4.6-GCCcore-8.2.0 | GLib | 2.54.3-GCCcore-7.3.0 | vis/GLib/2.54.3-GCCcore-7.3.0 | |||
| Autotools | 20150215-GCC-5.4.0-2.26 | devel/Autotools/20150215-GCC-5.4.0-2.26 | libtool | 2.4.6-GCCcore-8.3.0 | lib/libtool/2.4.6-GCCcore-8.3.0 | GLib | 2.60.1-GCCcore-8.2.0 | vis/GLib/2.60.1-GCCcore-8.2.0 | |||
| Autotools | 20150215-GCCcore-5.4.0 | devel/Autotools/20150215-GCCcore-5.4.0 | libtool | 2.4.6 | (D) | lib/libtool/2.4.6 | GLib | 2.62.0-GCCcore-8.3.0 | (D) | vis/GLib/2.62.0-GCCcore-8.3.0 | |
| Autotools | 20150215-GCCcore-6.3.0 | devel/Autotools/20150215-GCCcore-6.3.0 | libunwind | 1.2.1-GCCcore-6.4.0 | lib/libunwind/1.2.1-GCCcore-6.4.0 | ImageMagick | 7.0.8-46-GCCcore-8.2.0 | vis/ImageMagick/7.0.8-46-GCCcore-8.2.0 | |||
| Autotools | 20150215 | devel/Autotools/20150215 | libunwind | 1.2.1-GCCcore-7.3.0 | lib/libunwind/1.2.1-GCCcore-7.3.0 | ImageMagick | 7.0.9-5-GCCcore-8.3.0 | (D) | vis/ImageMagick/7.0.9-5-GCCcore-8.3.0 | ||
| Autotools | 20170619-GCCcore-6.4.0 | devel/Autotools/20170619-GCCcore-6.4.0 | libunwind | 1.3.1-GCCcore-8.2.0 | lib/libunwind/1.3.1-GCCcore-8.2.0 | JasPer | 2.0.14-GCCcore-7.3.0 | vis/JasPer/2.0.14-GCCcore-7.3.0 | |||
| Autotools | 20180311-GCCcore-7.3.0 | devel/Autotools/20180311-GCCcore-7.3.0 | libunwind | 1.3.1-GCCcore-8.3.0 | (D) | lib/libunwind/1.3.1-GCCcore-8.3.0 | JasPer | 2.0.14-GCCcore-8.2.0 | vis/JasPer/2.0.14-GCCcore-8.2.0 | ||
| Autotools | 20180311-GCCcore-8.2.0 | devel/Autotools/20180311-GCCcore-8.2.0 | libxml2 | 2.9.4-GCCcore-6.3.0 | lib/libxml2/2.9.4-GCCcore-6.3.0 | JasPer | 2.0.14-GCCcore-8.3.0 | (D) | vis/JasPer/2.0.14-GCCcore-8.3.0 | ||
| Autotools | 20180311-GCCcore-8.3.0 | (D) | devel/Autotools/20180311-GCCcore-8.3.0 | libxml2 | 2.9.4-GCCcore-6.4.0 | lib/libxml2/2.9.4-GCCcore-6.4.0 | LittleCMS | 2.9-GCCcore-8.2.0 | vis/LittleCMS/2.9-GCCcore-8.2.0 | ||
| Boost | 1.61.0-foss-2016b | devel/Boost/1.61.0-foss-2016b | libxml2 | 2.9.7-GCCcore-6.4.0 | lib/libxml2/2.9.7-GCCcore-6.4.0 | LittleCMS | 2.9-GCCcore-8.3.0 | (D) | vis/LittleCMS/2.9-GCCcore-8.3.0 | ||
| Boost | 1.63.0-foss-2016b-Python-2.7.12 | devel/Boost/1.63.0-foss-2016b-Python-2.7.12 | libxml2 | 2.9.8-GCCcore-7.3.0 | lib/libxml2/2.9.8-GCCcore-7.3.0 | Mesa | 18.1.1-foss-2018b | vis/Mesa/18.1.1-foss-2018b | |||
| Boost | 1.65.1-foss-2017b | devel/Boost/1.65.1-foss-2017b | libxml2 | 2.9.8-GCCcore-8.2.0 | lib/libxml2/2.9.8-GCCcore-8.2.0 | Mesa | 19.0.1-GCCcore-8.2.0 | vis/Mesa/19.0.1-GCCcore-8.2.0 | |||
| Boost | 1.67.0-foss-2018b | devel/Boost/1.67.0-foss-2018b | libxml2 | 2.9.9-GCCcore-8.3.0 | (D) | lib/libxml2/2.9.9-GCCcore-8.3.0 | Mesa | 19.1.7-GCCcore-8.3.0 | (D) | vis/Mesa/19.1.7-GCCcore-8.3.0 | |
| Boost | 1.68.0-foss-2018b-Python-3.6.6 | devel/Boost/1.68.0-foss-2018b-Python-3.6.6 | libyaml | 0.2.1-GCCcore-7.3.0 | lib/libyaml/0.2.1-GCCcore-7.3.0 | Tk | 8.6.5-foss-2016b | vis/Tk/8.6.5-foss-2016b | |||
| Boost | 1.70.0-gompi-2019a | (D) | devel/Boost/1.70.0-gompi-2019a | libyaml | 0.2.2-GCCcore-8.2.0 | (D) | lib/libyaml/0.2.2-GCCcore-8.2.0 | Tk | 8.6.8-GCCcore-7.3.0 | vis/Tk/8.6.8-GCCcore-7.3.0 | |
| CMake | 3.4.3-foss-2016a | devel/CMake/3.4.3-foss-2016a | lz4 | 1.9.1-GCCcore-8.2.0 | lib/lz4/1.9.1-GCCcore-8.2.0 | Tk | 8.6.9-GCCcore-8.2.0 | vis/Tk/8.6.9-GCCcore-8.2.0 | |||
| CMake | 3.5.2-foss-2016b | devel/CMake/3.5.2-foss-2016b | memkind | 1.5.0-GCCcore-5.4.0 | lib/memkind/1.5.0-GCCcore-5.4.0 | Tk | 8.6.9-GCCcore-8.3.0 | (D) | vis/Tk/8.6.9-GCCcore-8.3.0 | ||
| CMake | 3.6.2-foss-2016b | devel/CMake/3.6.2-foss-2016b | nettle | 3.3-GCCcore-6.4.0 | lib/nettle/3.3-GCCcore-6.4.0 | X11 | 20170314-GCCcore-6.3.0 | vis/X11/20170314-GCCcore-6.3.0 | |||
| CMake | 3.7.2-foss-2016b | devel/CMake/3.7.2-foss-2016b | nettle | 3.4-foss-2018b | lib/nettle/3.4-foss-2018b | X11 | 20180604-GCCcore-7.3.0 | vis/X11/20180604-GCCcore-7.3.0 | |||
| CMake | 3.9.5-GCCcore-6.4.0 | devel/CMake/3.9.5-GCCcore-6.4.0 | nettle | 3.4.1-GCCcore-8.2.0 | lib/nettle/3.4.1-GCCcore-8.2.0 | X11 | 20190311-GCCcore-8.2.0 | vis/X11/20190311-GCCcore-8.2.0 | |||
| CMake | 3.9.6 | devel/CMake/3.9.6 | nettle | 3.5.1-GCCcore-8.3.0 | (D) | lib/nettle/3.5.1-GCCcore-8.3.0 | X11 | 20190717-GCCcore-8.3.0 | (D) | vis/X11/20190717-GCCcore-8.3.0 | |
| CMake | 3.10.1-GCCcore-6.4.0 | devel/CMake/3.10.1-GCCcore-6.4.0 | snappy | 1.1.7-GCCcore-8.2.0 | lib/snappy/1.1.7-GCCcore-8.2.0 | cairo | 1.14.12-GCCcore-7.3.0 | vis/cairo/1.14.12-GCCcore-7.3.0 | |||
| CMake | 3.11.4-GCCcore-7.3.0 | devel/CMake/3.11.4-GCCcore-7.3.0 | snappy | 1.1.7-GCCcore-8.3.0 | (D) | lib/snappy/1.1.7-GCCcore-8.3.0 | cairo | 1.16.0-GCCcore-8.2.0 | vis/cairo/1.16.0-GCCcore-8.2.0 | ||
| CMake | 3.12.1-GCCcore-7.3.0 | devel/CMake/3.12.1-GCCcore-7.3.0 | tbb | 2017_U5-foss-2016b | lib/tbb/2017_U5-foss-2016b | cairo | 1.16.0-GCCcore-8.3.0 | (D) | vis/cairo/1.16.0-GCCcore-8.3.0 | ||
| CMake | 3.13.3-GCCcore-8.2.0 | devel/CMake/3.13.3-GCCcore-8.2.0 | tbb | 2017_U5-GCCcore-5.4.0 | lib/tbb/2017_U5-GCCcore-5.4.0 | fontconfig | 2.12.1-foss-2016b | vis/fontconfig/2.12.1-foss-2016b | |||
| CMake | 3.15.3-GCCcore-8.3.0 | (D) | devel/CMake/3.15.3-GCCcore-8.3.0 | tbb | 2018_U3-GCCcore-6.4.0 | (D) | lib/tbb/2018_U3-GCCcore-6.4.0 | fontconfig | 2.12.1-GCCcore-6.3.0-libpng-1.6.29 | vis/fontconfig/2.12.1-GCCcore-6.3.0-libpng-1.6.29 | |
| Doxygen | 1.8.9.1-GCC-4.9.2 | devel/Doxygen/1.8.9.1-GCC-4.9.2 | zlib | 1.2.8-GCCcore-4.9.3 | lib/zlib/1.2.8-GCCcore-4.9.3 | fontconfig | 2.12.4-GCCcore-6.4.0 | vis/fontconfig/2.12.4-GCCcore-6.4.0 | |||
| Doxygen | 1.8.14-GCCcore-7.3.0 | devel/Doxygen/1.8.14-GCCcore-7.3.0 | zlib | 1.2.8-GCCcore-5.4.0 | lib/zlib/1.2.8-GCCcore-5.4.0 | fontconfig | 2.13.0-GCCcore-7.3.0 | vis/fontconfig/2.13.0-GCCcore-7.3.0 | |||
| Doxygen | 1.8.15-GCCcore-8.2.0 | (D) | devel/Doxygen/1.8.15-GCCcore-8.2.0 | zlib | 1.2.8 | lib/zlib/1.2.8 | fontconfig | 2.13.1-GCCcore-8.2.0 | vis/fontconfig/2.13.1-GCCcore-8.2.0 | ||
| Gradle | 4.5.1 | devel/Gradle/4.5.1 | zlib | 1.2.11-GCCcore-6.3.0 | lib/zlib/1.2.11-GCCcore-6.3.0 | fontconfig | 2.13.1-GCCcore-8.3.0 | (D) | vis/fontconfig/2.13.1-GCCcore-8.3.0 | ||
| JUnit | 4.12-Java-1.8 | devel/JUnit/4.12-Java-1.8 | zlib | 1.2.11-GCCcore-6.4.0 | lib/zlib/1.2.11-GCCcore-6.4.0 | freetype | 2.6.5-foss-2016b | vis/freetype/2.6.5-foss-2016b | |||
| LZO | 2.10-foss-2018b | devel/LZO/2.10-foss-2018b | zlib | 1.2.11-GCCcore-7.2.0 | lib/zlib/1.2.11-GCCcore-7.2.0 | freetype | 2.7.1-GCCcore-6.3.0-libpng-1.6.29 | vis/freetype/2.7.1-GCCcore-6.3.0-libpng-1.6.29 | |||
| LZO | 2.10-GCCcore-8.2.0 | (D) | devel/LZO/2.10-GCCcore-8.2.0 | zlib | 1.2.11-GCCcore-7.3.0 | lib/zlib/1.2.11-GCCcore-7.3.0 | freetype | 2.8-GCCcore-6.4.0 | vis/freetype/2.8-GCCcore-6.4.0 | ||
| M4 | 1.4.16-GCC-4.8.2 | devel/M4/1.4.16-GCC-4.8.2 | zlib | 1.2.11-GCCcore-8.2.0 | lib/zlib/1.2.11-GCCcore-8.2.0 | freetype | 2.9.1-GCCcore-7.3.0 | vis/freetype/2.9.1-GCCcore-7.3.0 | |||
| M4 | 1.4.17-foss-2016b | devel/M4/1.4.17-foss-2016b | zlib | 1.2.11-GCCcore-8.3.0 | (D) | lib/zlib/1.2.11-GCCcore-8.3.0 | freetype | 2.9.1-GCCcore-8.2.0 | vis/freetype/2.9.1-GCCcore-8.2.0 | ||
| M4 | 1.4.17-GCC-4.9.2 | devel/M4/1.4.17-GCC-4.9.2 | zstd | 1.4.0-GCCcore-8.2.0 | lib/zstd/1.4.0-GCCcore-8.2.0 | freetype | 2.10.1-GCCcore-8.3.0 | (D) | vis/freetype/2.10.1-GCCcore-8.3.0 | ||
| M4 | 1.4.17-GCC-4.9.3-2.25 | devel/M4/1.4.17-GCC-4.9.3-2.25 | Eigen | 3.3.7 | math/Eigen/3.3.7 | libGLU | 9.0.0-foss-2018b | vis/libGLU/9.0.0-foss-2018b | |||
| M4 | 1.4.17-GCC-5.4.0-2.26 | devel/M4/1.4.17-GCC-5.4.0-2.26 | GEOS | 3.6.2-foss-2018b-Python-3.6.6 | math/GEOS/3.6.2-foss-2018b-Python-3.6.6 | libGLU | 9.0.0-GCCcore-8.2.0 | vis/libGLU/9.0.0-GCCcore-8.2.0 | |||
| M4 | 1.4.17-GCCcore-4.9.3 | devel/M4/1.4.17-GCCcore-4.9.3 | GEOS | 3.7.2-foss-2019a-Python-2.7.15 | (D) | math/GEOS/3.7.2-foss-2019a-Python-2.7.15 | libGLU | 9.0.1-GCCcore-8.3.0 | (D) | vis/libGLU/9.0.1-GCCcore-8.3.0 | |
| M4 | 1.4.17-GCCcore-5.4.0 | devel/M4/1.4.17-GCCcore-5.4.0 | GMP | 6.1.1-foss-2016b | math/GMP/6.1.1-foss-2016b | matplotlib | 3.0.0-foss-2018b-Python-3.6.6 | vis/matplotlib/3.0.0-foss-2018b-Python-3.6.6 | |||
| M4 | 1.4.18-GCCcore-5.4.0 | devel/M4/1.4.18-GCCcore-5.4.0 | GMP | 6.1.2-foss-2016b | math/GMP/6.1.2-foss-2016b | matplotlib | 3.0.2-foss-2018b-Python-3.6.6 | (D) | vis/matplotlib/3.0.2-foss-2018b-Python-3.6.6 | ||
| M4 | 1.4.18-GCCcore-6.3.0 | devel/M4/1.4.18-GCCcore-6.3.0 | GMP | 6.1.2-GCCcore-6.4.0 | math/GMP/6.1.2-GCCcore-6.4.0 | pixman | 0.34.0-foss-2016b | vis/pixman/0.34.0-foss-2016b | |||
| M4 | 1.4.18-GCCcore-6.4.0 | devel/M4/1.4.18-GCCcore-6.4.0 | GMP | 6.1.2-GCCcore-7.3.0 | math/GMP/6.1.2-GCCcore-7.3.0 | pixman | 0.34.0-GCCcore-7.3.0 | vis/pixman/0.34.0-GCCcore-7.3.0 | |||
| M4 | 1.4.18-GCCcore-7.2.0 | devel/M4/1.4.18-GCCcore-7.2.0 | GMP | 6.1.2-GCCcore-8.2.0 | math/GMP/6.1.2-GCCcore-8.2.0 | pixman | 0.38.0-GCCcore-8.2.0 | vis/pixman/0.38.0-GCCcore-8.2.0 | |||
| M4 | 1.4.18-GCCcore-7.3.0 | devel/M4/1.4.18-GCCcore-7.3.0 | GMP | 6.1.2-GCCcore-8.3.0 | (D) | math/GMP/6.1.2-GCCcore-8.3.0 | pixman | 0.38.4-GCCcore-8.3.0 | (D) | vis/pixman/0.38.4-GCCcore-8.3.0 | |
| M4 | 1.4.18-GCCcore-8.2.0 | devel/M4/1.4.18-GCCcore-8.2.0 | MCR | R2019a | math/MCR/R2019a | x264 | 20190413-GCCcore-8.2.0 | vis/x264/20190413-GCCcore-8.2.0 |
List of Manual Apps in the Helix HPC
Manual Apps
| Tool | Version | Default | Module load |
|---|---|---|---|
| BOLT-LMM | 2.3.4 | bio/BOLT-LMM/2.3.4 | |
| CADD | 1.6-Anaconda3_2019.03 | bio/CADD/1.6-Anaconda3_2019.03 | |
| CADD | 1.6 | (D) | bio/CADD/1.6 |
| DeNovoWEST | 1.0.0 | bio/DeNovoWEST/1.0.0 | |
| EPACTS | 3.3.2 | bio/EPACTS/3.3.2 | |
| EPACTS | 3.4.2 | (D) | bio/EPACTS/3.4.2 |
| Eagle | 2.4.1 | bio/Eagle/2.4.1 | |
| Exomiser | 12.1.0-Java-1.8 | bio/Exomiser/12.1.0-Java-1.8 | |
| GCTA | 1.93.1_beta | bio/GCTA/1.93.1_beta | |
| GLNexus | 1.2.6 | bio/GLNexus/1.2.6 | |
| HLA-LA | fe00f82 | bio/HLA-LA/fe00f82 | |
| HipSTR | 0.6.2 | bio/HipSTR/0.6.2 | |
| KING | 2.1.4 | bio/KING/2.1.4 | |
| KING | 2.2.4 | (D) | bio/KING/2.2.4 |
| LARVA | 2 | bio/LARVA/2.0 | |
| LDSC | trunk | bio/LDSC/trunk | |
| LDstore | v2 | bio/LDstore/v2 | |
| LINKDATAGEN | master | bio/LINKDATAGEN/master | |
| METAL | 2011-03-25-foss-2019b | bio/METAL/2011-03-25-foss-2019b | |
| MendelScan | 1.2.2 | bio/MendelScan/1.2.2 | |
| Minimac | v3 | bio/Minimac/v3 | |
| Minimac | v4 | (D) | bio/Minimac/v4 |
| PAINTOR | v3.0 | bio/PAINTOR/v3.0 | |
| PAUP | 4.0a166 | bio/PAUP/4.0a166 | |
| PRSice-2 | 2.3.3 | bio/PRSice-2/2.3.3 | |
| PopDel | 1.5.0 | bio/PopDel/1.5.0 | |
| REViewer | 0.1.0 | bio/REViewer/0.1.0 | |
| STRDenovoTools | 1.0.0 | bio/STRDenovoTools/1.0.0 | |
| SVLR | 0.1 | bio/SVLR/0.1 | |
| ShatterProof | 0.13 | bio/ShatterProof/0.13 | |
| ShatterProof | 1.6.17 | (D) | bio/ShatterProof/1.6.17 |
| Sniffles | 1.0.12 | bio/Sniffles/1.0.12 | |
| VEP | 89.4-foss-2019a-Perl-5.28.1 | bio/VEP/89.4-foss-2019a-Perl-5.28.1 | |
| VarAft | 2.16-Java-1.8 | bio/VarAft/2.16-Java-1.8 | |
| bazam | 1.0.1 | bio/bazam/1.0.1 | |
| bcftools | 1.12 | bio/bcftools/1.12 | |
| bgenix | 1 | bio/bgenix/1.0 | |
| caviar | 1 | bio/caviar/1.0 | |
| cellbase | v4.7.1-test | bio/cellbase/v4.7.1-test | |
| cellbase | v4.7.1-uat | bio/cellbase/v4.7.1-uat | |
| cellbase | v4.7.1 | bio/cellbase/v4.7.1 | |
| cov-LDSC | 0.1 | bio/cov-LDSC/0.1 | |
| cromwell | 65 | (D) | bio/cromwell/65 |
| deepvariant | 0.9.0-singularity | bio/deepvariant/0.9.0-singularity | |
| gron | 0.6.1 | bio/gron/0.6.1 | |
| haplocheck | 1.3.3 | bio/haplocheck/1.3.3 | |
| htslib | 1.12 | bio/htslib/1.12 | |
| lobSTR | 4.0.6 | bio/lobSTR/4.0.6 | |
| lumpy-sv | 0.3.1 | bio/lumpy-sv/0.3.1 | |
| magma | 1.09a | bio/magma/1.09a | |
| manta | 1.5.0 | bio/manta/1.5.0 | |
| merlin | 1.1.2 | bio/merlin/1.1.2 | |
| miniconda-cadd | v1.6 | bio/miniconda-cadd/v1.6 | |
| msisensor-pro | 1.2.0 | bio/msisensor-pro/1.2.0 | |
| msisensor | 0.5 | bio/msisensor/0.5 | |
| mutserve | 2.0.0 | bio/mutserve/2.0.0 | |
| nextflow | 20.01.0 | bio/nextflow/20.01.0 | |
| nextflow | 21.04.3 | (D) | bio/nextflow/21.04.3 |
| ont-guppy-cpu | 3.5.2 | bio/ont-guppy-cpu/3.5.2 | |
| ont-guppy | 3.5.2 | bio/ont-guppy/3.5.2 | |
| ont-guppy | 4.0.14 | (D) | bio/ont-guppy/4.0.14 |
| pyCircos | 1 | bio/pyCircos/1.0 | |
| pyNBS | 0.1 | bio/pyNBS/0.1 | |
| samblaster | 0.1.25 | bio/samblaster/0.1.25 | |
| sniffles | 1.0.11 | bio/sniffles/1.0.11 | |
| somalier | 0.2.9 | bio/somalier/0.2.9 | |
| superSTR | 0.1 | bio/superSTR/0.1 | |
| svaba | 1.1.0 | bio/svaba/1.1.0 | |
| vcf2maf | 1.6.17 | bio/vcf2maf/1.6.17 | |
| vcfanno | 0.3.2 | bio/vcfanno/0.3.2 | |
| vt | 0.577-foss-2018b | bio/vt/0.577-foss-2018b | |
| illumina | Cyrius | bio/illumina/Cyrius/1.0 | |
| illumina | ExpansionHunter | bio/illumina/ExpansionHunter/2.5.5 | |
| illumina | ExpansionHunter | (D) | bio/illumina/ExpansionHunter/3.2.2 |
| illumina | ExpansionHunterDenovo | bio/illumina/ExpansionHunterDenovo/0.9.0 | |
| illumina | SMNCopyNumberCaller | bio/illumina/SMNCopyNumberCaller/1.1 | |
| illumina | paragraph | bio/illumina/paragraph/2.4a | |
| qctool | 2.0.7 | bio/qctool/2.0.7/qctool | |
| MCR | R2016a | math/MCR/R2016a/v901 |
List of Environment Modules restricted to academic usage
The software in this section has been released by their respective developpers under licenses which restrict the use of to academic or non-profit organisations, and will either prohibit or restrict commercial use of the tool.
Academic/restricted
| Tool | Version | Activation Path |
|---|---|---|
| MELT | 2.2.2 | /resources/tools/apps/restricted_academic/modules/academic-module/MELT/2.2.2 |
| AmpliconArchitecht | release Sep 2, 2020 | /resources/tools/apps/restricted_academic/modules/bio/AmpliconArchitect/ae1c040 |
| RFmix | 2.0.3.r0.9505bfa | /resources/tools/apps/restricted_academic/modules/bio/RFmix/9505bfa-foss-2019b |
| Annovar | November 2019 re | /resources/tools/apps/restricted_academic/modules/bio/annovar/Nov2019 |
| mosek | 8.0.0.60 | /resources/tools/apps/restricted_academic/modules/math/mosek/8.0.0.60 |
- No labels