major = imhead(imagename=imagenames[1], mode="get", hdkey="beammajor")["value"]
minor = imhead(imagename=imagenames[1], mode="get", hdkey="beamminor")["value"]
pix = abs(imhead(imagename=imagenames[1], mode="list")["cdelt1"])
pixelsize = pix * 3600 * 180 / np.pi
beamarea = (major * minor * np.pi / (4 * np.log(2))) / (pixelsize**2)
ia.open(outmask)
mask = ia.getchunk()
labeled, j = scipy.ndimage.label(mask)
myhistogram = scipy.ndimage.measurements.histogram(labeled, 0, j + 1, j + 1)
object_slices = scipy.ndimage.find_objects(labeled)
threshold = beamarea * pixelmin
for i in range(j):
if myhistogram[i + 1] < threshold:
mask[object_slices[i]] = 0
ia.putchunk(mask)
ia.done()
### create momement maps for 12co10
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[0],
chans="16~32",
mask="mask_12CO10.mask",
thres=rms_co10 * 0)
### create momement maps for 12co21
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[1],
chans="16~32",
mask="mask_12CO21.mask",
thres=rms_co21 * 0)
beamarea = (major * minor * np.pi / (4 * np.log(2))) / (pixelsize**2)
ia.open(outmask)
mask = ia.getchunk()
labeled, j = scipy.ndimage.label(mask)
myhistogram = scipy.ndimage.measurements.histogram(labeled, 0, j + 1, j + 1)
object_slices = scipy.ndimage.find_objects(labeled)
threshold = beamarea * pixelmin
for i in range(j):
if myhistogram[i + 1] < threshold:
mask[object_slices[i]] = 0
ia.putchunk(mask)
ia.done()
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[0],
chans="5~80",
mask="mask_eso148.mask",
thres=0.002 * 6.5)
# ESO 286
myim.createmask(dir_data=dir_data,
imagename=imagenames[1].split("/")[-1],
thres=0.002 * 8.0,
outmask="mask_eso286.mask")
outmask = dir_data + "mask_eso286.mask"
os.system("cp -r " + outmask + " " + outmask + ".all")
major = imhead(imagename=imagenames[1], mode="get", hdkey="beammajor")["value"]
minor = imhead(imagename=imagenames[1], mode="get", hdkey="beamminor")["value"]
pix = abs(imhead(imagename=imagenames[1], mode="list")["cdelt1"])
pixelsize = pix * 3600 * 180 / np.pi
thres=rms * threshold_mask,
outmask="datacube.mask")
outmask = dir_data + "datacube.mask"
os.system("cp -r " + outmask + " " + outmask + ".all")
major = imhead(imagename=dir_data + imagename, mode="get",
hdkey="beammajor")["value"]
minor = imhead(imagename=dir_data + imagename, mode="get",
hdkey="beamminor")["value"]
pix = abs(imhead(imagename=dir_data + imagename, mode="list")["cdelt1"])
pixelsize = pix * 3600 * 180 / np.pi
beamarea = (major * minor * np.pi / (4 * np.log(2))) / (pixelsize**2)
ia.open(outmask)
mask = ia.getchunk()
labeled, j = scipy.ndimage.label(mask)
myhistogram = scipy.ndimage.measurements.histogram(labeled, 0, j + 1, j + 1)
object_slices = scipy.ndimage.find_objects(labeled)
threshold = beamarea * pixelmin
for i in range(j):
if myhistogram[i + 1] < threshold:
mask[object_slices[i]] = 0
ia.putchunk(mask)
ia.done()
### create momement maps
myim.moment_maps(dir_data=dir_data,
imagename=dir_data + imagename,
chans=chans,
mask="datacube.mask",
thres=rms * threshold_moment)
ia.open(outmask)
mask = ia.getchunk()
labeled, j = scipy.ndimage.label(mask)
myhistogram = scipy.ndimage.measurements.histogram(labeled, 0, j + 1, j + 1)
object_slices = scipy.ndimage.find_objects(labeled)
threshold = beamarea * pixelmin
for i in range(j):
if myhistogram[i + 1] < threshold:
mask[object_slices[i]] = 0
ia.putchunk(mask)
ia.done()
### create momement maps for c18o10
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[0],
chans="1~11",
mask="mask_C18O.mask",
thres=0.00075 * 2.5)
### create momement maps for ch3oh
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[1],
chans="1~11",
mask="mask_C18O.mask",
thres=0.0007 * 2.5)
### create momement maps for cs21
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[2],
chans="1~11",
mask="mask_C18O.mask",
beamarea = (major * minor * np.pi / (4 * np.log(2))) / (pixelsize**2)
ia.open(outmask)
mask = ia.getchunk()
labeled, j = scipy.ndimage.label(mask)
myhistogram = scipy.ndimage.measurements.histogram(labeled, 0, j + 1, j + 1)
object_slices = scipy.ndimage.find_objects(labeled)
threshold = beamarea * pixelmin
for i in range(j):
if myhistogram[i + 1] < threshold:
mask[object_slices[i]] = 0
ia.putchunk(mask)
ia.done()
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[0],
chans="15~40",
mask="mask_eso148_hcn.mask",
thres=0.0005 * 2.7)
# hco_plus43
myim.createmask(dir_data=dir_data,
imagename=imagenames[1].split("/")[-1],
thres=0.0006 * 2.3,
outmask="mask_eso148_hco_plus.mask")
outmask = dir_data + "mask_eso148_hco_plus.mask"
os.system("cp -r " + outmask + " " + outmask + ".all")
major = imhead(imagename=imagenames[1], mode="get", hdkey="beammajor")["value"]
minor = imhead(imagename=imagenames[1], mode="get", hdkey="beamminor")["value"]
pix = abs(imhead(imagename=imagenames[1], mode="list")["cdelt1"])
pixelsize = pix * 3600 * 180 / np.pi
pixelsize = pix * 3600 * 180 / np.pi
beamarea = (major * minor * np.pi / (4 * np.log(2))) / (pixelsize**2)
ia.open(outmask)
mask = ia.getchunk()
labeled, j = scipy.ndimage.label(mask)
myhistogram = scipy.ndimage.measurements.histogram(labeled, 0, j + 1, j + 1)
object_slices = scipy.ndimage.find_objects(labeled)
threshold = beamarea * pixelmin
for i in range(j):
if myhistogram[i + 1] < threshold:
mask[object_slices[i]] = 0
ia.putchunk(mask)
ia.done()
myim.moment_maps(dir_data=dir_data,
imagename=imagename,
chans=chans,
mask=maskname,
thres=thres2)
### NGC 1614
os.system("rm -rf " + dir_data + "mask2.image")
imagename = imagenames[0]
thres = 0.0014 * 2.
thres2 = 0.0014 * 2.5
maskname = "ngc1614.mask"
chans = "1~28"
myim.createmask(dir_data=dir_data,
imagename=imagename,
thres=thres,
outmask=maskname)
im_12co10 = images_cube[0]
im_12co21 = images_cube[1]
im_ci10 = images_cube[2]
rms_12co10 = 0.003
rms_12co21 = 0.0015
rms_ci10 = 0.007
### create mask for each moment map
myim.createmask(dir_data=dir_data,
imagename=im_12co10.split("/")[-1],
thres=rms_12co10 * 4.,
outmask="12co10.mask")
myim.moment_maps(dir_data=dir_data,
imagename=im_12co10,
chans="18~75",
mask="12co10.mask",
thres=rms_12co10 * 4.)
myim.createmask(dir_data=dir_data,
imagename=im_12co21.split("/")[-1],
thres=rms_12co21 * 4.,
outmask="12co21.mask")
myim.moment_maps(dir_data=dir_data,
imagename=im_12co21,
chans="18~75",
mask="12co21.mask",
thres=rms_12co21 * 4.)
myim.createmask(dir_data=dir_data,
imagename=im_ci10.split("/")[-1],
ia.open(outmask)
mask = ia.getchunk()
labeled, j = scipy.ndimage.label(mask)
myhistogram = scipy.ndimage.measurements.histogram(labeled, 0, j + 1, j + 1)
object_slices = scipy.ndimage.find_objects(labeled)
threshold = beamarea * pixelmin
for i in range(j):
if myhistogram[i + 1] < threshold:
mask[object_slices[i]] = 0
ia.putchunk(mask)
ia.done()
### create momement maps for 12co10
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[0],
chans="14~40",
mask="mask_12CO.mask",
thres=-10.)
### create momement maps for 12co21
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[1],
chans="12~41",
mask="mask_12CO.mask",
thres=-10.)
### create momement maps for 13co10
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[2],
chans="17~38",
mask="mask_13CO.mask",
im_13co10 = "line_13co10_contsub_clean20_nat_uv_smooth.image.moment0"
im_13co21 = "line_13co21_contsub_clean20_nat_smooth.image.moment0"
#####################
### Main Procedure
#####################
### create cube mask
imagenames = glob.glob(dir_data + "*.image")
myim.createmask(dir_data=dir_data,
imagename=imagenames[0].split("/")[-1],
thres=-1.0)
### create momement maps
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[0],
chans="14~40",
mask="mask1.image",
thres=-1.0)
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[1],
chans="12~41",
mask="mask1.image",
thres=-1.0)
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[2],
chans="17~38",
mask="mask1.image",
thres=-1.0)
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[3],
chans="16~40",
ia.open(outmask)
mask = ia.getchunk()
labeled, j = scipy.ndimage.label(mask)
myhistogram = scipy.ndimage.measurements.histogram(labeled, 0, j + 1, j + 1)
object_slices = scipy.ndimage.find_objects(labeled)
threshold = beamarea * pixelmin
for i in range(j):
if myhistogram[i + 1] < threshold:
mask[object_slices[i]] = 0
ia.putchunk(mask)
ia.done()
### create momement maps for 12co10
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[0],
chans="18~75",
mask="mask_12CO.mask",
thres=rms_co * 3.0)
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[1],
chans="18~75",
mask="mask_12CO.mask",
thres=rms_co * 3.0)
### create momement maps for 12co21
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[2],
chans="18~75",
mask="mask_12CO.mask",
thres=rms_co * 3.)
ia.open(outmask)
mask = ia.getchunk()
labeled, j = scipy.ndimage.label(mask)
myhistogram = scipy.ndimage.measurements.histogram(labeled, 0, j + 1, j + 1)
object_slices = scipy.ndimage.find_objects(labeled)
threshold = beamarea * pixelmin
for i in range(j):
if myhistogram[i + 1] < threshold:
mask[object_slices[i]] = 0
ia.putchunk(mask)
ia.done()
### create momement maps for CI10
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[1],
chans="7~35",
mask="mask_i18293.mask",
thres=rms_i18293 * 5.5)
# NGC 5104
myim.createmask(dir_data=dir_data,
imagename=imagenames[2].split("/")[-1],
thres=rms_n5104 * 3.0,
outmask="mask_n5104.mask")
outmask = dir_data + "mask_n5104.mask"
os.system("cp -r " + outmask + " " + outmask + ".all")
major = imhead(imagename=imagenames[2], mode="get", hdkey="beammajor")["value"]
minor = imhead(imagename=imagenames[2], mode="get", hdkey="beamminor")["value"]
pix = abs(imhead(imagename=imagenames[2], mode="list")["cdelt1"])
pixelsize = pix * 3600 * 180 / np.pi
# ESO 148
myim.createmask(dir_data=dir_data,
imagename=imagenames[0].split("/")[-1],
thres=0.00018 * 2.,
outmask="mask_irasf00182.mask")
outmask = dir_data + "mask_irasf00182.mask"
os.system("cp -r " + outmask + " " + outmask + ".all")
major = imhead(imagename=imagenames[0], mode="get", hdkey="beammajor")["value"]
minor = imhead(imagename=imagenames[0], mode="get", hdkey="beamminor")["value"]
pix = abs(imhead(imagename=imagenames[0], mode="list")["cdelt1"])
pixelsize = pix * 3600 * 180 / np.pi
beamarea = (major * minor * np.pi / (4 * np.log(2))) / (pixelsize**2)
ia.open(outmask)
mask = ia.getchunk()
labeled, j = scipy.ndimage.label(mask)
myhistogram = scipy.ndimage.measurements.histogram(labeled, 0, j + 1, j + 1)
object_slices = scipy.ndimage.find_objects(labeled)
threshold = beamarea * pixelmin
for i in range(j):
if myhistogram[i + 1] < threshold:
mask[object_slices[i]] = 0
ia.putchunk(mask)
ia.done()
myim.moment_maps(dir_data=dir_data,
imagename=imagenames[0],
chans="0~16",
mask="mask_irasf00182.mask",
thres=0.00018 * 2.5)
hdkey = "beammajor")["value"]
minor = imhead(imagename = imagenames[0],
mode = "get",
hdkey = "beamminor")["value"]
pix = abs(imhead(imagename = imagenames[0],
mode = "list")["cdelt1"])
pixelsize = pix*3600*180 / np.pi
beamarea = (major*minor*np.pi/(4*np.log(2))) / (pixelsize**2)
ia.open(outmask)
mask = ia.getchunk()
labeled, j = scipy.ndimage.label(mask)
myhistogram = scipy.ndimage.measurements.histogram(labeled, 0, j+1 , j+1)
object_slices = scipy.ndimage.find_objects(labeled)
threshold = beamarea * pixelmin
for i in range(j):
if myhistogram[i + 1] < threshold:
mask[object_slices[i]] = 0
ia.putchunk(mask)
ia.done()
### create momement maps for 12co21
myim.moment_maps(dir_data = dir_data,
imagename = imagenames[0],
chans = "55~310",
mask = "mask_12CO.mask",
thres = 3. * rms)
os.system("rm -rf " + dir_data + "*immath")
os.system("rm -rf " + dir_data + "*mask*")
pixelsize = pix * 3600 * 180 / np.pi
beamarea = (major * minor * np.pi/(4 * np.log(2))) / (pixelsize ** 2)
ia.open(dir_data + outmask)
mask = ia.getchunk()
labeled, j = scipy.ndimage.label(mask)
myhistogram = scipy.ndimage.measurements.histogram(labeled, 0, j+1 , j+1)
object_slices = scipy.ndimage.find_objects(labeled)
threshold = beamarea * pixelmin
for i in range(j):
if myhistogram[i + 1] < threshold:
mask[object_slices[i]] = 0
ia.putchunk(mask)
ia.done()
myim.moment_maps(dir_data = dir_data,
imagename = dir_data + spw_cs76[k].split("/")[-1],
chans = chan_cs76[k],
mask = outmask,
thres = rms_cs76[k] * 2.7)
os.system("mv " + dir_data + spw_cs76[k].split("/")[-1]+".moment0 " + dir_data + spw_cs76[k].split("/")[-1].split("_AL2B6")[0] + "_cs76.moment0")
os.system("mv " + dir_data + spw_cs76[k].split("/")[-1]+".moment1 " + dir_data + spw_cs76[k].split("/")[-1].split("_AL2B6")[0] + "_cs76.moment1")
os.system("mv " + dir_data + spw_cs76[k].split("/")[-1]+".moment2 " + dir_data + spw_cs76[k].split("/")[-1].split("_AL2B6")[0] + "_cs76.moment2")
fits_hcn = glob.glob(dir_data + "*hcn43*moment0*.fits")
template_hcn = fits_hcn[0].replace(".fits", ".image")
importfits(fitsimage = dir_data + fits_hcn[0],
imagename = dir_data + template_hcn)
imregrid(imagename = dir_data + spw_cs76[k].split("/")[-1].split("_AL2B6")[0] + "_cs76.moment0",
template = template_hcn,
output = dir_data + spw_cs76[k].split("/")[-1].split("_AL2B6")[0] + "_cs76.moment0.regrid",
overwrite = True)
imregrid(imagename = dir_data + spw_cs76[k].split("/")[-1].split("_AL2B6")[0] + "_cs76.moment1",
template = template_hcn,
mask = ia.getchunk()
labeled, j = scipy.ndimage.label(mask)
myhistogram = scipy.ndimage.measurements.histogram(labeled, 0, j+1 , j+1)
object_slices = scipy.ndimage.find_objects(labeled)
threshold = beamarea * pixelmin
for i in range(j):
if myhistogram[i + 1] < threshold:
mask[object_slices[i]] = 0
ia.putchunk(mask)
ia.done()
### create momement maps for 12co10
myim.moment_maps(dir_data = dir_data,
imagename = imagenames[0],
chans = "14~40",
mask = "mask_12CO.mask",
thres = 0.0011 * 3.)
### create momement maps for 12co21
myim.moment_maps(dir_data = dir_data,
imagename = imagenames[1],
chans = "12~41",
mask = "mask_12CO.mask",
thres = 0.0007 * 2.5)
### create momement maps for 13co10
myim.moment_maps(dir_data = dir_data,
imagename = imagenames[2],
