San Joaquin River Water Quality Modeling- A Beginning

SJR-DO TMDL Technical Work Group Presentation Russ Brown- Jones & StokesJanuary 20, 2005

San Joaquin River Data Atlas-modeling without data is folly

Initially Part of the DWSC and SJR WQ Modeling Contract with HydroQual (and Jones & Stokes)

Upstream Modeling Task will Update (2004+) and Expand (missing data sources)

Includes 1984-2003 (20 years) of daily/grabsAnnual Master Excel FilesComparison Files with Basic Annul Graphs and

simple calculations

Data retrieval can be hard work –with some spinning of wheels

San Joaquin River Flows & EC-daily water and salt budgets

Flow and EC in the San Joaquin River at Vernalis, 1997

0

1,000

2,000

3,000

4,000

5,000

6,000

7,000

8,000

9,000

10,000

1-Jan 1-Feb 3-Mar 3-Apr 4-May 4-Jun 5-Jul 5-Aug 5-Sep 6-Oct 6-Nov 7-Dec

Date

Flow

(cfs

) or L

oad

(ton

s/da

y)

0

200

400

600

800

1,000

1,200

1,400

1,600

1,800

2,000

EC (u

S/cm

)

Vernalis Flow Load Stanislaus Flow Vernalis EC Mossdale EC

-let me see the data so that I can think about it!

EC in the SJR at Vernalis and Brandt Bridge, 1997

0

1,000

2,000

3,000

4,000

5,000

6,000

1-Jan 1-Feb 3-Mar 3-Apr 4-May 4-Jun 5-Jul 5-Aug 5-Sep 6-Oct 6-Nov 7-Dec

Date

Flow

(cfs

)

0

200

400

600

800

1,000

1,200

EC (u

S/cm

)

Vernalis Flow Vernalis Brandt Bridge Vernalis Avg Monthly Vernalis Objective

- Check compliance with WQ objectives

Flow and EC at Mud Slough near Gustine,1997

0

200

400

600

800

1,000

1,200

1,400

1,600

1,800

2,000

1-Jan 1-Feb 3-Mar 3-Apr 4-May 4-Jun 5-Jul 5-Aug 5-Sep 6-Oct 6-Nov 7-Dec

Date

Flow

(cfs

) or L

oad

(ton

s/da

y)

0

500

1,000

1,500

2,000

2,500

3,000

3,500

4,000

4,500

5,000

EC (u

S/cm

)

Mud Slough Flow Mud Slough Load San Luis Drain Flow Mud Slough EC

Flow and EC at San Luis Drain Site B,1997

0

200

400

600

800

1,000

1,200

1,400

1,600

1,800

2,000

1-Jan 1-Feb 3-Mar 3-Apr 4-May 4-Jun 5-Jul 5-Aug 5-Sep 6-Oct 6-Nov 7-Dec

Date

Flow

(cfs

) or L

oad

(ton

s/da

y)

0

1,000

2,000

3,000

4,000

5,000

6,000

7,000

8,000

9,000

10,000

EC (u

S/cm

)

San Luis Drain Flow San Luis Drain Load San Luis Drain EC

San Joaquin River Algae & Nutrients- green and brown water

Algae Pigment in the San Joaquin River, 2002

0

50

100

150

200

250

Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec Jan

Pigm

ent C

once

ntra

tion

(m

g/L)

Mossdale Vernalis Maze Patterson Mud Slough

Algae in Mud Slough near Gustine, 2002

0

50

100

150

200

250

Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec Jan

Conc

entra

tion

(m g/L

)

0

100

200

300

400

500

Flow

(cfs

)

Chlorophyl a Pheophytin Algae Pigment Mud Slough Flow San Luis Drain Flow

Algae in San Luis Drain, 2002

0

50

100

150

200

250

Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec Jan

Conc

entra

tion

(m g/L

)

0

20

40

60

80

100

Flow

(cfs

)

Chlorophyl a Pheophytin Algae Pigment San Luis Drain Flow

Algae in San Joaquin River at Mossdale, 2001

0

50

100

150

200

250

Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec Jan

Conc

entra

tion

(m g/L

)

0

1000

2000

3000

4000

5000

Flow

(cfs

)

Chlorophyl a Pheophytin Algae Pigment SJR Flow Vernalis

Algae in San Joaquin River at Mossdale, 2002

0

50

100

150

200

250

Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec Jan

Conc

entra

tion

(m g/L

)

0

1000

2000

3000

4000

5000

Flow

(cfs

)

Chlorophyl a Pheophytin Algae Pigment SJR Flow Vernalis

Suspended Solids and Turbidity-dead or alive?

Turbidity in San Joaquin River at Vernalis, 2002

0

25

50

75

100

125

Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec Jan

Turb

idity

(NTU

), TS

S or

VSS

(mg/

L)

0

1000

2000

3000

4000

5000

Flow

(cfs

)

Turbidity TSS VSS USGS TSS SJR Flow Vernalis

Stockton DWSC DO- tracking the seasonal and diurnal variations

DO in the Stockton Deep Water Ship Channel, 2000

0.0

2.5

5.0

7.5

10.0

12.5

15.0

1-Jan 1-Feb 1-Mar 1-Apr 1-May 1-Jun 1-Jul 1-Aug 1-Sep 1-Oct 1-Nov 1-Dec

DO

(mg/

l)

R3 R4 R5 R6 Minimum DO at R&RI Maximum DO at R&RI

DO in the San Joaquin River at Mossdale, 2000

0

2

4

6

8

10

12

14

16

18

20

1-Jan 1-Feb 1-Mar 1-Apr 1-May 1-Jun 1-Jul 1-Aug 1-Sep 1-Oct 1-Nov 1-Dec

Dis

solv

ed O

xyge

n (m

g/L)

Min DO Max DO Saturated DO

DO in the Stockton DWSC at Rough and Ready Island, 2000

0

2

4

6

8

10

12

14

16

18

20

1-Jan 1-Feb 1-Mar 1-Apr 1-May 1-Jun 1-Jul 1-Aug 1-Sep 1-Oct 1-Nov 1-Dec

Dis

solv

ed O

xyge

n (m

g/L)

Min DO Max DO Saturated DO DO Objective

DO Deficit and DWSC Flows in 2000

0

1,000

2,000

3,000

4,000

5,000

6,000

7,000

8,000

9,000

10,000

1-Jan 1-Feb 1-Mar 1-Apr 1-May 1-Jun 1-Jul 1-Aug 1-Sep 1-Oct 1-Nov 1-Dec

Load

(lb/

d), F

low

(cfs

)

0

1

2

3

4

5

6

7

8

9

10

DO

(mg/

L)

Measured Flow Estimated Flow 50% Vernalis Flow Minimum DO DO Objective

2000 DO Deficits with Measured Flows was 449726 lbs and with Estimated Flows was 339768 lbs

0

2,000

4,000

6,000

8,000

10,000

12,000

14,000

16,000

18,000

20,000

1-Jan 1-Feb 1-Mar 1-Apr 1-May 1-Jun 1-Jul 1-Aug 1-Sep 1-Oct 1-Nov 1-Dec

Load

(lb/

d), F

low

(cfs

)

Load w ith Measured flow s Load w ith Estimated Flow s

City of Stockton RWCF LoadingBOD/CBOD of the Stockton RWCF Effluent, 2001

0

5

10

15

20

25

1-Jan 1-Feb 1-Mar 1-Apr 1-May 1-Jun 1-Jul 1-Aug 1-Sep 1-Oct 1-Nov 1-Dec

BOD

(mg/

L)

BOD CBOD

Ammonia/Organic N of the Stockton RWCF Effluent, 2001

0

5

10

15

20

25

30

1-Jan 1-Feb 1-Mar 1-Apr 1-May 1-Jun 1-Jul 1-Aug 1-Sep 1-Oct 1-Nov 1-Dec

Amm

onia

(m

g/L)

Ammonia Organic N

Ammonia/Organic N Load from the RWCF, 2001

0

2,000

4,000

6,000

8,000

10,000

12,000

1-Jan 1-Feb 1-Mar 1-Apr 1-May 1-Jun 1-Jul 1-Aug 1-Sep 1-Oct 1-Nov 1-Dec

Load

(lbs

/day

)

Ammonia Organic N

Initial Modeling of SJR Water Quality – its all about inputs

Flow 2000

0

500

1,000

1,500

2,000

2,500

3,000

3,500

4,000

4,500

5,000

Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec

Month

Flow

(cfs

)

Vern Mod Vern Hist Pat Mod Pat Hist Crow Mod

Crow Hist New Mod New Hist F Ford Mod F Ford Hist

Inflows

0

200

400

600

800

1,000

1,200

Jan-00 Jul-00 Jan-01 Jul-01 Jan-02 Jul-02 Jan-03 Jul-03

Date

Flow

(cfs

)

Ag Drain Tid6_7 GW MID4 Spill Mid5 Spill Mid6 SpillMid Main Drain Tid2 Spill Tid3 Drain Tid5 Drain Tid_Lstv Drain Mod WWTP

Ag Diversions

0

200

400

600

800

1,000

1,200

Jan-00 Jul-00 Jan-01 Jul-01 Jan-02 Jul-02 Jan-03 Jul-03

Date

Flow

(cfs

)

Sum of Small Diversions WSID PWD ESWD BCID

SJR Salt (EC) Budgets- Measured and Simulated

EC 2000

0

200

400

600

800

1,000

1,200

1,400

1,600

1,800

2,000

Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec

Month

EC (u

mho

s/cm

)

Moss Mod Moss Hist Vern Mod Vern HistMaze Mod Maze Hist Pat Mod Pat HistCrow Mod New Mod F Ford Mod

Calculated EC of Water Missing at Vernalis for 2000

0

500

1,000

1,500

2,000

2,500

3,000

3,500

4,000

4,500

5,000

Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec

Month

EC (u

mho

s/cm

)

0

100

200

300

400

500

600

700

800

900

1,000

Mis

sing

Flo

w (c

fs)

EC Flow

Measured and Simulated Salt Load 2000

0

500

1,000

1,500

2,000

2,500

3,000

3,500

4,000

4,500

5,000

Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec

Month

Sal

t (To

ns/D

ay)

Vern Mod Vern Hist Pat Mod Pat Hist

SJR Hydraulic Geometry- surface area, volume, depth, and travel time

San Joaquin River Longitudinal Profile

-10

0

10

20

30

40

50

60

70

80

50 55 60 65 70 75 80 85 90 95 100 105 110 115 120 125 130 135 140River Mile

Elev

atio

n (fe

et m

sl)

Bot Elev 1,000 cfs 2,000 cfs 5,000 cfs 10,000 cfs

Patterson Temperature 2001

40

50

60

70

80

90

100

1-Jan 1-Feb 4-Mar 4-Apr 5-May 5-Jun 6-Jul 6-Aug 6-Sep 7-Oc t 7-Nov 8-Dec

Month

Tem

pera

ture

(°F)

Pat Mod Min Hist Mean Hist Max Hist

Mossdale Temperature 2001

40

50

60

70

80

90

100

1-Jan 1-Feb 4-Mar 4-Apr 5-May 5-Jun 6-Jul 6-Aug 6-Sep 7-Oct 7-Nov 8-Dec

Month

Tem

pera

ture

(°F)

Moss Mod Moss Hist

SJR WQ Modeling- baby steps towards comprehensive adaptive management frameworkExtend to tributary dams and Salt & Mud

Sloughs and San Luis DrainTSS & turbidity-seasonal inputs & settlingTemperature and light effects on algaeDiurnal growth and grazing of algaeAlgae pigments, VSS, and BOD at MossdaleLoss of algae from Mossdale to DWSC?Old River diversion gates- DWSC flow and algaeDWSC DO management by oxygenation?