Software
Software that is installed or is to be installed on the workstations
Packages tagged src will be added to a local yum repository on compbio bold = newly added Related: SEE - yum_repo and building_rpms
| Package name | Installation state | Notes |
|---|---|---|
| checkinstall |
|
See checkinstall_patch. SEE: /usr/src/redhat/RPMS/x86_64/checkinstall-1.6.1-1.x86_64.rpm |
| kile |
|
|
| apbs |
|
src and binary. |
| molmol |
|
Will buy beer if you can get this one working |
| pymol |
|
src - no up-to-date binaries are provided now without a license
python setup.py build python setup.py install python setup2.py install python setup2.py uninstall cp ./pymol /usr/local/bin |
| pdfedit |
|
|
| emacs |
|
|
| gnuplot |
|
|
| gtk |
|
|
| gtk-devel |
|
|
| xplor-nih |
|
binary only
Could not run the test-scripts ! Check !!! |
| clustal |
|
src and binary |
| modeller |
|
REQUIRES LIC: # env KEY_MODELLER9v2=XXXX rpm -Uvh modeller-9v2-1.i386.rpm |
| openGL |
|
is this free-glut ? |
| rasmol |
|
src and binary |
| seqview |
|
Need url please |
| treeview |
|
src |
| electric fence library |
|
|
| phylip |
|
src and binary |
| blast |
|
BLAST and wwwblast + Human EST DB for testing |
| VMD |
|
src. In /opt |
| povray |
|
src. /usr/src/redhat/RPMS/x86_64/povray-3.6.1-3.fc7.x86_64.rpm |
| mead |
|
Need url please |
| spdb |
|
Don't believe is possible - do it yourself/show me !!! See *
OK - I have found a src rpm. These are the steps I carried out as I could not rebuild directly rpm -iUvh spdbv-3.7.5-3.src.rpm vi /usr/src/redhat/SPECS/spdbv.spec replace Copyright with License rpmbuild -ba /usr/src/redhat/SPECS/spdbv.spec WE NOW HAVE: /usr/src/redhat/RPMS/x86_64/spdbv-3.7.5-3.x86_64.rpm |
| rxvt |
|
|
| xterm |
|
|
| GROMACS |
|
src |
| GROMOS |
|
src |
| gv |
|
|
| xemacs |
|
|
| zsh |
|
|
| vim |
|
|
| lam_mpi |
|
src |
| mplayer |
|
No codecs installed |
| vlc |
|
|
| fftw |
|
src |
| R |
|
|
| xmms-mp3 |
|
installed AUDACIOUS instead |
| flash |
|
|
| shockwave | ? | Is this available for linux? Does flash take care of this? |
| acrobat |
|
|
| xmgrace |
|
Requires: Motif/LessTif yum install lesstif (note: only i386 available) yum install grace (note: installs fftw2 |
| firefox |
|
|
| thunderbird |
|
|
| nedit |
|
|
| java |
|
Currently in: /opt/jdk1.6.0_02/ WILL move someone more convenient location SOON. |
| xine |
|
Bioinformatics/Computational Biology/X-ray Crystallography rpm repositories
- http://serine.umdnj.edu/~golharam/biorpms/downloads.php
- http://biopackages.net/
- http://www.biolinux.org/wiki/index.php/Main_Page
- http://uberh4x0r.org/~yax/biorpm/
- http://apt.bea.ki.se/
- http://apt.bioxray.dk/rhel/el4/x86_64/html/index_xray.html
Fedora Software Groups
- To create rpm's for the correct group
Amusements/Games
Amusements/Graphics
Applications/Archiving
Applications/Communications
Applications/Databases
Applications/Editors
Applications/Emulators
Applications/Engineering
Applications/File
Applications/Internet
Applications/Multimedia
Applications/Productivity
Applications/Publishing
Applications/System
Applications/Text
Development/Debuggers
Development/Languages
Development/Libraries
Development/System
Development/Tools
Documentation
System Environment/Base
System Environment/Daemons
System Environment/Kernel
System Environment/Libraries
System Environment/Shells
User Interface/Desktops
User Interface/X
User Interface/X Hardware Support
