[1085] | 1 | from asap.scantable import scantable |
---|
[1827] | 2 | from asap.parameters import rcParams |
---|
[1826] | 3 | from asap.logging import asaplog, print_log, print_log_dec |
---|
| 4 | from asap.selector import selector |
---|
[1819] | 5 | from asap import asaplotgui |
---|
[101] | 6 | |
---|
[1589] | 7 | @print_log_dec |
---|
[143] | 8 | def average_time(*args, **kwargs): |
---|
[101] | 9 | """ |
---|
[113] | 10 | Return the (time) average of a scan or list of scans. [in channels only] |
---|
[305] | 11 | The cursor of the output scan is set to 0 |
---|
[113] | 12 | Parameters: |
---|
[1361] | 13 | one scan or comma separated scans or a list of scans |
---|
[143] | 14 | mask: an optional mask (only used for 'var' and 'tsys' weighting) |
---|
[558] | 15 | scanav: True averages each scan separately. |
---|
| 16 | False (default) averages all scans together, |
---|
[1232] | 17 | weight: Weighting scheme. |
---|
| 18 | 'none' (mean no weight) |
---|
| 19 | 'var' (1/var(spec) weighted) |
---|
| 20 | 'tsys' (1/Tsys**2 weighted) |
---|
| 21 | 'tint' (integration time weighted) |
---|
| 22 | 'tintsys' (Tint/Tsys**2) |
---|
| 23 | 'median' ( median averaging) |
---|
[930] | 24 | align: align the spectra in velocity before averaging. It takes |
---|
| 25 | the time of the first spectrum in the first scantable |
---|
| 26 | as reference time. |
---|
[113] | 27 | Example: |
---|
| 28 | # return a time averaged scan from scana and scanb |
---|
| 29 | # without using a mask |
---|
[129] | 30 | scanav = average_time(scana,scanb) |
---|
[1589] | 31 | # or equivalent |
---|
| 32 | # scanav = average_time([scana, scanb]) |
---|
[113] | 33 | # return the (time) averaged scan, i.e. the average of |
---|
| 34 | # all correlator cycles |
---|
[558] | 35 | scanav = average_time(scan, scanav=True) |
---|
[101] | 36 | """ |
---|
[930] | 37 | scanav = False |
---|
[143] | 38 | if kwargs.has_key('scanav'): |
---|
[930] | 39 | scanav = kwargs.get('scanav') |
---|
[524] | 40 | weight = 'tint' |
---|
[143] | 41 | if kwargs.has_key('weight'): |
---|
| 42 | weight = kwargs.get('weight') |
---|
| 43 | mask = () |
---|
| 44 | if kwargs.has_key('mask'): |
---|
| 45 | mask = kwargs.get('mask') |
---|
[930] | 46 | align = False |
---|
| 47 | if kwargs.has_key('align'): |
---|
| 48 | align = kwargs.get('align') |
---|
[1819] | 49 | compel = False |
---|
| 50 | if kwargs.has_key('compel'): |
---|
| 51 | compel = kwargs.get('compel') |
---|
[489] | 52 | varlist = vars() |
---|
[665] | 53 | if isinstance(args[0],list): |
---|
[981] | 54 | lst = args[0] |
---|
[665] | 55 | elif isinstance(args[0],tuple): |
---|
[981] | 56 | lst = list(args[0]) |
---|
[665] | 57 | else: |
---|
[981] | 58 | lst = list(args) |
---|
[720] | 59 | |
---|
[489] | 60 | del varlist["kwargs"] |
---|
| 61 | varlist["args"] = "%d scantables" % len(lst) |
---|
[981] | 62 | # need special formatting here for history... |
---|
[720] | 63 | |
---|
[876] | 64 | from asap._asap import stmath |
---|
| 65 | stm = stmath() |
---|
[113] | 66 | for s in lst: |
---|
[101] | 67 | if not isinstance(s,scantable): |
---|
[720] | 68 | msg = "Please give a list of scantables" |
---|
| 69 | if rcParams['verbose']: |
---|
[1819] | 70 | #print msg |
---|
| 71 | asaplog.push(msg) |
---|
| 72 | print_log('ERROR') |
---|
[720] | 73 | return |
---|
| 74 | else: |
---|
| 75 | raise TypeError(msg) |
---|
[945] | 76 | if scanav: scanav = "SCAN" |
---|
| 77 | else: scanav = "NONE" |
---|
[981] | 78 | alignedlst = [] |
---|
| 79 | if align: |
---|
| 80 | refepoch = lst[0].get_time(0) |
---|
| 81 | for scan in lst: |
---|
| 82 | alignedlst.append(scan.freq_align(refepoch,insitu=False)) |
---|
| 83 | else: |
---|
[1059] | 84 | alignedlst = lst |
---|
[1232] | 85 | if weight.upper() == 'MEDIAN': |
---|
| 86 | # median doesn't support list of scantables - merge first |
---|
| 87 | merged = None |
---|
| 88 | if len(alignedlst) > 1: |
---|
| 89 | merged = merge(alignedlst) |
---|
| 90 | else: |
---|
| 91 | merged = alignedlst[0] |
---|
| 92 | s = scantable(stm._averagechannel(merged, 'MEDIAN', scanav)) |
---|
| 93 | del merged |
---|
| 94 | else: |
---|
[1819] | 95 | #s = scantable(stm._average(alignedlst, mask, weight.upper(), scanav)) |
---|
| 96 | s = scantable(stm._new_average(alignedlst, compel, mask, weight.upper(), scanav)) |
---|
[489] | 97 | s._add_history("average_time",varlist) |
---|
[1819] | 98 | print_log() |
---|
[489] | 99 | return s |
---|
[101] | 100 | |
---|
[1074] | 101 | def quotient(source, reference, preserve=True): |
---|
| 102 | """ |
---|
| 103 | Return the quotient of a 'source' (signal) scan and a 'reference' scan. |
---|
| 104 | The reference can have just one scan, even if the signal has many. Otherwise |
---|
| 105 | they must have the same number of scans. |
---|
| 106 | The cursor of the output scan is set to 0 |
---|
| 107 | Parameters: |
---|
| 108 | source: the 'on' scan |
---|
| 109 | reference: the 'off' scan |
---|
| 110 | preserve: you can preserve (default) the continuum or |
---|
| 111 | remove it. The equations used are |
---|
| 112 | preserve: Output = Toff * (on/off) - Toff |
---|
| 113 | remove: Output = Toff * (on/off) - Ton |
---|
| 114 | """ |
---|
| 115 | varlist = vars() |
---|
| 116 | from asap._asap import stmath |
---|
| 117 | stm = stmath() |
---|
| 118 | stm._setinsitu(False) |
---|
| 119 | s = scantable(stm._quotient(source, reference, preserve)) |
---|
| 120 | s._add_history("quotient",varlist) |
---|
[1819] | 121 | print_log() |
---|
[1074] | 122 | return s |
---|
[101] | 123 | |
---|
[1589] | 124 | @print_log_dec |
---|
[1391] | 125 | def dototalpower(calon, caloff, tcalval=0.0): |
---|
| 126 | """ |
---|
| 127 | Do calibration for CAL on,off signals. |
---|
| 128 | Adopted from GBTIDL dototalpower |
---|
| 129 | Parameters: |
---|
| 130 | calon: the 'cal on' subintegration |
---|
| 131 | caloff: the 'cal off' subintegration |
---|
| 132 | tcalval: user supplied Tcal value |
---|
| 133 | """ |
---|
| 134 | varlist = vars() |
---|
| 135 | from asap._asap import stmath |
---|
| 136 | stm = stmath() |
---|
| 137 | stm._setinsitu(False) |
---|
| 138 | s = scantable(stm._dototalpower(calon, caloff, tcalval)) |
---|
| 139 | s._add_history("dototalpower",varlist) |
---|
[1819] | 140 | print_log() |
---|
[1391] | 141 | return s |
---|
| 142 | |
---|
[1589] | 143 | @print_log_dec |
---|
[1391] | 144 | def dosigref(sig, ref, smooth, tsysval=0.0, tauval=0.0): |
---|
| 145 | """ |
---|
| 146 | Calculate a quotient (sig-ref/ref * Tsys) |
---|
| 147 | Adopted from GBTIDL dosigref |
---|
| 148 | Parameters: |
---|
| 149 | sig: on source data |
---|
| 150 | ref: reference data |
---|
| 151 | smooth: width of box car smoothing for reference |
---|
| 152 | tsysval: user specified Tsys (scalar only) |
---|
| 153 | tauval: user specified Tau (required if tsysval is set) |
---|
| 154 | """ |
---|
| 155 | varlist = vars() |
---|
| 156 | from asap._asap import stmath |
---|
| 157 | stm = stmath() |
---|
| 158 | stm._setinsitu(False) |
---|
| 159 | s = scantable(stm._dosigref(sig, ref, smooth, tsysval, tauval)) |
---|
| 160 | s._add_history("dosigref",varlist) |
---|
[1819] | 161 | print_log() |
---|
[1391] | 162 | return s |
---|
| 163 | |
---|
[1589] | 164 | @print_log_dec |
---|
[1819] | 165 | def calps(scantab, scannos, smooth=1, tsysval=0.0, tauval=0.0, tcalval=0.0, verify=False): |
---|
[1391] | 166 | """ |
---|
| 167 | Calibrate GBT position switched data |
---|
| 168 | Adopted from GBTIDL getps |
---|
| 169 | Currently calps identify the scans as position switched data if they |
---|
| 170 | contain '_ps' in the source name. The data must contains 'CAL' signal |
---|
| 171 | on/off in each integration. To identify 'CAL' on state, the word, 'calon' |
---|
| 172 | need to be present in the source name field. |
---|
| 173 | (GBT MS data reading process to scantable automatically append these |
---|
| 174 | id names to the source names) |
---|
| 175 | |
---|
| 176 | Parameters: |
---|
| 177 | scantab: scantable |
---|
| 178 | scannos: list of scan numbers |
---|
| 179 | smooth: optional box smoothing order for the reference |
---|
| 180 | (default is 1 = no smoothing) |
---|
| 181 | tsysval: optional user specified Tsys (default is 0.0, |
---|
| 182 | use Tsys in the data) |
---|
| 183 | tauval: optional user specified Tau |
---|
| 184 | tcalval: optional user specified Tcal (default is 0.0, |
---|
| 185 | use Tcal value in the data) |
---|
| 186 | """ |
---|
| 187 | varlist = vars() |
---|
| 188 | # check for the appropriate data |
---|
[1819] | 189 | ## s = scantab.get_scan('*_ps*') |
---|
| 190 | ## if s is None: |
---|
| 191 | ## msg = "The input data appear to contain no position-switch mode data." |
---|
| 192 | ## if rcParams['verbose']: |
---|
| 193 | ## #print msg |
---|
| 194 | ## asaplog.push(msg) |
---|
| 195 | ## print_log('ERROR') |
---|
| 196 | ## return |
---|
| 197 | ## else: |
---|
| 198 | ## raise TypeError(msg) |
---|
| 199 | s = scantab.copy() |
---|
| 200 | from asap._asap import srctype |
---|
| 201 | sel = selector() |
---|
| 202 | sel.set_types( srctype.pson ) |
---|
| 203 | try: |
---|
| 204 | scantab.set_selection( sel ) |
---|
| 205 | except Exception, e: |
---|
[1391] | 206 | msg = "The input data appear to contain no position-switch mode data." |
---|
| 207 | if rcParams['verbose']: |
---|
[1819] | 208 | #print msg |
---|
| 209 | asaplog.push(msg) |
---|
| 210 | print_log('ERROR') |
---|
[1391] | 211 | return |
---|
| 212 | else: |
---|
| 213 | raise TypeError(msg) |
---|
[1819] | 214 | s.set_selection() |
---|
| 215 | sel.reset() |
---|
[1391] | 216 | ssub = s.get_scan(scannos) |
---|
| 217 | if ssub is None: |
---|
| 218 | msg = "No data was found with given scan numbers!" |
---|
| 219 | if rcParams['verbose']: |
---|
[1819] | 220 | #print msg |
---|
| 221 | asaplog.push(msg) |
---|
| 222 | print_log('ERROR') |
---|
[1391] | 223 | return |
---|
| 224 | else: |
---|
| 225 | raise TypeError(msg) |
---|
[1819] | 226 | #ssubon = ssub.get_scan('*calon') |
---|
| 227 | #ssuboff = ssub.get_scan('*[^calon]') |
---|
| 228 | sel.set_types( [srctype.poncal,srctype.poffcal] ) |
---|
| 229 | ssub.set_selection( sel ) |
---|
| 230 | ssubon = ssub.copy() |
---|
| 231 | ssub.set_selection() |
---|
| 232 | sel.reset() |
---|
| 233 | sel.set_types( [srctype.pson,srctype.psoff] ) |
---|
| 234 | ssub.set_selection( sel ) |
---|
| 235 | ssuboff = ssub.copy() |
---|
| 236 | ssub.set_selection() |
---|
| 237 | sel.reset() |
---|
[1391] | 238 | if ssubon.nrow() != ssuboff.nrow(): |
---|
| 239 | msg = "mismatch in numbers of CAL on/off scans. Cannot calibrate. Check the scan numbers." |
---|
| 240 | if rcParams['verbose']: |
---|
[1819] | 241 | #print msg |
---|
| 242 | asaplog.push(msg) |
---|
| 243 | print_log('ERROR') |
---|
[1391] | 244 | return |
---|
| 245 | else: |
---|
| 246 | raise TypeError(msg) |
---|
| 247 | cals = dototalpower(ssubon, ssuboff, tcalval) |
---|
[1819] | 248 | #sig = cals.get_scan('*ps') |
---|
| 249 | #ref = cals.get_scan('*psr') |
---|
| 250 | sel.set_types( srctype.pson ) |
---|
| 251 | cals.set_selection( sel ) |
---|
| 252 | sig = cals.copy() |
---|
| 253 | cals.set_selection() |
---|
| 254 | sel.reset() |
---|
| 255 | sel.set_types( srctype.psoff ) |
---|
| 256 | cals.set_selection( sel ) |
---|
| 257 | ref = cals.copy() |
---|
| 258 | cals.set_selection() |
---|
| 259 | sel.reset() |
---|
[1391] | 260 | if sig.nscan() != ref.nscan(): |
---|
| 261 | msg = "mismatch in numbers of on/off scans. Cannot calibrate. Check the scan numbers." |
---|
| 262 | if rcParams['verbose']: |
---|
[1819] | 263 | #print msg |
---|
| 264 | asaplog.push(msg) |
---|
| 265 | print_log('ERROR') |
---|
[1391] | 266 | return |
---|
| 267 | else: |
---|
| 268 | raise TypeError(msg) |
---|
| 269 | |
---|
| 270 | #for user supplied Tsys |
---|
| 271 | if tsysval>0.0: |
---|
| 272 | if tauval<=0.0: |
---|
| 273 | msg = "Need to supply a valid tau to use the supplied Tsys" |
---|
| 274 | if rcParams['verbose']: |
---|
[1819] | 275 | #print msg |
---|
| 276 | asaplog.push(msg) |
---|
| 277 | print_log('ERROR') |
---|
[1391] | 278 | return |
---|
| 279 | else: |
---|
| 280 | raise TypeError(msg) |
---|
| 281 | else: |
---|
| 282 | sig.recalc_azel() |
---|
| 283 | ref.recalc_azel() |
---|
| 284 | #msg = "Use of user specified Tsys is not fully implemented yet." |
---|
| 285 | #if rcParams['verbose']: |
---|
| 286 | # print msg |
---|
| 287 | # return |
---|
| 288 | #else: |
---|
| 289 | # raise TypeError(msg) |
---|
| 290 | # use get_elevation to get elevation and |
---|
| 291 | # calculate a scaling factor using the formula |
---|
| 292 | # -> tsys use to dosigref |
---|
| 293 | |
---|
| 294 | #ress = dosigref(sig, ref, smooth, tsysval) |
---|
| 295 | ress = dosigref(sig, ref, smooth, tsysval, tauval) |
---|
[1819] | 296 | ### |
---|
| 297 | if verify: |
---|
| 298 | # get data |
---|
| 299 | import numpy |
---|
| 300 | precal={} |
---|
| 301 | postcal=[] |
---|
| 302 | keys=['ps','ps_calon','psr','psr_calon'] |
---|
| 303 | types=[srctype.pson,srctype.poncal,srctype.psoff,srctype.poffcal] |
---|
| 304 | ifnos=list(ssub.getifnos()) |
---|
| 305 | polnos=list(ssub.getpolnos()) |
---|
| 306 | sel=selector() |
---|
| 307 | for i in range(2): |
---|
| 308 | #ss=ssuboff.get_scan('*'+keys[2*i]) |
---|
| 309 | ll=[] |
---|
| 310 | for j in range(len(ifnos)): |
---|
| 311 | for k in range(len(polnos)): |
---|
| 312 | sel.set_ifs(ifnos[j]) |
---|
| 313 | sel.set_polarizations(polnos[k]) |
---|
| 314 | sel.set_types(types[2*i]) |
---|
| 315 | try: |
---|
| 316 | #ss.set_selection(sel) |
---|
| 317 | ssuboff.set_selection(sel) |
---|
| 318 | except: |
---|
| 319 | continue |
---|
| 320 | #ll.append(numpy.array(ss._getspectrum(0))) |
---|
| 321 | ll.append(numpy.array(ssuboff._getspectrum(0))) |
---|
| 322 | sel.reset() |
---|
| 323 | ssuboff.set_selection() |
---|
| 324 | precal[keys[2*i]]=ll |
---|
| 325 | #del ss |
---|
| 326 | #ss=ssubon.get_scan('*'+keys[2*i+1]) |
---|
| 327 | ll=[] |
---|
| 328 | for j in range(len(ifnos)): |
---|
| 329 | for k in range(len(polnos)): |
---|
| 330 | sel.set_ifs(ifnos[j]) |
---|
| 331 | sel.set_polarizations(polnos[k]) |
---|
| 332 | sel.set_types(types[2*i+1]) |
---|
| 333 | try: |
---|
| 334 | #ss.set_selection(sel) |
---|
| 335 | ssubon.set_selection(sel) |
---|
| 336 | except: |
---|
| 337 | continue |
---|
| 338 | #ll.append(numpy.array(ss._getspectrum(0))) |
---|
| 339 | ll.append(numpy.array(ssubon._getspectrum(0))) |
---|
| 340 | sel.reset() |
---|
| 341 | ssubon.set_selection() |
---|
| 342 | precal[keys[2*i+1]]=ll |
---|
| 343 | #del ss |
---|
| 344 | for j in range(len(ifnos)): |
---|
| 345 | for k in range(len(polnos)): |
---|
| 346 | sel.set_ifs(ifnos[j]) |
---|
| 347 | sel.set_polarizations(polnos[k]) |
---|
| 348 | try: |
---|
| 349 | ress.set_selection(sel) |
---|
| 350 | except: |
---|
| 351 | continue |
---|
| 352 | postcal.append(numpy.array(ress._getspectrum(0))) |
---|
| 353 | sel.reset() |
---|
| 354 | ress.set_selection() |
---|
| 355 | del sel |
---|
| 356 | # plot |
---|
| 357 | print_log() |
---|
| 358 | asaplog.push('Plot only first spectrum for each [if,pol] pairs to verify calibration.') |
---|
| 359 | print_log('WARN') |
---|
| 360 | p=asaplotgui.asaplotgui() |
---|
| 361 | #nr=min(6,len(ifnos)*len(polnos)) |
---|
| 362 | nr=len(ifnos)*len(polnos) |
---|
| 363 | titles=[] |
---|
| 364 | btics=[] |
---|
| 365 | if nr<4: |
---|
| 366 | p.set_panels(rows=nr,cols=2,nplots=2*nr,ganged=False) |
---|
| 367 | for i in range(2*nr): |
---|
| 368 | b=False |
---|
| 369 | if i >= 2*nr-2: |
---|
| 370 | b=True |
---|
| 371 | btics.append(b) |
---|
| 372 | elif nr==4: |
---|
| 373 | p.set_panels(rows=2,cols=4,nplots=8,ganged=False) |
---|
| 374 | for i in range(2*nr): |
---|
| 375 | b=False |
---|
| 376 | if i >= 2*nr-4: |
---|
| 377 | b=True |
---|
| 378 | btics.append(b) |
---|
| 379 | elif nr<7: |
---|
| 380 | p.set_panels(rows=3,cols=4,nplots=2*nr,ganged=False) |
---|
| 381 | for i in range(2*nr): |
---|
| 382 | if i >= 2*nr-4: |
---|
| 383 | b=True |
---|
| 384 | btics.append(b) |
---|
| 385 | else: |
---|
| 386 | print_log() |
---|
| 387 | asaplog.push('Only first 6 [if,pol] pairs are plotted.') |
---|
| 388 | print_log('WARN') |
---|
| 389 | nr=6 |
---|
| 390 | for i in range(2*nr): |
---|
| 391 | b=False |
---|
| 392 | if i >= 2*nr-4: |
---|
| 393 | b=True |
---|
| 394 | btics.append(b) |
---|
| 395 | p.set_panels(rows=3,cols=4,nplots=2*nr,ganged=False) |
---|
| 396 | for i in range(nr): |
---|
| 397 | p.subplot(2*i) |
---|
| 398 | p.color=0 |
---|
| 399 | title='raw data IF%s POL%s' % (ifnos[int(i/len(polnos))],polnos[i%len(polnos)]) |
---|
| 400 | titles.append(title) |
---|
| 401 | #p.set_axes('title',title,fontsize=40) |
---|
| 402 | ymin=1.0e100 |
---|
| 403 | ymax=-1.0e100 |
---|
| 404 | nchan=s.nchan() |
---|
| 405 | edge=int(nchan*0.01) |
---|
| 406 | for j in range(4): |
---|
| 407 | spmin=min(precal[keys[j]][i][edge:nchan-edge]) |
---|
| 408 | spmax=max(precal[keys[j]][i][edge:nchan-edge]) |
---|
| 409 | ymin=min(ymin,spmin) |
---|
| 410 | ymax=max(ymax,spmax) |
---|
| 411 | for j in range(4): |
---|
| 412 | if i==0: |
---|
| 413 | p.set_line(label=keys[j]) |
---|
| 414 | else: |
---|
| 415 | p.legend() |
---|
| 416 | p.plot(precal[keys[j]][i]) |
---|
| 417 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax)) |
---|
| 418 | if not btics[2*i]: |
---|
| 419 | p.axes.set_xticks([]) |
---|
| 420 | p.subplot(2*i+1) |
---|
| 421 | p.color=0 |
---|
| 422 | title='cal data IF%s POL%s' % (ifnos[int(i/len(polnos))],polnos[i%len(polnos)]) |
---|
| 423 | titles.append(title) |
---|
| 424 | #p.set_axes('title',title) |
---|
| 425 | p.legend() |
---|
| 426 | ymin=postcal[i][edge:nchan-edge].min() |
---|
| 427 | ymax=postcal[i][edge:nchan-edge].max() |
---|
| 428 | p.plot(postcal[i]) |
---|
| 429 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax)) |
---|
| 430 | if not btics[2*i+1]: |
---|
| 431 | p.axes.set_xticks([]) |
---|
| 432 | for i in range(2*nr): |
---|
| 433 | p.subplot(i) |
---|
| 434 | p.set_axes('title',titles[i],fontsize='medium') |
---|
| 435 | x=raw_input('Accept calibration ([y]/n): ' ) |
---|
| 436 | if x.upper() == 'N': |
---|
| 437 | p.unmap() |
---|
| 438 | del p |
---|
| 439 | return scabtab |
---|
| 440 | p.unmap() |
---|
| 441 | del p |
---|
| 442 | ### |
---|
[1391] | 443 | ress._add_history("calps", varlist) |
---|
[1819] | 444 | print_log() |
---|
[1391] | 445 | return ress |
---|
| 446 | |
---|
[1589] | 447 | @print_log_dec |
---|
[1819] | 448 | def calnod(scantab, scannos=[], smooth=1, tsysval=0.0, tauval=0.0, tcalval=0.0, verify=False): |
---|
[1391] | 449 | """ |
---|
| 450 | Do full (but a pair of scans at time) processing of GBT Nod data |
---|
| 451 | calibration. |
---|
| 452 | Adopted from GBTIDL's getnod |
---|
| 453 | Parameters: |
---|
| 454 | scantab: scantable |
---|
| 455 | scannos: a pair of scan numbers, or the first scan number of the pair |
---|
| 456 | smooth: box car smoothing order |
---|
| 457 | tsysval: optional user specified Tsys value |
---|
| 458 | tauval: optional user specified tau value (not implemented yet) |
---|
| 459 | tcalval: optional user specified Tcal value |
---|
| 460 | """ |
---|
| 461 | varlist = vars() |
---|
| 462 | from asap._asap import stmath |
---|
[1819] | 463 | from asap._asap import srctype |
---|
[1391] | 464 | stm = stmath() |
---|
| 465 | stm._setinsitu(False) |
---|
| 466 | |
---|
| 467 | # check for the appropriate data |
---|
[1819] | 468 | ## s = scantab.get_scan('*_nod*') |
---|
| 469 | ## if s is None: |
---|
| 470 | ## msg = "The input data appear to contain no Nod observing mode data." |
---|
| 471 | ## if rcParams['verbose']: |
---|
| 472 | ## #print msg |
---|
| 473 | ## asaplog.push(msg) |
---|
| 474 | ## print_log('ERROR') |
---|
| 475 | ## return |
---|
| 476 | ## else: |
---|
| 477 | ## raise TypeError(msg) |
---|
| 478 | s = scantab.copy() |
---|
| 479 | sel = selector() |
---|
| 480 | sel.set_types( srctype.nod ) |
---|
| 481 | try: |
---|
| 482 | s.set_selection( sel ) |
---|
| 483 | except Exception, e: |
---|
[1391] | 484 | msg = "The input data appear to contain no Nod observing mode data." |
---|
| 485 | if rcParams['verbose']: |
---|
[1819] | 486 | #print msg |
---|
| 487 | asaplog.push(msg) |
---|
| 488 | print_log('ERROR') |
---|
[1391] | 489 | return |
---|
| 490 | else: |
---|
| 491 | raise TypeError(msg) |
---|
[1819] | 492 | sel.reset() |
---|
| 493 | del sel |
---|
| 494 | del s |
---|
[1391] | 495 | |
---|
| 496 | # need check correspondance of each beam with sig-ref ... |
---|
| 497 | # check for timestamps, scan numbers, subscan id (not available in |
---|
| 498 | # ASAP data format...). Assume 1st scan of the pair (beam 0 - sig |
---|
| 499 | # and beam 1 - ref...) |
---|
| 500 | # First scan number of paired scans or list of pairs of |
---|
| 501 | # scan numbers (has to have even number of pairs.) |
---|
| 502 | |
---|
| 503 | #data splitting |
---|
| 504 | scan1no = scan2no = 0 |
---|
| 505 | |
---|
| 506 | if len(scannos)==1: |
---|
| 507 | scan1no = scannos[0] |
---|
| 508 | scan2no = scannos[0]+1 |
---|
| 509 | pairScans = [scan1no, scan2no] |
---|
| 510 | else: |
---|
| 511 | #if len(scannos)>2: |
---|
| 512 | # msg = "calnod can only process a pair of nod scans at time." |
---|
| 513 | # if rcParams['verbose']: |
---|
| 514 | # print msg |
---|
| 515 | # return |
---|
| 516 | # else: |
---|
| 517 | # raise TypeError(msg) |
---|
| 518 | # |
---|
| 519 | #if len(scannos)==2: |
---|
| 520 | # scan1no = scannos[0] |
---|
| 521 | # scan2no = scannos[1] |
---|
| 522 | pairScans = list(scannos) |
---|
| 523 | |
---|
| 524 | if tsysval>0.0: |
---|
| 525 | if tauval<=0.0: |
---|
| 526 | msg = "Need to supply a valid tau to use the supplied Tsys" |
---|
| 527 | if rcParams['verbose']: |
---|
[1819] | 528 | #print msg |
---|
| 529 | asaplog.push(msg) |
---|
| 530 | print_log('ERROR') |
---|
[1391] | 531 | return |
---|
| 532 | else: |
---|
| 533 | raise TypeError(msg) |
---|
| 534 | else: |
---|
| 535 | scantab.recalc_azel() |
---|
| 536 | resspec = scantable(stm._donod(scantab, pairScans, smooth, tsysval,tauval,tcalval)) |
---|
[1819] | 537 | ### |
---|
| 538 | if verify: |
---|
| 539 | # get data |
---|
| 540 | import numpy |
---|
| 541 | precal={} |
---|
| 542 | postcal=[] |
---|
| 543 | keys=['','_calon'] |
---|
| 544 | types=[srctype.nod,srctype.nodcal] |
---|
| 545 | ifnos=list(scantab.getifnos()) |
---|
| 546 | polnos=list(scantab.getpolnos()) |
---|
| 547 | sel=selector() |
---|
| 548 | ss = scantab.copy() |
---|
| 549 | for i in range(2): |
---|
| 550 | #ss=scantab.get_scan('*'+keys[i]) |
---|
| 551 | ll=[] |
---|
| 552 | ll2=[] |
---|
| 553 | for j in range(len(ifnos)): |
---|
| 554 | for k in range(len(polnos)): |
---|
| 555 | sel.set_ifs(ifnos[j]) |
---|
| 556 | sel.set_polarizations(polnos[k]) |
---|
| 557 | sel.set_scans(pairScans[0]) |
---|
| 558 | sel.set_types(types[i]) |
---|
| 559 | try: |
---|
| 560 | ss.set_selection(sel) |
---|
| 561 | except: |
---|
| 562 | continue |
---|
| 563 | ll.append(numpy.array(ss._getspectrum(0))) |
---|
| 564 | sel.reset() |
---|
| 565 | ss.set_selection() |
---|
| 566 | sel.set_ifs(ifnos[j]) |
---|
| 567 | sel.set_polarizations(polnos[k]) |
---|
| 568 | sel.set_scans(pairScans[1]) |
---|
| 569 | sel.set_types(types[i]) |
---|
| 570 | try: |
---|
| 571 | ss.set_selection(sel) |
---|
| 572 | except: |
---|
| 573 | ll.pop() |
---|
| 574 | continue |
---|
| 575 | ll2.append(numpy.array(ss._getspectrum(0))) |
---|
| 576 | sel.reset() |
---|
| 577 | ss.set_selection() |
---|
| 578 | key='%s%s' %(pairScans[0],keys[i]) |
---|
| 579 | precal[key]=ll |
---|
| 580 | key='%s%s' %(pairScans[1],keys[i]) |
---|
| 581 | precal[key]=ll2 |
---|
| 582 | #del ss |
---|
| 583 | keys=precal.keys() |
---|
| 584 | for j in range(len(ifnos)): |
---|
| 585 | for k in range(len(polnos)): |
---|
| 586 | sel.set_ifs(ifnos[j]) |
---|
| 587 | sel.set_polarizations(polnos[k]) |
---|
| 588 | sel.set_scans(pairScans[0]) |
---|
| 589 | try: |
---|
| 590 | resspec.set_selection(sel) |
---|
| 591 | except: |
---|
| 592 | continue |
---|
| 593 | postcal.append(numpy.array(resspec._getspectrum(0))) |
---|
| 594 | sel.reset() |
---|
| 595 | resspec.set_selection() |
---|
| 596 | del sel |
---|
| 597 | # plot |
---|
| 598 | print_log() |
---|
| 599 | asaplog.push('Plot only first spectrum for each [if,pol] pairs to verify calibration.') |
---|
| 600 | print_log('WARN') |
---|
| 601 | p=asaplotgui.asaplotgui() |
---|
| 602 | #nr=min(6,len(ifnos)*len(polnos)) |
---|
| 603 | nr=len(ifnos)*len(polnos) |
---|
| 604 | titles=[] |
---|
| 605 | btics=[] |
---|
| 606 | if nr<4: |
---|
| 607 | p.set_panels(rows=nr,cols=2,nplots=2*nr,ganged=False) |
---|
| 608 | for i in range(2*nr): |
---|
| 609 | b=False |
---|
| 610 | if i >= 2*nr-2: |
---|
| 611 | b=True |
---|
| 612 | btics.append(b) |
---|
| 613 | elif nr==4: |
---|
| 614 | p.set_panels(rows=2,cols=4,nplots=8,ganged=False) |
---|
| 615 | for i in range(2*nr): |
---|
| 616 | b=False |
---|
| 617 | if i >= 2*nr-4: |
---|
| 618 | b=True |
---|
| 619 | btics.append(b) |
---|
| 620 | elif nr<7: |
---|
| 621 | p.set_panels(rows=3,cols=4,nplots=2*nr,ganged=False) |
---|
| 622 | for i in range(2*nr): |
---|
| 623 | if i >= 2*nr-4: |
---|
| 624 | b=True |
---|
| 625 | btics.append(b) |
---|
| 626 | else: |
---|
| 627 | print_log() |
---|
| 628 | asaplog.push('Only first 6 [if,pol] pairs are plotted.') |
---|
| 629 | print_log('WARN') |
---|
| 630 | nr=6 |
---|
| 631 | for i in range(2*nr): |
---|
| 632 | b=False |
---|
| 633 | if i >= 2*nr-4: |
---|
| 634 | b=True |
---|
| 635 | btics.append(b) |
---|
| 636 | p.set_panels(rows=3,cols=4,nplots=2*nr,ganged=False) |
---|
| 637 | for i in range(nr): |
---|
| 638 | p.subplot(2*i) |
---|
| 639 | p.color=0 |
---|
| 640 | title='raw data IF%s POL%s' % (ifnos[int(i/len(polnos))],polnos[i%len(polnos)]) |
---|
| 641 | titles.append(title) |
---|
| 642 | #p.set_axes('title',title,fontsize=40) |
---|
| 643 | ymin=1.0e100 |
---|
| 644 | ymax=-1.0e100 |
---|
| 645 | nchan=scantab.nchan() |
---|
| 646 | edge=int(nchan*0.01) |
---|
| 647 | for j in range(4): |
---|
| 648 | spmin=min(precal[keys[j]][i][edge:nchan-edge]) |
---|
| 649 | spmax=max(precal[keys[j]][i][edge:nchan-edge]) |
---|
| 650 | ymin=min(ymin,spmin) |
---|
| 651 | ymax=max(ymax,spmax) |
---|
| 652 | for j in range(4): |
---|
| 653 | if i==0: |
---|
| 654 | p.set_line(label=keys[j]) |
---|
| 655 | else: |
---|
| 656 | p.legend() |
---|
| 657 | p.plot(precal[keys[j]][i]) |
---|
| 658 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax)) |
---|
| 659 | if not btics[2*i]: |
---|
| 660 | p.axes.set_xticks([]) |
---|
| 661 | p.subplot(2*i+1) |
---|
| 662 | p.color=0 |
---|
| 663 | title='cal data IF%s POL%s' % (ifnos[int(i/len(polnos))],polnos[i%len(polnos)]) |
---|
| 664 | titles.append(title) |
---|
| 665 | #p.set_axes('title',title) |
---|
| 666 | p.legend() |
---|
| 667 | ymin=postcal[i][edge:nchan-edge].min() |
---|
| 668 | ymax=postcal[i][edge:nchan-edge].max() |
---|
| 669 | p.plot(postcal[i]) |
---|
| 670 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax)) |
---|
| 671 | if not btics[2*i+1]: |
---|
| 672 | p.axes.set_xticks([]) |
---|
| 673 | for i in range(2*nr): |
---|
| 674 | p.subplot(i) |
---|
| 675 | p.set_axes('title',titles[i],fontsize='medium') |
---|
| 676 | x=raw_input('Accept calibration ([y]/n): ' ) |
---|
| 677 | if x.upper() == 'N': |
---|
| 678 | p.unmap() |
---|
| 679 | del p |
---|
| 680 | return scabtab |
---|
| 681 | p.unmap() |
---|
| 682 | del p |
---|
| 683 | ### |
---|
[1391] | 684 | resspec._add_history("calnod",varlist) |
---|
[1819] | 685 | print_log() |
---|
[1391] | 686 | return resspec |
---|
| 687 | |
---|
[1589] | 688 | @print_log_dec |
---|
[1819] | 689 | def calfs(scantab, scannos=[], smooth=1, tsysval=0.0, tauval=0.0, tcalval=0.0, verify=False): |
---|
[1391] | 690 | """ |
---|
| 691 | Calibrate GBT frequency switched data. |
---|
| 692 | Adopted from GBTIDL getfs. |
---|
| 693 | Currently calfs identify the scans as frequency switched data if they |
---|
| 694 | contain '_fs' in the source name. The data must contains 'CAL' signal |
---|
| 695 | on/off in each integration. To identify 'CAL' on state, the word, 'calon' |
---|
| 696 | need to be present in the source name field. |
---|
| 697 | (GBT MS data reading via scantable automatically append these |
---|
| 698 | id names to the source names) |
---|
| 699 | |
---|
| 700 | Parameters: |
---|
| 701 | scantab: scantable |
---|
| 702 | scannos: list of scan numbers |
---|
| 703 | smooth: optional box smoothing order for the reference |
---|
| 704 | (default is 1 = no smoothing) |
---|
| 705 | tsysval: optional user specified Tsys (default is 0.0, |
---|
| 706 | use Tsys in the data) |
---|
| 707 | tauval: optional user specified Tau |
---|
| 708 | """ |
---|
| 709 | varlist = vars() |
---|
| 710 | from asap._asap import stmath |
---|
[1819] | 711 | from asap._asap import srctype |
---|
[1391] | 712 | stm = stmath() |
---|
| 713 | stm._setinsitu(False) |
---|
| 714 | |
---|
| 715 | # check = scantab.get_scan('*_fs*') |
---|
| 716 | # if check is None: |
---|
| 717 | # msg = "The input data appear to contain no Nod observing mode data." |
---|
| 718 | # if rcParams['verbose']: |
---|
| 719 | # print msg |
---|
| 720 | # return |
---|
| 721 | # else: |
---|
| 722 | # raise TypeError(msg) |
---|
| 723 | s = scantab.get_scan(scannos) |
---|
| 724 | del scantab |
---|
| 725 | |
---|
| 726 | resspec = scantable(stm._dofs(s, scannos, smooth, tsysval,tauval,tcalval)) |
---|
[1819] | 727 | ### |
---|
| 728 | if verify: |
---|
| 729 | # get data |
---|
| 730 | ssub = s.get_scan(scannos) |
---|
| 731 | #ssubon = ssub.get_scan('*calon') |
---|
| 732 | #ssuboff = ssub.get_scan('*[^calon]') |
---|
| 733 | sel = selector() |
---|
| 734 | sel.set_types( [srctype.foncal,srctype.foffcal] ) |
---|
| 735 | ssub.set_selection( sel ) |
---|
| 736 | ssubon = ssub.copy() |
---|
| 737 | ssub.set_selection() |
---|
| 738 | sel.reset() |
---|
| 739 | sel.set_types( [srctype.fson,srctype.fsoff] ) |
---|
| 740 | ssub.set_selection( sel ) |
---|
| 741 | ssuboff = ssub.copy() |
---|
| 742 | ssub.set_selection() |
---|
| 743 | sel.reset() |
---|
| 744 | import numpy |
---|
| 745 | precal={} |
---|
| 746 | postcal=[] |
---|
| 747 | keys=['fs','fs_calon','fsr','fsr_calon'] |
---|
| 748 | types=[srctype.fson,srctype.foncal,srctype.fsoff,srctype.foffcal] |
---|
| 749 | ifnos=list(ssub.getifnos()) |
---|
| 750 | polnos=list(ssub.getpolnos()) |
---|
| 751 | for i in range(2): |
---|
| 752 | #ss=ssuboff.get_scan('*'+keys[2*i]) |
---|
| 753 | ll=[] |
---|
| 754 | for j in range(len(ifnos)): |
---|
| 755 | for k in range(len(polnos)): |
---|
| 756 | sel.set_ifs(ifnos[j]) |
---|
| 757 | sel.set_polarizations(polnos[k]) |
---|
| 758 | sel.set_types(types[2*i]) |
---|
| 759 | try: |
---|
| 760 | #ss.set_selection(sel) |
---|
| 761 | ssuboff.set_selection(sel) |
---|
| 762 | except: |
---|
| 763 | continue |
---|
| 764 | ll.append(numpy.array(ss._getspectrum(0))) |
---|
| 765 | sel.reset() |
---|
| 766 | #ss.set_selection() |
---|
| 767 | ssuboff.set_selection() |
---|
| 768 | precal[keys[2*i]]=ll |
---|
| 769 | #del ss |
---|
| 770 | #ss=ssubon.get_scan('*'+keys[2*i+1]) |
---|
| 771 | ll=[] |
---|
| 772 | for j in range(len(ifnos)): |
---|
| 773 | for k in range(len(polnos)): |
---|
| 774 | sel.set_ifs(ifnos[j]) |
---|
| 775 | sel.set_polarizations(polnos[k]) |
---|
| 776 | sel.set_types(types[2*i+1]) |
---|
| 777 | try: |
---|
| 778 | #ss.set_selection(sel) |
---|
| 779 | ssubon.set_selection(sel) |
---|
| 780 | except: |
---|
| 781 | continue |
---|
| 782 | ll.append(numpy.array(ss._getspectrum(0))) |
---|
| 783 | sel.reset() |
---|
| 784 | #ss.set_selection() |
---|
| 785 | ssubon.set_selection() |
---|
| 786 | precal[keys[2*i+1]]=ll |
---|
| 787 | #del ss |
---|
| 788 | #sig=resspec.get_scan('*_fs') |
---|
| 789 | #ref=resspec.get_scan('*_fsr') |
---|
| 790 | sel.set_types( srctype.fson ) |
---|
| 791 | resspec.set_selection( sel ) |
---|
| 792 | sig=resspec.copy() |
---|
| 793 | resspec.set_selection() |
---|
| 794 | sel.reset() |
---|
| 795 | sel.set_type( srctype.fsoff ) |
---|
| 796 | resspec.set_selection( sel ) |
---|
| 797 | ref=resspec.copy() |
---|
| 798 | resspec.set_selection() |
---|
| 799 | sel.reset() |
---|
| 800 | for k in range(len(polnos)): |
---|
| 801 | for j in range(len(ifnos)): |
---|
| 802 | sel.set_ifs(ifnos[j]) |
---|
| 803 | sel.set_polarizations(polnos[k]) |
---|
| 804 | try: |
---|
| 805 | sig.set_selection(sel) |
---|
| 806 | postcal.append(numpy.array(sig._getspectrum(0))) |
---|
| 807 | except: |
---|
| 808 | ref.set_selection(sel) |
---|
| 809 | postcal.append(numpy.array(ref._getspectrum(0))) |
---|
| 810 | sel.reset() |
---|
| 811 | resspec.set_selection() |
---|
| 812 | del sel |
---|
| 813 | # plot |
---|
| 814 | print_log() |
---|
| 815 | asaplog.push('Plot only first spectrum for each [if,pol] pairs to verify calibration.') |
---|
| 816 | print_log('WARN') |
---|
| 817 | p=asaplotgui.asaplotgui() |
---|
| 818 | #nr=min(6,len(ifnos)*len(polnos)) |
---|
| 819 | nr=len(ifnos)/2*len(polnos) |
---|
| 820 | titles=[] |
---|
| 821 | btics=[] |
---|
| 822 | if nr>3: |
---|
| 823 | print_log() |
---|
| 824 | asaplog.push('Only first 3 [if,pol] pairs are plotted.') |
---|
| 825 | print_log('WARN') |
---|
| 826 | nr=3 |
---|
| 827 | p.set_panels(rows=nr,cols=3,nplots=3*nr,ganged=False) |
---|
| 828 | for i in range(3*nr): |
---|
| 829 | b=False |
---|
| 830 | if i >= 3*nr-3: |
---|
| 831 | b=True |
---|
| 832 | btics.append(b) |
---|
| 833 | for i in range(nr): |
---|
| 834 | p.subplot(3*i) |
---|
| 835 | p.color=0 |
---|
| 836 | title='raw data IF%s,%s POL%s' % (ifnos[2*int(i/len(polnos))],ifnos[2*int(i/len(polnos))+1],polnos[i%len(polnos)]) |
---|
| 837 | titles.append(title) |
---|
| 838 | #p.set_axes('title',title,fontsize=40) |
---|
| 839 | ymin=1.0e100 |
---|
| 840 | ymax=-1.0e100 |
---|
| 841 | nchan=s.nchan() |
---|
| 842 | edge=int(nchan*0.01) |
---|
| 843 | for j in range(4): |
---|
| 844 | spmin=min(precal[keys[j]][i][edge:nchan-edge]) |
---|
| 845 | spmax=max(precal[keys[j]][i][edge:nchan-edge]) |
---|
| 846 | ymin=min(ymin,spmin) |
---|
| 847 | ymax=max(ymax,spmax) |
---|
| 848 | for j in range(4): |
---|
| 849 | if i==0: |
---|
| 850 | p.set_line(label=keys[j]) |
---|
| 851 | else: |
---|
| 852 | p.legend() |
---|
| 853 | p.plot(precal[keys[j]][i]) |
---|
| 854 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax)) |
---|
| 855 | if not btics[3*i]: |
---|
| 856 | p.axes.set_xticks([]) |
---|
| 857 | p.subplot(3*i+1) |
---|
| 858 | p.color=0 |
---|
| 859 | title='sig data IF%s POL%s' % (ifnos[2*int(i/len(polnos))],polnos[i%len(polnos)]) |
---|
| 860 | titles.append(title) |
---|
| 861 | #p.set_axes('title',title) |
---|
| 862 | p.legend() |
---|
| 863 | ymin=postcal[2*i][edge:nchan-edge].min() |
---|
| 864 | ymax=postcal[2*i][edge:nchan-edge].max() |
---|
| 865 | p.plot(postcal[2*i]) |
---|
| 866 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax)) |
---|
| 867 | if not btics[3*i+1]: |
---|
| 868 | p.axes.set_xticks([]) |
---|
| 869 | p.subplot(3*i+2) |
---|
| 870 | p.color=0 |
---|
| 871 | title='ref data IF%s POL%s' % (ifnos[2*int(i/len(polnos))+1],polnos[i%len(polnos)]) |
---|
| 872 | titles.append(title) |
---|
| 873 | #p.set_axes('title',title) |
---|
| 874 | p.legend() |
---|
| 875 | ymin=postcal[2*i+1][edge:nchan-edge].min() |
---|
| 876 | ymax=postcal[2*i+1][edge:nchan-edge].max() |
---|
| 877 | p.plot(postcal[2*i+1]) |
---|
| 878 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax)) |
---|
| 879 | if not btics[3*i+2]: |
---|
| 880 | p.axes.set_xticks([]) |
---|
| 881 | for i in range(3*nr): |
---|
| 882 | p.subplot(i) |
---|
| 883 | p.set_axes('title',titles[i],fontsize='medium') |
---|
| 884 | x=raw_input('Accept calibration ([y]/n): ' ) |
---|
| 885 | if x.upper() == 'N': |
---|
| 886 | p.unmap() |
---|
| 887 | del p |
---|
| 888 | return scabtab |
---|
| 889 | p.unmap() |
---|
| 890 | del p |
---|
| 891 | ### |
---|
[1391] | 892 | resspec._add_history("calfs",varlist) |
---|
[1819] | 893 | print_log() |
---|
[1391] | 894 | return resspec |
---|
| 895 | |
---|
[1589] | 896 | @print_log_dec |
---|
[918] | 897 | def merge(*args): |
---|
[945] | 898 | """ |
---|
[1362] | 899 | Merge a list of scanatables, or comma-sperated scantables into one |
---|
| 900 | scnatble. |
---|
| 901 | Parameters: |
---|
| 902 | A list [scan1, scan2] or scan1, scan2. |
---|
| 903 | Example: |
---|
| 904 | myscans = [scan1, scan2] |
---|
[1589] | 905 | allscans = merge(myscans) |
---|
| 906 | # or equivalent |
---|
| 907 | sameallscans = merge(scan1, scan2) |
---|
[945] | 908 | """ |
---|
[918] | 909 | varlist = vars() |
---|
| 910 | if isinstance(args[0],list): |
---|
| 911 | lst = tuple(args[0]) |
---|
| 912 | elif isinstance(args[0],tuple): |
---|
| 913 | lst = args[0] |
---|
| 914 | else: |
---|
| 915 | lst = tuple(args) |
---|
| 916 | varlist["args"] = "%d scantables" % len(lst) |
---|
| 917 | # need special formatting her for history... |
---|
| 918 | from asap._asap import stmath |
---|
| 919 | stm = stmath() |
---|
| 920 | for s in lst: |
---|
| 921 | if not isinstance(s,scantable): |
---|
| 922 | msg = "Please give a list of scantables" |
---|
| 923 | if rcParams['verbose']: |
---|
[1819] | 924 | #print msg |
---|
| 925 | asaplog.push(msg) |
---|
| 926 | print_log('ERROR') |
---|
[918] | 927 | return |
---|
| 928 | else: |
---|
| 929 | raise TypeError(msg) |
---|
| 930 | s = scantable(stm._merge(lst)) |
---|
| 931 | s._add_history("merge", varlist) |
---|
[1819] | 932 | print_log() |
---|
[918] | 933 | return s |
---|
[1819] | 934 | |
---|
| 935 | def calibrate( scantab, scannos=[], calmode='none', verify=None ): |
---|
| 936 | """ |
---|
| 937 | Calibrate data. |
---|
[1826] | 938 | |
---|
[1819] | 939 | Parameters: |
---|
| 940 | scantab: scantable |
---|
| 941 | scannos: list of scan number |
---|
| 942 | calmode: calibration mode |
---|
[1826] | 943 | verify: verify calibration |
---|
[1819] | 944 | """ |
---|
| 945 | antname = scantab.get_antennaname() |
---|
| 946 | if ( calmode == 'nod' ): |
---|
| 947 | asaplog.push( 'Calibrating nod data.' ) |
---|
| 948 | print_log() |
---|
| 949 | scal = calnod( scantab, scannos=scannos, verify=verify ) |
---|
| 950 | elif ( calmode == 'quotient' ): |
---|
| 951 | asaplog.push( 'Calibrating using quotient.' ) |
---|
| 952 | print_log() |
---|
| 953 | scal = scantab.auto_quotient( verify=verify ) |
---|
| 954 | elif ( calmode == 'ps' ): |
---|
| 955 | asaplog.push( 'Calibrating %s position-switched data.' % antname ) |
---|
| 956 | print_log() |
---|
| 957 | if ( antname.find( 'APEX' ) != -1 ): |
---|
| 958 | scal = apexcal( scantab, scannos, calmode, verify ) |
---|
| 959 | elif ( antname.find( 'ALMA' ) != -1 or antname.find( 'OSF' ) != -1 ): |
---|
| 960 | scal = almacal( scantab, scannos, calmode, verify ) |
---|
| 961 | else: |
---|
| 962 | scal = calps( scantab, scannos=scannos, verify=verify ) |
---|
| 963 | elif ( calmode == 'fs' or calmode == 'fsotf' ): |
---|
| 964 | asaplog.push( 'Calibrating %s frequency-switched data.' % antname ) |
---|
| 965 | print_log() |
---|
| 966 | if ( antname.find( 'APEX' ) != -1 ): |
---|
| 967 | scal = apexcal( scantab, scannos, calmode, verify ) |
---|
| 968 | elif ( antname.find( 'ALMA' ) != -1 or antname.find( 'OSF' ) != -1 ): |
---|
| 969 | scal = almacal( scantab, scannos, calmode, verify ) |
---|
| 970 | else: |
---|
| 971 | scal = calfs( scantab, scannos=scannos, verify=verify ) |
---|
| 972 | elif ( calmode == 'otf' ): |
---|
| 973 | asaplog.push( 'Calibrating %s On-The-Fly data.' % antname ) |
---|
| 974 | print_log() |
---|
| 975 | scal = almacal( scantab, scannos, calmode, verify ) |
---|
| 976 | else: |
---|
| 977 | asaplog.push( 'No calibration.' ) |
---|
| 978 | scal = scantab.copy() |
---|
| 979 | |
---|
[1826] | 980 | return scal |
---|
[1819] | 981 | |
---|
| 982 | def apexcal( scantab, scannos=[], calmode='none', verify=False ): |
---|
| 983 | """ |
---|
| 984 | Calibrate APEX data |
---|
| 985 | |
---|
| 986 | Parameters: |
---|
| 987 | scantab: scantable |
---|
| 988 | scannos: list of scan number |
---|
| 989 | calmode: calibration mode |
---|
| 990 | |
---|
[1826] | 991 | verify: verify calibration |
---|
[1819] | 992 | """ |
---|
| 993 | from asap._asap import stmath |
---|
| 994 | stm = stmath() |
---|
| 995 | antname = scantab.get_antennaname() |
---|
| 996 | ssub = scantab.get_scan( scannos ) |
---|
| 997 | scal = scantable( stm.cwcal( ssub, calmode, antname ) ) |
---|
| 998 | return scal |
---|
| 999 | |
---|
| 1000 | def almacal( scantab, scannos=[], calmode='none', verify=False ): |
---|
| 1001 | """ |
---|
| 1002 | Calibrate ALMA data |
---|
| 1003 | |
---|
| 1004 | Parameters: |
---|
| 1005 | scantab: scantable |
---|
| 1006 | scannos: list of scan number |
---|
| 1007 | calmode: calibration mode |
---|
| 1008 | |
---|
[1826] | 1009 | verify: verify calibration |
---|
[1819] | 1010 | """ |
---|
| 1011 | from asap._asap import stmath |
---|
| 1012 | stm = stmath() |
---|
| 1013 | ssub = scantab.get_scan( scannos ) |
---|
| 1014 | scal = scantable( stm.almacal( ssub, calmode ) ) |
---|
| 1015 | return scal |
---|
| 1016 | |
---|
| 1017 | def splitant(filename, outprefix='',overwrite=False): |
---|
| 1018 | """ |
---|
| 1019 | Split Measurement set by antenna name, save data as a scantables, |
---|
| 1020 | and return a list of filename. |
---|
[1826] | 1021 | Notice this method can only be available from CASA. |
---|
[1819] | 1022 | Prameter |
---|
[1826] | 1023 | filename: the name of Measurement set to be read. |
---|
[1819] | 1024 | outprefix: the prefix of output scantable name. |
---|
| 1025 | the names of output scantable will be |
---|
| 1026 | outprefix.antenna1, outprefix.antenna2, .... |
---|
| 1027 | If not specified, outprefix = filename is assumed. |
---|
| 1028 | overwrite If the file should be overwritten if it exists. |
---|
| 1029 | The default False is to return with warning |
---|
| 1030 | without writing the output. USE WITH CARE. |
---|
[1826] | 1031 | |
---|
[1819] | 1032 | """ |
---|
| 1033 | # Import the table toolkit from CASA |
---|
| 1034 | try: |
---|
| 1035 | import casac |
---|
| 1036 | except ImportError: |
---|
| 1037 | if rcParams['verbose']: |
---|
| 1038 | #print "failed to load casa" |
---|
| 1039 | print_log() |
---|
| 1040 | asaplog.push("failed to load casa") |
---|
| 1041 | print_log('ERROR') |
---|
| 1042 | else: raise |
---|
| 1043 | return False |
---|
| 1044 | try: |
---|
| 1045 | tbtool = casac.homefinder.find_home_by_name('tableHome') |
---|
| 1046 | tb = tbtool.create() |
---|
| 1047 | tb2 = tbtool.create() |
---|
| 1048 | except: |
---|
| 1049 | if rcParams['verbose']: |
---|
| 1050 | #print "failed to load a table tool:\n", e |
---|
| 1051 | print_log() |
---|
| 1052 | asaplog.push("failed to load table tool") |
---|
| 1053 | print_log('ERROR') |
---|
| 1054 | else: raise |
---|
| 1055 | return False |
---|
| 1056 | # Check the input filename |
---|
| 1057 | if isinstance(filename, str): |
---|
| 1058 | import os.path |
---|
| 1059 | filename = os.path.expandvars(filename) |
---|
| 1060 | filename = os.path.expanduser(filename) |
---|
| 1061 | if not os.path.exists(filename): |
---|
| 1062 | s = "File '%s' not found." % (filename) |
---|
| 1063 | if rcParams['verbose']: |
---|
| 1064 | print_log() |
---|
| 1065 | asaplog.push(s) |
---|
| 1066 | print_log('ERROR') |
---|
| 1067 | return |
---|
| 1068 | raise IOError(s) |
---|
| 1069 | # check if input file is MS |
---|
| 1070 | if not os.path.isdir(filename) \ |
---|
| 1071 | or not os.path.exists(filename+'/ANTENNA') \ |
---|
[1826] | 1072 | or not os.path.exists(filename+'/table.f1'): |
---|
[1819] | 1073 | s = "File '%s' is not a Measurement set." % (filename) |
---|
| 1074 | if rcParams['verbose']: |
---|
| 1075 | print_log() |
---|
| 1076 | asaplog.push(s) |
---|
| 1077 | print_log('ERROR') |
---|
| 1078 | return |
---|
| 1079 | raise IOError(s) |
---|
| 1080 | else: |
---|
| 1081 | s = "The filename should be string. " |
---|
| 1082 | if rcParams['verbose']: |
---|
| 1083 | print_log() |
---|
| 1084 | asaplog.push(s) |
---|
| 1085 | print_log('ERROR') |
---|
| 1086 | return |
---|
| 1087 | raise TypeError(s) |
---|
| 1088 | # Check out put file name |
---|
| 1089 | outname='' |
---|
| 1090 | if len(outprefix) > 0: prefix=outprefix+'.' |
---|
| 1091 | else: |
---|
| 1092 | prefix=filename.rstrip('/') |
---|
| 1093 | # Now do the actual splitting. |
---|
| 1094 | outfiles=[] |
---|
| 1095 | tb.open(tablename=filename+'/ANTENNA',nomodify=True) |
---|
| 1096 | nant=tb.nrows() |
---|
| 1097 | antnames=tb.getcol('NAME',0,nant,1) |
---|
| 1098 | antpos=tb.getcol('POSITION',0,nant,1).transpose() |
---|
| 1099 | tb.close() |
---|
| 1100 | tb.open(tablename=filename,nomodify=True) |
---|
| 1101 | ant1=tb.getcol('ANTENNA1',0,-1,1) |
---|
| 1102 | tb.close() |
---|
| 1103 | for antid in set(ant1): |
---|
| 1104 | scan=scantable(filename,average=False,getpt=True,antenna=int(antid)) |
---|
| 1105 | outname=prefix+antnames[antid]+'.asap' |
---|
| 1106 | scan.save(outname,format='ASAP',overwrite=overwrite) |
---|
| 1107 | del scan |
---|
| 1108 | outfiles.append(outname) |
---|
| 1109 | del tb, tb2 |
---|
| 1110 | return outfiles |
---|
| 1111 | |
---|
| 1112 | def _array2dOp( scan, value, mode="ADD", tsys=False ): |
---|
| 1113 | """ |
---|
| 1114 | This function is workaround on the basic operation of scantable |
---|
| 1115 | with 2 dimensional float list. |
---|
| 1116 | |
---|
| 1117 | scan: scantable operand |
---|
| 1118 | value: float list operand |
---|
| 1119 | mode: operation mode (ADD, SUB, MUL, DIV) |
---|
[1826] | 1120 | tsys: if True, operate tsys as well |
---|
[1819] | 1121 | """ |
---|
| 1122 | nrow = scan.nrow() |
---|
| 1123 | s = None |
---|
| 1124 | if len( value ) == 1: |
---|
| 1125 | from asap._asap import stmath |
---|
| 1126 | stm = stmath() |
---|
| 1127 | s = scantable( stm._arrayop( scan.copy(), value[0], mode, tsys ) ) |
---|
| 1128 | del stm |
---|
| 1129 | elif len( value ) != nrow: |
---|
| 1130 | asaplog.push( 'len(value) must be 1 or conform to scan.nrow()' ) |
---|
| 1131 | print_log( 'ERROR' ) |
---|
| 1132 | else: |
---|
| 1133 | from asap._asap import stmath |
---|
| 1134 | stm = stmath() |
---|
[1826] | 1135 | # insitu must be True |
---|
[1819] | 1136 | stm._setinsitu( True ) |
---|
| 1137 | s = scan.copy() |
---|
| 1138 | sel = selector() |
---|
| 1139 | for irow in range( nrow ): |
---|
| 1140 | sel.set_rows( irow ) |
---|
| 1141 | s.set_selection( sel ) |
---|
| 1142 | if len( value[irow] ) == 1: |
---|
| 1143 | stm._unaryop( s, value[irow][0], mode, tsys ) |
---|
| 1144 | else: |
---|
| 1145 | stm._arrayop( s, value[irow], mode, tsys, 'channel' ) |
---|
| 1146 | s.set_selection() |
---|
| 1147 | sel.reset() |
---|
| 1148 | del sel |
---|
| 1149 | del stm |
---|
| 1150 | return s |
---|