| -2D* | generates 2D spectra, and simple (non-GHLB) 1D extractions |
| -all | generates pipelines for all targets |
| -blue | option generates pipelines for blue frames |
| -date DATE | option generates pipelines for specific date |
| -db DATABASE | database file |
| -dkx FLOAT | set non-standard knot spacing for skysub |
| -flatblue FLATBLUE | location to a specific flatblue frame |
| -flatkey FLATSTRING | string to search for flat frames in database file |
| -flatred FLATRED | location to a specific flatred frame |
| -fringe FRINGE | location to a specific fringe frame |
| -fringekey FRINGESTRING | string to search for fringe frames in database file |
| -ignore | sets ignore string |
| -individual | separate extractions |
| -lampblue LAMPBLUE | location to a specific lampblue frame |
| -lampkey LAMPSTRING | string to search for lamp frames in database file |
| -lampred LAMPRED | location to a specific lampred frame |
| -logb | option bins extracted spectra logarithmically in wavelength |
| -mk MAKEFILE | creates a makefile for multiple targets |
| -nofake | do not make model spectra (less time to run) |
| -noobjects | (a) Compute sky masks instead of sky apertures; construct wide/dummy extraction apertures, and in 2D mode do not extract 1D spectra |
| -noskyaps | Do not compute sky apertures or masks |
| -noslitfn | option skips the generation and usage of a slit function |
| -onlyflat | Only generate the flatfield pipelines |
| -onlylamp | Only generate the comparison lamp pipelines |
| -orderkey ORDERSTRING | string to search for order frames in database file |
| -orderspan | Optional comma-separated pair of column coordinates to specify portion of data frames to be reduced (e.g. To reduce the reddest 500 columns, use "-orderspan 0,500") |
| -red | option generates pipelines for red frames |
| -rn | Read noise, in electrons, if the header values are not to be used |
| -skykey | String to identify science frames to be used as sky frames |
| -skyshift | Use sky lines to compute zero-point shifts in the red wavelength solutions [unstable] |
| -slitblue SLITBLUE | location to a specific slitblue frame |
| -slitred SLITRED | location to a specific slitred frame |
