keflavich commented 2 years ago

    Sgr_A_st_c_03_7M
    uid://A001/X15a0/Xae

[x] Observations completed?
[x] Delivered?
[x] Downloaded? (specify where)
- [x] hipergator
- [x] hipergator pipeline run
- Pipeline Run 20220323T142709
- Pipeline Run 20211222T165537
- Pipeline Run 20211222T173322
- Pipeline Run 20220227T053557
  - [x] UConn
[x] Weblog unpacked
[x] Weblog Quality Assessment?
- [x] Continuum has been re-imaged and uploaded to Globus
  - [x] Continuum cleaning was done with different CASA version. Will re-run with 6.2.1.7 for consistency.
[x] Imaging: Continuum
[x] Imaging: Lines
- [x] HCO+ (emission close to SPW edge, but OK)
- [x] HNCO (emission close to SPW edge, but OK)
- [x] H13CN
- [x] H13CO+/SiO
- [x] Cont 1 (some lines detected inc. CS v=0)
- [x] Cont 2 (some emission ~ 100 GHz. HC3N v=0?)

Product Links:

Reprocessed Product Links:

ashleythomasbarnes commented 2 years ago

HCO+

Pretty close to edge of window... Just okay?
This was not included in the regions we wanted to move. Screenshot 2021-12-17 at 14 31 16

snlongmore commented 2 years ago

I think this looks just about OK...

On 17 Dec 2021, at 13:34, Ashley Barnes @.**@.>> wrote:

HCO+

Pretty close to edge of window... Just okay? This was not included in the regions we wanted to move. [Screenshot 2021-12-17 at 14 31 16]https://hes32-ctp.trendmicro.com/wis/clicktime/v1/query?url=https%3a%2f%2fuser%2dimages.githubusercontent.com%2f30494539%2f146552206%2d9a4b98ae%2d289b%2d4a60%2d87b0%2de2ffe266e130.png&umid=8ac5a10d-503e-449b-8218-8cc935135422&auth=768f192bba830b801fed4f40fb360f4d1374fa7c-2dd8c4cadc1b8bab51d94f0fdec64a4f7cbabf0b

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d-l-walker commented 2 years ago

QA Summary

Inspected weblogs and downloaded data products at UConn.
Overall images look good with no obvious serious issues.
One serious error:hif_makeimages: Make target cubes: Reached niter limit QA tclean reached niter limit. Field: Sgr_A_star SPW: 20 Warning! tclean reached niter limit of 300000 for Sgr_A_star / spw20 / iter1 !. However, the cube for SPW 20 looks pretty good, and the residual shown on the weblog looks good too. So I don't think this warrants a re-clean.

Continuum

Looks good, but still quite a bit of structure in the residual. Would benefit from a deeper clean and improved masking parameters.
Continuum channel selection in SPW 16 could be better.

Cubes

In general, the cubes look good. Minor negative bowls in all SPWs near to strongest emission, but not severe. No signs of divergence in any SPWs/channels. Line-free moments look good in all cases.
Averaged spectra look good, with significant emission in all SPWs.
As noted above, SPW 20 cleaning was stopped due to reaching iteration limit, but it looks OK.
SPWs 20 & 22 have some emission close to the edge of the window, but I think it's just about OK. See below:
SPW 20:

SPW 22:

In general, the masking seems to be way too relaxed for the cube cleaning, in many cases effectively selecting the whole field. While this could be improved, the resulting line cubes look pretty good anyway. The example below is the most extreme case (SPW 24). [Edit: this is wrong. Inspecting the 3D mask shows that the automasking is actually doing a good job.]

keflavich commented 2 years ago

@d-l-walker the cleanmask shown is the "peak" of the mask - is it possible that means that there are holes in the mask in 3D, but that every spatial pixel has at least one mask-included spectral pixel? I have not inspected the masks carefully for any of these.

d-l-walker commented 2 years ago

@keflavich oops yeah, you're totally right, not sure how I missed that. Just inspected the 3D mask and it looks good. Thanks for catching that. I'll edit the above to clarify this.

keflavich commented 2 years ago

@d-l-walker It sounds like this whole observation set could be regarded as complete. Could you check off each of the checkboxes you examined? i.e., check the Imaging: HCO+ box if you've inspected the HCO+ cube and found it adequate, etc.

If there are any additional tasks needed - any reimaging - add them as new bulletpoints by editing the main post.

Part of the reason I'm asking you to do this is to make sure the permissions are set up so you can.

d-l-walker commented 2 years ago

@keflavich done. I've made a note that the continuum could be re-imaged to improve the residuals, but this is minor. Is this something that we're worrying about at this stage, or only major issues? If so, I can make a start on improving the cleaning.

keflavich commented 2 years ago

That's a good discussion point to add to the agenda for Wednesday's meeting.

I'm not really sure how strict we should be for 7m continuum. On one hand, cleaning deeper isn't going to change the data all that much. On the other, deep cleaning removes (or reduces) the need for JvM correction. If we're planning to use the 7m data for science, we may need the deeper clean - but we should then talk about what approach we'll take for that.

d-l-walker commented 2 years ago

Okay, good points. I do think it's probably unnecessary to re-clean in this case. I'll leave this as-is for now, and if it's decided that we're not going to re-image cases like this, I'll then move this to completed EBs.

d-l-walker commented 2 years ago

Update: Following our discussion during yesterday's telecon, I have downloaded the calibrated MSs and will look into re-imaging the continuum to improve the residuals. Given that this is minor and more exploratory, I am leaving this EB marked as completed for the time being. Will update as necessary.

d-l-walker commented 2 years ago

Update on re-imaging the continuum

I tweaked both the cleaning threshold and automasking parameters as follows:

threshold = '0.0038Jy' -> '0.0024Jy'
noisethreshold = 5.0 -> 3.0
lownoisethreshold = 3.0 -> 1.75
growiterations = 75 -> 150

No other parameters were changed. Cleaning took ~ 4 hours.

The residuals aren't perfect, but are improved (same scaling, left = pipeline, right = re-clean): Screenshot 2022-01-17 at 11 02 05

The re-cleaned PB-corrected continuum image contains ~ 2.6x more flux when summed over the whole field (same scaling, left = pipeline, right = re-clean): Screenshot 2022-01-17 at 11 22 33

Would be interested to hear thoughts on the utility of re-cleaning in cases such as this. I think it's a definite improvement, and not too time intensive. The gain isn't huge, but it's still a factor of 2-3 increase here.

d-l-walker commented 2 years ago

General consensus from the telecon is that people are happy with re-cleaning in cases such as this. I will work with Adam to push the re-cleaned image and associated products to globus.

As requested, here is the full tclean input that I used, which was pulled directly from the CASA log file in the downloaded calibrated directory and changed as described above:

tclean(vis=['./MSs/uid___A002_Xf287d3_Xb7c8.ms.split.cal', './MSs/uid___A002_Xf287d3_Xbe66.ms.split.cal', './MSs/uid___A002_Xf3491c_X3d67.ms.split.cal', './MSs/uid___A002_Xf3491c_X4351.ms.split.cal', './MSs/uid___A002_Xf3491c_X49a5.ms.split.cal', './MSs/uid___A002_Xf36d39_X3bdf.ms.split.cal'], field='Sgr_A_star', 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'16:85.9492577006~86.0249412944GHz;86.3608787944~86.4453514506GHz,18:86.6782616069~86.6890037944GHz;86.7021873881~86.7051170756GHz;86.7695702006~86.7839744975GHz;86.8862694194~86.8987205912GHz;86.9133690287~86.9807518412GHz;87.0007713725~87.0386131694GHz;87.1130760600~87.1240623881GHz;87.1352928569~87.1428612162GHz,20:89.2062691567~89.2066048501GHz;89.2084664223~89.2089547036GHz;89.2123421548~89.2155465005GHz;89.2166756508~89.2170113442GHz,22:87.9443062661~87.9449776528GHz;87.9454964516~87.9462593911GHz;87.9468697426~87.9473580239GHz;87.9482430337~87.9491280434GHz;87.9496773598~87.9499215005GHz;87.9504708169~87.9507454751GHz;87.9517220376~87.9522408364GHz,24:97.6713582210~97.6767293148GHz;97.7275105648~97.7314168148GHz;97.7597371273~97.8041707210GHz;97.8237019710~97.8510457210GHz;97.8969441585~97.9081746273GHz;98.0292683773~98.0473347835GHz;98.1127644710~98.1152058773GHz;98.1293660335~98.1767293148GHz;98.1972371273~98.2143269710GHz;98.2753621273~98.3061238460GHz;98.3144246273~98.3173543148GHz;98.3442097835~98.3759480648GHz;98.3886433773~98.3984090023GHz;98.4325886898~98.4384480648GHz;98.4482136898~98.4535847835GHz;98.4633504085~98.4667683773GHz;98.4784871273~98.4799519710GHz;98.5229207210~98.5829793148GHz;98.6449910335~98.6913777523GHz;98.7480183773~98.7709675960GHz;98.8051472835~98.8251668148GHz;98.9213582210~98.9545613460GHz;98.9599324398~98.9672566585GHz;98.9716511898~98.9999715023GHz;99.0404988460~99.0605183773GHz;99.0751668148~99.1112996273GHz;99.1386433773~99.1562215023GHz;99.1733113460~99.2196980648GHz;99.3642293148~99.4008504085GHz;99.4242879085~99.4594441585GHz;99.5151082210~99.5317097835GHz,26:99.5629519710~99.5658816585GHz;99.5702761898~99.5776004085GHz;99.5942019710~99.5971316585GHz;99.6952761898~99.6986941585GHz;99.7035769710~99.7065066585GHz;99.7123660335~99.7152957210GHz;99.7226199398~99.7279910335GHz;99.7328738460~99.7392215023GHz;99.7821902523~99.7895144710GHz;99.7978152523~99.8022097835GHz;99.8236941585~99.8271121273GHz;99.8661746273~99.8715457210GHz;99.8778933773~99.8905886898GHz;99.8974246273~99.9027957210GHz;99.9189090023~99.9237918148GHz;99.9311160335~99.9384402523GHz;99.9706668148~99.9735965023GHz;99.9799441585~99.9945925960GHz;99.9980105648~100.0043582210GHz;100.0214480648~100.0282840023GHz;100.1068972835~100.1093386898GHz;100.1435183773~100.1484011898GHz;100.1567019710~100.1596316585GHz;100.1718386898~100.1767215023GHz;100.2011355648~100.2069949398GHz;100.2123660335~100.2211550960GHz;100.2397097835~100.2421511898GHz;100.2499636898~100.2548465023GHz;100.2592410335~100.2636355648GHz;100.2704715023~100.2758425960GHz;100.3070925960~100.3119754085GHz;100.3202761898~100.3261355648GHz;100.3305300960~100.3334597835GHz;100.3578738460~100.3691043148GHz;100.3847293148~100.4047488460GHz;100.4115847835~100.4150027523GHz;100.4189090023~100.4379519710GHz;100.4584597835~100.4609011898GHz;100.5526980648~100.5658816585GHz;100.6440066585~100.6479129085GHz;100.6889285335~100.6928347835GHz;100.7406863460~100.7470340023GHz;100.7538699398~100.7680300960GHz;100.7831668148~100.7983035335GHz;100.8080691585~100.8168582210GHz;100.8202761898~100.8261355648GHz;100.8417605648~100.8466433773GHz;100.8539675960~100.8583621273GHz;100.8896121273~100.8949832210GHz;100.9042605648~100.9071902523GHz;100.9218386898~100.9311160335GHz;100.9379519710~100.9433230648GHz;100.9486941585~100.9516238460GHz;101.0434207210~101.0658816585GHz;101.0795535335~101.0834597835GHz;101.0902957210~101.1029910335GHz;101.1879519710~101.1991824398GHz;101.2294558773~101.2333621273GHz;101.2616824398~101.2655886898GHz;101.2880496273~101.3134402523GHz;101.3466433773~101.3598269710GHz;101.3710574398~101.3857058773GHz;101.3979129085~101.4027957210GHz;101.4267215023~101.4296511898GHz', 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antenna=['0,1,2,3,4,5,6,7,8&', '0,1,2,3,4,5,6,7,8&', '0,1,2,3,4,5,6,7,8&', '0,1,2,3,4,5,6,7,8&', '0,1,2,3,4,5,6,7,8&', '0,1,2,3,4,5,6,7,8&'], scan=['7,10,13,16,19', '7,10,13,16,19', '7,10,13,16,19', '7,10,13,16,19', '6,9,12,15,18', '7,10,13,16,19'], intent='OBSERVE_TARGET#ON_SOURCE', datacolumn='data', imagename='uid___A001_X15a0_Xae.s36_0.Sgr_A_star_sci.spw16_18_20_22_24_26.cont.I.iter1.reclean', imsize=[288, 288], cell=['2arcsec'], phasecenter='ICRS 17:46:22.8813 -028.42.02.848', stokes='I', specmode='mfs', nchan=-1, outframe='LSRK', perchanweightdensity=False, gridder='mosaic', mosweight=True, usepointing=False, pblimit=0.2, deconvolver='mtmfs', nterms=2, restoration=True, restoringbeam='common', pbcor=True, weighting='briggs', robust=0.5, npixels=0, niter=399999, threshold='0.0024Jy', nsigma=0.0, interactive=0, usemask='auto-multithresh', sidelobethreshold=1.25, noisethreshold=3.0, lownoisethreshold=1.75, negativethreshold=0.0, minbeamfrac=0.1, growiterations=150, dogrowprune=True, minpercentchange=1.0)

d-l-walker commented 2 years ago

Continuum has been (re-)re-imaged with CASA 6.2.1.7 for consistency with pipeline. Products have been transferred to the /upload/ folder via globus.

keflavich commented 2 years ago

Are there any differences?

d-l-walker commented 2 years ago

Not as far as I can tell. Minor (< 1%) difference in total/peak flux. Qualitatively looks identical.

keflavich commented 2 years ago

at least one diverged channel:

The spectral coverage in narrow bands is very cut off. Did we request reobservation?

The above comments moved from another issue that I put this in incorrectly before

d-l-walker commented 2 years ago

Is that divergent channel from a more recent clean? A re-run of the pipeline? I'm looking at the original cube that I reviewed, and I don't see any divergence in that channel:

Screenshot 2022-03-22 at 13 22 33

Regarding the cut off in SPW 20, I think the consensus was that it's probably OK overall, as the bulk of the emission is captured (see averaged spectrum below), but ... the second half of the cube is basically empty, so a shift would be beneficial here. Afaik it wasn't requested, but I don't know for sure?

Screenshot 2022-03-22 at 13 24 45

keflavich commented 2 years ago

yes, it's from the re-run. Why did the re-run fail?! I don't know.

keflavich commented 2 years ago

My failed rerun's log is: https://data.rc.ufl.edu/secure/adamginsburg/ACES/weblogs-reimaging/pipeline-20220227T053557/html/

ashleythomasbarnes commented 2 years ago

Continuum subtraction slightly different (old left, new right) - minor thought - also very small difference in beam...

Screenshot 2022-03-23 at 14 40 52

keflavich commented 2 years ago

A few things noted in telecon:

cont.dat was re-calculated (see Ash's comment)
we are using fitorder=0 instead of fitorder=1, which was the default in the pipeline

keflavich commented 2 years ago

So this is probably done as long as we only use the original run. But if we use the reimaged (pipeline re-run) products, they're a problem.

pyhsiehATalma commented 1 year ago

@d-l-walker It seems that spw 24 reprocess cube under /working was affected by, perhaps divergence or other unknown issues. I didn't find other re-clean cube under /reclean. Left panel is product image and right panel is reprocess one. Could you please work on this? Thanks!

d-l-walker commented 1 year ago

Hi @pyhsiehATalma please see @keflavich's comment above. For some reason the imaging re-run diverged, while the original PL one did not, as you just showed. We agreed that this issue can be considered to be done as long as we do not use the re-processed cube.

@keflavich is this still OK? Should we replace the diverging cube with the original to avoid confusion?

keflavich commented 1 year ago

Maybe we should retry cleaning w/higher cyclefactor.... but I could also just replace them. It just makes for weird bookkeeping

ACES-CMZ / reduction_ACES

Execution Block ID uid://A001/X15a0/Xae Sgr_A_st_c_03_7M #14

Product Links:

Reprocessed Product Links:

HCO+

QA Summary

Continuum

Cubes

SPW 20:

SPW 22:

Update on re-imaging the continuum