Re: [arts-users] ARTS OEM
Hello Richard,
Thank you for your reply.
May I ask which tips xml files you are referring to?
Also a question: it seems that the bad partition function warning occurs for
any input t_field temperature beyond the range between 150 K and 300 K. In
reality the surface temperature of the Earth frequently exceeds 300 K (26.85
deg C). For input values such as 30 deg C or a little higher (e.g. 30-40 deg C,
early 300's K), would the results still be bad if the warning is suppressed?
Regards,
Byungsuk Lee
ARA Consulting & Technology
30 Songdomirae-ro D-1510, Yeonsu-gu, Incheon 21990, South Korea
-Original Message-
From: "Richard Larsson"
To: "이병석";
Cc: "Simon Pfreundschuh";
;
Sent: 2018-09-17 (월) 18:21:57
Subject: Re: [arts-users] ARTS OEM
Hi,
Just as a warning, suppressing the bad partition function error is not good
practice since it is known that they are, you know, bad. Standard tests in
ARTS fail by several tenths of Kelvin because the partition functions in ARTS
are that bad. Just run with the provided tips xml-files instead, because if
your temperatures are lower than 70 K or higher than 3000 K you probably have
another problem.
With hope,
//Richard
2018-09-17 10:31 GMT+02:00 이병석 :
Hello Simon Pfreundschuh,
Thank you for your reply.
I have employed both of the suggestions and still get the irregular errors.
From the same controlfile modified in the previous email, I have included and
changed to the following lines:
OEM(method="lm",
max_iter=15,
display_progress=1,
lm_ga_settings=[100,5,2,1000,1,99])
and
AgendaSet( inversion_iterate_agenda ){
xClip(ijq = 0, limit_low = 150.0, limit_high = 350)
Ignore(inversion_iteration_counter)
# Map x to ARTS' variables
x2artsStandard
# To be safe, rerun checks dealing with the atmosphere
atmfields_checkedCalc
atmgeom_checkedCalc
# Calculate yf and Jacobian matching x.
yCalc( y=yf )
# Add baseline term
VectorAddVector( yf, yf, y_baseline )
# This method takes cares of some "fixes" that are needed to get the Jacobian
# right for iterative solutions. No need to call this WSM for linear
inversions.
jacobianAdjustAndTransform
}
I included both of the suggestions, and from there increased the maximum number
of iterations to 15 and set the temperature limits to be between 150 K and 350
K. All other lines remain the same, including the input absorption line and
atmospheric fields data.
Now I irregularly get the errors during the OEM computation as before, of
t_field having NaN values or of bad partition function warning (which happens
for any t_field value outside between 150 K and 300 K). While the bad partition
function warning could be suppressed in the code, it seems that the same
problem as before persists.
Could you please look into this issue a little more? I am not sure how to
tackle the problem.
Thank you for your service.
Regards,
Byungsuk Lee
ARA Consulting & Technology
30 Songdomirae-ro D-1510, Yeonsu-gu, Incheon 21990, South Korea
-Original Message-
From: "Simon Pfreundschuh"
To: "이병석";
"arts_users...@mailman.rrz.uni-hamburg.de";
Cc:
Sent: 2018-09-14 (금) 15:13:55
Subject: Re: [arts-users] ARTS OEM
Hi Byungsuk Lee,
It is a bit surprising that these errors occur irregularly, since there is no
randomness
in the test setup. However, if you are running retrievals with external
observation data
it may well happen that the iteration ends up in a state that produces invalid
values.
For your temperature retrieval I would recommend one or both of the following
solutions:
1. Use the Levenberg-Marquardt (LM) iteration scheme: Using the LM scheme with
a high start
value for the gamma parameter can help avoid reaching invalid values when
the forward
model is non-linear:
OEM(method="lm",
max_iter=5,
display_progress=1,
lm_ga_settings=[100,5,2,1000,1,99])
2. Clip the x-vector: Using the xClip WSM inside your inversion iterate agenda
you can force the
x vector to contain only temperatures within a certain range. If you use
this approach you
should check that none of the retrieved temperatures in your final state are
clipped otherwise your
results may not be valid.
AgendaSet( inversion_iterate_agenda ){
xClip(ijq = 0, limit_low = 100.0)
Ignore(inversion_iteration_counter)
# Map x to ARTS' variables
x2artsStandard
# To be safe, rerun checks dealing with the atmosphere
atmfields_checkedCalc
atmgeom_checkedCalc
# Calculate yf and Jacobian matching x.
yCalc( y=yf )
# Add baseline term
VectorAddVector( yf, yf, y_baseline )
# This method takes cares of some "fixes" that are needed to get the
Jacobian
# right for iterative solutions. No need to call this WSM for linear
inversions.
jacobianAdjustAndTransform
}
Regards,
Simon
From: arts_users.mi-boun...@mailman.rrz.uni-hamburg.de
on behalf of 이병석
Re: [arts-users] ARTS OEM
Hi,
Just as a warning, suppressing the bad partition function error is not good
practice since it is known that they are, you know, bad. Standard tests in
ARTS fail by several tenths of Kelvin because the partition functions in
ARTS are that bad. Just run with the provided tips xml-files instead,
because if your temperatures are lower than 70 K or higher than 3000 K you
probably have another problem.
With hope,
//Richard
2018-09-17 10:31 GMT+02:00 이병석 :
> Hello Simon Pfreundschuh,
>
> Thank you for your reply.
>
> I have employed both of the suggestions and still get the irregular
> errors. From the same controlfile modified in the previous email, I have
> included and changed to the following lines:
>
> OEM(method="lm",
>max_iter=15,
>display_progress=1,
>lm_ga_settings=[100,5,2,1000,1,99])
>
> and
>
> AgendaSet( inversion_iterate_agenda ){
>
> xClip(ijq = 0, limit_low = 150.0, limit_high = 350)
>
> Ignore(inversion_iteration_counter)
> # Map x to ARTS' variables
> x2artsStandard
>
> # To be safe, rerun checks dealing with the atmosphere
> atmfields_checkedCalc
> atmgeom_checkedCalc
>
> # Calculate yf and Jacobian matching x.
> yCalc( y=yf )
>
> # Add baseline term
> VectorAddVector( yf, yf, y_baseline )
>
> # This method takes cares of some "fixes" that are needed to get the
> Jacobian
> # right for iterative solutions. No need to call this WSM for linear
> inversions.
> jacobianAdjustAndTransform
> }
>
> I included both of the suggestions, and from there
> increased the maximum number of iterations to 15 and set the temperature
> limits to be between 150
> K and 350 K. All other lines remain the same, including the input
> absorption line and atmospheric fields data.
>
> Now I irregularly get the errors during the OEM computation as before, of
> t_field having NaN values or of bad partition function warning (which
> happens for any t_field value outside between 150 K and 300 K). While the
> bad partition function warning could be suppressed in the code, it seems
> that the same problem as before persists.
>
> Could you please look into this issue a little more? I am not sure how to
> tackle the problem.
>
> Thank you for your service.
>
> Regards,
>
>
> Byungsuk Lee
>
> ARA Consulting & Technology
>
> 30 Songdomirae-ro D-1510, Yeonsu-gu, Incheon 21990, South Korea
>
>
>
> -Original Message-
> *From:* "Simon Pfreundschuh"
> *To:* "이병석"; "arts_users...@mailman.rrz.uni-hamburg.de"<
> arts_users...@mailman.rrz.uni-hamburg.de>;
> *Cc:*
> *Sent:* 2018-09-14 (금) 15:13:55
> *Subject:* Re: [arts-users] ARTS OEM
>
> Hi Byungsuk Lee,
>
> It is a bit surprising that these errors occur irregularly, since there is
> no randomness
> in the test setup. However, if you are running retrievals with external
> observation data
> it may well happen that the iteration ends up in a state that produces
> invalid values.
>
> For your temperature retrieval I would recommend one or both of the
> following solutions:
>
> 1. Use the Levenberg-Marquardt (LM) iteration scheme: Using the LM scheme
> with a high start
>value for the gamma parameter can help avoid reaching invalid values
> when the forward
>model is non-linear:
>
> OEM(method="lm",
> max_iter=5,
> display_progress=1,
> lm_ga_settings=[100,5,2,1000,1,99])
>
> 2. Clip the x-vector: Using the xClip WSM inside your inversion iterate
> agenda you can force the
>x vector to contain only temperatures within a certain range. If you
> use this approach you
>should check that none of the retrieved temperatures in your final
> state are clipped otherwise your
>results may not be valid.
>
> AgendaSet( inversion_iterate_agenda ){
>
> xClip(ijq = 0, limit_low = 100.0)
> Ignore(inversion_iteration_counter)
> # Map x to ARTS' variables
> x2artsStandard
>
> # To be safe, rerun checks dealing with the atmosphere
> atmfields_checkedCalc
> atmgeom_checkedCalc
>
> # Calculate yf and Jacobian matching x.
> yCalc( y=yf )
>
> # Add baseline term
> VectorAddVector( yf, yf, y_baseline )
>
> # This method takes cares of some "fixes" that are needed to get the
> Jacobian
> # right for iterative solutions. No need to call this WSM for linear
> inversions.
> jacobianAdjustAndTransform
> }
>
>
> Regards,
>
> Simon
>
> --
> *From:* arts_users.mi-boun...@mailman.rrz.uni-hamburg.de <
> arts_users.mi-boun...@mailman.rrz.uni-hamburg.de> on behalf of 이병석 <
> cb...@aracnt.com>
> *Sent:* Friday, September 14, 2018 2:31:25 AM
> *To:* arts_users...@mailman.rrz.uni-hamburg.de
> *Subject:* [arts-users] ARTS OEM
>
> Dear ARTS users,
>
> I am writing to address a question with the use of OEM in the ARTS
> development version.
>
> From the "TestOEM.arts" in "ARTS/controlfiles/artscomponents/oem", this
> time I changed the codes as follows.
>
> 1) From (line
Re: [arts-users] ARTS OEM
Hello Simon Pfreundschuh,
Thank you for your reply.
I have employed both of the suggestions and still get the irregular errors.
From the same controlfile modified in the previous email, I have included and
changed to the following lines:
OEM(method="lm",
max_iter=15,
display_progress=1,
lm_ga_settings=[100,5,2,1000,1,99])
and
AgendaSet( inversion_iterate_agenda ){
xClip(ijq = 0, limit_low = 150.0, limit_high = 350)
Ignore(inversion_iteration_counter)
# Map x to ARTS' variables
x2artsStandard
# To be safe, rerun checks dealing with the atmosphere
atmfields_checkedCalc
atmgeom_checkedCalc
# Calculate yf and Jacobian matching x.
yCalc( y=yf )
# Add baseline term
VectorAddVector( yf, yf, y_baseline )
# This method takes cares of some "fixes" that are needed to get the Jacobian
# right for iterative solutions. No need to call this WSM for linear
inversions.
jacobianAdjustAndTransform
}
I included both of the suggestions, and from there increased the maximum number
of iterations to 15 and set the temperature limits to be between 150 K and 350
K. All other lines remain the same, including the input absorption line and
atmospheric fields data.
Now I irregularly get the errors during the OEM computation as before, of
t_field having NaN values or of bad partition function warning (which happens
for any t_field value outside between 150 K and 300 K). While the bad partition
function warning could be suppressed in the code, it seems that the same
problem as before persists.
Could you please look into this issue a little more? I am not sure how to
tackle the problem.
Thank you for your service.
Regards,
Byungsuk Lee
ARA Consulting & Technology
30 Songdomirae-ro D-1510, Yeonsu-gu, Incheon 21990, South Korea
-Original Message-
From: "Simon Pfreundschuh"
To: "이병석";
"arts_users...@mailman.rrz.uni-hamburg.de";
Cc:
Sent: 2018-09-14 (금) 15:13:55
Subject: Re: [arts-users] ARTS OEM
Hi Byungsuk Lee,
It is a bit surprising that these errors occur irregularly, since there is no
randomness
in the test setup. However, if you are running retrievals with external
observation data
it may well happen that the iteration ends up in a state that produces invalid
values.
For your temperature retrieval I would recommend one or both of the following
solutions:
1. Use the Levenberg-Marquardt (LM) iteration scheme: Using the LM scheme with
a high start
value for the gamma parameter can help avoid reaching invalid values when
the forward
model is non-linear:
OEM(method="lm",
max_iter=5,
display_progress=1,
lm_ga_settings=[100,5,2,1000,1,99])
2. Clip the x-vector: Using the xClip WSM inside your inversion iterate agenda
you can force the
x vector to contain only temperatures within a certain range. If you use
this approach you
should check that none of the retrieved temperatures in your final state are
clipped otherwise your
results may not be valid.
AgendaSet( inversion_iterate_agenda ){
xClip(ijq = 0, limit_low = 100.0)
Ignore(inversion_iteration_counter)
# Map x to ARTS' variables
x2artsStandard
# To be safe, rerun checks dealing with the atmosphere
atmfields_checkedCalc
atmgeom_checkedCalc
# Calculate yf and Jacobian matching x.
yCalc( y=yf )
# Add baseline term
VectorAddVector( yf, yf, y_baseline )
# This method takes cares of some "fixes" that are needed to get the
Jacobian
# right for iterative solutions. No need to call this WSM for linear
inversions.
jacobianAdjustAndTransform
}
Regards,
Simon
From: arts_users.mi-boun...@mailman.rrz.uni-hamburg.de
on behalf of 이병석
Sent: Friday, September 14, 2018 2:31:25 AM
To: arts_users...@mailman.rrz.uni-hamburg.de
Subject: [arts-users] ARTS OEM
Dear ARTS users,
I am writing to address a question with the use of OEM in the ARTS development
version.
From the "TestOEM.arts" in "ARTS/controlfiles/artscomponents/oem", this time I
changed the codes as follows.
1) From (line 115):
retrievalAddAbsSpecies(
species = "O3",
unit = "vmr",
g1 = p_ret_grid,
g2 = lat_grid,
g3 = lon_grid
)
To:
retrievalAddTemperature (
g1 = p_ret_grid,
g2 = lat_grid,
g3 = lon_grid,
hse = "off" )
2) From (line 125):
VectorSetConstant(vars, nelem, 1e-12)
DiagonalMatrix(sparse_block, vars)
covmat_sxAddBlock(block = sparse_block)
To:
VectorSetConstant(vars, nelem, 0.1)
DiagonalMatrix(sparse_block, vars)
covmat_sxAddBlock(block = sparse_block)
3) From (line 37):
NumericSet( f_start, 110.436e9 )
NumericSet( f_end, 111.236e9 )
IndexSet( nf, 801 )
IndexSet( np, 81 )
To:
NumericSet( f_start, 110.436e9 )
NumericSet( f_end, 111.236e9 )
IndexSet( nf, 18 )
IndexSet( np, 18 )
4) From (line 42):
VectorNLinSpace( f_grid, nf, f_start, f_end )
VectorNLogSpace( p_grid,361, 500e2, 0.1 )
VectorNLogSpace( p_ret_grid, np, 500e2, 0.1 )
To:
