Software: Difference between revisions
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Revision as of 03:13, 14 August 2007
Software that is installed or is to be installed on the workstations
This is a listing of the 3rd-party packages are currently installed on the workstations. This list has been compiled by Mitchell Stanton-Cook
Packages tagged From SRC rpm will be added to a local yum repository on compbio bold = newly added Related: SEE - yum_repo and building_rpms LEGEND: Have been installed/tested Close to working Have not been installed/tested Need more information A MD Group member will need to install this
Package name | Version | Installed | Tested | 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. In /opt | |||
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 !!! | |||
clustalw and clustalx | Clustalw(INSTALLED): From SRC rpm
/usr/src/redhat/RPMS/x86_64/clustalw-1.83-0.fdr.5.x86_64.rpm Clustalx: From SRC rpm NCBI-devel is needed by clustalx-1.8.3-2a.x86_64 | |||
modeller | REQUIRES LIC: # env KEY_MODELLER9v2=XXXX rpm -Uvh modeller-9v2-1.i386.rpm | |||
openGL | is this free-glut ? | |||
rasmol | From SRC rpm. /usr/src/redhat/RPMS/x86_64/rasmol-2.7.2.1.1-3.x86_64.rpm | |||
seqview | Need url please | |||
treeview | src. In /opt
Requires: wxGTK Have a compilation error | |||
electric fence library | ||||
phylip | Tried building from SRC rpm.
BUT, EMBOSS-devel = 5.0.0 is needed by PHYLIP-3.6b-6.x86_64 I have built from pure src. in /opt. Have not make links to /usr/local/bin | |||
blast | From binary. In /opt
No DB installed TODO: Install wwwblast on compbio | |||
VMD | From src. In /opt
I will try to create a rpm package for this. | |||
povray | From SRC rpm. /usr/src/redhat/RPMS/x86_64/povray-3.6.1-3.fc7.x86_64.rpm | |||
mead | Need url please | |||
spdb | Building from 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 /usr/src/redhat/RPMS/x86_64/spdbv-3.7.5-3.x86_64.rpm libXm.so.3 is needed by spdbv-3.7.5-3.x86_64 - This is provided by OpenMotif? | |||
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 | ||||
wxMaxima |