pipeline:window:e2boxer
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pipeline:window:e2boxer [2018/06/20 13:12] 127.0.0.1 external edit |
pipeline:window:e2boxer [2018/08/22 10:45] fmerino |
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| ===== Input ===== | ===== Input ===== | ||
| === Main Parameters === | === Main Parameters === | ||
| - | ; input_micrograph_list : Input micrograph list: Wild cards (e.g. *) can be used to specify a list of micrographs. Not recommended if the number is very large. (default required string) | + | ; input_micrograph_list : Input micrograph list: Wild cards (e.g. *) can be used to specify a list of micrographs. Not recommended if their number is very large. (default required string) |
| ; %%--%%apix : Pixel size [A]: Angstroms per pixel for all images. (default -1) | ; %%--%%apix : Pixel size [A]: Angstroms per pixel for all images. (default -1) | ||
| ; %%--%%boxsize : Box size [Pixels]: Box size in pixels. (default -1) | ; %%--%%boxsize : Box size [Pixels]: Box size in pixels. (default -1) | ||
| ; %%--%%ptclsize : Particle diameter [Pixels]: Longest axis of particle in pixels (diameter, not radius). (default -1) | ; %%--%%ptclsize : Particle diameter [Pixels]: Longest axis of particle in pixels (diameter, not radius). (default -1) | ||
| - | ; %%--%%invert : Invert input contrast: | + | ; %%--%%invert : Invert input contrast: |
| ; %%--%%no_ctf : Disable CTF estimation: Disable CTF estimation. (default False) | ; %%--%%no_ctf : Disable CTF estimation: Disable CTF estimation. (default False) | ||
| ; %%--%%gui : Interactive GUI mode: Use interactive GUI mode. (default False) | ; %%--%%gui : Interactive GUI mode: Use interactive GUI mode. (default False) | ||
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| ; %%--%%ac : Amplitude contrast [%]: The typical amplitude contrast is in the range of 7% - 14%. The value mainly depends on the thickness of the ice embedding the particles. (default 10.0) | ; %%--%%ac : Amplitude contrast [%]: The typical amplitude contrast is in the range of 7% - 14%. The value mainly depends on the thickness of the ice embedding the particles. (default 10.0) | ||
| ; %%--%%autopick : Perform automatic particle picking: Provide mode and parameter string (eg - auto_local: | ; %%--%%autopick : Perform automatic particle picking: Provide mode and parameter string (eg - auto_local: | ||
| - | ; %%--%%threads : Number of threads: Number of threads to run in parallel on a single computer, when multi-computer parallelism isn't useful. (default 4) | + | ; %%--%%threads : Number of threads: Number of threads to run in parallel on a single computer. (default 4) |
| ; %%--%%ppid : Parent process PID: Set the PID of the parent process, used for cross platform PPID. (default -1) | ; %%--%%ppid : Parent process PID: Set the PID of the parent process, used for cross platform PPID. (default -1) | ||
| ; %%--%%verbose : Use verbose mode: Specify verbose level [0-9]. Higner number means higher level of verboseness. (default 0) | ; %%--%%verbose : Use verbose mode: Specify verbose level [0-9]. Higner number means higher level of verboseness. (default 0) | ||
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| \\ | \\ | ||
| ==== Bugs ==== | ==== Bugs ==== | ||
| - | |||
pipeline/window/e2boxer.txt ยท Last modified: 2019/04/02 09:21 by lusnig
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