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parse_trager_1995.py
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parse_trager_1995.py
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import os
import sys
import numpy
import logging
from matplotlib import pyplot
from astroquery.vizier import Vizier
Vizier.ROW_LIMIT = -1
BASEDIR = "/".join(__file__.split("/")[:-1]) + "/MW_GCS_Trager1995/"
def fix_gc_names(data):
for i, n in enumerate(data["Name"]):
data["Name"][i] = n.replace("ngc", "NGC ").replace("arp", "Arp "
).replace("hp", "HP").replace("ic", "IC ").replace("terzan", "Terzan "
).replace("ton", "Ton ").replace("pal_", "Pal ").replace("am1", "AM 1")
# ReadMe: "Note on Name: hp stands for HP 1, <Cl Haute-Provence 1> in Simbad"
if n.strip().lower() == "hp":
data["Name"][i] = "HP 1"
return data
def parse_trager_1995_gc(logger, fname="{0}Vizier_gc.txt".format(BASEDIR), refetch=False):
# This table was added by CDS, but does not actually contain relevant information
if os.path.exists(fname) and os.path.isfile(fname) and not refetch:
dtype = [
("Name", "<U8"), ("Nsb", "<i2"), ("SName", "<U19"), ("Prof", "<U4"),
("Simbad", "<U6"), ("_RA", "<f8"), ("_DE", "<f8")
]
return fix_gc_names(
numpy.loadtxt(fname, dtype=dtype, delimiter=",")
)
table = Vizier.get_catalogs("J/AJ/109/218/gc")[0]
table.convert_bytestring_to_unicode() # to remove b'' from string columns
data = fix_gc_names(numpy.array(table)) # Numpy structured array
print("bla", data["Name"])
numpy.savetxt(fname, data, header=", ".join(data.dtype.names),
fmt=",".join(["%s"]*len(data.dtype)))
return data
def parse_trager_1995_tables(logger, fname="{0}Vizier_tables.txt".format(BASEDIR), refetch=False):
if os.path.exists(fname) and os.path.isfile(fname) and not refetch:
dtype = [
("Name", "<U8"), ("logr", "<f4"), ("muV", "<f4"), ("muVf", "<f4"),
("Resid", "<f4"), ("Weight", "<f4"), ("DataSet", "<U9")
]
return fix_gc_names(
numpy.loadtxt(fname, dtype=dtype, delimiter=",")
)
# Byte-by-byte Description of file: tables.dat
# --------------------------------------------------------------------------------
# Bytes Format Units Label Explanations
# --------------------------------------------------------------------------------
# 1- 8 A8 --- Name *Cluster name
# 10- 15 F6.3 [arcsec] logr Log of radius of surface brightness meas.
# 18- 22 F5.2 mag/arcsec2 muV Meas. surface brightness at r, in V mags.
# 25- 29 F5.2 mag/arcsec2 muVf Fitted surface brightness at r, from
# Chebyshev fit
# 31- 36 F6.2 mag/arcsec2 Resid Residual of Chebyshev fit at r, muV-muVf
# 40- 44 F5.3 --- Weight [0/1] Weight of data point in Chebyshev fit
# 47- 55 A9 --- DataSet *Data set name
table = Vizier.get_catalogs("J/AJ/109/218/tables")[0]
table.convert_bytestring_to_unicode() # to remove b'' from string columns
data = numpy.array(table) # Numpy structured array
data = fix_gc_names(data)
numpy.savetxt(fname, data, header=", ".join(data.dtype.names),
fmt=",".join(["%s"]*len(data.dtype)))
return data
def parse_trager_1995_chebyshev_fits(logger, fname="{0}tables.hdr".format(BASEDIR)):
with open(fname) as f:
raw_data = f.readlines()
logger.debug("\n\n{0} contains {1} rows\n\n".format(fname, len(raw_data)))
def plot_trager_1995_surface_brightness_profile(logger, tables, gc_name):
igc, = numpy.where(tables["Name"] == gc_name)
logger.info("{0} has {1} entries".format(gc_name, len(tables[igc])))
ikeep = Ellipsis
if gc_name == "NGC 2419": # the data shows two radial profiles
ikeep, = numpy.where(
(tables[igc]["DataSet"] != "CGB1")
& (tables[igc]["DataSet"] != "CGB2")
& (tables[igc]["DataSet"] != "CGR1")
& (tables[igc]["DataSet"] != "CGR2")
& (tables[igc]["DataSet"] != "CGV2")
& (tables[igc]["DataSet"] != "CGV1")
& (tables[igc]["DataSet"] != "CGV3")
)
# logger.debug(ikeep)
logger.info("ikeep has {0} entries".format(len(ikeep)))
# logger.debug(tables[igc]["DataSet"][ikeep])
fig = pyplot.figure(figsize=(12, 10))
ax1 = pyplot.axes([(0-1)/2, 0.40, 1.00/2, 0.60 ]) # left, bottom, width, height
ax2 = pyplot.axes([(0-1)/2, 0.10, 1.00/2, 0.30 ])
ax1.text(0.98, 0.98, "{0} (T95)".format(gc_name),
ha="right", va="top", transform=ax1.transAxes, fontsize=16)
ax1.errorbar(tables[igc]["logr"][ikeep], tables[igc]["muV"][ikeep],
marker="o", c="k", ls="", ms=4, elinewidth=2, markeredgewidth=2, capsize=5,
label="data")
ax1.plot(tables[igc]["logr"][ikeep], tables[igc]["muVf"][ikeep], "ro", ms=5,
label="Chebyshev fit")
ax1.set_ylabel("$\mu_V$ [mag/arcsec$^2$]")
ax1.set_xticks([], [])
ax1.invert_yaxis()
ax1.legend(loc="lower left", frameon=False, fontsize=16)
ax2.plot(tables[igc]["logr"][ikeep], tables[igc]["Resid"][ikeep], "ko", ms=4)
ax2.axhline(0, c="k", lw=2, ls=":")
ax2.set_xlabel("$\log(r)$ [arcsec]")
ax2.set_ylabel("Residuals")
ymin, ymax = ax2.get_ylim()
ylim = max(abs(ymin), abs(ymax))
ax2.set_ylim(-ylim, ylim)
fig.subplots_adjust(wspace=0, hspace=-0.02, left=0.03, right=0.97, bottom=0.02, top=0.98)
return fig
if __name__ == "__main__":
logging.basicConfig(stream=sys.stdout, level=logging.DEBUG, format="%(message)s")
logger = logging.getLogger(__name__)
logger.info("Running {0}".format(__file__))
gc = parse_trager_1995_gc(logger)
gc_simbad = parse_trager_1995_gc(logger, refetch=True)
assert len(gc) == len(gc_simbad)
assert gc.dtype == gc_simbad.dtype
for i in range(len(gc)):
assert gc[i] == gc_simbad[i], "Mismatch\n{0}\n{1}".format(gc[i], gc_simbad[i])
logger.debug("\ngc has {0} entries".format(len(gc)))
logger.debug("dtype: {0}".format(gc.dtype))
tables = parse_trager_1995_tables(logger)
tables_simbad = parse_trager_1995_tables(logger, refetch=True)
assert len(tables) == len(tables_simbad)
assert tables.dtype == tables_simbad.dtype
for i in range(len(tables)):
assert tables[i] == tables_simbad[i]
logger.debug("\ntables has {0} entries".format(len(tables)))
logger.debug("dtype: {0}".format(tables.dtype))
parse_trager_1995_chebyshev_fits(logger)
clusters = gc["Name"]
for i, gc_name in enumerate(clusters):
fig = plot_trager_1995_surface_brightness_profile(logger, tables, gc_name)
pyplot.savefig("data/MW_GCS_Trager1995/Trager1995_SurfaceBrightness_{0}.pdf".format(gc_name))
pyplot.close(fig)
break