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Python3 migration and summary file #7

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Feb 19, 2023
Merged

Python3 migration and summary file #7

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27 changes: 18 additions & 9 deletions src/discosscan.py
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Original file line number Diff line number Diff line change
Expand Up @@ -21,7 +21,7 @@
logger = logging.getLogger(__name__)
from datetime import datetime
import sys

import glob
import numpy as np

from astropy.io import fits
Expand All @@ -34,7 +34,9 @@

from .scancycle import ScanCycle

SUMMARY = "summary.fits"

#SUMMARY = "summary.fits"

STOKES = "stokes"
CLIGHT = C.to("km / s").value
FILE_PREFIX = "class"
Expand All @@ -47,6 +49,7 @@ def __init__(self, message):

class DiscosScanConverter(object):
def __init__(self, path=None, duty_cycle={}, skip_calibration=False):
self.SUMMARY=glob.glob(path+'?um*.fits')
self.scan_path = path
self.got_summary = False
self.file_class_out = pyclassfiller.ClassFileOut()
Expand All @@ -60,7 +63,13 @@ def __init__(self, path=None, duty_cycle={}, skip_calibration=False):
def load_subscans(self):
for subscan_file in os.listdir(self.scan_path):
ext = os.path.splitext(subscan_file)[-1]
if not subscan_file == SUMMARY and ext == DATA_EXTENSION:
if subscan_file.lower().startswith('sum'):
self.SUMMARY=subscan_file
logger.debug("Summary File: %s" % self.SUMMARY)



if not subscan_file == self.SUMMARY and ext == DATA_EXTENSION:
subscan_path = os.path.join(self.scan_path, subscan_file)
with fits.open(subscan_path) as subscan:
self.subscans.append((subscan_path,
Expand All @@ -73,7 +82,7 @@ def load_subscans(self):
self.subscans.sort(key=lambda x:x[2])
logger.debug("ordered files: %s" % (str([filename for filename,_,_ in
self.subscans]),))
with fits.open(os.path.join(self.scan_path, SUMMARY)) as summary:
with fits.open(os.path.join(self.scan_path, self.SUMMARY)) as summary:
self.summary = summary[0].header

def convert_subscans(self, dest_dir=None):
Expand All @@ -87,10 +96,10 @@ def convert_subscans(self, dest_dir=None):
if not os.path.isdir(self.dest_dir):
logger.error("cannot create output dir: %s" % (self.dest_dir,))
sys.exit(1)
for i in range(len(self.subscans) / self.duty_cycle_size):
for i in range(int(len(self.subscans) / self.duty_cycle_size)):
self.n_cycles += 1
scan_cycle = self.convert_cycle(i * self.duty_cycle_size)
self.write_observation(scan_cycle, i * self.duty_cycle_size)
self.write_observation(scan_cycle, i * self.duty_cycle_size)

def convert_cycle(self, index):
current_index = index
Expand Down Expand Up @@ -278,7 +287,7 @@ def write_observation(self, scan_cycle, first_subscan_index):
on, off, cal = onoffcal[sec_id][pol]
if((not self.skip_calibration) and
(cal is not None)):
start_bin = self.bins / 3
start_bin = int(self.bins / 3)
stop_bin = 2 * start_bin
cal_mean = cal[start_bin:stop_bin].mean()
off_mean = off[start_bin:stop_bin].mean()
Expand All @@ -298,10 +307,10 @@ def write_observation(self, scan_cycle, first_subscan_index):
def load_summary_info(self, summary_file_path=None):
if not summary_file_path:
dir_name = self.scan_path
summary_file_path = os.path.join(dir_name, SUMMARY)
summary_file_path = os.path.join(dir_name, self.SUMMARY)
if not os.path.exists(summary_file_path):
raise DiscosScanException("scan %s does not conatain a %s" % (dir_name,
SUMMARY))
self.SUMMARY))
with fits.open(summary_file_path) as summary_file:
logger.debug("loading summary from %s" % (summary_file_path,))
summary_header = summary_file[0].header
Expand Down