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from pyraf import iraf
from pyraf.irafpar import makeIrafPar, IrafParList
from stsci.tools.irafglobals import *
from pyraf.pyrafglobals import *


def ReduceARCES(mode='ql', DOLLARnargs=1, taskObj=None):
    Vars = IrafParList('ReduceARCES')
    Vars.addParam(makeIrafPar(mode, datatype='string', name='mode', mode='h'))
    Vars.addParam(

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from shampoo.reconstruction import Hologram
import numpy as np
import h5py

# Load the USAF test target hologram
h = Hologram.from_tif('data/USAF_test.tif')

# Make lists for holding the phase and intensity of each reconstruction
phases = []
intensities = []

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Python Packaging Tutorial

Brett Morris

Packaging references

• astropy package-template tutorial
• Simplified project structure reference
• Python 3 official packaging reference
• reStructuredText cheat sheet for Sphinx documentation
• Reference on 2->3 compatibility

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setinst echelle
hedit *.fits dispaxis 1 add=yes verify=no show=yes update=yes
!ls *fits | grep -v 'bias' > inlist
!sed s/.fits/.c.fits/ inlist > outlist
cosmicrays (input="@inlist", output="@outlist", answer="yes", crmasks="", threshold=50.0, fluxratio=10.0, npasses=20, window="5", interactive=no, train=no,objects="", savefile="", plotfile="")
!ls bias*fits > biaslist
zerocombine (input="@biaslist", output="Zero.fits", combine="average", reject="avsigclip", ccdtype="", process=no, delete=no, clobber=no, scale="none", nlow=0, nhigh=1, nkeep=1, mclip=yes, lsigma=3.0, hsigma=3.0, rdnoise="7", gain="3.8", snoise="0.")
!cp outlist inlist
!sed s/.c.fits/.pc.fits/ inlist > outlist
ccdproc (images="@inlist", output="@outlist", ccdtype="", fixpix = yes, overscan=no, trim=yes, zerocor=yes, darkcor=no, flatcor=no, illumcor=no, fringecor=no, readcor=no, scancor=no, readaxis="line", fixfile = "database/badpix.txt", biassec="", trimsec="[200:1850,1:2048]", zero="Zero.fits", dark="", flat="", illum="", fringe="", minreplace

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"""
Run with

mpiexec -n 11 mpi_goose_chase.py
"""
from __future__ import print_function
from mpi4py import MPI
import numpy as np
import time

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Getting Started with XSEDE/OSG

Logging in

Login to the XSEDE login node with:

ssh [email protected]

Login to the Open Science Grid:

gsissh submit-1.osg.xsede.org

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