1 | from asap.scantable import scantable |
---|
2 | from asap import rcParams |
---|
3 | from asap import print_log |
---|
4 | from asap import selector |
---|
5 | |
---|
6 | def average_time(*args, **kwargs): |
---|
7 | """ |
---|
8 | Return the (time) average of a scan or list of scans. [in channels only] |
---|
9 | The cursor of the output scan is set to 0 |
---|
10 | Parameters: |
---|
11 | one scan or comma separated scans or a list of scans |
---|
12 | mask: an optional mask (only used for 'var' and 'tsys' weighting) |
---|
13 | scanav: True averages each scan separately. |
---|
14 | False (default) averages all scans together, |
---|
15 | weight: Weighting scheme. |
---|
16 | 'none' (mean no weight) |
---|
17 | 'var' (1/var(spec) weighted) |
---|
18 | 'tsys' (1/Tsys**2 weighted) |
---|
19 | 'tint' (integration time weighted) |
---|
20 | 'tintsys' (Tint/Tsys**2) |
---|
21 | 'median' ( median averaging) |
---|
22 | align: align the spectra in velocity before averaging. It takes |
---|
23 | the time of the first spectrum in the first scantable |
---|
24 | as reference time. |
---|
25 | Example: |
---|
26 | # return a time averaged scan from scana and scanb |
---|
27 | # without using a mask |
---|
28 | scanav = average_time(scana,scanb) |
---|
29 | # or equivalent |
---|
30 | # scanav = average_time([scana, scanb]) |
---|
31 | # return the (time) averaged scan, i.e. the average of |
---|
32 | # all correlator cycles |
---|
33 | scanav = average_time(scan, scanav=True) |
---|
34 | """ |
---|
35 | scanav = False |
---|
36 | if kwargs.has_key('scanav'): |
---|
37 | scanav = kwargs.get('scanav') |
---|
38 | weight = 'tint' |
---|
39 | if kwargs.has_key('weight'): |
---|
40 | weight = kwargs.get('weight') |
---|
41 | mask = () |
---|
42 | if kwargs.has_key('mask'): |
---|
43 | mask = kwargs.get('mask') |
---|
44 | align = False |
---|
45 | if kwargs.has_key('align'): |
---|
46 | align = kwargs.get('align') |
---|
47 | varlist = vars() |
---|
48 | if isinstance(args[0],list): |
---|
49 | lst = args[0] |
---|
50 | elif isinstance(args[0],tuple): |
---|
51 | lst = list(args[0]) |
---|
52 | else: |
---|
53 | lst = list(args) |
---|
54 | |
---|
55 | del varlist["kwargs"] |
---|
56 | varlist["args"] = "%d scantables" % len(lst) |
---|
57 | # need special formatting here for history... |
---|
58 | |
---|
59 | from asap._asap import stmath |
---|
60 | stm = stmath() |
---|
61 | for s in lst: |
---|
62 | if not isinstance(s,scantable): |
---|
63 | msg = "Please give a list of scantables" |
---|
64 | if rcParams['verbose']: |
---|
65 | print msg |
---|
66 | return |
---|
67 | else: |
---|
68 | raise TypeError(msg) |
---|
69 | if scanav: scanav = "SCAN" |
---|
70 | else: scanav = "NONE" |
---|
71 | alignedlst = [] |
---|
72 | if align: |
---|
73 | refepoch = lst[0].get_time(0) |
---|
74 | for scan in lst: |
---|
75 | alignedlst.append(scan.freq_align(refepoch,insitu=False)) |
---|
76 | else: |
---|
77 | alignedlst = lst |
---|
78 | if weight.upper() == 'MEDIAN': |
---|
79 | # median doesn't support list of scantables - merge first |
---|
80 | merged = None |
---|
81 | if len(alignedlst) > 1: |
---|
82 | merged = merge(alignedlst) |
---|
83 | else: |
---|
84 | merged = alignedlst[0] |
---|
85 | s = scantable(stm._averagechannel(merged, 'MEDIAN', scanav)) |
---|
86 | del merged |
---|
87 | else: |
---|
88 | s = scantable(stm._average(alignedlst, mask, weight.upper(), scanav)) |
---|
89 | s._add_history("average_time",varlist) |
---|
90 | print_log() |
---|
91 | return s |
---|
92 | |
---|
93 | def quotient(source, reference, preserve=True): |
---|
94 | """ |
---|
95 | Return the quotient of a 'source' (signal) scan and a 'reference' scan. |
---|
96 | The reference can have just one scan, even if the signal has many. Otherwise |
---|
97 | they must have the same number of scans. |
---|
98 | The cursor of the output scan is set to 0 |
---|
99 | Parameters: |
---|
100 | source: the 'on' scan |
---|
101 | reference: the 'off' scan |
---|
102 | preserve: you can preserve (default) the continuum or |
---|
103 | remove it. The equations used are |
---|
104 | preserve: Output = Toff * (on/off) - Toff |
---|
105 | remove: Output = Toff * (on/off) - Ton |
---|
106 | """ |
---|
107 | varlist = vars() |
---|
108 | from asap._asap import stmath |
---|
109 | stm = stmath() |
---|
110 | stm._setinsitu(False) |
---|
111 | s = scantable(stm._quotient(source, reference, preserve)) |
---|
112 | s._add_history("quotient",varlist) |
---|
113 | print_log() |
---|
114 | return s |
---|
115 | |
---|
116 | def dototalpower(calon, caloff, tcalval=0.0): |
---|
117 | """ |
---|
118 | Do calibration for CAL on,off signals. |
---|
119 | Adopted from GBTIDL dototalpower |
---|
120 | Parameters: |
---|
121 | calon: the 'cal on' subintegration |
---|
122 | caloff: the 'cal off' subintegration |
---|
123 | tcalval: user supplied Tcal value |
---|
124 | """ |
---|
125 | varlist = vars() |
---|
126 | from asap._asap import stmath |
---|
127 | stm = stmath() |
---|
128 | stm._setinsitu(False) |
---|
129 | s = scantable(stm._dototalpower(calon, caloff, tcalval)) |
---|
130 | s._add_history("dototalpower",varlist) |
---|
131 | print_log() |
---|
132 | return s |
---|
133 | |
---|
134 | def dosigref(sig, ref, smooth, tsysval=0.0, tauval=0.0): |
---|
135 | """ |
---|
136 | Calculate a quotient (sig-ref/ref * Tsys) |
---|
137 | Adopted from GBTIDL dosigref |
---|
138 | Parameters: |
---|
139 | sig: on source data |
---|
140 | ref: reference data |
---|
141 | smooth: width of box car smoothing for reference |
---|
142 | tsysval: user specified Tsys (scalar only) |
---|
143 | tauval: user specified Tau (required if tsysval is set) |
---|
144 | """ |
---|
145 | varlist = vars() |
---|
146 | from asap._asap import stmath |
---|
147 | stm = stmath() |
---|
148 | stm._setinsitu(False) |
---|
149 | s = scantable(stm._dosigref(sig, ref, smooth, tsysval, tauval)) |
---|
150 | s._add_history("dosigref",varlist) |
---|
151 | print_log() |
---|
152 | return s |
---|
153 | |
---|
154 | def calps(scantab, scannos, smooth=1, tsysval=0.0, tauval=0.0, tcalval=0.0): |
---|
155 | """ |
---|
156 | Calibrate GBT position switched data |
---|
157 | Adopted from GBTIDL getps |
---|
158 | Currently calps identify the scans as position switched data if they |
---|
159 | contain '_ps' in the source name. The data must contains 'CAL' signal |
---|
160 | on/off in each integration. To identify 'CAL' on state, the word, 'calon' |
---|
161 | need to be present in the source name field. |
---|
162 | (GBT MS data reading process to scantable automatically append these |
---|
163 | id names to the source names) |
---|
164 | |
---|
165 | Parameters: |
---|
166 | scantab: scantable |
---|
167 | scannos: list of scan numbers |
---|
168 | smooth: optional box smoothing order for the reference |
---|
169 | (default is 1 = no smoothing) |
---|
170 | tsysval: optional user specified Tsys (default is 0.0, |
---|
171 | use Tsys in the data) |
---|
172 | tauval: optional user specified Tau |
---|
173 | tcalval: optional user specified Tcal (default is 0.0, |
---|
174 | use Tcal value in the data) |
---|
175 | """ |
---|
176 | varlist = vars() |
---|
177 | # check for the appropriate data |
---|
178 | s = scantab.get_scan('*_ps*') |
---|
179 | if s is None: |
---|
180 | msg = "The input data appear to contain no position-switch mode data." |
---|
181 | if rcParams['verbose']: |
---|
182 | print msg |
---|
183 | return |
---|
184 | else: |
---|
185 | raise TypeError(msg) |
---|
186 | ssub = s.get_scan(scannos) |
---|
187 | if ssub is None: |
---|
188 | msg = "No data was found with given scan numbers!" |
---|
189 | if rcParams['verbose']: |
---|
190 | print msg |
---|
191 | return |
---|
192 | else: |
---|
193 | raise TypeError(msg) |
---|
194 | ssubon = ssub.get_scan('*calon') |
---|
195 | ssuboff = ssub.get_scan('*[^calon]') |
---|
196 | if ssubon.nrow() != ssuboff.nrow(): |
---|
197 | msg = "mismatch in numbers of CAL on/off scans. Cannot calibrate. Check the scan numbers." |
---|
198 | if rcParams['verbose']: |
---|
199 | print msg |
---|
200 | return |
---|
201 | else: |
---|
202 | raise TypeError(msg) |
---|
203 | cals = dototalpower(ssubon, ssuboff, tcalval) |
---|
204 | sig = cals.get_scan('*ps') |
---|
205 | ref = cals.get_scan('*psr') |
---|
206 | if sig.nscan() != ref.nscan(): |
---|
207 | msg = "mismatch in numbers of on/off scans. Cannot calibrate. Check the scan numbers." |
---|
208 | if rcParams['verbose']: |
---|
209 | print msg |
---|
210 | return |
---|
211 | else: |
---|
212 | raise TypeError(msg) |
---|
213 | |
---|
214 | #for user supplied Tsys |
---|
215 | if tsysval>0.0: |
---|
216 | if tauval<=0.0: |
---|
217 | msg = "Need to supply a valid tau to use the supplied Tsys" |
---|
218 | if rcParams['verbose']: |
---|
219 | print msg |
---|
220 | return |
---|
221 | else: |
---|
222 | raise TypeError(msg) |
---|
223 | else: |
---|
224 | sig.recalc_azel() |
---|
225 | ref.recalc_azel() |
---|
226 | #msg = "Use of user specified Tsys is not fully implemented yet." |
---|
227 | #if rcParams['verbose']: |
---|
228 | # print msg |
---|
229 | # return |
---|
230 | #else: |
---|
231 | # raise TypeError(msg) |
---|
232 | # use get_elevation to get elevation and |
---|
233 | # calculate a scaling factor using the formula |
---|
234 | # -> tsys use to dosigref |
---|
235 | |
---|
236 | #ress = dosigref(sig, ref, smooth, tsysval) |
---|
237 | ress = dosigref(sig, ref, smooth, tsysval, tauval) |
---|
238 | ress._add_history("calps", varlist) |
---|
239 | print_log() |
---|
240 | return ress |
---|
241 | |
---|
242 | def calnod(scantab, scannos=[], smooth=1, tsysval=0.0, tauval=0.0, tcalval=0.0): |
---|
243 | """ |
---|
244 | Do full (but a pair of scans at time) processing of GBT Nod data |
---|
245 | calibration. |
---|
246 | Adopted from GBTIDL's getnod |
---|
247 | Parameters: |
---|
248 | scantab: scantable |
---|
249 | scannos: a pair of scan numbers, or the first scan number of the pair |
---|
250 | smooth: box car smoothing order |
---|
251 | tsysval: optional user specified Tsys value |
---|
252 | tauval: optional user specified tau value (not implemented yet) |
---|
253 | tcalval: optional user specified Tcal value |
---|
254 | """ |
---|
255 | varlist = vars() |
---|
256 | from asap._asap import stmath |
---|
257 | stm = stmath() |
---|
258 | stm._setinsitu(False) |
---|
259 | |
---|
260 | # check for the appropriate data |
---|
261 | s = scantab.get_scan('*_nod*') |
---|
262 | if s is None: |
---|
263 | msg = "The input data appear to contain no Nod observing mode data." |
---|
264 | if rcParams['verbose']: |
---|
265 | print msg |
---|
266 | return |
---|
267 | else: |
---|
268 | raise TypeError(msg) |
---|
269 | |
---|
270 | # need check correspondance of each beam with sig-ref ... |
---|
271 | # check for timestamps, scan numbers, subscan id (not available in |
---|
272 | # ASAP data format...). Assume 1st scan of the pair (beam 0 - sig |
---|
273 | # and beam 1 - ref...) |
---|
274 | # First scan number of paired scans or list of pairs of |
---|
275 | # scan numbers (has to have even number of pairs.) |
---|
276 | |
---|
277 | #data splitting |
---|
278 | scan1no = scan2no = 0 |
---|
279 | |
---|
280 | if len(scannos)==1: |
---|
281 | scan1no = scannos[0] |
---|
282 | scan2no = scannos[0]+1 |
---|
283 | pairScans = [scan1no, scan2no] |
---|
284 | else: |
---|
285 | #if len(scannos)>2: |
---|
286 | # msg = "calnod can only process a pair of nod scans at time." |
---|
287 | # if rcParams['verbose']: |
---|
288 | # print msg |
---|
289 | # return |
---|
290 | # else: |
---|
291 | # raise TypeError(msg) |
---|
292 | # |
---|
293 | #if len(scannos)==2: |
---|
294 | # scan1no = scannos[0] |
---|
295 | # scan2no = scannos[1] |
---|
296 | pairScans = list(scannos) |
---|
297 | |
---|
298 | if tsysval>0.0: |
---|
299 | if tauval<=0.0: |
---|
300 | msg = "Need to supply a valid tau to use the supplied Tsys" |
---|
301 | if rcParams['verbose']: |
---|
302 | print msg |
---|
303 | return |
---|
304 | else: |
---|
305 | raise TypeError(msg) |
---|
306 | else: |
---|
307 | scantab.recalc_azel() |
---|
308 | resspec = scantable(stm._donod(scantab, pairScans, smooth, tsysval,tauval,tcalval)) |
---|
309 | resspec._add_history("calnod",varlist) |
---|
310 | print_log() |
---|
311 | return resspec |
---|
312 | |
---|
313 | def calfs(scantab, scannos=[], smooth=1, tsysval=0.0, tauval=0.0, tcalval=0.0): |
---|
314 | """ |
---|
315 | Calibrate GBT frequency switched data. |
---|
316 | Adopted from GBTIDL getfs. |
---|
317 | Currently calfs identify the scans as frequency switched data if they |
---|
318 | contain '_fs' in the source name. The data must contains 'CAL' signal |
---|
319 | on/off in each integration. To identify 'CAL' on state, the word, 'calon' |
---|
320 | need to be present in the source name field. |
---|
321 | (GBT MS data reading via scantable automatically append these |
---|
322 | id names to the source names) |
---|
323 | |
---|
324 | Parameters: |
---|
325 | scantab: scantable |
---|
326 | scannos: list of scan numbers |
---|
327 | smooth: optional box smoothing order for the reference |
---|
328 | (default is 1 = no smoothing) |
---|
329 | tsysval: optional user specified Tsys (default is 0.0, |
---|
330 | use Tsys in the data) |
---|
331 | tauval: optional user specified Tau |
---|
332 | """ |
---|
333 | varlist = vars() |
---|
334 | from asap._asap import stmath |
---|
335 | stm = stmath() |
---|
336 | stm._setinsitu(False) |
---|
337 | |
---|
338 | # check = scantab.get_scan('*_fs*') |
---|
339 | # if check is None: |
---|
340 | # msg = "The input data appear to contain no Nod observing mode data." |
---|
341 | # if rcParams['verbose']: |
---|
342 | # print msg |
---|
343 | # return |
---|
344 | # else: |
---|
345 | # raise TypeError(msg) |
---|
346 | s = scantab.get_scan(scannos) |
---|
347 | del scantab |
---|
348 | |
---|
349 | resspec = scantable(stm._dofs(s, scannos, smooth, tsysval,tauval,tcalval)) |
---|
350 | resspec._add_history("calfs",varlist) |
---|
351 | print_log() |
---|
352 | return resspec |
---|
353 | |
---|
354 | def simple_math(left, right, op='add', tsys=True): |
---|
355 | """ |
---|
356 | Apply simple mathematical binary operations to two |
---|
357 | scan tables, returning the result in a new scan table. |
---|
358 | The operation is applied to both the correlations and the TSys data |
---|
359 | The cursor of the output scan is set to 0 |
---|
360 | Parameters: |
---|
361 | left: the 'left' scan |
---|
362 | right: the 'right' scan |
---|
363 | op: the operation: 'add' (default), 'sub', 'mul', 'div' |
---|
364 | tsys: if True (default) then apply the operation to Tsys |
---|
365 | as well as the data |
---|
366 | """ |
---|
367 | print "simple_math is deprecated use +=/* instead." |
---|
368 | |
---|
369 | def merge(*args): |
---|
370 | """ |
---|
371 | Merge a list of scanatables, or comma-sperated scantables into one |
---|
372 | scnatble. |
---|
373 | Parameters: |
---|
374 | A list [scan1, scan2] or scan1, scan2. |
---|
375 | Example: |
---|
376 | myscans = [scan1, scan2] |
---|
377 | allscans = merge(myscans) |
---|
378 | # or equivalent |
---|
379 | sameallscans = merge(scan1, scan2) |
---|
380 | """ |
---|
381 | varlist = vars() |
---|
382 | if isinstance(args[0],list): |
---|
383 | lst = tuple(args[0]) |
---|
384 | elif isinstance(args[0],tuple): |
---|
385 | lst = args[0] |
---|
386 | else: |
---|
387 | lst = tuple(args) |
---|
388 | varlist["args"] = "%d scantables" % len(lst) |
---|
389 | # need special formatting her for history... |
---|
390 | from asap._asap import stmath |
---|
391 | stm = stmath() |
---|
392 | for s in lst: |
---|
393 | if not isinstance(s,scantable): |
---|
394 | msg = "Please give a list of scantables" |
---|
395 | if rcParams['verbose']: |
---|
396 | print msg |
---|
397 | return |
---|
398 | else: |
---|
399 | raise TypeError(msg) |
---|
400 | s = scantable(stm._merge(lst)) |
---|
401 | s._add_history("merge", varlist) |
---|
402 | print_log() |
---|
403 | return s |
---|
404 | |
---|