Software: Difference between revisions
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|'''checkinstall''' | |'''checkinstall''' | ||
| | | | ||
[[Image:Tick.jpg| | [[Image:Tick.jpg|Yes]] | ||
|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 | ||
|- | |- | ||
|'''kile''' | |'''kile''' | ||
| | | | ||
[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
|'''apbs''' | |'''apbs''' | ||
| | | | ||
[[Image:Cross.jpg|No]] | |||
|src and binary. | |src and binary. | ||
|- | |- | ||
|molmol | |molmol | ||
| | | | ||
[[Image:Cross.jpg|No]] | |||
|Will buy beer if you can get this one working | |Will buy beer if you can get this one working | ||
|- | |- | ||
|pymol | |pymol | ||
| | | | ||
[[Image:Tick.jpg|Yes]] | |||
|src - no up-to-date binaries are provided now without a license | |src - no up-to-date binaries are provided now without a license | ||
python setup.py build | python setup.py build | ||
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|- | |- | ||
|'''pdfedit''' | |'''pdfedit''' | ||
| | | | ||
[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
|emacs | |emacs | ||
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[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
|gnuplot | |gnuplot | ||
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[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
|gtk | |gtk | ||
| | | | ||
[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
|gtk-devel | |gtk-devel | ||
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[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
|xplor-nih | |xplor-nih | ||
| | | | ||
[[Image:Tick.jpg|Yes]] | |||
|binary only | |binary only | ||
Could not run the test-scripts ! Check !!! | Could not run the test-scripts ! Check !!! | ||
|- | |- | ||
|clustal | |clustal | ||
| | | | ||
[[Image:Cross.jpg|No]] | |||
|src and binary | |src and binary | ||
|- | |- | ||
|modeller | |modeller | ||
| | | | ||
[[Image:Cross.jpg|No]] | |||
|REQUIRES LIC: # env KEY_MODELLER9v2=XXXX rpm -Uvh modeller-9v2-1.i386.rpm | |REQUIRES LIC: # env KEY_MODELLER9v2=XXXX rpm -Uvh modeller-9v2-1.i386.rpm | ||
|- | |- | ||
|openGL | |openGL | ||
| | | | ||
[[Image:Tick.jpg|Yes]] | |||
|is this free-glut ? | |is this free-glut ? | ||
|- | |- | ||
|rasmol | |rasmol | ||
| | | | ||
[[Image:Cross.jpg|No]] | |||
|src and binary | |src and binary | ||
|- | |- | ||
|seqview | |seqview | ||
| | | | ||
[[Image:Cross.jpg|No]] | |||
|'''Need url please''' | |'''Need url please''' | ||
|- | |- | ||
|treeview | |treeview | ||
| | | | ||
[[Image:Cross.jpg|No]] | |||
|src | |src | ||
|- | |- | ||
|electric fence library | |electric fence library | ||
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[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
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|- | |- | ||
|blast | |blast | ||
| | | | ||
[[Image:Cross.jpg|No]] | |||
|BLAST and wwwblast + Human EST DB for testing | |BLAST and wwwblast + Human EST DB for testing | ||
|- | |- | ||
|VMD | |VMD | ||
| | | | ||
[[Image:Cross.jpg|No]] | |||
|src | |src | ||
|- | |- | ||
|povray | |povray | ||
| | | | ||
[[Image:Cross.jpg|No]] | |||
|src. /usr/src/redhat/RPMS/x86_64/povray-3.6.1-3.fc7.x86_64.rpm | |src. /usr/src/redhat/RPMS/x86_64/povray-3.6.1-3.fc7.x86_64.rpm | ||
|- | |- | ||
|mead | |mead | ||
| | | | ||
[[Image:Cross.jpg|No]] | |||
| '''Need url please''' | | '''Need url please''' | ||
|- | |- | ||
|spdb | |spdb | ||
| | | | ||
[[Image:Cross.jpg|No]] | |||
|Don't believe is possible - do it yourself/show me !!! See '''*''' | |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 | OK - I have found a src rpm. These are the steps I carried out as I could not rebuild directly | ||
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|- | |- | ||
|rxvt | |rxvt | ||
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[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
|xterm | |xterm | ||
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[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
|GROMACS | |GROMACS | ||
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[[Image:Cross.jpg|No]] | |||
|src '''MD GROUP CAN DO THIS ONE''' | |src '''MD GROUP CAN DO THIS ONE''' | ||
|- | |- | ||
|GROMOS | |GROMOS | ||
| | | | ||
[[Image:Cross.jpg|No]] | |||
|src '''MD GROUP CAN DO THIS ONE''' | |src '''MD GROUP CAN DO THIS ONE''' | ||
|- | |- | ||
|gv | |gv | ||
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[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
|xemacs | |xemacs | ||
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[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
|zsh | |zsh | ||
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[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
|vim | |vim | ||
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[[Image:Tick.jpg|Yes]] | |||
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|- | |- | ||
|lam_mpi | |lam_mpi | ||
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[[Image:Cross.jpg|No]] | |||
|src '''MD GROUP CAN DO THIS ONE''' | |src '''MD GROUP CAN DO THIS ONE''' | ||
|- | |- | ||
|mplayer | |mplayer | ||
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[[Image:Tick.jpg|Yes]] | |||
|No codecs installed | |No codecs installed | ||
|- | |- | ||
|vlc | |vlc | ||
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[[Image:Tick.jpg|Yes]] | |||
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|- | |- | ||
|fftw | |fftw | ||
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[[Image:Cross.jpg|No]] | |||
|src '''MD GROUP CAN DO THIS ONE''' | |src '''MD GROUP CAN DO THIS ONE''' | ||
|- | |- | ||
|R | |R | ||
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[[Image:Tick.jpg|Yes]] | |||
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|- | |- | ||
|xmms-mp3 | |xmms-mp3 | ||
| | | | ||
[[Image:Tick.jpg|Yes]] | |||
|installed AUDACIOUS instead | |installed AUDACIOUS instead | ||
|- | |- | ||
|flash | |flash | ||
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[[Image:Tick.jpg|Yes]] | |||
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|- | |- | ||
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|- | |- | ||
|acrobat | |acrobat | ||
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[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
|xmgrace | |xmgrace | ||
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[[Image:Tick.jpg|Yes]] | |||
| | | | ||
Requires: Motif/LessTif | Requires: Motif/LessTif | ||
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|- | |- | ||
|firefox | |firefox | ||
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[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
|thunderbird | |thunderbird | ||
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[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
|nedit | |nedit | ||
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[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|- | |- | ||
|java | |java | ||
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[[Image:Tick.jpg|Yes]] | |||
|Currently in: /opt/jdk1.6.0_02/ WILL move someone more convenient location SOON. | |Currently in: /opt/jdk1.6.0_02/ WILL move someone more convenient location SOON. | ||
|- | |- | ||
|'''xine''' | |'''xine''' | ||
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[[Image:Tick.jpg|Yes]] | |||
| | | | ||
|} | |} |
Revision as of 05:40, 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 | ||
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 | N | src and binary |
blast | BLAST and wwwblast + Human EST DB for testing | |
VMD | src | |
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 MD GROUP CAN DO THIS ONE | |
GROMOS | src MD GROUP CAN DO THIS ONE | |
gv | ||
xemacs | ||
zsh | ||
vim | ||
lam_mpi | src MD GROUP CAN DO THIS ONE | |
mplayer | No codecs installed | |
vlc | ||
fftw | src MD GROUP CAN DO THIS ONE | |
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