Actions
Installing Appion with an existing Leginon installation¶
Make sure you have the latest version of Leginon installed. Then follow the steps below to install image processing packages on your Processing Server.
Package alias table¶
Those not mentioned here uses the original names in the call.
| program package name | version | appion executable alias | Accessible |
| MotionCor2 | 1.0.2 | motioncor2 | shell |
| motioncorr v2.0 from Purdue | 2.0 | dosefgpu_driftcorr | shell |
| DE_process_frames.py | 2.7.1 | deProcessFrames.py | pythonpath |
| ctffind4 | 4.1.5 | ctffind4 | shell |
| Gctf | 1.06 | gctfCurrent | shell |
| ctftilt | 1.5 | ctftilt.exe | shell |
| FindEM | 20/10/01 | findem64.exe | shell |
| Gautomatch | 0.53 | gautomatch | shell |
| Spider | 18.10 | spider | shell |
| frealign | 9.11 | frealign_v9.exe and frealign_v9_mp.exe | shell |
| xmipp2 cl2d* | 2.4 | xmipp_mpi_class_averages | shell |
| xmipp3 cl2d* | 3.1 | xmipp_classify_CL2D | shell |
| EMAN1 proc2d | 1.9 | proc2d | shell |
- default environment is xmipp2. All other xmipp functions wraps around xmipp2.
- xmipp3 conflict with xmipp2 is resolved in appion/bin/runXmipp3CL2D.py with a line of code
csh -c 'modulecmd python load xmipp/3.1'
Change it if desired.
Updated by Anchi Cheng almost 7 years ago · 6 revisions