CalCOFI 0907M2 Cruise and CTD Data Processing Notes
Logistics:
CalCOFI 0907M2 was CalCOFI's first and only cruise on NOAA RV McArthur II.
NOAA RV McArthur II left Nimitz Marine Facility, Pt Loma at 0900 14 Jul 2009. 
After a short sea trial off San Diego and acoustic calibration in San Diego Bay, 
CalCOFI 0907 started its 101 station schedule - 75 standard plus 26 northern 
stations on lines 67 (MBARI-SECRET) & 60. 
Our 24-10L bottle aluminum rosette with 911+ Seabird CTD was deployed from the
O1 deck using the starboard J-frame. Nets were also deployed from a separate block
off the same J-frame from the lower deck. (McArthur had three operations decks:
the main fantail deck was the "middle" deck; there was lower deck above the 
waterline where net tows were performed; upper "O1" deck where CTD winch and rosette
landed. O2 pickling setup was on the same deck outside.)
NOAA crew deployed & recovered the CTD-rosette. CalCOFI techs sampled on the outboard
open deck in all types of weather.
Seabird 911+ configuration was: 
Primary Temperature (#1324), Conductivity (#042206), and O2 sensor (#431075), pumped (#55060);
Secondary Temperature (#2533), Conductivity (#357), & Oxygen sensor (#0680) pumped (#52236);
Wetlabs (CST-479DR) 25cm transmissometer (mislabeled Chelsea/Seatech in con); 
Seapoint chlorophyll fluorometer (SCF2483 @10x); Benthos/Datasonics Altimeter (#46604); 
MBARI-ISUS v1 (#111); no surface PAR was installed.
Freq0=T0; Freq1=C0; Freq2=Pr; Freq3=T1; Freq4=C1; V0=Trans; V1=Fl; V2=Alt; V3=PAR; V4=O21; V5=O22; V6=ISUS; V7-Free
This was our first cruise on the McArthur II and it proved to be an excellent platform 
for our project.  We completed the first two lines quickly, aided by good weather and 
excellent ship handling and deck operations.  On line 86.7 we were diverted north to line 83.3 
after completing the CTD cast on sta 86.7 50.0 due to Naval operations in the area. 
Net tows on that station were missed. After two stations (83.3 51, 83.3 55), 
we returned to line 86.7, sta 86.7 55, and continued offshore without missing a station.  
We completed 66 standard stations and 8 SCCOOS stations before transiting north to Line 67 (66.7) off Monterey.  
Station spacing on line 67 was every 10nm out to 67.90 with CTD casts to 1025m.  
Twenty rosette water samples were collected on every 40nm standard CalCOFI station (50, 60, 70, 80, 90), 
and 12 rosette water samples were taken on 20nm stations (55, 65, 75, 85). Standard CalCOFI seawater 
analyses were performed on all depth sampled as well as additional incubations and analyses by MBARI 
tech Marguerite Blum (Lines 67 & 60 only). CTD and weather data were collected on 
10nm stations: 52.5, 57.5, 62.5, 67.5, 72.5, 77.5, 82.5, 87.5.  The McArthur II tied up in San 
Francisco at Pier 23 Aug 3rd and was offloaded onto trucks for equipment transport back to San Diego.

Sta correction notes:

Sta 4: second O2 surface values are very low and were removed from the bottle vs 4sec CTD plot.
Sta 41: 0m and deep ISUS voltage went to zero
Sta 42: 0, 30 - 70m voltage went to zero

Bottle NO3 on stas 001 & 002 not used in bottle vs ISUS plots.
Removed salt fliers on both primary & secondary comparisons.

Fixes after reviewing bottle vs CTD data plots:
Sta 19 Downcast NO3 - 225 - 310m; edit d.asc and re-regress or plot cruise corrected NO3
Sta 23 Downcast NO3 - 120 - 180m; edit d.asc and re-regress or plot cruise corrected NO3
Sta 40 Downcast NO3 - 200 - 310m; edit d.asc and re-regress or plot cruise corrected NO3
Sta 41 NO3 - whole upcast and deep downcast; edit .ascs and re-regress or plot cruise corrected NO3
Sta 42 Upcast NO3 - 30 - 80m; edit u.asc and re-regress or plot cruise corrected NO3
Sta 42 Downcast NO3 - 0 - 300m (whole cast is pretty bad); edit d.asc and re-regress or plot cruise corrected NO3
Sta 43 Downcast NO3 - 200 - 310m; edit d.asc and re-regress or plot cruise corrected NO3
Sta 53 Downcast NO3 - 0 - 100m; edit d.asc and re-regress or plot cruise corrected NO3

Deep stations (~1050m):
Sta 96 Upcast: ISUS 520-600m bad section; downcast fine

No-bottle stations
Sta 79 downcast ISUS from 50 - 110m
