Software: Difference between revisions
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|See [[checkinstall_patch]]. SEE: /usr/src/redhat/RPMS/x86_64/checkinstall-1.6.1-1.x86_64.rpm | |See [[checkinstall_patch]]. SEE: /usr/src/redhat/RPMS/x86_64/checkinstall-1.6.1-1.x86_64.rpm | ||
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Revision as of 05:25, 12 August 2007
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 | Y | |
| apbs | N | src and binary. |
| molmol | N | Will buy beer if you can get this one working |
| pymol | Y | 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 | Y | |
| emacs | Y | |
| gnuplot | Y | |
| gtk | Y | |
| gtk-devel | Y | |
| xplor-nih | Y | binary only
Could not run the test-scripts ! Check !!! |
| clustal | N | src and binary |
| modeller | N | REQUIRES LIC: # env KEY_MODELLER9v2=XXXX rpm -Uvh modeller-9v2-1.i386.rpm |
| openGL | Y | is this free-glut ? |
| rasmol | N | src and binary |
| seqview | N | Need url please |
| treeview | N | src |
| electric fence library | Y | |
| phylip | N | src and binary |
| blast | N | BLAST and wwwblast + Human EST DB for testing |
| VMD | N | src |
| povray | N | src. /usr/src/redhat/RPMS/x86_64/povray-3.6.1-3.fc7.x86_64.rpm |
| mead | N | Need url please |
| spdb | N | 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 | Y | |
| xterm | Y | |
| GROMACS | N | src MD GROUP CAN DO THIS ONE |
| GROMOS | N | src MD GROUP CAN DO THIS ONE |
| gv | Y | |
| xemacs | Y | |
| zsh | Y | |
| vim | Y | |
| lam_mpi | N | src MD GROUP CAN DO THIS ONE |
| mplayer | Y | No codecs installed |
| vlc | Y | |
| fftw | N | src MD GROUP CAN DO THIS ONE |
| R | Y | |
| xmms-mp3 | Y | installed AUDACIOUS instead |
| flash | Y | |
| shockwave | ? | Is this available for linux? Does flash take care of this? |
| acrobat | Y | |
| xmgrace | Y |
Requires: Motif/LessTif yum install lesstif (note: only i386 available) yum install grace (note: installs fftw2 |
| firefox | Y | |
| thunderbird | Y | |
| nedit | Y | |
| java | Y | Currently in: /opt/jdk1.6.0_02/ WILL move someone more convenient location SOON. |
| xine | Y |
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
