science/vmd 1.9.4_3 FreeBSD
Molecular visualization program
- System
- FreeBSD
- Repository
- FreeBSD ports
- Maintainer
- [email protected]
- License
- VMD, BSD3CLAUSE, STRIDE
- Categories
- science, graphics, python, tcl, tk
Description
VMD (Visual Molecular Dynamics) is a molecular visualization program for displaying, animating, and analyzing large biomolecular systems. It utilizes 3D graphics and built-in scripting (Tcl and Python) for interactive exploration.
Key features include:
- Visualization of molecular dynamics simulations.
- Support for over 60 molecular file formats and data types.
- Various rendering styles (licorice, ribbons, van der Waals spheres).
- High-quality rendering, animation, and stereo display.
- Integrated analysis tools and custom scripting for advanced analysis.
- GPU acceleration and no inherent limits on molecular size.
- Cross-platform availability (Windows, macOS, and Linux).
Install
Binary package:
pkg install vmdFrom the ports tree:
cd /usr/ports/science/vmd/ && make install cleanTo depend on this port in another port's Makefile:
RUN_DEPENDS= vmd>0:science/vmdPackages
The version each package repository carries. “-” means the repository builds no package of it, “n/a” that there is no such repository.
| Repository | aarch64 | amd64 | armv6 | armv7 | i386 |
|---|---|---|---|---|---|
| FreeBSD:14:latest | - | - | - | - | - |
| FreeBSD:14:quarterly | - | - | n/a | - | - |
| FreeBSD:15:latest | - | - | n/a | - | - |
| FreeBSD:15:quarterly | - | - | n/a | n/a | n/a |
| FreeBSD:16:latest | - | - | n/a | n/a | n/a |
| FreeBSD:16:quarterly | n/a | n/a | n/a | n/a | n/a |
Dependencies
As this port's Makefile names them.
Build 2
makedepend: devel/makedepend${PYTHON_PKGNAMEPREFIX}numpy>=1.16: math/py-numpy
Library 3
libexpat.so: textproc/expat2libfltk.so: x11-toolkits/fltklibnetcdf.so: science/netcdf
Runtime 1
${PYTHON_PKGNAMEPREFIX}numpy>=1.16: math/py-numpy
The full lists below include those, and their dependencies in turn.
Build dependencies 54
- archivers/brotli
- archivers/liblz4
- archivers/zstd
- databases/sqlite3
- devel/binutils
- devel/gettext-runtime
- devel/gmake
- devel/libedit
- devel/libffi
- devel/libunistring
- devel/makedepend
- devel/pkgconf
- devel/readline
- dns/libidn2
- dns/libpsl
- ftp/curl
- graphics/jpeg-turbo
- graphics/libGLU
- graphics/libglvnd
- graphics/png
- lang/gcc14
- lang/perl5.42
- lang/python312
- lang/tcl86
- math/gmp
- math/libtommath
- math/mpc
- math/mpdecimal
- math/mpfr
- math/openblas
- math/py-numpy
- print/freetype2
- print/indexinfo
- science/hdf5
- science/libaec
- science/netcdf
- security/libssh2
- textproc/expat2
- www/libnghttp2
- x11-fonts/fontconfig
- x11-fonts/libXft
- x11-toolkits/fltk
- x11-toolkits/tk86
- x11/libX11
- x11/libXScrnSaver
- x11/libXau
- x11/libXcursor
- x11/libXdmcp
- x11/libXext
- x11/libXfixes
- x11/libXinerama
- x11/libXrender
- x11/libxcb
- x11/xorgproto
Run dependencies 51
- archivers/brotli
- archivers/liblz4
- archivers/zstd
- databases/sqlite3
- devel/binutils
- devel/gettext-runtime
- devel/libedit
- devel/libffi
- devel/libunistring
- devel/pkgconf
- devel/readline
- dns/libidn2
- dns/libpsl
- ftp/curl
- graphics/jpeg-turbo
- graphics/libGLU
- graphics/libglvnd
- graphics/png
- lang/gcc14
- lang/python312
- lang/tcl86
- math/gmp
- math/libtommath
- math/mpc
- math/mpdecimal
- math/mpfr
- math/openblas
- math/py-numpy
- print/freetype2
- print/indexinfo
- science/hdf5
- science/libaec
- science/netcdf
- security/libssh2
- textproc/expat2
- www/libnghttp2
- x11-fonts/fontconfig
- x11-fonts/libXft
- x11-toolkits/fltk
- x11-toolkits/tk86
- x11/libX11
- x11/libXScrnSaver
- x11/libXau
- x11/libXcursor
- x11/libXdmcp
- x11/libXext
- x11/libXfixes
- x11/libXinerama
- x11/libXrender
- x11/libxcb
- x11/xorgproto
No port depends on this one.
Configuration
No options to configure.
- USES
- gl gmake perl5 python shebangfix sqlite tcl tk xorg
- Service scripts
- none
Files
pkg-plist 1447
- bin/vmd
- lib/vmd/.vmdrc
- lib/vmd/.vmdsensors
- lib/vmd/Announcement
- lib/vmd/LICENSE
- lib/vmd/README
- lib/vmd/doc/ug.pdf
- lib/vmd/plugins/%%VMD_ARCH%%/bin/catdcd5.2/catdcd
- lib/vmd/plugins/%%VMD_ARCH%%/bin/cionize1.0/cionize
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/abinitplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/amiraplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/avsplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/babelplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/basissetplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/bgfplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/binposplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/biomoccaplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/brixplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/carplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/ccp4plugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/corplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/cpmdplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/crdplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/cubeplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/dcdplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/dlpolyplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/dmsplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/dsn6plugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/dtrplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/dxplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/edmplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/fs4plugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/gamessplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/graspplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/grdplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/gridplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/gromacsplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/hoomdplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/jsplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/lammpsplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/libmolfile_plugin.a
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/libmolfile_plugin.h
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/maeffplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/mapplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/mdfplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/mol2plugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/moldenplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/molemeshplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/msmsplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/namdbinplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/netcdfplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/offplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/parm7plugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/parmplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/pbeqplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/pdbplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/pdbxplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/phiplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/pltplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/plyplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/pqrplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/psfplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/raster3dplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/rst7plugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/situsplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/spiderplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/stlplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/tinkerplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/uhbdplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/vasp5xdatcarplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/vaspchgcarplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/vaspoutcarplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/vaspparchgplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/vaspposcarplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/vaspxdatcarplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/vaspxmlplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/vtfplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/vtkplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/webpdbplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/xbgfplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/xsfplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/molfile/xyzplugin.so
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/autopsf1.8/autopsf.tcl
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/autopsf1.8/pkgIndex.tcl
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/autopsf1.8/psfcheck.so
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/bossconvert1.0/Topology
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/bossconvert1.0/bossconvert.tcl
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/bossconvert1.0/imprlist
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/bossconvert1.0/oplsaa.par
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/bossconvert1.0/oplsaa.sb
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/bossconvert1.0/pkgIndex.tcl
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/cionize1.0/cionize.tcl
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/cionize1.0/pkgIndex.tcl
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/clustalw1.1/clustalw
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/clustalw1.1/clustalw.tcl
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/clustalw1.1/clustalw_help
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/clustalw1.1/pkgIndex.tcl
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/hesstrans1.0/hesstrans.so
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/hesstrans1.0/pkgIndex.tcl
- lib/vmd/plugins/%%VMD_ARCH%%/tcl/libbiokit1.1/libbiokit.tcl
The first 100 are listed.
distinfo 3
| File | Size | SHA256 |
|---|---|---|
| vmd-1.9.4a57.src.tar.gz | 4.315512e+07 | de278d0c5d969336d89068e0806fb50aaa0cb0f546ba985d840b279357860679 |
| tachyon-0.99b6.tar.gz | 2.981568e+06 | f4dcaf9c76a4f49310f56254390f9611c22e353947a1745a8c623e8bc8119b97 |
| stride.tar.gz | 318997 | 51a8bc2988bb184bd08216124f61725225bb1a6f563bdf8cd35154cb5d621c1a |
Master sites 5
- http://jedi.ks.uiuc.edu/~johns/raytracer/files/0.99b6/:tachyon
- http://www.phoronix-test-suite.com/benchmark-files/:tachyon
- http://www.photonlimited.com/~johns/tachyon/files/0.99b6/:tachyon
- http://webclu.bio.wzw.tum.de/stride/:stride
- ftp://ftp.ebi.ac.uk/pub/software/unix/stride/src/:stride
Commit history 0
No commits in the history this site was built from.