https://wiki.seas.harvard.edu/geos-chem/api.php?action=feedcontributions&user=Nicolevdowney&feedformat=atomGeos-chem - User contributions [en]2024-03-29T07:30:40ZUser contributionsMediaWiki 1.24.2https://wiki.seas.harvard.edu/geos-chem/index.php?title=Talk:Mercury&diff=1162Talk:Mercury2008-06-26T16:14:58Z<p>Nicolevdowney: New page: '''Discussion on Diagnostics''' The only thing I have to add is that at first I didn't realize that wet deposition of Hg(II) was composed of both WETDCV and WETDLS. Is it important to sa...</p>
<hr />
<div>'''Discussion on Diagnostics'''<br />
<br />
The only thing I have to add is that at first I didn't realize that wet deposition of Hg(II) was composed of both WETDCV and WETDLS. Is it important to save those components out as 2 separate parts? (nvd)</div>Nicolevdowneyhttps://wiki.seas.harvard.edu/geos-chem/index.php?title=Mercury&diff=1161Mercury2008-06-26T16:13:18Z<p>Nicolevdowney: </p>
<hr />
<div>Hello Team-Hg<br />
<br />
<h4>Here's the list of things I *think* we came up with on Friday regarding cleaning up the code <br />
(feel free to add/comment):</h4><br />
<br />
1) Standardize the solver. Everyone should use the solver Chris developed for the Hg chemistry <br>(located at ~cdh/GC/RevisedChem.v7-04-06/mercury_mod.f) <br><ul><li>outstanding issue - dry dep of Hg0* <- currently working on this (eds)</ul><br />
<br>2) Catalog all emissions options and develop clear flagging system to choose your own adventure. This will include:<ul><li> different anthropogenic emissions scenarios/corrections (i.e Jaffe vs. Streets) <- going to work on the anthro emissions soon (eds), <br><li>different land emissions. <- nvd will work on this</ul><br />
<br>3) Diagnostics. See separate section below. <br />
<br>4) ''Comment everything'' in the code. Remove old bits of code that are hanging around & commented out. <br />
<br>5) GEOS-5 <br />
<br>6) Get the land stuff out of ocean_mercury_mod.f and into it's own module <- nvd will work on this<br />
<br><br><br />
<br />
<h4>Chemistry 'issues'</h4><br />
1) Oxidant. Chris has a simulation with Hg-Br chemistry and SS aerosol deposition; the global budget is ok, but the Br concentrations in the BL are too low to generate diurnal cycles. (cdh working on it)<br />
<br>2) Snow/ice scavenging of HgII<br />
<br>3) Dry deposition of "aqueous HgII. (Explanation from Chris: We calculate the fraction of HgII, Fg, which is gas phase. But we're currently applying the dry deposition velocity to both gas and aqueous fractions. I think it would be better to deposit the aqueous fraction at the velocity of HgP; this would be slower dep, but I don't know how much. This is definitely up for discussion.)<br />
<br />
<h4>Diagnostics</h4><br />
Here are some suggested changes:<br />
# Emissions should have units 'kg/m2/s' or something of the form 'mass/area/time' (they are currently 'kg'). The HG-SRCE diagnostic currently has all of the Ocean tracers and fluxes; these should go elsewhere.<br />
# The Ocean Hg0, Hg2, HgC should have concentration units not kg. Is 'molar' the best choice? Fluxes of these should be in concentration/time, not kg.<br />
# The ocean restart files should have concentration units not kg. They currently use the category 'OCEAN-HG' which would make sense for the ND03 ocean Hg0, Hg2, HgC output too.<br />
# 'PL-HG2-$' doesn't really describe all of the fluxes in our model. There are a lot of diagnostic quantities which are either chemical P/L fluxes or rate constants. I think these should all be in one diagnostic called something like 'PL-HG-$' (or maybe 'PL-HG-A', 'PL-HG-O' to separate the atmosphere and ocean). The fluxes in this diagnostic would include redox in air and water, colloidal sinking, ocean-atmosphere piston velocity, ...<br />
<br />
Here are the current GEOS-Chem Hg outputs<br />
<br />
CATEGORY ILUN TRCNAME TRC UNIT TAU0(DATE) DIMENSIONS<br />
1 : IJ-AVG-$ 23 Hg0 1 pptv 157776.00(2003010100) 72 46 30<br />
2 : IJ-AVG-$ 23 Hg2 2 pptv 157776.00(2003010100) 72 46 30<br />
3 : IJ-AVG-$ 23 HgP 3 pptv 157776.00(2003010100) 72 46 30<br />
4 : WETDCV-$ 23 Hg2 3002 kg/s 157776.00(2003010100) 72 46 30<br />
5 : WETDCV-$ 23 HgP 3003 kg/s 157776.00(2003010100) 72 46 30<br />
6 : WETDLS-$ 23 Hg2 3002 kg/s 157776.00(2003010100) 72 46 30<br />
7 : WETDLS-$ 23 HgP 3003 kg/s 157776.00(2003010100) 72 46 30<br />
8 : HG-SRCE 23 Hg0_an 34001 kg 157776.00(2003010100) 72 46 1<br />
9 : HG-SRCE 23 Hg0_aq 34002 kg 157776.00(2003010100) 72 46 1<br />
10 : HG-SRCE 23 Hg0_oc 34003 kg 157776.00(2003010100) 72 46 1<br />
11 : HG-SRCE 23 Hg0_ln 34004 kg 157776.00(2003010100) 72 46 1<br />
12 : HG-SRCE 23 Hg0_na 34005 kg 157776.00(2003010100) 72 46 1<br />
13 : HG-SRCE 23 Hg2_an 34006 kg 157776.00(2003010100) 72 46 1<br />
14 : HG-SRCE 23 Hg2_aq 34007 kg 157776.00(2003010100) 72 46 1<br />
15 : HG-SRCE 23 Hg2_sk 34008 kg 157776.00(2003010100) 72 46 1<br />
16 : HG-SRCE 23 HgP_an 34009 kg 157776.00(2003010100) 72 46 1<br />
17 : HG-SRCE 23 KwHg 34010 cm/h 157776.00(2003010100) 72 46 1<br />
18 : HG-SRCE 23 HgC 34011 kg 157776.00(2003010100) 72 46 1<br />
19 : HG-SRCE 23 Hg_to_C 34012 kg 157776.00(2003010100) 72 46 1<br />
20 : PL-HG2-$ 23 Hg2_Hg0 35001 kg 157776.00(2003010100) 72 46 30<br />
21 : PL-HG2-$ 23 Hg2_OH 35002 kg 157776.00(2003010100) 72 46 30<br />
22 : PL-HG2-$ 23 Hg2_O3 35003 kg 157776.00(2003010100) 72 46 30<br />
23 : PL-HG2-$ 23 Hg2_SS 35004 kg 157776.00(2003010100) 72 46 1<br />
24 : PL-HG2-$ 23 Hg2_SSR 35005 /s 157776.00(2003010100) 72 46 1<br />
25 : DRYD-FLX 23 Hg0df 36001 molec/cm2/s 157776.00(2003010100) 72 46 1<br />
26 : DRYD-FLX 23 Hg2df 36002 molec/cm2/s 157776.00(2003010100) 72 46 1<br />
27 : DRYD-FLX 23 HgPdf 36003 molec/cm2/s 157776.00(2003010100) 72 46 1<br />
28 : DRYD-VEL 23 Hg2dv 37002 cm/s 157776.00(2003010100) 72 46 1<br />
29 : DRYD-VEL 23 HgPdv 37003 cm/s 157776.00(2003010100) 72 46 1<br />
<br />
I think we should change lines 8-24 (I've kept the same line numbers and TRCNAME, but changed CATEGORY, TRC, or UNIT):<br />
<br />
CATEGORY TRCNAME TRC UNIT <br />
8 : HG-SRCE Hg0_an 34001 kg/m2/s <br />
10 : HG-SRCE Hg0_oc 34002 kg/m2/s <br />
11 : HG-SRCE Hg0_ln 34003 kg/m2/s <br />
12 : HG-SRCE Hg0_na 34004 kg/m2/s <br />
13 : HG-SRCE Hg2_an 34005 kg/m2/s<br />
16 : HG-SRCE HgP_an 34006 kg/m2/s <br />
9 : OCEAN-HG Hg0_aq xxxx1 mol/L <br />
14 : OCEAN-HG Hg2_aq xxxx2 mol/L <br />
18 : OCEAN-HG HgC xxxx3 mol/L <br />
20 : PL-HG-A Hg2_Hg0 35001 kg/m3/s <br />
21 : PL-HG-A Hg2_OH 35002 kg/m3/s <br />
22 : PL-HG-A Hg2_O3 35003 kg/m3/s <br />
23 : PL-HG-A Hg2_SS 35004 kg/m3/s <br />
24 : PL-HG-A Hg2_SSR 35005 /s<br />
15 : PL-HG-O Hg2_sk xxxx1 kg/m3/s <br />
19 : PL-HG-O Hg_to_C xxxx2 kg/m3/s<br />
17 : PL-HG-O KwHg xxxx3 cm/h<br />
<br />
<br />
The only thing I have to add is that at first I didn't realize that wet deposition of Hg(II) was composed of both WETDCV and WETDLS. Is it important to save those components out as 2 separate parts? (nvd)</div>Nicolevdowneyhttps://wiki.seas.harvard.edu/geos-chem/index.php?title=Mercury&diff=1045Mercury2008-06-03T22:12:52Z<p>Nicolevdowney: </p>
<hr />
<div>Hello Team-Hg<br />
<br />
<h4>Here's the list of things I *think* we came up with on Friday regarding cleaning up the code <br />
(feel free to add/comment):</h4><br />
<br />
1) Standardize the solver. Everyone should use the solver Chris developed for the Hg chemistry <br>(located at ~cdh/GC/RevisedChem.v7-04-06/mercury_mod.f) <br><ul><li>outstanding issue - dry dep of Hg0* <- currently working on this (eds)</ul><br />
<br>2) Catalog all emissions options and develop clear flagging system to choose your own adventure. This will include:<ul><li> different anthropogenic emissions scenarios/corrections (i.e Jaffe vs. Streets) <- going to work on the anthro emissions soon (eds), <br><li>different land emissions. <- nvd will work on this</ul><br />
<br>3) Diagnostics. We didn't get to discuss this, but we need to decide what should be included in the diagnostics. <br />
<br>4) ''Comment everything'' in the code. Remove old bits of code that are hanging around & commented out. <br />
<br>5) GEOS-5 <br />
<br>6) Get the land stuff out of ocean_mercury_mod.f and into it's own module <- nvd will work on this<br />
<br><br><br />
<br />
<h4>Chemistry 'issues'</h4><br />
1) Oxidant<br />
<br>2) Snow/ice scavenging of HgII<br />
<br>3) Do I remember something about dry deposition of HgII including aqueous Hg in the code? (chris, you brought this up but I am forgetting exactly what you said)</div>Nicolevdowneyhttps://wiki.seas.harvard.edu/geos-chem/index.php?title=Mercury&diff=1044Mercury2008-06-03T22:09:53Z<p>Nicolevdowney: </p>
<hr />
<div>Hello Team-Hg<br />
<br />
<h4>Here's the list of things I *think* we came up with on Friday regarding cleaning up the code <br />
(feel free to add/comment):</h4><br />
<br />
1) Standardize the solver. Everyone should use the solver Chris developed for the Hg chemistry <br>(located at ~cdh/GC/RevisedChem.v7-04-06/mercury_mod.f) <br>*outstanding issue - dry dep of Hg0* <- currently working on this (eds)<br />
<br>2) Catalog all emissions options and develop clear flagging system to choose your own adventure. This will include different anthropogenic emissions scenarios/corrections (i.e Jaffe vs. Streets) <- going to work on the anthro emissions soon (eds), <br>different land emissions. <- nvd will work on this<br />
<br>3) Diagnostics. We didn't get to discuss this, but we need to decide what should be included in the diagnostics. <br />
<br>4) ''Comment everything'' in the code. Remove old bits of code that are hanging around & commented out. <br />
<br>5) GEOS-5 <br />
<br>6) Get the land stuff out of ocean_mercury_mod.f and into it's own module<br />
<br><br><br />
<br />
<h4>Chemistry 'issues'</h4><br />
1) Oxidant<br />
<br>2) Snow/ice scavenging of HgII<br />
<br>3) Do I remember something about dry deposition of HgII including aqueous Hg in the code? (chris, you brought this up but I am forgetting exactly what you said)</div>Nicolevdowneyhttps://wiki.seas.harvard.edu/geos-chem/index.php?title=Mercury&diff=1043Mercury2008-06-03T22:08:35Z<p>Nicolevdowney: </p>
<hr />
<div>Hello Team-Hg<br />
<br />
<h4>Here's the list of things I *think* we came up with on Friday regarding cleaning up the code <br />
(feel free to add/comment):</h4><br />
<br />
1) Standardize the solver. Everyone should use the solver Chris developed for the Hg chemistry <br>(located at ~cdh/GC/RevisedChem.v7-04-06/mercury_mod.f) <br>*outstanding issue - dry dep of Hg0* <- currently working on this (eds)<br />
<br>2) Catalog all emissions options and develop clear flagging system to choose your own adventure. This will include different anthropogenic emissions scenarios/corrections (i.e Jaffe vs. Streets), different land emissions. <- going to work on the anthro emissions soon (eds)<br />
<- nvd will work on the land emissions<br />
<br>3) Diagnostics. We didn't get to discuss this, but we need to decide what should be included in the diagnostics. <br />
<br>4) ''Comment everything'' in the code. Remove old bits of code that are hanging around & commented out. <br />
<br>5) GEOS-5 <br />
<br>6) Get the land stuff out of ocean_mercury_mod.f and into it's own module<br />
<br><br><br />
<br />
<h4>Chemistry 'issues'</h4><br />
1) Oxidant<br />
<br>2) Snow/ice scavenging of HgII<br />
<br>3) Do I remember something about dry deposition of HgII including aqueous Hg in the code? (chris, you brought this up but I am forgetting exactly what you said)</div>Nicolevdowneyhttps://wiki.seas.harvard.edu/geos-chem/index.php?title=Mercury&diff=994Mercury2008-06-02T17:36:16Z<p>Nicolevdowney: </p>
<hr />
<div>Hello Team-Hg<br />
<br />
<h4>Here's the list of things I *think* we came up with on Friday regarding cleaning up the code <br />
(feel free to add/comment):</h4><br />
<br />
1) Standardize the solver. Everyone should use the solver Chris developed for the Hg chemistry <br>(located at ~cdh/GC/RevisedChem.v7-04-06/mercury_mod.f) <br>*outstanding issue - dry dep of Hg0* <br />
<br>2) Catalog all emissions options and develop clear flagging system to choose your own adventure. This will include different anthropogenic emissions scenarios/corrections (i.e Jaffe vs. Streets), different land emissions.<br />
<br>3) Diagnostics. We didn't get to discuss this, but we need to decide what should be included in the diagnostics. <br />
<br>4) ''Comment everything'' in the code. Remove old bits of code that are hanging around & commented out. <br />
<br>5) GEOS-5 <br />
<br>6) Get the land stuff out of ocean_mercury_mod.f and into it's own module<br />
<br><br><br />
<br />
<h4>Chemistry 'issues'</h4><br />
1) Oxidant<br />
<br>2) Snow/ice scavenging of HgII<br />
<br>3) Do I remember something about dry deposition of HgII including aqueous Hg in the code? (chris, you brought this up but I am forgetting exactly what you said)</div>Nicolevdowneyhttps://wiki.seas.harvard.edu/geos-chem/index.php?title=Mercury&diff=993Mercury2008-06-02T17:33:45Z<p>Nicolevdowney: </p>
<hr />
<div>Hello Team-Hg<br />
<br />
<h4>Here's the list of things I *think* we came up with on Friday regarding cleaning up the code <br />
(feel free to add/comment):</h4><br />
<br />
1) Standardize the solver. Everyone should use the solver Chris developed for the Hg chemistry <br>(located at ~cdh/GC/RevisedChem.v7-04-06/mercury_mod.f) <br>*outstanding issue - dry dep of Hg0* <br />
<br>2) Catalog all emissions options and develop clear flagging system to choose your own adventure. This will include different anthropogenic emissions scenarios/corrections (i.e Jaffe vs. Streets), different land emissions.<br />
<br>3) Diagnostics. We didn't get to discuss this, but we need to decide what should be included in the diagnostics. <br />
<br>4) Comment everything in the code. Remove old bits of code that are hanging around & commented out. <br />
<br>5) GEOS-5 <br />
<br>6) Get the land stuff out of ocean_mercury_mod.f and into it's own module<br />
<br><br><br />
<br />
<h4>Chemistry 'issues'</h4><br />
1) Oxidant<br />
<br>2) Snow/ice scavenging of HgII<br />
<br>3) Do I remember something about dry deposition of HgII including aqueous Hg in the code? (chris, you brought this up but I am forgetting exactly what you said)</div>Nicolevdowneyhttps://wiki.seas.harvard.edu/geos-chem/index.php?title=Mercury&diff=992Mercury2008-06-02T17:26:36Z<p>Nicolevdowney: </p>
<hr />
<div>Hello Team-Hg<br />
<br />
<h4>Here's the list of things I *think* we came up with on Friday regarding the code (feel free to add/comment):</h4><br />
<br />
1) Standardize the solver. Everyone should use the solver Chris developed for the Hg chemistry <br>(located at ~cdh/GC/RevisedChem.v7-04-06/mercury_mod.f) <br>*outstanding issue - dry dep of Hg0* <br />
<br>2) Catalog all emissions options and develop clear flagging system to choose your own adventure. This will include different anthropogenic emissions scenarios/corrections (i.e Jaffe vs. Streets), different land emissions.<br />
<br>3) Diagnostics. We didn't get to discuss this, but we need to decide what should be included in the diagnostics. <br />
<br>4) Comment everything in the code. Remove old bits of code that are hanging around & commented out. <br />
<br>5) GEOS-5 <br />
<br>6) Get the land stuff out of ocean_mercury_mod.f and into it's own module<br />
<br><br><br />
<br />
<h4>Chemistry 'issues'</h4><br />
1) Oxidant<br />
<br>2) Snow/ice scavenging of HgII<br />
<br>3) Do I remember something about dry deposition of HgII including aqueous Hg in the code? (chris, you brought this up but I am forgetting exactly what you said)</div>Nicolevdowneyhttps://wiki.seas.harvard.edu/geos-chem/index.php?title=Mercury&diff=991Mercury2008-06-02T17:22:44Z<p>Nicolevdowney: </p>
<hr />
<div>Hello Team-Hg<br />
<br />
<h4>Here's the list of things I *think* we came up with on Friday regarding the code (feel free to add/comment):</h4><br />
<br />
1) Standardize the solver. Everyone should use the solver Chris developed for the Hg chemistry <br>(located at ~cdh/GC/RevisedChem.v7-04-06/mercury_mod.f) <br>*outstanding issue - dry dep of Hg0* <br />
<br>2) Catalog all emissions options and develop clear flagging system to choose your own adventure. This will include different anthropogenic emissions scenarios/corrections (i.e Jaffe vs. Streets), different land emissions.<br />
<br>3) Diagnostics. We didn't get to discuss this, but we need to decide what should be included in the diagnostics. <br />
<br>4) Comment everything in the code. Remove old bits of code that are hanging around & commented out. <br />
<br>5) GEOS-5 <br />
<br><br><br />
<br />
<h4>Chemistry 'issues'</h4><br />
1) Oxidant<br />
<br>2) Snow/ice scavenging of HgII<br />
<br>3) Do I remember something about dry deposition of HgII including aqueous Hg in the code? (chris, you brought this up but I am forgetting exactly what you said)</div>Nicolevdowneyhttps://wiki.seas.harvard.edu/geos-chem/index.php?title=Mercury&diff=990Mercury2008-06-02T17:21:56Z<p>Nicolevdowney: </p>
<hr />
<div>Hello Team-Hg<br />
<br />
<h4>Here's the list of things I *think* we came up with on Friday regarding the code (feel free to add/comment):</h4><br />
<br />
1) Standardize the solver. Everyone should use the solver Chris developed for the Hg chemistry <br>(located at ~cdh/GC/RevisedChem.v7-04-06/mercury_mod.f) <br>*outstanding issue - dry dep of Hg0* <br />
<br>2) Catalog all emissions options and develop clear flagging system to choose your own adventure. This will include different anthropogenic emissions scenarios/corrections (i.e Jaffe vs. Streets), different land emissions.<br />
<br>3) Diagnostics. We didn't get to discuss this, but we need to decide what should be included in the diagnostics. <br />
<br>4) Comment everything in the code. Remove old bits hanging around that are commented out. <br />
<br>5) GEOS-5 <br />
<br><br><br />
<br />
<h4>Chemistry 'issues'</h4><br />
1) Oxidant<br />
<br>2) Snow/ice scavenging of HgII<br />
<br>3) Do I remember something about dry deposition of HgII including aqueous Hg in the code? (chris, you brought this up but I am forgetting exactly what you said)</div>Nicolevdowneyhttps://wiki.seas.harvard.edu/geos-chem/index.php?title=Mercury&diff=989Mercury2008-06-02T17:13:34Z<p>Nicolevdowney: Team-Hg plan of action</p>
<hr />
<div>Hello Team-Hg<br />
<br />
<h4>Here's the list of things I *think* we came up with on Friday regarding the code (feel free to add/comment):</h4><br />
<br />
1) Standardize the solver. Everyone should use the solver Chris developed for the Hg chemistry <br>(located at ~cdh/GC/RevisedChem.v7-04-06/mercury_mod.f) <br>*outstanding issue - dry dep of Hg0* <br />
<br>2) Catalog all emissions options and develop clear flagging system to choose your own adventure. This will include different anthropogenic emissions scenarios/corrections (i.e Jaffe vs. Streets), different land emissions.<br />
<br>3) Diagnostics. We didn't get to discuss this, but we need to decide what should be included in the diagnostics. <br />
<br>4) Comment everything in the code. Remove old bits hanging around that are commented out. <br />
<br><br><br />
<h4>Chemistry 'issues'</h4><br />
1) Oxidant<br />
<br>2) Snow/ice scavenging of HgII<br />
<br>3) Do I remember something about dry deposition of HgII including aqueous Hg in the code? (chris, you brought this up but I am forgetting exactly what you said)</div>Nicolevdowney