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Crystallography Software at the SBC
Where?
On SBC Linux machines, application software is organized in version-specific subdirectories under /net/prog1.
How?
For command line suites, you need to type XXX-setup (where XXX represents the desired application),
which will give you an xterm from which you can run the XXX program commands.
For GUIs, and a subset of specific programs, type the command scripts located under /net/prog1/bin.
Command scripts are in your path for the following programs:
| For: |
Type at the prompt: (case sensitive) |
GUI interfaces |
| ARP/wARP |
ccp4i |
| ccp4i |
ccp4i |
| Coot |
coot |
| hkl2map (shelx) |
hkl2map |
| HKL3000 |
HKL3000 |
| Mosflm |
mosflm, imosflm |
| O |
ono |
| phenix |
phenix |
| PyMOL |
pymol |
| SnB |
SnB |
| XtalView |
xfit, xtalmgr, or ccp4i |
| xprep |
xprep |
Command line suites** |
| CCI Apps (phenix.xtriage, phenix.hyss, etc.) |
cci-setup |
| CCP4 |
ccp4-setup |
| CNS |
cns-setup |
| SHELX-97 |
shelx-setup |
| Solve/Resolve |
solve-setup |
Some USF programs |
| dataman |
dataman |
| mapman |
mapman |
| moleman |
moleman |
| moleman2 |
moleman2 |
| Seq2comp.f |
seq2comp |
**The setup scripts produce a light gray xterm. Within this window, the suite should be fully functional.
Some web sites of interest to SBC users:
APS Storage Ring Status
Atomic Scattering Factor Files
BnP
Book of Fourier
CCI Apps
CCP4
CNS
COOT
European Bioinformatics Institute
ExPASy Proteomics Server
HKL
MolProbity
mosflm
NCBI
O
PDB
Protein Crystallography Course
PyMOL
SHELX
SnB
Solve/Resolve
TargetDB
Twinning server
Uppsala Software Factory
X-ray Anomalous Scattering
XtalView
MEC 06/10
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