CTD Processing Summary CalCOFI 1004MF CTD Final Data (reformatted 11/2017 for QC columns)
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General CTD Notes - data acquisition cast notes, logistics, processing notes are listed below
CTD sensor corrections derived by comparing 4 secs of CTD sensor data (prior to bottle closure) to bottle samples
Dual T, S, & O2 Primary Sensor Secondary Sensor
Salinity offset (bottle - CTD salinity; > 350m only; Seabird SBE4) -0.0068 -0.0029
Oxygen (ml/L; dual Seabird SBE43) y = 1.0234x + 0.005
R² = 0.9980

y = 1.0326x - 0.0384
R² = 0.9977

Oxygen (umol/Kg; dual Seabird SBE43) y = 1.0234x + 0.2179
R² = 0.9980
y = 1.0325x - 1.665
R² = 0.9978
Single sensors
Nitrate - ISUS 4sec ave voltage vs Bottle Nitrate (Satlantic MBARI-ISUS v2) y = 28.41x - 11.182
R² = 0.9732
Fluorometer - linear & polynomial regressions

y = 7.5293x - 0.2395

R² = 0.8065

y = -0.7392x2 + 8.5685x - 0.3461

R² = 0.8097

Primary CTD O2 Sensor vs Bottle O2
Secondary CTD O2 Sensor vs Bottle O2
Primary CTD O2 Sensor vs Bottle O2 Secondary CTD O2 Sensor vs Bottle O2
MBARI-ISUS Voltage vs Bottle NO3 Seapoint Fluorometer Voltage vs Chlorophyll-a
Actual Cruise Track
General notes: 

CalCOFI 1004MF: 27 Apr - 17 May 2010 on NOAA RV Miller Freeman; Leg III CalCOFI 68 stations occupied. RV Miller Freeman's spring cruise had three legs: Legs I & II were the DEPM (Daily Egg Production Method) Sardine Cruise and Leg III was CalCOFI 1004MF, occupying the 75-station CalCOFI station pattern. Please refer to the CalCOFI 1004MF Cruise webpages or the CalCOFi 1004MF Cruise Data Report PDF for more cruise info.

A Sea-Bird Electronics, Inc., Conductivity-Temperature-Depth (CTD) instrument (Seabird 911, Serial number 1049) with a rosette was deployed at each station on these cruises. Weight restrictions prevented the use of the 24-bottle rosette typically employed on CalCOFI cruises. The substitute rosette was equipped with 12 ten-liter plastic (PVC) bottles equipped with epoxy-coated springs. A shortage of Viton o-rings resulted in them being installed in only half of the bottles; the remainder of the bottles had neoprene o-rings. Every effort was made to insure that primary productivity samples were taken from bottles containing Viton o-rings, however an on board study (not included) determined that any potential toxic effect on the phytoplankton resulting in the use of neoprene o-rings was negligible. Therefore, some primary productivity samples were taken from these bottles. Each CTD/rosette cast usually sampled 12 depths to a maximum sampling depth of 525 meters, bottom depth permitting. Because of limitations with the 12 bottle rosette and the need to sample specific target depths, a second cast was often necessary to collect water for the primary productivity assay. Occasional stations have multiple bottles tripped at the same depth to provide more water for ancillary programs. The sample spacing was designed to sample depth intervals as close as 10 meters around the sharp upper thermocline features such as the chlorophyll, oxygen, nitrite maxima and the shallow salinity minimum. Salinity, oxygen and nutrients were determined at sea for all depths sampled. Chlorophyll-a and phaeopigments were determined at sea on samples from the top 200 meters, bottom depth permitting.

CalCOFI 1004MF was the third leg of the RV Miller Freeman's Spring Cruise. Legs I & II occupied stations including CTD station, although those data are not represented here.
The 1st station occupied of Leg III was the 123rd station occupied, so it was designated Sta & CTD Cast #123. The stations on the rest of Leg III were designated #124-191. There were 75 casts on 68 stations occupied. As mentioned above, additional primary productivity casts were performed to provide extra bottle depths and seawater for the daily 14C primary productivity incubation experiments. These casts, if ;done in addition to 12-bottle hydrographic casts, were numbered adding 600 to the order occupied. There were 9 separate prodo casts: Cast 628 (prodo cast on sta 028), Cast 634 (prodo cast on sta 034), Casts 638, 663, 667, 671, 674, 678, & 682 (last extra prodo cast on sta 082).
Type I (chl max 0-40m) bottle depths (meters): 515, 400, 300, 200, 150, 100, 75, 50, 30, 20, 10, surface
Type II (chl max 40-80m) bottle depths (meters): 515, 400, 300, 200, 150, 100, 75, 60, 45, 30, 15, surface
Type III (chl max 80-120m) bottle depths (meters): 515, 400, 300, 200, 150, 100, 90, 80, 65, 45. 20, surface
Prodo bottle depths are determined by the secchi and chl max depth then calculated to match incubation tube light levels.


Cast specific Notes from Console Ops:
CalCOFI 1004MF CTD Notes

CalCOFI 1004MF sail on NOAA RV Miller Freeman, the first and only CalCOFI on RV Miller Freeman.
We used our rosette but were limited to only 12 bottles since the winch could not handle the full weight.
There were three casttypes - I, II, & III
Type I, chl max between 0-40m: 515, 400, 300, 200, 150, 100, 75, 50, 30, 20, 10, 2 meters
Type II, chl max between 40-80m: 515, 400, 300, 200, 150, 100, 75, 60, 45, 30, 15, 2 meters
Type III, chl max between 80-120m: 515, 400, 300, 200, 150, 100, 90, 80, 65, 45, 20, 2 meters

Since only 12 bottles were closed, separate primary productivity casts of (usually) 6 bottles were performed on the noontime stations.
600 was added to the station/order_occupied/cast number, for example on station/cast 034, a second cast 634 was done.
If prodo was on a shallow station that required less than 12 bottles, an extra cast was not needed.

CalCOFI 1004MF was leg III of the NOAA RV Miller Freeman's Spring survey. Legs I & II were DEPM (Daily Egg Production Method) fisheries legs focused on fisheries. CTD casts were preformed but not a part of this dataset.
Since leg III was a continuation of the cruise, leg III's cast 001 was numbered cast 123 (the 123rd cast of the combined legs). This was done at the request of NOAA Fisheries so their book-keeping order occupied would be continuous.
Console Ops Notes:

Cast 123 (1st cast of leg III), sta 93.4 26.4 SCCOOS: 28m bottom, 5-bottle cast; no GPS feed yet so used event log lat-lon 32.9447, -117.28210
Cast 124 sta 91.7 26.4 SCCOOS: 23m bottom, 6-bottle cast (dup at 10m); GPS from event log lat-lon 33.24127, -117.4660
Cast 125 sta 93.3 26.7: cast restarted, NMEA turned on; pH and ISUS voltages switched in the con - pH = v6, ISUS = v7 - new con created
Cast 126 sta 93.3 28.0: 520m 12-bottle type I cast, chl max at 25m
Cast 127 sta 93.3 30.0: 515m 12-bottle type I cast, chl max at 35m
Cast 128 sta 93.3 35.0: 515m 12-bottle type I cast, chl max at 35m
Cast 628 sta 93.3 35.0: 6-bottle 80m prodo cast
Cast 129 sta 93.3 40.0: ~40m chl max, type I
Cast 130 sta 93.3 45.0: 25m chl max, type I
Cast 131 sta 93.3 50.0: 35m chl max, type I; surface bottle not closed, went back down to 2m to get it
Cast 132 sta 93.3 55.0: 48m chl max, type II; spikes/error light so recast after nets - termination moved down onto rosette & secured tightly, still spiked at ~312m on the downcast. Will reterminate during next long transit. Accidental double-trip at 75m so 60m bottle skipped.
Cast 133 sta 93.3 60.0: 63m chl max, type II; going down at 30m/min to 515m to protect flakey termination, spikey during 10m soak; slower speed seems to improve signal quality
Cast 634D sta 93.3 70.0: recasts 97m 6-bottle prodo cast; problematic, bottle #2 did not confirm, bottle #5 did not advance after trip; 6-bottles did close
Cast 134 sta 93.3 70.0: no bottles - lost comm with fish - reterminating & going to 93.80; only 97m prodo profile available
Cast 135 sta 93.3 80.0: CTD back online after reterminating; 75m chl max type II; ISUS signal dropout on downcast ~140-210m
Cast 136 sta 93.3 90.0: 80m chl max, type III; CTD working okay but ISUS signal dropouts on downcast ~340-405m & ~482-515m
Cast 137 sta 93.3 100.0: chl max 80-95m, type III; ISUS intermittent signal, will change the power cable post-cast; moderate seas
Cast 138 sta 93.3 110.0: chl max 90m, type III; accidental trip of bottle #6 at 125m, mrk file adjusted; ISUS bad
Cast 638 sta 93.3 110.0: 6-bottle prodo cast to 77m; ISUS bad
Cast 139 sta 93.3 120.0: 80m chl max type III; ISUS battery & cable switched pre-cast - worked fine
Cast 140 sta 90.0 120.0: 65m chl max type II
Cast 141 sta 90.0 110.0: 74m chl max type II; rough weather, going down at 30m/min then 40m/min
Cast 142 sta 90.0 100.0: ~80m chl max type III; rough, very marginal conditions, lots of loops and swirls in profiles
Cast 642 sta 90.0 100.0: prodo cast aborted - too rough, Captain says "No more work!"
Cast 143 sta 90.0 90.0: 70m chl max type II; still pretty rough but doable
CTD Casts 144-145 aborted due to rough weather but other ops on order Occupied 144-145
Cast 146 sta 90.0 53.0: 30-40m chl max type I
Cast 147 sta 90.0 45.0: 40m chl max type I
Cast 148 sta 90.0 37.0: 35m chl max type I; unusual feature ~210-240m on all profiles on downcast & upcast, looks real
Cast 149 sta 90.0 35.0: 40m chl max type I; bottom shoaling 305>290>280m - cast to 275m; pH sensor data bad - cap on; bottle #7 mistripped, no sample, lanyard snagged on hoseclamp
Cast 150 sta 90.0 30.0: 30m chl max type I; winch failure on upcast at ~300m-285m, went back down to 300m for ~10mins before resuming upcast
Cast 151 sta 90.0 28.0: shallow prodo cast - ship had to reposition for depth, ended up with ~100m then shoaled to 87m quickly, cast to 57m
Cast 152 sta 88.5 30.1 SCCOOS: 19m bottom, 4-bottle cast
Cast 153 sta 86.8 32.5 SCCOOS: 24m bottom, 5-bottle cast
Cast 154 sta 86.7 33.0: shallow 55m bottom, 8-bottle cast; ISUS dropout ~30-45m downcast
Cast 155 sta 86.7 35.0: surface to 50m chl type I; ISUS bad again, replaced battery post-cast
Cast 156 sta 86.7 40.0 Santa Monica Basin: 14-10m chl max type I; ISUS worked entire cast
Cast 157 sta 86.7 45.0: 0-5m chl max type I; ISUS failure again(?), cleaned and deck tested post-cast
Cast 158 sta 86.7 50.0: 15m chl max type I
Cast 159 sta 86.7 55.0: 20m chl max type I; secondary CTD salinity had issues at ~175-515m, perhaps biofouled
Cast 160 sta 86.7 60.0: 15m chl max type I; oikoplura - larvacian abundant in surface waters; secondary CTD salinity looks okay this cast
Cast 161 sta 90.0 60.0: 30m chl max type I; chl max at 20m on upcast; note we went from Line 87 to 90
Cast 162 sta 90.0 70.0: double chl max 45 & 66m type II; unusual feature at ~300m all profiles on downcast; winch wire went under the ship, waited several minutes at 150m on upcast until fixed; reterminated the ISUS battery charging cable due to broken solder & moisture intrusion. Was not charging battery reliably.
Cast 663 sta 86.7 70.0: 58m 6-bottle prodo cast
Cast 163 sta 86.7 70.0: 40m chl max type I; back on Line 87; echosounder not working, using cheat sheet ave depth - now reading 3365m but unreliable
Cast 164 sta 86.7 80.0: 75m chl max type II; nav file create at 100m upcast
Cast 165 sta 86.7 90.0: 90m chl max type III;
Cast 166 sta 86.7 100.0: 95m chl max type III; moderate seas, going down at 30m/min to 100m then 40m/min to 515m
Cast 167 sta 86.7 110.0: 70m chl max type II; echosounder not working, using cheat sheet ave sta depth
Cast 667 sta 86.7 110.0: 77m 8-bottle prodo cast - two extra bottles tripped for LTER and O2 test case; bottom depth from ave sta depth, echosounder not working
Cast 168 sta 83.3 110.0: 90m chl max type III; bottle #7 mistrip, closed on deck, no sample
Cast 169 sta 83.3 100.0: 97m chl max type III;
Cast 170 sta 83.3 90.0: 98m chl max type III; moderate seas, echosounder unable to find bottom in rough seas; 290m feature on downcast, upcast feature ~360m too; bottle #7 didnt close, no visible reason
Cast 671 sta 83.3 80.0: 78m chl max, 8-bottle 64m prodo cast, two extras at 10m & surface; depth finder still having problem until Manny got it working
Cast 171 sta 83.3 80.0: 80m chl max type II;
Cast 172 sta 83.3 40.6: shallow inshore sta, 7-bottle cast; note jump from sta 80 to 40.6, rough weather detour
Cast 173 sta 83.3 42.0: 100m bottom, 10-bottle 90m cast - bottle depth altered; weird pH profile noted
Cast 174 sta 81.8 46.9 Santa Barbara Basin: Cast 1-2, 12 shallower bottles 0 - 170m; chl max ~15m; cast done in two parts to get 24 bottle depths;
Cast 674 sta 81.8 46.9 Santa Barbara Basin: Cast 3-4, 12 deeper bottles 140- 570m; chl max ~15m; cast done in two parts to get 24 bottle depths; not a prodo (should be 574)
Cast 175 sta 83.3 51.0: 100m bottom, chl max 0-28m; 9-bottle 90m cast
Cast 176 sta 83.3 55.0: 60-70m chl max type II; fairly calm with high surface NO3 according to ISUS; bottle #9 bottom lanyard clip caught on cable tie, bottom not closed, no sample
Cast 177 sta 83.3 60.0: 40-70m chl max type II; mixed layer 80m
Cast 678 sta 83.3 70.0: 20-55m chl max; 7-bottle 54m prodo cast, one extra 10m LTER bottle
Cast 178 sta 83.3 70.0: 30-60m chl max type I; 65m mixed layer
Cast 179 sta 80.0 70.0: 10-35m chl max type I; note on Line 80 from 83, after 83.70
Cast 180 sta 80.0 80.0: 60m chl max type II
Cast 181 sta 80.0 90.0: 67m chl max type II
Cast 182 sta 76.7 90.0: 75m chl max type II; slow winch speed due to bad wraps on spool (pretty ugly); on Line 77
Cast 682 sta 76.7 90.0: 61m 6-bottle prodo cast
Cast 183 sta 76.7 80.0: 40m chl max type I
Cast 184 sta 76.7 70.0: 10m chl max type I, chl at surface to 50m
Cast 185 sta 76.7 60.0: 0-30m chl max type I; double chl max 0-30m & 64m; strong surface current - large wire angle
Cast 186 sta 76.7 55.0: 25m chl max type I; down and upcast very different
Cast 187 sta 76.7 51.0: 20m chl max type I; shallow 238m bottom, 12-bottles, depths adjusted for shallower cast; 85m & 70m bottles combined into 75m bottle
Cast 188 sta 76.7 49.0: 50m chl max type I but shallow 69m bottom so 8-bottles closed 0-60m
Cast 189 sta 80.0 60.0: 45m chl max type II (barely); DICs taken here due to lack of personnel later and feature seen on CTD - fresh water signal downwelling & pH; back on Line 80, picking up missed stations
Cast 190 sta 80.0 55.0: dual chl max 10m & 70m type II; ISUS not plugged in initially, CTD recovered, serviced and redeployed - ISUS looks fine; bottle #5 nailed a 200m O2 feature
Cast 191 sta 80.0 51.0: 10m chl max type I; calm night, last cast; 94m bottom, 10-bottle cast to 86m

JRW 12/21/2017


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